Executing: uname -s stdout: Linux ================================================================================ ================================================================================ Starting configure run at Thu, 10 Feb 2022 01:55:51 -0300 Configure Options: --configModules=PETSc.Configure --optionsModule=config.compilerOptions --force --with-64-bit-indices=1 --with-precision=double --with-debugging=0 --COPTFLAGS=-O3 --CXXOPTFLAGS=-O3 --FOPTFLAGS=-O3 PETSC_ARCH=linux64GccDPInt64Opt --with-blaslapack-dir=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 --with-mkl_sparse-dir=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 --with-mkl_sparse_optimize-dir=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 --with-mpi-dir=/scratch/app_sequana/openmpi/2.1.1 --download-hypre Working directory: /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc Machine platform: uname_result(system='Linux', node='sdumont18', release='3.10.0-1160.49.1.el7.x86_64', version='#1 SMP Tue Nov 9 16:09:48 UTC 2021', machine='x86_64', processor='x86_64') Python version: 3.6.8 (default, Aug 13 2020, 07:46:32) [GCC 4.8.5 20150623 (Red Hat 4.8.5-39)] ================================================================================ Environmental variables XF_DEFAULT_PLACEMENT= MKLROOT=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 XF_ROOT=/opt/xcs XF_SPECIFIC=/specific MANPATH=/scratch/app_sequana/openmpi/2.1.1/share/man:/scratch/app/cmake/3.17.3/share/man:/scratch/app/gcc/9.3/share/man:/usr/kerberos/man:/usr/local/share/man:/usr/share/man/en:/usr/share/man:/opt/xcs/App/Scripts/Man: LDFLAGS=-L/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib MPI_INCLUDE=/scratch/app_sequana/openmpi/2.1.1/include XDG_SESSION_ID=14398 XF_EXE_CUSTOMER=/specific/App FOAM_APPBIN=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin FOAM_EXT_LIBBIN=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64GccDPInt64/lib FOAM_SOLVERS=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/applications/solvers HOSTNAME=sdumont18 XF_SCHEDULER_TYPE=SLURM XF_APP_LIC_DIR=/opt/xcs/App/Scripts/Env XF_LICENSE_DEBUG_FILE=/specific/License/xf_License.log WM_COMPILER_TYPE=system WM_ARCH=linux64 FOAM_TUTORIALS=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/tutorials XF_DEFAULT_MEMORY_CORE_SIZE= OMPI_MCA_btl_openib_allow_ib=1 XF_XRV_DESKTOP_GEOMETRY=1270x940 XF_MIN_DESKTOP_DISPLAY=101 SHELL=/bin/bash TERM=xterm-256color XF_VNC_QUALITY=49 XF_PUBLIC_HOSTNAME=studio.extremefactory.com XF_SPECIFIC_FILE=/specific/xf_Specific.rc HISTSIZE=1000 XF_MAX_REMOTE_VIZ_DISPLAY=100 XF_VIZ_DEFAULT_SMALL_WIN_SIZE=1024x768 WM_THIRD_PARTY_DIR=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012 MPI_ARCH_PATH=/scratch/app_sequana/openmpi/2.1.1 SSH_CLIENT=172.20.4.1 39620 22 XF_DEFAULT_HPC_QUEUE_NAME=compute.q XF_LICENSE_LOGS=/specific/License/Logs CPPFLAGS=-I/scratch/app_sequana/openmpi/2.1.1/include -I/scratch/app/gcc/9.3/include XF_MAX_NCORES_PER_NODE=16 XF_CONTAINER_OPTIONS= LIBRARY_PATH=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib FOAM_SITE_APPBIN=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin CGAL_ARCH_PATH=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/CGAL-4.12.2 XF_OPTIONSDS_SCRIPTS_DIR=/opt/xcs/App/Scripts/OptionsDs XF_COMPILERS_ROOT=/opt/xcs/Compilers XF_START_DESKTOP_ENVIRONMENT=0 XF_MAX_VIZ_SESSIONS_PER_NODE=10 XF_STAGE_IN_MODE=OUTPUT_LINK XF_INSTALLED=Installed XF_TERM_LOG_FILE=/prj/song/juan.salazar/.xf/logs/xf_Terminate.log SCOTCH_ARCH_PATH=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64GccDPInt64/scotch_6.0.9 SSH_TTY=/dev/pts/3 XF_STAGE_OUT_MODE=NOP XF_EXE_ROOT=/opt/xcs/App XF_LICENSE_DIR=/specific/License BOOST_ARCH_PATH=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/boost_1_66_0 XF_MAX_CORES_PER_NODE=16 XF_DEFAULT_MEMORY_NODE_SIZE= XF_DEBUG_FILE=/prj/song/juan.salazar/.xf/logs/xf_Run_debug.log XF_MAX_DESKTOP_DISPLAY=200 WM_PROJECT_VERSION=v2012 FOAM_APP=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/applications QT_GRAPHICSSYSTEM_CHECKED=1 XF_ENABLE_OUTPUT_SUBDIR=0 XF_LOGS_DIR=/prj/song/juan.salazar/.xf/logs USER=juan.salazar XF_SHM_DIR=/dev/shm XF_ARRAY_INPUT_FILE_LIST=.xf_JobArrayInputFileList LS_COLORS=rs=0:di=38;5;27:ln=38;5;51:mh=44;38;5;15:pi=40;38;5;11:so=38;5;13:do=38;5;5:bd=48;5;232;38;5;11:cd=48;5;232;38;5;3:or=48;5;232;38;5;9:mi=05;48;5;232;38;5;15:su=48;5;196;38;5;15:sg=48;5;11;38;5;16:ca=48;5;196;38;5;226:tw=48;5;10;38;5;16:ow=48;5;10;38;5;21:st=48;5;21;38;5;15:ex=38;5;34:*.tar=38;5;9:*.tgz=38;5;9:*.arc=38;5;9:*.arj=38;5;9:*.taz=38;5;9:*.lha=38;5;9:*.lz4=38;5;9:*.lzh=38;5;9:*.lzma=38;5;9:*.tlz=38;5;9:*.txz=38;5;9:*.tzo=38;5;9:*.t7z=38;5;9:*.zip=38;5;9:*.z=38;5;9:*.Z=38;5;9:*.dz=38;5;9:*.gz=38;5;9:*.lrz=38;5;9:*.lz=38;5;9:*.lzo=38;5;9:*.xz=38;5;9:*.bz2=38;5;9:*.bz=38;5;9:*.tbz=38;5;9:*.tbz2=38;5;9:*.tz=38;5;9:*.deb=38;5;9:*.rpm=38;5;9:*.jar=38;5;9:*.war=38;5;9:*.ear=38;5;9:*.sar=38;5;9:*.rar=38;5;9:*.alz=38;5;9:*.ace=38;5;9:*.zoo=38;5;9:*.cpio=38;5;9:*.7z=38;5;9:*.rz=38;5;9:*.cab=38;5;9:*.jpg=38;5;13:*.jpeg=38;5;13:*.gif=38;5;13:*.bmp=38;5;13:*.pbm=38;5;13:*.pgm=38;5;13:*.ppm=38;5;13:*.tga=38;5;13:*.xbm=38;5;13:*.xpm=38;5;13:*.tif=38;5;13:*.tiff=38;5;13:*.png=38;5;13:*.svg=38;5;13:*.svgz=38;5;13:*.mng=38;5;13:*.pcx=38;5;13:*.mov=38;5;13:*.mpg=38;5;13:*.mpeg=38;5;13:*.m2v=38;5;13:*.mkv=38;5;13:*.webm=38;5;13:*.ogm=38;5;13:*.mp4=38;5;13:*.m4v=38;5;13:*.mp4v=38;5;13:*.vob=38;5;13:*.qt=38;5;13:*.nuv=38;5;13:*.wmv=38;5;13:*.asf=38;5;13:*.rm=38;5;13:*.rmvb=38;5;13:*.flc=38;5;13:*.avi=38;5;13:*.fli=38;5;13:*.flv=38;5;13:*.gl=38;5;13:*.dl=38;5;13:*.xcf=38;5;13:*.xwd=38;5;13:*.yuv=38;5;13:*.cgm=38;5;13:*.emf=38;5;13:*.axv=38;5;13:*.anx=38;5;13:*.ogv=38;5;13:*.ogx=38;5;13:*.aac=38;5;45:*.au=38;5;45:*.flac=38;5;45:*.mid=38;5;45:*.midi=38;5;45:*.mka=38;5;45:*.mp3=38;5;45:*.mpc=38;5;45:*.ogg=38;5;45:*.ra=38;5;45:*.wav=38;5;45:*.axa=38;5;45:*.oga=38;5;45:*.spx=38;5;45:*.xspf=38;5;45: LD_LIBRARY_PATH=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/fftw-3.3.7/lib64:/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/CGAL-4.12.2/lib64:/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/boost_1_66_0/lib64:/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/lib64:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/lib/sys-openmpi:/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64GccDPInt64/lib/sys-openmpi:/scratch/app_sequana/openmpi/2.1.1/lib:/scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/lib:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/lib:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/lib:/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64GccDPInt64/lib:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/lib/dummy:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib/x64:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib/emu:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/compiler/lib/intel64_lin:/scratch/app/gcc/9.3/lib64:/scratch/app/gcc/9.3/lib FOAM_SITE_LIBBIN=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/lib INTELOPENCLSDK=/scratch/app_sequana/intel-opencl/2020/system_studio_2020/opencl/SDK WM_COMPILER_LIB_ARCH=64 XF_WIN_FS_ROOT= FOAM_SRC=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/src XF_VIZ_XRV_BATCH_MIN_DELAY=40 XF_PACKAGES=Packages CPATH=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/include:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/include:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/include WM_PROJECT_DIR=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012 FOAM_API=2012 FOAM_UTILITIES=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/applications/utilities XF_TMP_DIR=/tmp XF_CONTAINER_REGISTRY=cl-nexus.xf.priv:5000 MPI_LIB=/scratch/app_sequana/openmpi/2.1.1/lib XF_SCHEDULER_VERSION=17.02 XF_DEFAULT_JOBS_SUBDIR=JOBID XF_ARCH=em64t OMPI_PATH=/scratch/app_sequana/openmpi/2.1.1/bin WM_LABEL_OPTION=Int64 XF_DEBUG=0 WM_PROJECT=OpenFOAM XF_USER_ROOT=/prj/song/juan.salazar/.specific XF_DEFAULT_MEMORY_CHUNK_SIZE= XF_CONTAINER_IMAGE= NLSPATH=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/locale/%l_%t/%N WM_COMPILER=Gcc PATH=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin:/scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake:/scratch/app_sequana/openmpi/2.1.1/bin:/scratch/app/cmake/3.17.3/bin:/scratch/app/gcc/9.3/bin:/opt/xcs/App/Scripts:/specific/bin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/opt/ibutils/bin:/opt/xcs/Admin/Scripts:/prj/song/juan.salazar/.local/bin:/prj/song/juan.salazar/bin MAIL=/var/spool/mail/juan.salazar WM_MPLIB=SYSTEMOPENMPI OMPI_LD_LIBRARY_PATH=/scratch/app_sequana/openmpi/2.1.1/lib FOAM_USER_LIBBIN=/scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/lib XF_RUN_VERBOSE=1 GID=61348 TBBROOT=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1 PWD=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc XF_MIN_REMOTE_VIZ_DISPLAY=1 XF_APP_ENV_DIR=/opt/xcs/App/Scripts/Env _LMFILES_=/scratch/app/modulos/sequana/current:/scratch/app_sequana/modulos/gcc/9.3_sequana:/scratch/app_sequana/modulos/cmake/3.17.3_sequana:/scratch/app_sequana/modulos/openmpi/gnu/2.1.1_sequana:/scratch/app_sequana/modulos/intel-oneapi/2021_sequana:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/modulefiles/compiler-rt/2021.1.1:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/modulefiles/tbb/2021.1.1:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/modulefiles/mkl/latest LANG=en_US.UTF-8 XF_CUSTOMER_ROOT=/specific FOAM_ETC=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/etc MODULEPATH=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/modulefiles:/scratch/app_sequana/modulos:/usr/share/Modules/modulefiles XF_HTTP=https LOADEDMODULES=sequana/current:gcc/9.3_sequana:cmake/3.17.3_sequana:openmpi/gnu/2.1.1_sequana:intel-oneapi/2021_sequana:compiler-rt/2021.1.1:tbb/2021.1.1:mkl/latest XF_TASK_USE_SUBDIR=0 XF_CONTAINER_PORT=8888 XF_SGE_ORTE_PENV=orte XF_MPI_ROOT=/opt/xcs/Mpi WM_COMPILE_OPTION=Opt FOAM_LIBBIN=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/lib FOAM_MPI=sys-openmpi HISTCONTROL=ignoredups XF_SENSOR_DIR=/specific/Sensor XF_SUBMIT_SCRIPTS_DIR=/opt/xcs/App/Scripts XF_DEFAULT_VIZ_QUEUE_NAME=viz.q XF_EXE_VERSION_NOCHECK=0 WM_DIR=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake HOME=/prj/song/juan.salazar SHLVL=1 XF_PRIORITY_ENABLE=1 XF_JOBS_DIR=/prj/song/juan.salazar/.xf/jobs XF_CONTAINER_TYPE=DOCKER WM_LABEL_SIZE=64 XF_SCHEDULER_CUSTOM_ARGS= XF_VNC_GEOMETRY=-geometry 1280x1024 XF_SUBMIT_TYPE=SLURM XF_X_SERVER_WITH_GPUS=:0 XF_SCRATCH_DIR=/scratch/juan.salazar XF_HOSTFILE_NAME=.xf_Hostfile LOGNAME=juan.salazar MPI_ROOT=/scratch/app_sequana/openmpi/2.1.1 XF_CONTAINER_SECURE_REGISTRY=0 WM_PROJECT_USER_DIR=/scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012 SSH_CONNECTION=172.20.4.1 39620 172.20.12.18 22 XDG_DATA_DIRS=/prj/song/juan.salazar/.local/share/flatpak/exports/share:/var/lib/flatpak/exports/share:/usr/local/share:/usr/share XF_SGE_MPI_PENV=mpi FOAM_RUN=/scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/run MODULESHOME=/usr/share/Modules XF_EXCLUSIVE_NODE=1 LESSOPEN=||/usr/bin/lesspipe.sh %s XF_USE_SENSOR=0 XF_DEFAULT_MEMORY_PROC_SIZE= XF_LICENSE_HOST=xf-batch.extremefactory.priv PKG_CONFIG_PATH=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/tools/pkgconfig:/scratch/app_sequana/openmpi/2.1.1/lib/pkgconfig:/scratch/app/gcc/9.3/lib64/pkgconfig WM_OPTIONS=linux64GccDPInt64Opt XF_VIZ_XRV_CLIENT_OPENGL=auto XDG_RUNTIME_DIR=/run/user/62272 CMAKE_PREFIX_PATH=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1 WM_PRECISION_OPTION=DP XF_DEFAULT_WALLTIME=1000:00:00 FFTW_ARCH_PATH=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/fftw-3.3.7 SCRATCH=/scratch/song/juan.salazar FOAM_USER_APPBIN=/scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin ADIOS2_ARCH_PATH=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0 BASH_FUNC_module()=() { eval `/usr/bin/modulecmd bash $*` } Files in path provided by default path /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin: bpls adios2_deactivate_bp bp4dbg adios2-config adios2_reorganize sst_conn_tool adios2_iotest adios2_reorganize_mpi /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin: surfaceNoise Warning accessing /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin gives errors: [Errno 2] No such file or directory: '/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin' /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin: surfaceSplitByTopology electrostaticFoam foamListTimes multiphaseInterFoam MPPICDyMFoam surfacePatch splitCells setsToZones refinementLevel mapFieldsPar topoSet pbeTransportFoam temporalInterpolate pbeFoam lumpedPointZones foamToEnsight dsmcFoam reactingTwoPhaseEulerFoam stitchMesh objToVTK gridToSTL cartesian2DMesh faceAgglomerate modifyMesh mdFoam uncoupledKinematicParcelFoam potentialFoam subsetToPatch sphereSurfactantFoam insideCells mapFields viewFactorsGen extrude2DMesh SRFSimpleFoam FLMAToSurface foamHelp deformedGeom uncoupledKinematicParcelDyMFoam gmshToFoam removeFaces chtMultiRegionSimpleFoam simpleCoalParcelFoam setFields surfaceFind extrudeMesh overSimpleFoam reactingFoam buoyantBoussinesqPimpleFoam profilingSummary explicitRhoFoam foamToFireMesh foamToVTK surfaceClean setExprBoundaryFields mdInitialise surfaceMeshExtract foamToSurface surfaceRefineRedGreen mixingTransportFoam copySurfaceParts combinePatchFaces singleCellMesh postProcess sonicLiquidFoam compressibleMultiphaseInterFoam rhoPorousSimpleFoam porousSimpleFoam postChannel noise extrudeToRegionMesh moveEngineMesh transformPoints potentialFreeSurfaceFoam chemFoam blockMesh faParkerFukushimaFoam vdfTransportFoam slopeMesh denseAGFoam pimpleFoam interIsoFoam foamyQuadMesh overRhoSimpleFoam overBuoyantPimpleDyMFoam lumpedPointForces surfaceSplitByPatch cartesianMesh foamListRegions simpleReactingParcelFoam driftFluxFoam pisoFoam setSet foamHasLibrary improveSymmetryPlanes reconstructParMesh mergeMeshes kivaToFoam setAlphaField foamDictionary SRFPimpleFoam patchesToSubsets surfaceHookUp solidEquilibriumDisplacementFoam patchSummary writeActiveDesignVariables splitMesh refineWallLayer buoyantPimpleFoam reactingMultiphaseEulerFoam engineSwirl fireToFoam fluent3DMeshToFoam surfaceTransformPoints surfaceMeshExport sprayDyMFoam polyDualMesh vtkUnstructuredToFoam checkFaMesh meshToFPMA surfaceMeshImport XiDyMFoam foamToTetDualMesh mdEquilibrationFoam flattenMesh writeMeshObj boxTurb attachMesh smapToFoam adjointOptimisationFoam snappyRefineMesh solidFoam interPhaseChangeDyMFoam computeMoments orientFaceZone surfaceCheck pdfPlot setExprFields releaseAreaMapping reactingHeterogenousParcelFoam interFoam buoyantPbePimpleFoam foamToGMV tetgenToFoam wallFunctionTable engineFoam surfaceInertia refineHexMesh computeSensitivities rhoReactingBuoyantFoam icoReactingMultiphaseInterFoam lumpedPointMovement overPimpleDyMFoam removeSurfaceFacets selectCells surfaceCoarsen surfaceToFMS zipUpMesh icoUncoupledKinematicParcelFoam scalarTransportFoam moveMesh DPMDyMFoam rhoPimpleAdiabaticFoam surfaceAdd laplacianFoam sprayFoam plot3dToFoam overPotentialFoam diluteVdfTransportFoam FMSToSurface MPPICInterFoam liquidFilmFoam surfactantFoam star4ToFoam fluentMeshToFoam polydisperseBubbleFoam boundaryFoam chtMultiRegionFoam solidDisplacementFoam createExternalCoupledPatchGeometry foamyHexMesh createPatch thermoFoam scaleMesh twoLiquidMixingFoam chtMultiRegionTwoPhaseEulerFoam surfaceToPatch icoFoam PDRMesh simpleFoam mergeOrSplitBaffles makeFaMesh preparePar surfaceFeatureConvert surfaceOrient nonNewtonianIcoFoam compressiblePbeTransportFoam surfaceFeatureExtract PDRsetFields reconstructPar generateBoundaryLayers mshToFoam coldEngineFoam foamFormatConvert rhoCentralFoam engineCompRatio equilibriumFlameT twoPhaseEulerFoam rhoPimpleFoam importSurfaceAsSubset rotateMesh overLaplacianDyMFoam interCondensatingEvaporatingFoam PDRblockMesh surfaceGenerateBoundingBox faSavageHutterFoam coalChemistryFoam autoPatch foamMeshToFluent chemkinToFoam redistributePar surfaceLambdaMuSmooth surfaceInflate writeMorpherCPs shallowWaterFoam pMesh createZeroDirectory improveMeshQuality FMSToVTK generateMoments particleTracks XiFoam icoUncoupledKinematicParcelDyMFoam moveDynamicMesh checkSurfaceMesh surfaceMeshConvert compressibleInterIsoFoam ideasUnvToFoam surfaceConvert changeDictionary ansysToFoam reactingParcelFoam applyBoundaryLayer reconstructPointDistribution snappyHexMesh scaleSurfaceMesh PDRFoam mergeSurfacePatches multiphaseEulerFoam foamRestoreFields acousticFoam oneWayCoupledVdfTransportFoam collapseEdges gambitToFoam compressibleInterFilmFoam buoyantSimpleFoam mhdFoam rhoSimpleFoam interMixingFoam surfaceFeatureEdges sonicFoam equilibriumCO splitMeshRegions createBaffles MPPICFoam cfx4ToFoam decomposePar cumulativeDisplacement potentialFreeSurfaceDyMFoam adiabaticFlameT netgenNeutralToFoam DPMFoam steadyParticleTracks financialFoam extrudeEdgesInto2DSurface rhoCentralDyMFoam overInterDyMFoam compressibleInterFoam magneticFoam simpleSprayFoam surfacePointMerge surfaceBooleanFeatures dsmcInitialise adjointShapeOptimizationFoam foamToStarMesh checkMesh sonicDyMFoam cavitatingDyMFoam surfaceRedistributePar foamDataToFluent subsetMesh dnsFoam rhoReactingFoam foamUpgradeCyclics tetMesh mirrorMesh interPhaseChangeFoam buoyantBoussinesqSimpleFoam mixtureAdiabaticFlameT overRhoPimpleDyMFoam fireFoam XiEngineFoam createBoxTurb surfaceMeshInfo compressibleInterDyMFoam datToFoam surfaceSubset refineMesh renumberMesh cavitatingFoam surfaceSplitNonManifolds /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin: foamCheckJobs foamCleanTutorials foamRunTutorials foamCleanPath foamGetDict foamEndJob tools mpirunDebug foamCleanPolyMesh foamSolverSweeps foamLog foamNewSource foamEtcFile foamPrintJobs foamNewTemplate foamCopySettings foamSystemCheck foamNew foamCreateVideo foamSearch foamNewApp paraFoam foamNewFunctionObject foamInstallationTest foamNewBC foamMonitor foamCloneCase foamSequenceVTKFiles foamJob foamNewCase /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake: wmakeLnIncludeAll wmake wdep wrmdep wrmo wmakeLnInclude wmakeCollect makefiles wcleanLnIncludeAll wclean src scripts rules etc wmakeCheckPwd /scratch/app_sequana/openmpi/2.1.1/bin: ompi-submit mpif77 ompi-top opal_wrapper mpic++ oshrun orterun mpif90 ompi-dvm shmemfort mpifort orted oshmem_info ompi-clean oshcc ompi_info orte-top shmemcc oshfort mpiCC shmemrun orte-dvm mpiexec mpirun ortecc orte-info orte-submit orte-clean ompi-ps orte-ps mpicxx mpicc ompi-server orte-server /scratch/app/cmake/3.17.3/bin: ctest ccmake cmake-gui cpack cmake /scratch/app/gcc/9.3/bin: gcc gcov gcc-ar x86_64-pc-linux-gnu-c++ x86_64-pc-linux-gnu-gcc-nm x86_64-pc-linux-gnu-gcc-9.3.0 gcov-tool g++ x86_64-pc-linux-gnu-gcc-ar cpp x86_64-pc-linux-gnu-gcc gcc-ranlib gdc x86_64-pc-linux-gnu-gfortran gcc-nm c++ gfortran x86_64-pc-linux-gnu-g++ gcov-dump x86_64-pc-linux-gnu-gdc x86_64-pc-linux-gnu-gcc-ranlib /opt/xcs/App/Scripts: xf_LicenseCheck.sh xf_Run.sub xf_Win2LinuxPath.sh xf_HostfileSge2xf.py remoteVizHostsNAT xf_JobsService.sh xf_Globalenv.rc xf_CommonFunctions.rc xf_GetGpuAssigned.rc xf_CommonWebFunctions.rc xf_CommonContainerFunctions.rc Env xf_Run xf_Time2Seconds.py xf_ApplicationInstallationRules.README remoteJupyterHostsNAT xf_Terminate.sh xf_XrvSignalHdlr.sh xf_GetVizSessionFile.sh xf_Run.sub.bat xf_CommonVizFunctions.rc xf_LicenseRun.sh OptionsDs remoteWebHostsNAT Warning accessing /specific/bin gives errors: [Errno 2] No such file or directory: '/specific/bin' /usr/local/bin: patchelf nsys-exporter rkhunter.sh nsys-ui nsight-sys nsys /usr/bin: abrt-action-analyze-c bd_info ipmicmd ident gunzip gobject-query df mate-keybinding-properties rview pwscore scsi_readcap dropdb nc enroot-switchroot scsi_stop write mlxdump thumbpdf rcopy co pkla-admin-identities false sound_dump show-changed-rco allec abrt-handle-upload unwrapdiff login raw_ethernet_lat rrdinfo gftype gv2gxl rvi systemd-detect-virt isdv4-serial-inputattach rpmspec cal gencat nf-queue info resourcedump report-cli gcc-ar gsftopk infotocap zforce bison diffstat ipmi_ui mesg mm2gv env mpris-proxy eu-make-debug-archive perlbug xzcmp hostid gpic sginfo sg_ident yes nc-config grub2-mkimage makedeltarpm dbus-cleanup-sockets createlang unalias genisoimage texlua lsns ngettext ucs2any dvd+rw-booktype setterm grub2-fstest abrt-action-analyze-oops fmtutil ccomps wvunpack hca_self_test.ofed pkcs1-conv sudo createuser gzip mstvpd gst-launch-1.0 itrace systemd-hwdb rct gslp logger gtk-query-settings inotifywatch pinentry swig pg_dump gtar ypdomainname wayland-scanner texi2any alsatplg gst-xmlinspect gst-launch dos2unix netstat eqn devdump rpcgen mate-calc-cmd nmtui invgeod dvired stnmap mate-session-save event_rpcgen.py check-regexp mate-panel mate-at-properties firewall-config sg_read_long db_verify clear bg gdalmanage mate-search-tool fixcvsdiff flatpak ldns-mx groups ciptool dltest vcut gst-inspect-0.10 mktexlsr pango-list svn ldapexop mate-wm svnserve krb5-config makeindex abrt-action-save-kernel-data vtkWrapPythonInit mlxmcg libinput-list-devices ldns-chaos lsinitrd git pdftotext loginctl vdir gxl2gv gcc-nm dviluatex xsetroot nl-route-get eu-elflint tailf desktop-file-validate run-singularity gnome-keyring-daemon ps2epsi dircolors ldapurl mkluatexfontdb gnome-shell-extension-tool rpmverify scons-configure-cache-2 fc-match tabs gvfs-mkdir dtest raw vtkpython sg_start expr fc-cache lfs combinediff envsubst ibv_polldcinfo soelim transmission-gtk nl-link-stats update-desktop-database zenity uic3 mstdump localedef pyvenv ppdpo grotty sotruss cairo-sphinx seapplet pgawk factor dbus-binding-tool git-shell usleep gdalsrsinfo wvgain pdfdetach abrt-action-analyze-vulnerability chfn openipmi_eventd nice bzgrep ghostscript extractbb gpg-zip gnome-session-quit sum msgen mate-terminal snice memhog shasum dbilogstrip file db_dump WebKitWebDriver checkisomd5 truncate m4 ldapmodrdn gnome-session testepsg db_upgrade run_perftest_loopback Xrv vtkParseJava csplit twopi sha256sum yum mlxconfig cscope-indexer remunge scons-configure-cache-2.7 secret-tool nf-ct-list sg_prevent aserver mptopdf gdmflexiserver desktop-file-edit gvfs-ls lupdate-qt4 clusterdb ib_read_lat gdbus-codegen dconf qdbus system-config-printer-applet zmore Mail indent sg_modes ogrtindex gcc-ranlib mlnx_qcn gpg2 gatttool teamdctl gdal-config-64 gst-xmllaunch-0.10 xsetpointer pinentry-qt4 chgrp gnroff crc32 userinfo ConicProj chcon ccache-swig libwacom-list-local-devices guile tload cpp2html vim satyr pdf2ps sealert enchant autopoint hwloc-patch sg_copy_results gtk3-demo ldappasswd ibdiagnet scons-2 dvipdfmx fc-cache-64 rdma_xserver yacc fmtutil-sys mktexfmt fzsftp xorg-x11-fonts-update-dirs xhost cmp od systemd-cgls make x86_64-redhat-linux-c++ msgcat gxl2dot mtserver evince-thumbnailer xzegrep bcomps less sacctmgr abrt-action-install-debuginfo git-upload-pack hb-ot-shape-closure vtkHashSource unzipsfx wqdump system-config-date db_tuner signver fzputtygen mate-session enchant-lsmod vmstat pinentry-gtk gcov bzcmp wavpack newgrp cs2cs dbus-daemon python2 passwd a2x sg_rtpg h2ph ibgenperm dgawk mf f95 gdk-pixbuf-thumbnailer updmap db_load hwloc-gather-topology tsort pdftohtml dvipdf machinectl gapplication setmetamode ioc64 ld sg_sat_phy_event ib_write_bw fold testgdbm zegrep mail rev ogginfo abrt-action-analyze-backtrace unix-lpr.sh mktemp h5debug mysql_config unix2mac plymouth capnpc-capnp TransverseMercatorProj more ibdmtr wdctl open mlxfwmanager combinedeltarpm osinfo-install-script pchrt mft_uninstall.sh tbl cp stap-prep pyvenv-3.6 enroot-aufs2ovlfs guile-tools fc-conflist x86_64-redhat-linux-gcc catchsegv eu-readelf mkofm pfbtopfa sedispol texi2pdf ldns-key2ds lua gvgen gdalbuildvrt pdffonts sg_map26 pkill install-printerdriver ibv_dcini mate-font-viewer listgeo scrontab firewall-cmd getfacl easy_install-2.7 slabtop ibdiagnet_csv2xml.py h52gif sgm_dd ssh-keygen mlxpci alsaunmute oddjob_request ldapmodify mate-appearance-properties ldns-compare-zones gfortran i2c ocs ldns-signzone taskset gnome-session-inhibit fribidi luatex uptime gzexe sconsign-v3.1.2-2.7 stap abrt-action-analyze-xorg last nl-list-caches ofed_rpm_info hwloc-diff ldns-rrsig brasero xchat source-highlight nvidia-cuda-mps-server ldns-walk shred egrep proj dvilualatex ppdmerge zdiff xmodmap pr mandb perl5.16.3 gdaldem lwp-mirror rsync colormgr ibv_devinfo true 8211createfromxml sg_reassign rdma_xclient pod2texi mobj_dump vimdot raw_ethernet_bw patchwork coredumpctl h5c++-64 rmail arecord xdg-desktop-icon wodim nm-connection-editor edid-decode xauth mlnx_perf rlog alsabat size kpsereadlink xmllint nl-addr-delete dumpkeys aplay gdaltindex git-receive-pack xxd initex gio vacuumdb abrt-action-perform-ccpp-analysis automake openvt sqlite3 elfedit piconv mate-session-inhibit nl msggrep ldns-read-zone jobs rmdir Rscript sg_get_config sg_compare_and_write rfcomm readom timedatectl hostname gdk-pixbuf-query-loaders-64 xlsatoms libtool osage guild dmesg hostnamectl who autoscan linux64 gxeps merge speaker-test parallel msgfmt udisksctl utmpdump gnuplot-wx dvipdfm nl-cls-list nl-list-sockets sg_dd abrt-action-analyze-ccpp-local lpq gst-typefind podselect db_printlog javaw msgcomm iceauth eu-findtextrel unshare gpg-connect-agent sha1sum lastb sg_unmap mst_ib_add makedb scrollkeeper-extract dir zipsplit upower icuinfo texconfig systemd-analyze loadkeys tic vglconnect qt3to4 ib_atomic_lat ps2ps2 reporter-upload ibsim gvfs-set-attribute ib_acme neqn gsdj500 graphml2gv glxinfo mlnx_get_vfs.pl ibus sg_rbuf gtester-report mlxlink gupnp-dlna-ls-profiles-2.0 qdbuscpp2xml nvidia-bug-report.sh cc fonttosfnt cd-it8 dvd+rw-format tee hdsploader ntpstat eom bluetooth-sendto alias rpmkeys libtar mate-calculator espdiff fipscheck display gvpack kpsepath nop msgfilter caja-sendto gendiff migspeed iconv tracepath6 nl-qdisc-delete pwmake setup-nsssysinit.sh h5cc xzgrep scrollkeeper-update ldapwhoami sg_get_lba_status glib-compile-schemas mktextfm scrollkeeper-get-extended-content-list find-repos-of-install wall lpq.cups eu-size ausyscall mozo nl-link-set libpng-config rcsdiff updmap-sys prtstat lz4cat flint perlthanks repstopdf stapsh gxtran sleep join gst-stats-1.0 repotrack fipshmac libinput-debug-events systemd-loginctl h5fc nvidia-modprobe tracepath asciidoc.py fc-validate startx gdb-add-index rarian-sk-extract mate-desktop-item-edit ssh eu-strings oggenc os-prober gdallocationinfo fftw-wisdom bashbug spice-vdagent gtk-update-icon-cache numademo ldns-dpa cd-iccdump dimax_init GeodSolve aulast xdg-email pdfimages jasper mlnx_dump_parser cvt certutil read pygtk-demo python3 texindex abrt-action-check-oops-for-hw-error interdiff mlxfwstress_ext chardetect cd-info ibdev2netdev nl-cls-add mate-power-manager zipgrep bzless audit2why verifytree riostream vncconfig deallocvt vncpasswd pkg-config sg_rmsn dtrace isovfy gst-xmlinspect-0.10 mate-cpufreq-selector h5perf_serial db_stat systemd-ask-password ldns-zsplit newuidmap scrollkeeper-install kpsexpand mate-calc rarian-sk-rebuild mlxmdio pixeltool cmake clush liveinst atril-thumbnailer scrollkeeper-rebuilddb a2x.py unpack200 gtk-builder-tool resizecons kpsestat nl-neigh-list chsh cvtsudoers abrt-action-generate-core-backtrace iso-info screen bccmd charmap jdmpview automake-1.13 system-config-printer abrt-action-trim-files import gvfs-mount unicode_stop ctags ibv_dctgt lwp-request pydoc readlink ipmi_sim pg_dumpall scrollkeeper-preinstall sdrcomp dracut rctest pkla-check-authorization cd-fix-profile dvd-ram-control mktexpk nl-route-list cpupower hwloc-ls python2-config xwininfo setpriv csslint-0.6 sudoreplay mate-system-log libpng15-config nl-class-delete udevadm uname create-jar-links ipmilan mknod update-ca-trust libnetcfg solterm gvpr hexdump nmtui-connect kdumpctl nl-addr-add gvfs-copy vgllogin repoclosure sha512sum nl-link-list xdg-icon-resource filezilla hcidump eu-stack lp easy_install-3.6 atril tar osinfo-query linux32 pinentry-curses testlibraw tex grl-inspect-0.3 filterdiff setxkbmap pkcheck scsi_ready cut sg_read_block_limits h5repart lslogins pdftops llobdstat ppdhtml mlxdump_ext bzip2recover nl-pktloc-lookup ul tmrdemo gsl-randist chmod hb-shape systemd-nspawn rarian-sk-install ulockmgr_server locale pathchk dbus-uuidgen h5repack fgconsole curl sg_write_long unicode_start nl-neigh-add sg_persist applydeltarpm eps2eps infokey install lconvert xzcat db_dump185 fftwl-wisdom rvim grub2-mkpasswd-pbkdf2 sreport ps2pdf13 stapbpf hunspell pckt_drop evince gnome-session-custom-session lwp-download alsaloop mlxtrace_ext rmail.postfix nmcli gdm-screenshot dwz java ogg123 pyinotify dot nfs4_getfacl hwloc-assembler-remote journalctl lrelease-qt4 splitdiff mv growisofs implantisomd5 ldns-nsec3-hash mate-dictionary jvmjar odbc_config zsoelim 7z rmid pango-querymodules-64 icedax dconf-editor keytool identify vtkWrapTclInit dirname capnpc panelctl alsamixer pam-panel-icon as namei mlx_fpga db_recover ibdiagpath python2.7 MagneticField rebuild-jar-repository lsscsi systemd-delta ib_send_lat scons-time-2 unlz4 mlxfwstress scsi_start watch pip3 awk xlsclients nvidia-xconfig scancel whatis rpmdb doxygen gnome-control-center zstdgrep dotty gr2fonttest xdg-user-dirs-update ibv_uc_pingpong convert db_archive gvfs-info xzfgrep icu-config-64 nl-route-add ncat svnversion dbus-send nvidia-debugdump xzdec mate-disk-usage-analyzer ncdump scrollkeeper-get-content-list [ hwloc-compress-dir sg_read_buffer rescan-scsi-bus.sh xz yumex runcon ldns-verify-zone xdg-user-dirs-gtk-update pdfetex vtk fc-list gconf-merge-tree GET zless xdriinfo guile2 mpi-selector lneato whoami gdalinfo pkexec ldapcompare neato tclsh mwm dtestsrq ldns-zcat rcsclean tr h2xs mstprivhost libieee1284_test rcsfreeze mate-screenshot ksvalidator uuclient p11-kit nettle-hash afm2tfm mergerepo gnome-session-selector osinfo-db-path ipcmk repodiff ksverdiff gresource mate-session-properties ib_atomic_bw fc-scan qmake-qt4 qperf cdrdao ibsim-run lsblk cd-paranoia fc-pattern qdbusxml2cpp cat flock kmod sg_test_rwbuf rarian-sk-get-extended-content-list scp-dbus-service intltool-prepare lfs_migrate du ptaskset gsoelim c2ph dbiprof ibnlparse bdftopcf gtbl quotasync gpg-agent sg_inq chattr ln tracker migratepages policytool prove byacc ibcongest 8211view osinfo-db-export peekfd dvips ibdump mlxphyburn pulseaudio sg_emc_trespass sg setfont vlock ldns-update hwloc-calc firefox unexpand xmlsec1 lpr yumdownloader xmlpatterns gnome-session-properties ksflatten bond2team luac ccmake gvfs-move lprsetup.sh md5sum bashbug-64 gvfs-monitor-file mpaste qhelpconverter abrt-dump-xorg a2p psfgettable totem-video-thumbnailer ldapsearch montage qcollectiongenerator nl-class-add post-grohtml gvcolor abrt-action-save-package-data geoipupdate clpi_dump command intltool-extract mate-keyboard-properties ldnsd cupstestppd vtkWrapPython geoiplookup6 mkdir udpong mstconfig preconv rrdupdate nad2bin nl-fib-lookup sbcdec slogin bufrscan sshare aseqdump nl-link-name2ifindex ibus-setup staprun xsetwacom package-cleanup ncgen3 gsl-config coverage msghack sg_opcodes ld.gold xdvi-xaw anaconda-disable-nm-ibft-plugin canberra-boot createrepo nvidia-settings printf gdalwarp pwdx hwloc-ps killall wc sg_verify install-catalog nf-log dvcont kpsetool tcsh sg_sat_identify pfc mlxgearbox test gv2gml sg_write_buffer tset pf2afm trust pwd gpasswd fftw-wisdom-to-conf mlxreg_ext funzip grub2-menulst2cfg syndaemon inotifywait sgp_dd h5cc-64 nl-cls-delete sg_readcap sg_map msgconv catman newgidmap python3.6 ctest gupnp-dlna-info-2.0 conjure x86_energy_perf_policy gvfs-cat aec xinit grib2scan numastat rrdtool RhumbSolve gst-xmllaunch genl-ctrl-list xset rpmquery moc-qt4 cd-read dumpiso teamd scons-v3.1.2-2.7 cscope enroot-nsenter eu-ranlib ib_read_bw gsdj Xrv_launcher bluemoon ppdi appstream-util GeoConvert mate-color-select gettext bdftruncate ibv_cc_pingpong db_log_verify munge simple-scan findmnt scrollkeeper-config srm mate-about sg_ses dijkstra systemd-path cluset X nettle-lfib-stream usx2yloader gnome-help rpmsign sattach getconf getopts wqdump_ext nsenter comm mate-notification-properties cd-create-profile gltpd setkeycodes gvfs-rm tzselect h5diff sdptool fgrep ecpg grub2-script-check gparted build-jar-repository nmap sql repo-rss ucx_perftest jiv gettextize touch consolehelper-gtk column gdal_contour zcat wish8.5 rarian-sk-config dump2slvl.pl crlutil pre-grohtml audit2allow ci isodump POST ogrinfo nss-policy-check composite strip dapltest captoinfo mailx h5jam lsdiff userpasswd c++filt mlxburn bunzip2 unzstd sbcast arecordmidi cksum pktype Gravity ssh-copy-id sha384sum semodule_package nvidia-smi pinky scons-2.7 xkbcomp mstregdump isodebug ib_send_bw pstruct libbluray_test appstream-compose gnuplot setsid config_data ncurses5-config lz4c caja vimtutor cpio nvidia-persistenced simpdftex wnck-urgency-monitor epstopdf gsnd sccmap dbus-update-activation-environment lchsh kpsewhere lbunzip2 sg_reset dm-tool h5c++ GeoidEval perlivp easy_install zenheiset crontab lsipc lastlog grl-launch-0.3 rcsmerge sftp vtkParseOGLExt svndumpfilter sha224sum git-upload-archive setup-nsssysinit hwloc-distances h5import coverage2 mlnx_conf_mgr.sh synclient libinput rarian-sk-get-content-list pflags nl-neightbl-list mogrify mate-terminal.wrapper gjs-console sessreg psed ucmatose stream tty localectl nl-classid-lookup HEAD dbus-run-session showkey page_owner_sort mount boltctl wgrib watchgnupg modifyrepo evince-previewer date msgcmp modulecmd gftodvi dot2gxl protoc mate-volume-control-applet ibv_intf rcs setarch ibv_xsrq_pingpong natpmpc instmodsh xmlwf teamnl ldns-resolver gdk-pixbuf-pixdata clubak gxps zcmp compile_et c++ enroot-makeself rdma_client nl-link-release link raw_ethernet_burst_lat hwloc-distrib libgcrypt-config ldd pack200 ogr2ogr newaliases eu-addr2line pktogf animate mate-about-me recode-sr-latin pdfseparate mremote nproc seq ipod-read-sysinfo-extended cancel.cups mstop eu-strip ibv_asyncwatch apropos busctl pinentry-gtk-2 aulastlog aconnect geqn sconsign-2.7 mpls_dump mstmtserver mlxuptime gcc vglclient ps2ps gss-client nccopy chacl ssh-add intltool-merge compare scons-time-2.7 CartConvert svnrdump aplaymidi keyctl xgamma sort base64 nl-tctree-list pod2html psfaddtable printafm sconsign hwloc-info opj2_compress rpm m17n-conv llstat scsi_mandat mst scsi-rescan singularity repoquery mkfontdir alsaucm h5redeploy ldapdelete repomanage fmt cpan unlink gcr-viewer json_pp grub2-mklayout readcd hex2hcd opj2_dump systemd-stdio-bridge lefty gvfs-rename ldns-keygen head grub2-mkrelpath iptc debuginfo-install abrt-watch-log powernow-k8-decode eu-nm id scrollkeeper-get-cl hwloc-bind system-config-users centrino-decode split nfs4_editfacl gsettings rarian-sk-migrate qmlviewer gpg-error cdrecord arch rhythmbox-client src-hilite-lesspipe.sh circo zipnote orc-bugreport gdal_translate xvinfo xkill intltool-update imginfo dtestx ppdc allcm flex++ find2perl fwtrace whiptail checkmodule lprm.cups oggdec rdma_server gdalserver ibtopodiff grub2-mkfont gnome-keyring-3 diffimg fallocate tred pdfinfo btattach nail mstmread dvi2fax dnsdomainname gvfs-tree strings diff-jars qttracereplay lualatex nf-exp-list look systemd-machine-id-setup gtester pdfunite squeue editdiff db_deadlock sg_luns s2p glib-genmarshal enroot-mount gnome-keyring nping python-config pldd oldfind lz4 gst-typefind-1.0 zstdcat rarian-example checkpolicy Xrv_Xdummy Planimeter fros pstack yum-debug-restore gtk-encode-symbolic-svg systemd-run readmult ldns-keyfetcher hb-view openipmicmd report-gtk x86_64-redhat-linux-g++ ldns-version mstcongestion gnome-shell htop dropuser gtroff lp.cups gpgconf stat reposync ogrlineref echo marco-message glxinfo64 g++ uniq vtkWrapHierarchy systemd-coredumpctl lchfn mate-panel-screenshot mate-window-properties msguniq gnote nearblack nl-class-list dtestcm sg_write_same autom4te urlgrabber ofed_info gtk-launch hcitool lsattr rmcp_ping realpath intltoolize rarian-sk-preinstall yum-builddep xzmore hwloc-assembler nl-addr-list l2ping vimdiff man mailq gstack list_titles reporter-bugzilla fg sprio zgrep gprof dvipdft toc2cddb yum-config-manager pstree etex sdiag cpanm uuidgen pg_restore hangul fc-cat kill auvirt rhn_register ls mlxvpd nmtui-hostname build-classpath-directory l2test bdsplice gvmap.sh xinput transmission-remote s57dump stty gvfs-trash dd systemctl capnpc-c++ abrt-dump-oops col ps2ascii mkindex gtk-query-immodules-3.0-64 addr2line nl-qdisc-list mlxlink_ext update-mime-database lessecho timeout ibus-daemon gml2gv grilo-test-ui-0.3 psfstriptable ndiff mate-screensaver-preferences sedismod sg_raw ksshell enroot-mksquashovlfs lpstat.cups fc zstd aseqnet droplang latex rrdcreate ucx_info zstdless cupstestdsc imgcmp tclsh8.5 gribmap pod2man systemd-tmpfiles jjs sg_sanitize ex pango-view cpp pitchplay abrt-action-list-dsos xsetmode system-config-language ssltap vglserver_config ipcalc h5ls lesspipe.sh gst-feedback-0.10 rediff igawk check-binary-files rename rkhunter eu-elfcmp python gtk3-demo-application abrt-action-analyze-vmcore atril-previewer db_replicate grub2-glue-efi stap-merge gdbus rmiregistry gpsbabel osinfo-db-import nf-ct-add gtf lexgrog pmap cpansign xzless sg_referrals mate-typing-monitor rpm2cpio fill_test minit flint_ext pip3.6 stapdyn h5copy pkaction python2.7-config gjs GeodesicProj stap-report quota geod sprof zstdmt gpgsplit unmunge rhsm-debug ibv_umr pod2text ldapadd umask dehtmldiff mdevices_info python3.6m lbzip2 h5stat newaliases.postfix axfer linux-boot-prober lpoptions coverage-2.7 guile2-tools yum-debug-dump mlxcables_ext h5unjam ibv_task_pingpong pdf2dsc i386 ibdmchk xdg-screensaver invproj sh ncgen scrollkeeper-uninstall systemd-escape nl-monitor ld.bfd vmmouse_detect xml2-config showconsolefont mlx_fpga_ext analog mstmwrite pip-3 tput sconsign-2 gvfs-monitor-dir users sg_senddiag ldns-revoke sdiff chvt mpi-selector-menu lex kpseaccess ping6 abrt-action-analyze-core mkisofs jq sndfile-resample gpgv scrollkeeper-get-toc-from-docpath transmission-create lpstat gs nl-link-enslave mkocp zipinfo bzmore rpmdumpheader pzstd grepdiff pgrep renice sendiso pdflatex msgattrib free unxz alsa-delay systemd-notify rpmbuild lprm icu-config toc2cue wish gst-typefind-0.10 dc tc_wrap.py h5dump niceload scons-configure-cache reporter-ureport marco w gdal_grid tnameserv vtkWrapJava x86_64 mft rrdcgi nisdomainname top infocmp ncursesw5-config qdoc3 svnadmin sed mate-volume-control kbdinfo dwp firewall-offline-cmd nl-qdisc-add pod2usage fc-query shuf ibv_ud_pingpong qmlplugindump reindexdb xzdiff allneeded flex unflatten ldns-dane numfmt pg_config drill mailq.postfix Xorg slabinfo gvfs-save Xvnc gvfs-open gnome-shell-perf-tool svnsync kbdrate cluster xprop mate-thumbnail-font gtk-query-immodules-2.0-64 sh5util grub2-mkstandalone zipdetails gkbd-keyboard-display xev uil gdaltransform gftopk ebb chcat nohup xvattr gst-inspect-1.0 eu-ar pydoc3.6 view dumpsexp sgmlwhich sbcinfo pydoc3 scsi_temperature mlx_fs_dump isoinfo db_hotbackup sudoedit script dump2psl.pl ogdi_import xrdb mate-power-preferences sg_wr_mode xmlpatternsvalidator gst-feedback zip time mate-control-center mokutil gpg-error-config diff cdda2wav kernel-install bootctl troff scsi_satl corelist gst-inspect sem splain wget xdg-desktop-menu ibnetsplit grub2-kbdcomp soundstretch ldns-gen-zone rarian-sk-get-scripts dbus-test-tool mate-default-applications-properties grub2-file mkfifo glib-compile-resources ipmitool texlinks sg_sync usermount ionice qhelpgenerator colrm nf-monitor xrandr patch c89 xdg-user-dir yelp grub2-render-label tmon iso-read scontrol setfacl abrt-action-analyze-java nmtui-edit srun caja-file-management-properties gtk3-widget-factory sandbox needs-restarting vglconfig cdda-player eu-unstrip hciconfig lscpu gettext.sh mate-mouse-properties btmon ipcrm fdp plistutil gnome-shell-extension-prefs gsf-office-thumbnailer gdk-pixbuf-csource gnome-abrt mstfwreset sinfo cmsutil ps2pdf14 scrollkeeper-gen-seriesid abrt-merge-pstoreoops checkmk pphs nl-util-addr hmac256 xmlcatalog lslocks getdap mate-invest-chart iecset dbus-launch ps2pdfwr kbd_mode iptables-xml userformat modutil mate-power-statistics nm psql gdb scrollkeeper-get-toc-from-id caja-autorun-software chmem systemd-cat texconfig-sys znew zipcloak nodeset aclocal perldoc readelf dbus-monitor toe dvdrecord find rarian-sk-get-cl xstdcmap prlimit paste svnlook wait xsltproc objdump pip-3.6 basename ps2pdf gribscan ps2pdf12 mlnx_interface_mgr.sh showrgb ipmish eject mlxprivhost setleds lesskey geoiplookup ndptool pdftoppm recountdiff plot-llstat mkrfc2734 ldns-testns umount rcc ndctl getopt cdparanoia systemd-inhibit ibus-table-createdb cancel fusermount makegeo rsyslog-recover-qi.pl enroot mcookie bibtex texhash ibdiagm.sh 8211dump ib_write_lat notify-send gmake sstat tail lbzcat ranlib sg_logs paperconf mkinitrd idiag-socket-details flipdiff gpg salloc desktop-file-install mlxtrace bzdiff domainname gtk3-icon-browser sbcenc pl2pm cdda2ogg mget_temp_ext cmtime texconfig-dialog openipmish secon ifnames sg_sat_set_features vorbiscomment update-gtk-immodules autoheader mget_temp aclocal-1.13 rstream xgettext vxloader prune grops gsbj geos-config ipcs gdal-config systemd-firstboot show-installed chrt gdalenhance mixartloader geotifcp isosize pdftocairo bash fortune abrt-applet systemd-sysv-convert abrt-action-notify java2html dvd+rw-mediainfo cd axel scons-time rrdcached groff gneqn expand whereis vi mountpoint diff3 scons-configure-cache-v3.1.2-2.7 mate-screensaver xdvi tac acyclic osinfo-db-validate amidi bc dbiproxy sg_requests xdg-mime csh pstree.x11 xlsfonts seahorse colcrt makeinfo h5mkgrp jextract Xrv_signal_listener reset scp mstflint texi2dvi rm inimf perl mate-network-properties ldns-notify cisco-decrypt Xrv_udev_product_version xmvn-builddep nl-route-delete nf-exp-delete instperf gucharmap glxgears printenv gdaladdo gvfs-less gpgv2 gvmap totem mkhybrid grub2-mkrescue ucx_read_profile su nfs4_setfacl xdpyinfo vtkWrapTcl mlxfwreset rarian-sk-update grep loadunimap kpsewhich sexp-conv gc autoconf getkeycodes systemd-cgtop nosetests-2.7 mstresourcedump grads pdftexi2dvi nroff find-jar chown ibv_devices capnp clean-binary-files slurm-setuser anaconda-cleanup abs2rel mkfontscale db_checkpoint curl-config glib-mkenums ps cairo-trace run_perftest_multi_devices sbatch sg_xcopy bzcat fftwf-wisdom nl-rule-list setvtrgb mac2unix mst_cable pic engrampa mapscrn pod2latex sacct cue2toc mate-system-monitor raw_ethernet_fs_rate vpi_tcpdump caja-connect-server msgunfmt rhythmbox sg_decode_sense gawk linguist-qt4 sg_read sg_rdac gdal_rasterize build-classpath reporter-rhtsupport eu-objdump sg_format pk12util source-highlight-settings strigger chronyc xdg-settings R grub2-syslinux2cfg iusql xdg-open sg_turs mlxi2c recode xargs uic-qt4 system-config-abrt ogdi_info ssh-keyscan glib-gettextize mf-nowin vglrun cpack bluetoothctl sfdp mate-panel-test-applets transmission-show run-parts autoupdate rping mlxcables objcopy canberra-gtk-play scriptreplay osinfo-detect mmc-tool nl-neigh-delete nosetests mckey manpath nvidia-cuda-mps-control udaddy mstmcra gnome-character-map udunits2 isql pcre-config sg_vpd hdmv_test vtkEncodeString ibv_srq_pingpong lpr.cups abrt-action-generate-backtrace msginit pkttyagent idn grub2-editenv opj2_decompress chage msgmerge cd-drive autoreconf unix2dos zfgrep xsubpp xmbind gsettings-data-convert mktexmf gif2h5 exempi hciattach sync msgexec grub2-mknetdir gio-querymodules-64 yum-groups-manager mcra gpgparsemail nm-online texluac turbostat nf-exp-add openssl scrollkeeper-get-index-from-docpath hwloc-annotate libtoolize ptx ca-legacy psfxtable rarian-sk-gen-uuid gsl-histogram h5fc-64 gconftool-2 mlnx_qos index_dump redhat-support-tool repo-graph mate-display-properties gst-launch-0.10 ar scsi_logging_level scons-time-v3.1.2-2.7 ldns-test-edns mate-screensaver-command vglgenkey abrt-action-analyze-python stdbuf designer-qt4 mstfwtrace logname lsmem odbcinst rhsmcertd which systemd-tty-ask-password-agent freetype-config telnet lstopo-no-graphics createdb perf sim_client unzip xrefresh ibv_rc_pingpong skill getent mlxreg sg_stpg consolehelper eu-elfcompress amixer nl-link-ifindex2name subscription-manager gcore gvfs-mime bzip2 gslj numactl pdftex asciidoc pluma lppasswd sg_scan transmission-edit mutter c99 ssh-agent resourceparse scons lwp-dump ping sg_safte /usr/local/sbin: /usr/sbin: setquota lpc.cups NetworkManager devlink dmidecode route useradd ipset yumdb abrt-server pppstats rpc.nfsd biosdecode thin_repair ibping set_nodedesc.sh ipmi-chassis-config ipmiping audispd llverfs iprdbg chkconfig dmstats rtstat vgchange ipmi-power lustre_tune_prealloc syspurpose mkfs.msdos xfs_admin iscsiuio create-cracklib-dict getpcaps rtcwake sendmail new-kernel-pkg nfsdcltrack reject vpnc-disconnect chroot iconvconfig cracklib-check ibmirror dmfilemapd visudo lnetctl unbound-anchor packer ibsrpdm ipmi-dcmi ibidsverify.pl openvpn cupsenable abrt-harvest-vmcore try-from vgimportclone netreport saslpasswd2 btrfs-find-root ibccconfig rpcinfo ipsec thin_rmap alsa-info.sh thin_metadata_size ipmi-sensors-config exportfs grub2-mkconfig grub2-get-kernel-settings ipmi-config crond swapon installkernel selabel_lookup ldev xl2tpd ibportstate grubby munged partprobe umount.nfs4 mklost+found xfs_db biosdevname smpquery iprupdate ldlm_debug_upcall hwclock ipmiconsole rhn-profile-sync xfs_io iblinkinfo ntpd mount.nfs4 mii-diag lockdev blockdev run_srp_daemon matchpathcon pethtool xfs_repair cache_metadata_size ibcheckstate pwunconv request-key fsck.ext2 ipmi-sensors cupsaddsmb arp blkid bmc-info tuned-adm vgrename grub2-ofpathname dcbtool hwloc-dump-hwdata fsck.vfat switch_root btrfs umount.udisks2 lvm mkfs.ext4 mlnx_tune chcpu e2label nfsidmap l_getidentity postqueue lvcreate fsck.cramfs lnewusers lsmod postcat vendor_post_uninstall.sh abrt-configuration ll_decode_linkea sminfo mkfs.fat ip lvmpolld cgdisk lpc alternatives findfs cryptsetup fsck.ext4 sysctl ipmimonitoring update-smart-drivedb ethtool fstrim dkms ifstat groupmems ibrouters cache_repair e4crypt mlnx-sf cracklib-unpacker pam_timestamp_check postfix pvck xfs_bmap pvcreate tcsd ibcheckportwidth nl-cls-list lvscan openconnect perfquery kpartx sestatus opensm fatlabel mkfs.cramfs xfs_estimate abrt-auto-reporting geographiclib-get-magnetic groupmod smpdump sfdisk cracklib-packer ibdiscover.pl setfiles quotaoff fsck.btrfs mdadm sgdisk vigr faillock tune2fs tracepath6 nl-qdisc-delete srp_daemon.sh xfs_mdrestore lusermod clock pvremove zdump plymouth-set-default-theme ibcheckportstate pef-config ibprintswitch.pl tracepath userdel lvremove sgpio ibnodes fixparts grub2-install ntptime getenforce nl-cls-add pdata_tools luserdel ibcheckport getcap mpathconf usermod ibcacheedit telinit era_invalidate liveinst selinuxconlist modprobe safe_finger lvrename start-statd smartctl thin_check grub2-bios-setup dracut bmc-config cupsaccept grub2-probe cache_dump userhelper ibswitches ifdown init mate-system-log nl-class-delete udevadm iconvconfig.x86_64 ibsysstat ipmi-oem lightdm-gtk-greeter fsck.minix grub2-rpm-sort quotastats nl-link-list cbq postlog btrfs-map-logical halt postconf ifenslave nl-pktloc-lookup lvresize parted vpddecode xfs_rtcp mkfs.minix ibacm pam_tally2 dhclient sktest ibaddr lldptool anaconda arping ip6tables newusers bmc-device e2undo cupsctl setup_mr_cache.sh swaplabel tc semanage yum-complete-transaction ibqueryerrors mkdumprd grub2-macbless ipmi-locate mkfs.ext2 e2freefrag era_check autrace kexec ipmi-ping btrfs-convert sysctl_perf_tuning fuser mkdosfs fcrls compat_gid_gen ipmi-sel ibdatacounters genhostid getsebool lustre_routes_conversion netscsid pvresize ip6tables-restore postlock firewalld postalias ifcfg iprdump rhn_check pam_console_apply xfs_growfs cma_roce_tos grub2-setpassword rpc.idmapd ntpdate pifconfig fsck shutdown ldconfig mkfs.xfs mount.fuse authconfig thin_delta xfs_quota nl-class-add lhsmtool_posix slurmd vgexport nfsiostat xfs_freeze umount.nfs avcstat grpck ipmi-detect nslcd dosfsck lvmetad lpasswd pwck smtp-source vgcfgrestore lgroupmod pvs iprinit vgscan rpcbind resizepart ipmievd dmeventd vpnc mkfs pvchange iptables-save lustre_routes_config zic postdrop ss check_lft_balance.pl nl-cls-delete mkfs.ext3 delpart lpmove genl-ctrl-list ibclearcounters skdump cfdisk rsyslogd set_irq_affinity_cpulist.sh irqbalance dmevent_tool set_irq_affinity.sh connectx_port_config selinux_restorecon lpadmin multipath runlevel ppp-watch ibclearerrors alsabat-test.sh mate-power-backlight-helper gssproxy lvmconf accessdb adduser cups-browsed ipmipower auditctl fsck.xfs lvmsar update-pciids mount.nfs mlnx_affinity insmod ib2ib_setup lvmsadc agetty rtmon lnstat iscsistart slattach sedispatch pppdump edquota blkdiscard ibcheckerrs rtacct fsfreeze nl-classid-lookup swapoff iptunnel lpinfo losetup ctstat fsadm eapol_test fcoeadm selinuxdefcon mountstats bridge showmount grpunconv selabel_partial_match zramctl install-info blkmapd fsck.fat setroubleshootd sysinfo-snapshot.py setsebool pivot_root mount.lustre mdmon e2fsck poweroff mpathpersist chat routel ntpq abrt-harvest-pstoreoops setcap selabel_lookup_best_match pvscan tickadj uuserver lid rmcp-ping mkhomedir_helper oddjobd dump_mfts.sh l_adsidentity ctrlaltdel lvreduce ibchecknode realm rpc.rquotad cma_roce_mode load_policy key.dns_resolver setenforce lst anacron ibqueryerrors.pl mkswap show_irq_affinity.sh modinfo vgconvert authconfig-tui vgdisplay ibstat rdma fxload sim_server ibprintca.pl augenrules tcpd vgcreate routerstat build-locale-archive xfs_logprint unstr nscd lvmconfig partx quot vmcore-dmesg vgremove lgroupdel dm_dso_reg_tool update-alternatives quotaon ofed_uninstall.sh e4defrag clockdiff lustre_rsync mkfs.vfat reboot grub2-reboot nl-class-list xl2tpd-control iscsid mlnx_bf_configure xfs_ncheck makedumpfile repquota btrfs-select-super show_counters runuser rpc.statd vgcfgbackup fcoemon pppd ibtracert cracklib-format rhn_register lustre_rmmod postsuper glibc_post_upgrade.x86_64 common_irq_affinity.sh ibccquery thin_ls smtp-sink sasldblistusers2 nl-qdisc-list rpc.mountd mkfs.btrfs resize2fs smparquery ibdatacounts ifconfig xfs_fsr pptp ipmaddr osd_login xfs_copy sulogin ipmi-fru vgmknodes lightdm alsa-info abrt-dbus killall5 gdm wpa_cli ibswportwatch.pl dump_lfts.sh thin_dump xfs_info era_dump geographiclib-get-gravity ibcheckerrors rpcdebug xfs_metadump lchage sefcontext_compile rhnreg_ks depmod cupsd wpa_passphrase vgreduce xtables-multi genl wpa_supplicant selinuxenabled sendmail.postfix blkdeactivate mii-tool era_restore ping6 dmraid dumpe2fs ibroute tinyproxy lvchange ipmi-chassis chgpasswd virt-what postmulti groupdel service fcnsq sln smartd rhn-channel grpconv fdformat slurmstepd fixfiles nl-qdisc-add routef mate-display-properties-install-systemwide selabel_digest vendstat chronyd fsck.msdos paperconfig wipefs fcping weak-modules vgmerge unsquashfs cupsdisable ipmi-console show_irq_affinity_hints.sh pwhistory_helper pvdisplay ibchecknet selinuxexeccon consoletype sosreport alsactl btrfstune tuned lvmdiskscan vipw readprofile plipconfig grub2-sparc64-setup geographiclib-get-geoids iprsos rhnsd ipmidetect mkdict xfs_mkfile cacertdir_rehash ntp-keygen quotacheck fsck.ext3 handle-sshpw srp_daemon lctl odp_stat.sh capsh e2mmpstatus ibstatus ebtables-save genhomedircon lldpad sys-unconfig ibnetdiscover osmtest logrotate rmcpping filefrag show_gids mksquashfs arpd spacewalk-channel lvmdump applygnupgdefaults lgroupadd luseradd dump_fts lvextend setpci nameif iprconfig pppoe-discovery abrtd pidof postkick ibfindnodesusing.pl iptables rmmod raid-check gpartedbin ownership fdisk vendor_pre_uninstall.sh lsof logsave auditd postmap ko2iblnd-probe tcpdmatch plymouthd pwconv usbmuxd sshd ipmi-pet btrfs-image groupadd btrfs-debug-tree e2image dmsetup sushell lvs ipmi-pef-config ebtables iscsiadm fipvlan lshw vgextend cupsreject l_getidentity_nss accept mke2fs ibprintrt.pl restorecon usernetctl ether-wake nologin set_irq_affinity_bynode.sh btrfsck debugfs semodule vgimport cache_check lvconvert pvmove vgs btrfs-zero-log vgck ipmi-raw ibhosts nstat spice-vdagentd lvdisplay cache_restore gss-server cache_writeback rdisc nfsstat thin_restore multipathd grub2-set-default cupsfilter rpc.gssd ldattach sshd-keygen intel-microcode2ucode ebtables-restore thin_trim rtpr abrt-install-ccpp-hook vgsplit dmraid.static saquery badblocks hardlink iscsi-iname ifup unix_update xqmstats iptables-restore gdisk sm-notify dosfslabel ntpdc ip6tables-save dhclient-script iblinkinfo.pl sldd.sh ibcheckwidth addgnupghome lspci ausearch unix_chkpwd subscription-manager strfile llsom_sync vdptool rtkitctl aureport addpart chpasswd convertquota /opt/ibutils/bin: ibdiagnet ibdmtr ibmssh RunSimTest ibdiagpath ibnlparse dump2slvl.pl ibis ibtopodiff IBMgtSim ibmsquit ibdmchk dump2psl.pl ibdiagui mkSimNodeDir ibdmsh /opt/xcs/Admin/Scripts: xf_GetARDetailsPBS.awk xf_GetDiskInfo.sh xf_CreateAR.sh xf_GetQueueDetailsSLURM.awk xf_GetDirectoryContent.pyo xf_GetJobDetailsSLURM.awk xf_Delete.sh xf_GetDirectoryContent.py xf_GetARDetailsSGE.awk xf_Nodeset.sh xf_OptionDsWrapper.sh xf_ModifyAR.sh xf_VizSession.sh xf_SudoWrapper.sh xf_JobsService.sh xf_FileService.sh xf_GetQueueDetailsLSF.awk xf_GetUserPaths.sh xf_GetClusterInfo.sh xf_GetFileMetadata.awk xf_SshWrapper.sh xf_GetQueueDetails.sh xf_GetJobDetailsOAR.awk xf_ReservationsService.sh xf_GetARDetailsSLURM.awk xf_GetJobDetailsSGE.awk xf_GetJobDetailsLSF.awk xf_GetQueueDetailsSGE.awk xf_GetArchiveList.sh xf_GetDirectoryContent.pyc common-scripts-functions.sh xf_CheckFileExist.sh xf_GetJobDetailsPBS.awk xf_GetARDetailsLSF.awk xf_LoadArchive.sh xf_ChunksService.sh xf_TryBind.sh xf_DeleteAR.sh xf_GetArchiveList.awk xf_GetQueueDetailsPBS.awk xf_GetSessionDetails.sh common-awk-functions.awk xf_GetAvailableQueuesDetails.sh /prj/song/juan.salazar/.local/bin: pyFoamRedoPlot.py pyFoamPackCase.py pyFoamTimelinePlot.py pyFoamConvertToCSV.py pyFoamAPoMaFoXiiQt.py pyFoamPlotRunner.py pyFoamDisplayBlockMesh.py pyFoamPVSnapshotMesaLLVM.py pyFoamUpgradeDictionariesTo17.py pyFoamUpgradeDictionariesTo20.py pyFoamPrepareCase.py pyFoamFunkyDoCalcFiles.py pyFoamVersion.py pyFoamModifyGGIBoundary.py pyFoamClearCase.py pyFoamRestartRunner.py pyFoamUtilityRunner.py pyFoamCaseReport.py pyFoamSymlinkToFile.py pyFoamComparator.py pyFoamNetList.py pyFoamBench.py pyFoamPVSnapshotMesaSWR.py pyFoamPlotWatcher.py __pycache__ pyFoamCreateModuleFile.py pyFoamBlockMeshConverter.py pyFoamSGECommand.py pyFoamJoinTimelines.py pyFoamBinarySize.py pyFoamTestConfiguration.py pyFoamEchoPickledApplicationData.py pyFoamClearInternalField.py pyFoamDumpRunDatabaseToCSV.py pyFoamRunner.py pyFoamPVLoadState.py pip pyFoamSamplePlot.py pyFoamSTLUtility.py pyFoamClearEmptyBoundaries.py f2py pyFoamAddCaseDataToDatabase.py pyFoamReadDictionary.py pyFoamListProfilingInfo.py pyFoamIPythonNotebook.py pyFoamBuildHelper.py pyFoamCompressCaseFiles.py pyFoamCompareDictionary.py pyFoamCopyLastToFirst.py f2py3.9 pyFoamPVSnapshot.py pyFoamMetaServer.py pyFoamBlockMeshRewrite.py pyFoamRunAtMultipleTimes.py pyFoamJoinCSV.py pyFoamCreateBoundaryPatches.py pyFoamNetShell.py pyFoamSurfacePlot.py pyFoamPVSnapshotMesa.py pyFoamClearBoundaryValue.py pyFoamFromTemplate.py f2py3 pyFoamCloneCase.py pyFoamEchoDictionary.py pyFoamWriteDictionary.py pyFoamRunParameterVariation.py pyFoamClusterTester.py pyFoamStandardLogAnalyzer.py pyFoamChangeBoundaryType.py pyFoamDecompose.py pyFoamDumpConfiguration.py pyFoamPVSnapshotNative.py pyFoamCaseBuilder.py pyFoamInitVCSCase.py pyFoamExecute.py pyFoamAddEmptyBoundary.py pyFoamUpdateDictionary.py pyFoamChangeBoundaryName.py pyFoamListCases.py pyFoamSteadyRunner.py pyFoamPotentialRunner.py pip3.9 pyFoamPrintData2DStatistics.py pyFoamMeshUtilityRunner.py pip3 Warning accessing /prj/song/juan.salazar/bin gives errors: [Errno 2] No such file or directory: '/prj/song/juan.salazar/bin' ============================================================================================= TESTING: configureExternalPackagesDir from config.framework(config/BuildSystem/config/framework.py:1028) serialEvaluation: initial cxxDialectRanges ('c++03', 'c++17') serialEvaluation: new cxxDialectRanges ('c++03', 'c++17') child config.utilities.macosFirewall 0.000003 ============================================================================================= TESTING: configureDebuggers from config.utilities.debuggers(config/BuildSystem/config/utilities/debuggers.py:21) Find a default debugger and determine its arguments Executing: uname -s stdout: Linux Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/gdb...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/gdb...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/gdb...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/gdb...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/gdb...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/gdb...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/gdb...not found Checking for program /scratch/app/cmake/3.17.3/bin/gdb...not found Checking for program /scratch/app/gcc/9.3/bin/gdb...not found Checking for program /opt/xcs/App/Scripts/gdb...not found Checking for program /specific/bin/gdb...not found Checking for program /usr/local/bin/gdb...not found Checking for program /usr/bin/gdb...found Defined make macro "GDB" to "/usr/bin/gdb" Defined "USE_DEBUGGER" to ""gdb"" Executing: uname -s stdout: Linux Defined make macro "DSYMUTIL" to "true" Executing: uname -s stdout: Linux child config.utilities.debuggers 0.017979 ============================================================================================= TESTING: configureDirectories from PETSc.options.petscdir(config/PETSc/options/petscdir.py:23) Checks PETSC_DIR and sets if not set Version Information: #define PETSC_VERSION_RELEASE 1 #define PETSC_VERSION_MAJOR 3 #define PETSC_VERSION_MINOR 16 #define PETSC_VERSION_SUBMINOR 4 #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 0.003834 ============================================================================================= TESTING: getDatafilespath from PETSc.options.dataFilesPath(config/PETSc/options/dataFilesPath.py:29) Checks what DATAFILESPATH should be child PETSc.options.dataFilesPath 0.001211 ============================================================================================= TESTING: configureGit from config.sourceControl(config/BuildSystem/config/sourceControl.py:24) Find the Git executable Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/git...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/git...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/git...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/git...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/git...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/git...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/git...not found Checking for program /scratch/app/cmake/3.17.3/bin/git...not found Checking for program /scratch/app/gcc/9.3/bin/git...not found Checking for program /opt/xcs/App/Scripts/git...not found Checking for program /specific/bin/git...not found Checking for program /usr/local/bin/git...not found Checking for program /usr/bin/git...found Defined make macro "GIT" to "git" Executing: git --version stdout: git version 1.8.3.1 ============================================================================================= TESTING: configureMercurial from config.sourceControl(config/BuildSystem/config/sourceControl.py:35) Find the Mercurial executable Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/hg...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/hg...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/hg...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/hg...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/hg...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/hg...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/hg...not found Checking for program /scratch/app/cmake/3.17.3/bin/hg...not found Checking for program /scratch/app/gcc/9.3/bin/hg...not found Checking for program /opt/xcs/App/Scripts/hg...not found Checking for program /specific/bin/hg...not found Checking for program /usr/local/bin/hg...not found Checking for program /usr/bin/hg...not found Checking for program /usr/local/sbin/hg...not found Checking for program /usr/sbin/hg...not found Checking for program /opt/ibutils/bin/hg...not found Checking for program /opt/xcs/Admin/Scripts/hg...not found Checking for program /prj/song/juan.salazar/.local/bin/hg...not found Checking for program /prj/song/juan.salazar/bin/hg...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/hg...not found child config.sourceControl 0.009248 ============================================================================================= 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 Executing: ['git', 'describe', '--match=v*'] stdout: v3.16.4-2-g8998db1 Executing: ['git', 'log', '-1', '--pretty=format:%H'] stdout: 8998db1bdba0d13d2297c3e7056b6ecc952d50b9 Executing: ['git', 'log', '-1', '--pretty=format:%ci'] stdout: 2022-02-02 18:36:30 +0000 Executing: ['git', 'rev-parse', '--abbrev-ref', 'HEAD'] stdout: release Defined "VERSION_GIT" to ""v3.16.4-2-g8998db1"" Defined "VERSION_DATE_GIT" to ""2022-02-02 18:36:30 +0000"" Defined "VERSION_BRANCH_GIT" to ""release"" child PETSc.options.petscclone 0.036071 ============================================================================================= TESTING: setNativeArchitecture from PETSc.options.arch(config/PETSc/options/arch.py:31) ============================================================================================= TESTING: configureArchitecture from PETSc.options.arch(config/PETSc/options/arch.py:43) Checks PETSC_ARCH and sets if not set Forcing a new configuration requested by use Setting hashfile: linux64GccDPInt64Opt/lib/petsc/conf/configure-hash Deleting configure hash file: linux64GccDPInt64Opt/lib/petsc/conf/configure-hash Deleted configure hash file: linux64GccDPInt64Opt/lib/petsc/conf/configure-hash child PETSc.options.arch 0.068551 ============================================================================================= TESTING: setInstallDir from PETSc.options.installDir(config/PETSc/options/installDir.py:32) setup installDir to either prefix or if that is not set to PETSC_DIR/PETSC_ARCH Defined make macro "PREFIXDIR" to "/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt" ============================================================================================= TESTING: saveReconfigure from PETSc.options.installDir(config/PETSc/options/installDir.py:76) ============================================================================================= TESTING: cleanConfDir from PETSc.options.installDir(config/PETSc/options/installDir.py:69) ============================================================================================= TESTING: configureInstallDir from PETSc.options.installDir(config/PETSc/options/installDir.py:53) Makes installDir subdirectories if it does not exist for both prefix install location and PETSc work install location Changed persistence directory to /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib/petsc/conf ============================================================================================= TESTING: restoreReconfigure from PETSc.options.installDir(config/PETSc/options/installDir.py:89) child PETSc.options.installDir 0.002536 ============================================================================================= TESTING: setExternalPackagesDir from PETSc.options.externalpackagesdir(config/PETSc/options/externalpackagesdir.py:15) ============================================================================================= TESTING: cleanExternalpackagesDir from PETSc.options.externalpackagesdir(config/PETSc/options/externalpackagesdir.py:22) child PETSc.options.externalpackagesdir 0.000869 ============================================================================================= 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 0.001068 ============================================================================================= TESTING: resetEnvCompilers from config.setCompilers(config/BuildSystem/config/setCompilers.py:2101) ============================================================================================= ***** WARNING: CPPFLAGS (set to -I/scratch/app_sequana/openmpi/2.1.1/include -I/scratch/app/gcc/9.3/include) found in environment variables - ignoring use ./configure CPPFLAGS=$CPPFLAGS if you really want to use that value ****** ============================================================================================= ============================================================================================= ***** WARNING: LDFLAGS (set to -L/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib) found in environment variables - ignoring use ./configure LDFLAGS=$LDFLAGS if you really want to use that value ****** ============================================================================================= ============================================================================================= TESTING: checkEnvCompilers from config.setCompilers(config/BuildSystem/config/setCompilers.py:2131) ============================================================================================= TESTING: checkMPICompilerOverride from config.setCompilers(config/BuildSystem/config/setCompilers.py:2071) 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 ============================================================================================= TESTING: requireMpiLdPath from config.setCompilers(config/BuildSystem/config/setCompilers.py:2092) OpenMPI wrappers require LD_LIBRARY_PATH set Adding to LD_LIBRARY_PATH /scratch/app_sequana/openmpi/2.1.1/lib ============================================================================================= TESTING: checkInitialFlags from config.setCompilers(config/BuildSystem/config/setCompilers.py:604) 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 HIPFLAGS to Initialized HIPFLAGS to Initialized LDFLAGS to Initialized SYCLCXXFLAGS to Initialized SYCLCXXFLAGS 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 HIPPPFLAGS to Initialized SYCLPPFLAGS to Initialized CC_LINKER_FLAGS to [] Initialized CXX_LINKER_FLAGS to [] Initialized FC_LINKER_FLAGS to [] Initialized CUDAC_LINKER_FLAGS to [] Initialized HIPC_LINKER_FLAGS to [] Initialized SYCLCXX_LINKER_FLAGS to [] Initialized sharedLibraryFlags to [] Initialized dynamicLibraryFlags to [] ============================================================================================= TESTING: checkCCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:787) Locate a functional C compiler Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpincc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/mpincc...not found Unable to find programs: ['mpincc'] in listing of the specific search path: ['/scratch/app_sequana/openmpi/2.1.1/bin'] /scratch/app_sequana/openmpi/2.1.1/bin: ompi-submit mpif77 ompi-top opal_wrapper mpic++ oshrun orterun mpif90 ompi-dvm shmemfort mpifort orted oshmem_info ompi-clean oshcc ompi_info orte-top shmemcc oshfort mpiCC shmemrun orte-dvm mpiexec mpirun ortecc orte-info orte-submit orte-clean ompi-ps orte-ps mpicxx mpicc ompi-server orte-server Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpiicc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/mpiicc...not found Unable to find programs: ['mpiicc'] in listing of the specific search path: ['/scratch/app_sequana/openmpi/2.1.1/bin'] /scratch/app_sequana/openmpi/2.1.1/bin: ompi-submit mpif77 ompi-top opal_wrapper mpic++ oshrun orterun mpif90 ompi-dvm shmemfort mpifort orted oshmem_info ompi-clean oshcc ompi_info orte-top shmemcc oshfort mpiCC shmemrun orte-dvm mpiexec mpirun ortecc orte-info orte-submit orte-clean ompi-ps orte-ps mpicxx mpicc ompi-server orte-server Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpicc...found Defined make macro "CC" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpicc" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest /tmp/petsc-eg0070o7/config.setCompilers/conftest.o ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest /tmp/petsc-eg0070o7/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 Linker output before filtering: /usr/bin/ld: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status : Linker output after filtering: /usr/bin/ld: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status: ======== Checking running linked program ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Testing executable /tmp/petsc-eg0070o7/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-eg0070o7/config.setCompilers/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-eg0070o7/config.setCompilers/conftest Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc --version stdout: gcc (GCC) 9.3.0 Copyright (C) 2019 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 ============================================================================================= TESTING: checkCPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:826) Locate a functional C preprocessor Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpicc...found Defined make macro "CPP" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E" Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : ============================================================================================= TESTING: checkCUDACompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:862) Locate a functional CUDA compiler Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/nvcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/nvcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/nvcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/nvcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/nvcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/nvcc...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/nvcc...not found Checking for program /scratch/app/cmake/3.17.3/bin/nvcc...not found Checking for program /scratch/app/gcc/9.3/bin/nvcc...not found Checking for program /opt/xcs/App/Scripts/nvcc...not found Checking for program /specific/bin/nvcc...not found Checking for program /usr/local/bin/nvcc...not found Checking for program /usr/bin/nvcc...not found Checking for program /usr/local/sbin/nvcc...not found Checking for program /usr/sbin/nvcc...not found Checking for program /opt/ibutils/bin/nvcc...not found Checking for program /opt/xcs/Admin/Scripts/nvcc...not found Checking for program /prj/song/juan.salazar/.local/bin/nvcc...not found Checking for program /prj/song/juan.salazar/bin/nvcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/nvcc...not found Checking for program /Developer/NVIDIA/CUDA-6.5/bin/nvcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/nvcc...not found Unable to find programs: ['nvcc'] in listing of the specific search path: ['/Developer/NVIDIA/CUDA-6.5/bin'] Warning accessing /Developer/NVIDIA/CUDA-6.5/bin gives errors: [Errno 2] No such file or directory: '/Developer/NVIDIA/CUDA-6.5/bin' Checking for program /usr/local/cuda/bin/nvcc...found Defined make macro "CUDAC" to "/usr/local/cuda/bin/nvcc" ===== Checking compiler Executing: /usr/local/cuda/bin/nvcc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Wno-deprecated-gpu-targets /tmp/petsc-eg0070o7/config.setCompilers/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /usr/local/cuda/bin/nvcc --version stdout: nvcc: NVIDIA (R) Cuda compiler driver Copyright (c) 2005-2021 NVIDIA Corporation Built on Mon_Oct_11_21:27:02_PDT_2021 Cuda compilation tools, release 11.4, V11.4.152 Build cuda_11.4.r11.4/compiler.30521435_0 ============================================================================================= TESTING: checkCUDAPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:902) Locate a functional CUDA preprocessor Checking for program /usr/local/cuda/bin/nvcc...found Defined make macro "CUDAPP" to "/usr/local/cuda/bin/nvcc -E" Preprocessing source: #include "confdefs.h" #include "conffix.h" #include __global__ void testFunction() {return;}; Executing: /usr/local/cuda/bin/nvcc -E -I/tmp/petsc-eg0070o7/config.setCompilers -Wno-deprecated-gpu-targets /tmp/petsc-eg0070o7/config.setCompilers/conftest.cu Preprocess output before filtering: : Preprocess output after filtering: : ============================================================================================= TESTING: checkHIPCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:936) Locate a functional HIP compiler Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/hipcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/hipcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/hipcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/hipcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/hipcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/hipcc...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/hipcc...not found Checking for program /scratch/app/cmake/3.17.3/bin/hipcc...not found Checking for program /scratch/app/gcc/9.3/bin/hipcc...not found Checking for program /opt/xcs/App/Scripts/hipcc...not found Checking for program /specific/bin/hipcc...not found Checking for program /usr/local/bin/hipcc...not found Checking for program /usr/bin/hipcc...not found Checking for program /usr/local/sbin/hipcc...not found Checking for program /usr/sbin/hipcc...not found Checking for program /opt/ibutils/bin/hipcc...not found Checking for program /opt/xcs/Admin/Scripts/hipcc...not found Checking for program /prj/song/juan.salazar/.local/bin/hipcc...not found Checking for program /prj/song/juan.salazar/bin/hipcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/hipcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/opt/rocm/bin/hipcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/opt/rocm/bin/hipcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/opt/rocm/bin/hipcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/opt/rocm/bin/hipcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/opt/rocm/bin/hipcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/opt/rocm/bin/hipcc...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/opt/rocm/bin/hipcc...not found Checking for program /scratch/app/cmake/3.17.3/bin/opt/rocm/bin/hipcc...not found Checking for program /scratch/app/gcc/9.3/bin/opt/rocm/bin/hipcc...not found Checking for program /opt/xcs/App/Scripts/opt/rocm/bin/hipcc...not found Checking for program /specific/bin/opt/rocm/bin/hipcc...not found Checking for program /usr/local/bin/opt/rocm/bin/hipcc...not found Checking for program /usr/bin/opt/rocm/bin/hipcc...not found Checking for program /usr/local/sbin/opt/rocm/bin/hipcc...not found Checking for program /usr/sbin/opt/rocm/bin/hipcc...not found Checking for program /opt/ibutils/bin/opt/rocm/bin/hipcc...not found Checking for program /opt/xcs/Admin/Scripts/opt/rocm/bin/hipcc...not found Checking for program /prj/song/juan.salazar/.local/bin/opt/rocm/bin/hipcc...not found Checking for program /prj/song/juan.salazar/bin/opt/rocm/bin/hipcc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/opt/rocm/bin/hipcc...not found ============================================================================================= TESTING: checkHIPPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:979) Locate a functional HIP preprocessor ============================================================================================= TESTING: checkSYCLCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:1010) Locate a functional SYCL compiler ============================================================================================= TESTING: checkSYCLPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:1036) Placeholder for now ============================================================================================= TESTING: checkCxxCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:1127) Locate a functional Cxx compiler Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpinc++...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/mpinc++...not found Unable to find programs: ['mpinc++'] in listing of the specific search path: ['/scratch/app_sequana/openmpi/2.1.1/bin'] /scratch/app_sequana/openmpi/2.1.1/bin: ompi-submit mpif77 ompi-top opal_wrapper mpic++ oshrun orterun mpif90 ompi-dvm shmemfort mpifort orted oshmem_info ompi-clean oshcc ompi_info orte-top shmemcc oshfort mpiCC shmemrun orte-dvm mpiexec mpirun ortecc orte-info orte-submit orte-clean ompi-ps orte-ps mpicxx mpicc ompi-server orte-server Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpinc++...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/mpinc++...not found Unable to find programs: ['mpinc++'] in listing of the specific search path: ['/scratch/app_sequana/openmpi/2.1.1/bin'] /scratch/app_sequana/openmpi/2.1.1/bin: ompi-submit mpif77 ompi-top opal_wrapper mpic++ oshrun orterun mpif90 ompi-dvm shmemfort mpifort orted oshmem_info ompi-clean oshcc ompi_info orte-top shmemcc oshfort mpiCC shmemrun orte-dvm mpiexec mpirun ortecc orte-info orte-submit orte-clean ompi-ps orte-ps mpicxx mpicc ompi-server orte-server Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpinc++...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/mpinc++...not found Unable to find programs: ['mpinc++'] in listing of the specific search path: ['/scratch/app_sequana/openmpi/2.1.1/bin'] /scratch/app_sequana/openmpi/2.1.1/bin: ompi-submit mpif77 ompi-top opal_wrapper mpic++ oshrun orterun mpif90 ompi-dvm shmemfort mpifort orted oshmem_info ompi-clean oshcc ompi_info orte-top shmemcc oshfort mpiCC shmemrun orte-dvm mpiexec mpirun ortecc orte-info orte-submit orte-clean ompi-ps orte-ps mpicxx mpicc ompi-server orte-server Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpiicpc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/mpiicpc...not found Unable to find programs: ['mpiicpc'] in listing of the specific search path: ['/scratch/app_sequana/openmpi/2.1.1/bin'] /scratch/app_sequana/openmpi/2.1.1/bin: ompi-submit mpif77 ompi-top opal_wrapper mpic++ oshrun orterun mpif90 ompi-dvm shmemfort mpifort orted oshmem_info ompi-clean oshcc ompi_info orte-top shmemcc oshfort mpiCC shmemrun orte-dvm mpiexec mpirun ortecc orte-info orte-submit orte-clean ompi-ps orte-ps mpicxx mpicc ompi-server orte-server Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpiicpc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/mpiicpc...not found Unable to find programs: ['mpiicpc'] in listing of the specific search path: ['/scratch/app_sequana/openmpi/2.1.1/bin'] /scratch/app_sequana/openmpi/2.1.1/bin: ompi-submit mpif77 ompi-top opal_wrapper mpic++ oshrun orterun mpif90 ompi-dvm shmemfort mpifort orted oshmem_info ompi-clean oshcc ompi_info orte-top shmemcc oshfort mpiCC shmemrun orte-dvm mpiexec mpirun ortecc orte-info orte-submit orte-clean ompi-ps orte-ps mpicxx mpicc ompi-server orte-server Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpiicpc...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/mpiicpc...not found Unable to find programs: ['mpiicpc'] in listing of the specific search path: ['/scratch/app_sequana/openmpi/2.1.1/bin'] /scratch/app_sequana/openmpi/2.1.1/bin: ompi-submit mpif77 ompi-top opal_wrapper mpic++ oshrun orterun mpif90 ompi-dvm shmemfort mpifort orted oshmem_info ompi-clean oshcc ompi_info orte-top shmemcc oshfort mpiCC shmemrun orte-dvm mpiexec mpirun ortecc orte-info orte-submit orte-clean ompi-ps orte-ps mpicxx mpicc ompi-server orte-server Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx...found Defined make macro "CXX" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpicxx" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -o /tmp/petsc-eg0070o7/config.setCompilers/conftest /tmp/petsc-eg0070o7/config.setCompilers/conftest.o ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -o /tmp/petsc-eg0070o7/config.setCompilers/conftest /tmp/petsc-eg0070o7/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 Linker output before filtering: /usr/bin/ld: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status : Linker output after filtering: /usr/bin/ld: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status: ======== Checking running linked program ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -o /tmp/petsc-eg0070o7/config.setCompilers/conftest /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Testing executable /tmp/petsc-eg0070o7/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-eg0070o7/config.setCompilers/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-eg0070o7/config.setCompilers/conftest Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx --version stdout: g++ (GCC) 9.3.0 Copyright (C) 2019 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. ============================================================================================= TESTING: checkCxxPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:1168) Locate a functional Cxx preprocessor Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx...found Defined make macro "CXXPP" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -E" Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -E -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Preprocess output before filtering: : Preprocess output after filtering: : ============================================================================================= TESTING: checkFortranCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:1271) Locate a functional Fortran compiler Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpinfort...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/mpinfort...not found Unable to find programs: ['mpinfort'] in listing of the specific search path: ['/scratch/app_sequana/openmpi/2.1.1/bin'] /scratch/app_sequana/openmpi/2.1.1/bin: ompi-submit mpif77 ompi-top opal_wrapper mpic++ oshrun orterun mpif90 ompi-dvm shmemfort mpifort orted oshmem_info ompi-clean oshcc ompi_info orte-top shmemcc oshfort mpiCC shmemrun orte-dvm mpiexec mpirun ortecc orte-info orte-submit orte-clean ompi-ps orte-ps mpicxx mpicc ompi-server orte-server Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpiifort...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/mpiifort...not found Unable to find programs: ['mpiifort'] in listing of the specific search path: ['/scratch/app_sequana/openmpi/2.1.1/bin'] /scratch/app_sequana/openmpi/2.1.1/bin: ompi-submit mpif77 ompi-top opal_wrapper mpic++ oshrun orterun mpif90 ompi-dvm shmemfort mpifort orted oshmem_info ompi-clean oshcc ompi_info orte-top shmemcc oshfort mpiCC shmemrun orte-dvm mpiexec mpirun ortecc orte-info orte-submit orte-clean ompi-ps orte-ps mpicxx mpicc ompi-server orte-server Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpif90...found Defined make macro "FC" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpif90" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.setCompilers/conftest /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.setCompilers/conftest /tmp/petsc-eg0070o7/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 Linker output before filtering: /usr/bin/ld: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status : Linker output after filtering: /usr/bin/ld: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status: ======== Checking running linked program ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.setCompilers/conftest /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Testing executable /tmp/petsc-eg0070o7/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-eg0070o7/config.setCompilers/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-eg0070o7/config.setCompilers/conftest Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 --version stdout: GNU Fortran (GCC) 9.3.0 Copyright (C) 2019 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. ============================================================================================= TESTING: checkFortranPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:1308) Locate a functional Fortran preprocessor Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpif90...found Defined make macro "FPP" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -E" Deleting "FPP" Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpif90...found Defined make macro "FPP" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpif90 --use cpp32" Deleting "FPP" ============================================================================================= TESTING: checkFortranComments from config.setCompilers(config/BuildSystem/config/setCompilers.py:1330) Make sure fortran comment "!" works ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main ! comment end Fortran comments can use ! in column 1 ============================================================================================= TESTING: checkLargeFileIO from config.setCompilers(config/BuildSystem/config/setCompilers.py:1507) ============================================================================================= TESTING: checkArchiver from config.setCompilers(config/BuildSystem/config/setCompilers.py:1606) Check that the archiver exists and can make a library usable by the compiler Executing: ar -V stdout: GNU ar version 2.27-44.base.el7_9.1 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. Executing: ar -V stdout: GNU ar version 2.27-44.base.el7_9.1 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" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int foo(int a) { return a+1; } Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/ar...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/ar...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/ar...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/ar...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/ar...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/ar...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/ar...not found Checking for program /scratch/app/cmake/3.17.3/bin/ar...not found Checking for program /scratch/app/gcc/9.3/bin/ar...not found Checking for program /opt/xcs/App/Scripts/ar...not found Checking for program /specific/bin/ar...not found Checking for program /usr/local/bin/ar...not found Checking for program /usr/bin/ar...found Defined make macro "AR" to "/usr/bin/ar" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/ranlib...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/ranlib...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/ranlib...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/ranlib...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/ranlib...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/ranlib...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/ranlib...not found Checking for program /scratch/app/cmake/3.17.3/bin/ranlib...not found Checking for program /scratch/app/gcc/9.3/bin/ranlib...not found Checking for program /opt/xcs/App/Scripts/ranlib...not found Checking for program /specific/bin/ranlib...not found Checking for program /usr/local/bin/ranlib...not found Checking for program /usr/bin/ranlib...found Defined make macro "RANLIB" to "/usr/bin/ranlib -c" Executing: /usr/bin/ar cr /tmp/petsc-eg0070o7/config.setCompilers/libconf1.a /tmp/petsc-eg0070o7/config.setCompilers/conf1.o Executing: /usr/bin/ranlib -c /tmp/petsc-eg0070o7/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. Executing: ar -V stdout: GNU ar version 2.27-44.base.el7_9.1 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. Executing: ar -V stdout: GNU ar version 2.27-44.base.el7_9.1 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" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int foo(int a) { return a+1; } Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/ar...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/ar...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/ar...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/ar...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/ar...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/ar...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/ar...not found Checking for program /scratch/app/cmake/3.17.3/bin/ar...not found Checking for program /scratch/app/gcc/9.3/bin/ar...not found Checking for program /opt/xcs/App/Scripts/ar...not found Checking for program /specific/bin/ar...not found Checking for program /usr/local/bin/ar...not found Checking for program /usr/bin/ar...found Defined make macro "AR" to "/usr/bin/ar" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/ranlib...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/ranlib...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/ranlib...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/ranlib...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/ranlib...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/ranlib...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/ranlib...not found Checking for program /scratch/app/cmake/3.17.3/bin/ranlib...not found Checking for program /scratch/app/gcc/9.3/bin/ranlib...not found Checking for program /opt/xcs/App/Scripts/ranlib...not found Checking for program /specific/bin/ranlib...not found Checking for program /usr/local/bin/ranlib...not found Checking for program /usr/bin/ranlib...found Defined make macro "RANLIB" to "/usr/bin/ranlib" Executing: /usr/bin/ar cr /tmp/petsc-eg0070o7/config.setCompilers/libconf1.a /tmp/petsc-eg0070o7/config.setCompilers/conf1.o Executing: /usr/bin/ranlib /tmp/petsc-eg0070o7/config.setCompilers/libconf1.a ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" extern int foo(int); int main() { int b = foo(1); if (b); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -L/tmp/petsc-eg0070o7/config.setCompilers -lconf1 Defined make macro "AR_FLAGS" to "cr" Defined make macro "AR_LIB_SUFFIX" to "a" ============================================================================================= TESTING: checkArchiverRecipeArgfile from config.setCompilers(config/BuildSystem/config/setCompilers.py:1670) Checks if AR handles @ notation Executing: /usr/bin/ar cr checkRecipeArgfile.a @checkRecipeArgfile.args Defined make macro "AR_ARGFILE" to "yes" ============================================================================================= TESTING: checkSharedLinker from config.setCompilers(config/BuildSystem/config/setCompilers.py:1752) Check that the linker can produce shared libraries Executing: uname -s stdout: Linux Checking shared linker /scratch/app_sequana/openmpi/2.1.1/bin/mpicc using flags ['-qmkshrobj'] Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpicc...found Defined make macro "LD_SHARED" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpicc" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/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 Detected GNU compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -show stdout: gcc -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi Trying C compiler flag -fPIC Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -fPIC Added C compiler flag -fPIC Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -qmkshrobj -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Possible ERROR while running linker: exit code 1 stderr: gcc: error: unrecognized command line option ‘-qmkshrobj’ Rejecting linker flag -qmkshrobj due to nonzero status from link Linker output before filtering: gcc: error: unrecognized command line option ‘-qmkshrobj’ : Linker output after filtering: gcc: error: unrecognized command line option ‘-qmkshrobj’: Rejecting C linker flag -qmkshrobj due to gcc: error: unrecognized command line option ‘-qmkshrobj’ ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int (*fprintf_ptr)(FILE*,const char*,...) = fprintf; void foo(void){ fprintf_ptr(stdout,"hello"); return; } void bar(void){foo();} Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/libconftest.so -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Possible ERROR while running linker: exit code 1 stderr: /lib/../lib64/crt1.o: In function `_start': (.text+0x20): undefined reference to `main' collect2: error: ld returned 1 exit status Linker output before filtering: /lib/../lib64/crt1.o: In function `_start': (.text+0x20): undefined reference to `main' collect2: error: ld returned 1 exit status : Linker output after filtering: /lib/../lib64/crt1.o: In function `_start': (.text+0x20): undefined reference to `main' collect2: error: ld returned 1 exit status: Rejected C compiler flag -fPIC because it was not compatible with shared linker /scratch/app_sequana/openmpi/2.1.1/bin/mpicc using flags ['-qmkshrobj'] Trying C compiler flag Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -qmkshrobj /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Possible ERROR while running linker: exit code 1 stderr: gcc: error: unrecognized command line option ‘-qmkshrobj’ Rejecting linker flag -qmkshrobj due to nonzero status from link Linker output before filtering: gcc: error: unrecognized command line option ‘-qmkshrobj’ : Linker output after filtering: gcc: error: unrecognized command line option ‘-qmkshrobj’: Rejecting C linker flag -qmkshrobj due to gcc: error: unrecognized command line option ‘-qmkshrobj’ ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int (*fprintf_ptr)(FILE*,const char*,...) = fprintf; void foo(void){ fprintf_ptr(stdout,"hello"); return; } void bar(void){foo();} Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/libconftest.so /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Possible ERROR while running linker: exit code 1 stderr: /lib/../lib64/crt1.o: In function `_start': (.text+0x20): undefined reference to `main' collect2: error: ld returned 1 exit status Linker output before filtering: /lib/../lib64/crt1.o: In function `_start': (.text+0x20): undefined reference to `main' collect2: error: ld returned 1 exit status : Linker output after filtering: /lib/../lib64/crt1.o: In function `_start': (.text+0x20): undefined reference to `main' collect2: error: ld returned 1 exit status: Rejected C compiler flag because it was not compatible with shared linker /scratch/app_sequana/openmpi/2.1.1/bin/mpicc using flags ['-qmkshrobj'] Deleting "LD_SHARED" Checking shared linker /scratch/app_sequana/openmpi/2.1.1/bin/mpicc using flags ['-shared'] Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpicc...found Defined make macro "LD_SHARED" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpicc" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/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 Detected GNU compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -show stdout: gcc -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi Trying C compiler flag -fPIC Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -fPIC Added C compiler flag -fPIC Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -shared -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Valid C linker flag -shared ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int (*fprintf_ptr)(FILE*,const char*,...) = fprintf; void foo(void){ fprintf_ptr(stdout,"hello"); return; } void bar(void){foo();} Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int foo(void); int main() { int ret = foo(); if (ret) {} ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -L/tmp/petsc-eg0070o7/config.setCompilers -lconftest Using shared linker /scratch/app_sequana/openmpi/2.1.1/bin/mpicc with flags ['-shared'] and library extension so Executing: uname -s stdout: Linux Executing: uname -s stdout: Linux ============================================================================================= TESTING: checkPIC from config.setCompilers(config/BuildSystem/config/setCompilers.py:1450) Determine the PIC option for each compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/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 Detected GNU compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -show stdout: g++ -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi Trying Cxx compiler flag -fPIC for PIC code Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -fPIC Added Cxx compiler flag -fPIC ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/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();} Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Accepted Cxx compiler flag -fPIC for PIC code Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 --help | head -n 20 stdout: Usage: gfortran [options] file... Options: -pass-exit-codes Exit with highest error code from a phase. --help Display this information. --target-help Display target specific command line options. --help={common|optimizers|params|target|warnings|[^]{joined|separate|undocumented}}[,...]. Display specific types of command line options. (Use '-v --help' to display command line options of sub-processes). --version Display compiler version information. -dumpspecs Display all of the built in spec strings. -dumpversion Display the version of the compiler. -dumpmachine Display the compiler's target processor. -print-search-dirs Display the directories in the compiler's search path. -print-libgcc-file-name Display the name of the compiler's companion library. -print-file-name= Display the full path to library . -print-prog-name= Display the full path to compiler component . -print-multiarch Display the target's normalized GNU triplet, used as a component in the library path. -print-multi-directory Display the root directory for versions of libgcc. -print-multi-lib Display the mapping between command line options and Detected GNU compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -show stdout: gfortran -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -I/scratch/app_sequana/openmpi/2.1.1/lib -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi Trying FC compiler flag -fPIC for PIC code Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end Output from compiling with -fPIC Added FC compiler flag -fPIC ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: function foo(a) real:: a,x,bar common /xx/ x x=a foo = bar(x) end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Accepted FC compiler flag -fPIC for PIC code Trying CUDA compiler flag -Xcompiler -fPIC for PIC code Executing: /usr/local/cuda/bin/nvcc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Xcompiler -fPIC -Wno-deprecated-gpu-targets /tmp/petsc-eg0070o7/config.setCompilers/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -Xcompiler -fPIC Added CUDA compiler flag -Xcompiler -fPIC ===== Checking linker Executing: /usr/local/cuda/bin/nvcc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Xcompiler -fPIC -Wno-deprecated-gpu-targets /tmp/petsc-eg0070o7/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();} Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Accepted CUDA compiler flag -Xcompiler -fPIC for PIC code ============================================================================================= TESTING: checkSharedLinkerPaths from config.setCompilers(config/BuildSystem/config/setCompilers.py:1866) Determine the shared linker path options - IRIX: -rpath - Linux, OSF: -Wl,-rpath, - Solaris: -R - FreeBSD: -Wl,-R, Executing: uname -s stdout: Linux Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -V Trying C linker flag -Wl,-rpath, Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Valid C linker flag -Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc Executing: uname -s stdout: Linux Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -V Trying Cxx linker flag -Wl,-rpath, Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Valid Cxx linker flag -Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc Executing: uname -s stdout: Linux Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -V Trying FC linker flag -Wl,-rpath, Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Valid FC linker flag -Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc Executing: uname -s stdout: Linux Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -V Trying CUDA linker flag -Wl,-rpath, Executing: /usr/local/cuda/bin/nvcc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Xcompiler -fPIC -Wno-deprecated-gpu-targets /tmp/petsc-eg0070o7/config.setCompilers/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /usr/local/cuda/bin/nvcc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -Xcompiler -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Valid CUDA linker flag -Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc ============================================================================================= TESTING: checkLibC from config.setCompilers(config/BuildSystem/config/setCompilers.py:1905) Test whether we need to explicitly include libc in shared linking - Mac OSX requires an explicit reference to libc for shared linking ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/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;} Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o Shared linking does not require an explicit libc reference ============================================================================================= TESTING: checkDynamicLinker from config.setCompilers(config/BuildSystem/config/setCompilers.py:1951) Check that the linker can dynamicaly load shared libraries Checking for header: dlfcn.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_DLFCN_H" to "1" Checking for functions [dlopen dlsym dlclose] in library ['dl'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char dlopen(); static void _check_dlopen() { dlopen(); } char dlsym(); static void _check_dlsym() { dlsym(); } char dlclose(); static void _check_dlclose() { dlclose(); } int main() { _check_dlopen(); _check_dlsym(); _check_dlclose();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC /tmp/petsc-eg0070o7/config.libraries/conftest.o -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -fPIC /tmp/petsc-eg0070o7/config.compilers/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(); } void dummy(void) {_check_dlopen(); _check_dlsym(); _check_dlclose();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBDL" to "1" Adding ['dl'] to LIBS Executing: uname -s stdout: Linux Checking dynamic linker /scratch/app_sequana/openmpi/2.1.1/bin/mpicc using flags ['-shared'] Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpicc...found Defined make macro "DYNAMICLINKER" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpicc" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -shared -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -ldl Valid C linker flag -shared ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int foo(void) {printf("test");return 0;} Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -ldl ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { void *handle = dlopen("/tmp/petsc-eg0070o7/config.setCompilers/libconftest.so", 0); int (*foo)(void) = (int (*)(void)) dlsym(handle, "foo"); if (!foo) { printf("Could not load symbol\n"); return -1; } if ((*foo)()) { printf("Invalid return from foo()\n"); return -1; } if (dlclose(handle)) { printf("Could not close library\n"); return -1; } ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -ldl Using dynamic linker /scratch/app_sequana/openmpi/2.1.1/bin/mpicc with flags ['-shared'] and library extension so ============================================================================================= TESTING: checkPragma from config.setCompilers(config/BuildSystem/config/setCompilers.py:1409) Check for all available applicable languages whether they complain (including warnings!) about potentially unknown pragmas Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC -Wunknown-pragmas /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -fPIC -Wunknown-pragmas Added C compiler flag -Wunknown-pragmas ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC -Wunknown-pragmas /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #pragma GCC poison TEST int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Wunknown-pragmas -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -Wunknown-pragmas Added Cxx compiler flag -Wunknown-pragmas ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Wunknown-pragmas -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #pragma GCC poison TEST int main() { ; return 0; } Executing: /usr/local/cuda/bin/nvcc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Xcompiler -fPIC -Wunknown-pragmas -Wno-deprecated-gpu-targets /tmp/petsc-eg0070o7/config.setCompilers/conftest.cu Possible ERROR while running compiler: exit code 1 stderr: nvcc fatal : Unknown option '-Wunknown-pragmas' Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -Xcompiler -fPIC -Wunknown-pragmas nvcc fatal : Unknown option '-Wunknown-pragmas' PETSc Error: No output file produced Rejecting compiler flag -Wunknown-pragmas due to nonzero status from link ============================================================================================= TESTING: output from config.setCompilers(config/BuildSystem/config/setCompilers.py:2000) Output module data as defines and substitutions Substituting "CC" with "/scratch/app_sequana/openmpi/2.1.1/bin/mpicc" Substituting "CFLAGS" with " -fPIC" Defined make macro "CC_LINKER_SLFLAG" to "-Wl,-rpath," Substituting "CPP" with "/scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E" Substituting "CPPFLAGS" with "" Substituting "CUDAC" with "/usr/local/cuda/bin/nvcc" Substituting "CUDAFLAGS" with " -Xcompiler -fPIC" Substituting "CUDAPP" with "/usr/local/cuda/bin/nvcc -E" Substituting "CUDAPPFLAGS" with "-Wno-deprecated-gpu-targets" Substituting "CXX" with "/scratch/app_sequana/openmpi/2.1.1/bin/mpicxx" Substituting "CXX_CXXFLAGS" with " -fPIC" Substituting "CXXFLAGS" with "" Substituting "CXX_LINKER_SLFLAG" with "-Wl,-rpath," Substituting "CXXPP" with "/scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -E" Substituting "CXXPPFLAGS" with "" Substituting "FC" with "/scratch/app_sequana/openmpi/2.1.1/bin/mpif90" Substituting "FFLAGS" with " -fPIC" Defined make macro "FC_LINKER_SLFLAG" to "-Wl,-rpath," Substituting "LDFLAGS" with "" Substituting "LIBS" with "-ldl " Substituting "SHARED_LIBRARY_FLAG" with "-shared" child config.setCompilers 6.365617 ============================================================================================= TESTING: configureIndexSize from PETSc.options.indexTypes(config/PETSc/options/indexTypes.py:39) Defined "USE_64BIT_INDICES" to "1" Checking for functions [__floatdidf] in library ['-lgcc_s.1'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char __floatdidf(); static void _check___floatdidf() { __floatdidf(); } int main() { _check___floatdidf();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC /tmp/petsc-eg0070o7/config.libraries/conftest.o -lgcc_s.1 -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/bin/ld: cannot find -lgcc_s.1 collect2: error: ld returned 1 exit status Linker output before filtering: /usr/bin/ld: cannot find -lgcc_s.1 collect2: error: ld returned 1 exit status : Linker output after filtering: /usr/bin/ld: cannot find -lgcc_s.1 collect2: error: ld returned 1 exit status: Defined make macro "PETSC_INDEX_SIZE" to "64" child PETSc.options.indexTypes 0.067780 ============================================================================================= TESTING: configureCompilerFlags from config.compilerFlags(config/BuildSystem/config/compilerFlags.py:82) Get the default compiler flags Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc --version stdout: gcc (GCC) 9.3.0 Copyright (C) 2019 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. getCompilerVersion: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc gcc (GCC) 9.3.0 Defined make macro "C_VERSION" to "gcc (GCC) 9.3.0" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -show stdout: gcc -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi Defined make macro "MPICC_SHOW" to "gcc -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/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 Detected GNU compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc --version stdout: gcc (GCC) 9.3.0 Copyright (C) 2019 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. Executing: uname -s stdout: Linux Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc --help | head -n 500 Trying C compiler flag -Wall Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -fPIC -Wall Added C compiler flag -Wall Trying C compiler flag -Wwrite-strings Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -Wwrite-strings /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -fPIC -Wall -Wwrite-strings Added C compiler flag -Wwrite-strings Trying C compiler flag -Wno-strict-aliasing Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing Added C compiler flag -Wno-strict-aliasing Trying C compiler flag -Wno-unknown-pragmas Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas Added C compiler flag -Wno-unknown-pragmas Trying C compiler flag -fstack-protector Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector Added C compiler flag -fstack-protector Trying C compiler flag -mfp16-format=ieee Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -mfp16-format=ieee /tmp/petsc-eg0070o7/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; } Output from compiling with -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -mfp16-format=ieee gcc: error: unrecognized command line option ‘-mfp16-format=ieee’ PETSc Error: No output file produced Rejecting compiler flag -mfp16-format=ieee due to nonzero status from link Rejected C compiler flag -mfp16-format=ieee Trying C compiler flag -fvisibility=hidden Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden Added C compiler flag -fvisibility=hidden Trying C compiler flag -O3 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 Added C compiler flag -O3 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx --version stdout: g++ (GCC) 9.3.0 Copyright (C) 2019 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. getCompilerVersion: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx g++ (GCC) 9.3.0 Defined make macro "Cxx_VERSION" to "g++ (GCC) 9.3.0" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -show stdout: g++ -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi Defined make macro "MPICXX_SHOW" to "g++ -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/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 Detected GNU compiler Executing: uname -s stdout: Linux Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx --version stdout: g++ (GCC) 9.3.0 Copyright (C) 2019 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. Trying Cxx compiler flag -Wall Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Wall -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -Wall Added Cxx compiler flag -Wall Trying Cxx compiler flag -Wwrite-strings Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Wall -Wwrite-strings -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -Wall -Wwrite-strings Added Cxx compiler flag -Wwrite-strings Trying Cxx compiler flag -Wno-strict-aliasing Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -Wall -Wwrite-strings -Wno-strict-aliasing Added Cxx compiler flag -Wno-strict-aliasing Trying Cxx compiler flag -Wno-unknown-pragmas Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas Added Cxx compiler flag -Wno-unknown-pragmas Trying Cxx compiler flag -fstack-protector Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector Added Cxx compiler flag -fstack-protector Trying Cxx compiler flag -fvisibility=hidden Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden Added Cxx compiler flag -fvisibility=hidden Trying Cxx compiler flag -O3 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 Added Cxx compiler flag -O3 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 --version stdout: GNU Fortran (GCC) 9.3.0 Copyright (C) 2019 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. getCompilerVersion: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 GNU Fortran (GCC) 9.3.0 Defined make macro "FC_VERSION" to "GNU Fortran (GCC) 9.3.0" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -show stdout: gfortran -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -I/scratch/app_sequana/openmpi/2.1.1/lib -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi Defined make macro "MPIFC_SHOW" to "gfortran -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -I/scratch/app_sequana/openmpi/2.1.1/lib -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 --help | head -n 20 stdout: Usage: gfortran [options] file... Options: -pass-exit-codes Exit with highest error code from a phase. --help Display this information. --target-help Display target specific command line options. --help={common|optimizers|params|target|warnings|[^]{joined|separate|undocumented}}[,...]. Display specific types of command line options. (Use '-v --help' to display command line options of sub-processes). --version Display compiler version information. -dumpspecs Display all of the built in spec strings. -dumpversion Display the version of the compiler. -dumpmachine Display the compiler's target processor. -print-search-dirs Display the directories in the compiler's search path. -print-libgcc-file-name Display the name of the compiler's companion library. -print-file-name= Display the full path to library . -print-prog-name= Display the full path to compiler component . -print-multiarch Display the target's normalized GNU triplet, used as a component in the library path. -print-multi-directory Display the root directory for versions of libgcc. -print-multi-lib Display the mapping between command line options and Detected GNU compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 --version stdout: GNU Fortran (GCC) 9.3.0 Copyright (C) 2019 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. Detected GFortran46plus compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 --version stdout: GNU Fortran (GCC) 9.3.0 Copyright (C) 2019 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. Detected GFortran47plus compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 --version stdout: GNU Fortran (GCC) 9.3.0 Copyright (C) 2019 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. Trying FC compiler flag -Wall Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC -Wall /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end Output from compiling with -fPIC -Wall Added FC compiler flag -Wall Trying FC compiler flag -ffree-line-length-0 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC -Wall -ffree-line-length-0 /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end Output from compiling with -fPIC -Wall -ffree-line-length-0 Added FC compiler flag -ffree-line-length-0 Trying FC compiler flag -Wno-unused-dummy-argument Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end Output from compiling with -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument Added FC compiler flag -Wno-unused-dummy-argument Trying FC compiler flag -O3 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end Output from compiling with -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 Added FC compiler flag -O3 Executing: /usr/local/cuda/bin/nvcc --version stdout: nvcc: NVIDIA (R) Cuda compiler driver Copyright (c) 2005-2021 NVIDIA Corporation Built on Mon_Oct_11_21:27:02_PDT_2021 Cuda compilation tools, release 11.4, V11.4.152 Build cuda_11.4.r11.4/compiler.30521435_0 getCompilerVersion: /usr/local/cuda/bin/nvcc nvcc: NVIDIA (R) Cuda compiler driver Defined make macro "CUDA_VERSION" to "nvcc: NVIDIA (R) Cuda compiler driver" Executing: /usr/local/cuda/bin/nvcc --help | head -n 20 stdout: Usage : nvcc [options] Options for specifying the compilation phase ============================================ More exactly, this option specifies up to which stage the input files must be compiled, according to the following compilation trajectories for different input file types: .c/.cc/.cpp/.cxx : preprocess, compile, link .o : link .i/.ii : compile, link .cu : preprocess, cuda frontend, PTX assemble, merge with host C code, compile, link .gpu : cicc compile into cubin .ptx : PTX assemble into cubin. --cuda (-cuda) Compile all .cu input files to .cu.cpp.ii output. --cubin (-cubin) Compile all .cu/.gpu/.ptx input files to device-only .cubin files. This Executing: /usr/local/cuda/bin/nvcc --help | head -n 500 Executing: /usr/local/cuda/bin/nvcc --help | head -n 20 stdout: Usage : nvcc [options] Options for specifying the compilation phase ============================================ More exactly, this option specifies up to which stage the input files must be compiled, according to the following compilation trajectories for different input file types: .c/.cc/.cpp/.cxx : preprocess, compile, link .o : link .i/.ii : compile, link .cu : preprocess, cuda frontend, PTX assemble, merge with host C code, compile, link .gpu : cicc compile into cubin .ptx : PTX assemble into cubin. --cuda (-cuda) Compile all .cu input files to .cu.cpp.ii output. --cubin (-cubin) Compile all .cu/.gpu/.ptx input files to device-only .cubin files. This Executing: /usr/local/cuda/bin/nvcc --version stdout: nvcc: NVIDIA (R) Cuda compiler driver Copyright (c) 2005-2021 NVIDIA Corporation Built on Mon_Oct_11_21:27:02_PDT_2021 Cuda compilation tools, release 11.4, V11.4.152 Build cuda_11.4.r11.4/compiler.30521435_0 Detected NVCC compiler Executing: /usr/local/cuda/bin/nvcc --help | head -n 20 stdout: Usage : nvcc [options] Options for specifying the compilation phase ============================================ More exactly, this option specifies up to which stage the input files must be compiled, according to the following compilation trajectories for different input file types: .c/.cc/.cpp/.cxx : preprocess, compile, link .o : link .i/.ii : compile, link .cu : preprocess, cuda frontend, PTX assemble, merge with host C code, compile, link .gpu : cicc compile into cubin .ptx : PTX assemble into cubin. --cuda (-cuda) Compile all .cu input files to .cu.cpp.ii output. --cubin (-cubin) Compile all .cu/.gpu/.ptx input files to device-only .cubin files. This Executing: /usr/local/cuda/bin/nvcc --help | head -n 500 Executing: /usr/local/cuda/bin/nvcc --help | head -n 20 stdout: Usage : nvcc [options] Options for specifying the compilation phase ============================================ More exactly, this option specifies up to which stage the input files must be compiled, according to the following compilation trajectories for different input file types: .c/.cc/.cpp/.cxx : preprocess, compile, link .o : link .i/.ii : compile, link .cu : preprocess, cuda frontend, PTX assemble, merge with host C code, compile, link .gpu : cicc compile into cubin .ptx : PTX assemble into cubin. --cuda (-cuda) Compile all .cu input files to .cu.cpp.ii output. --cubin (-cubin) Compile all .cu/.gpu/.ptx input files to device-only .cubin files. This Executing: /usr/local/cuda/bin/nvcc --version stdout: nvcc: NVIDIA (R) Cuda compiler driver Copyright (c) 2005-2021 NVIDIA Corporation Built on Mon_Oct_11_21:27:02_PDT_2021 Cuda compilation tools, release 11.4, V11.4.152 Build cuda_11.4.r11.4/compiler.30521435_0 Detected NVCC compiler ============================================================================================= ***** WARNING: Using default optimization CUDA flags -O3 You might consider manually setting optimal optimization flags for your system with CUDAOPTFLAGS="optimization flags" see config/examples/arch-*-opt.py for examples ============================================================================================= Trying CUDA compiler flag -O3 Executing: /usr/local/cuda/bin/nvcc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Xcompiler -fPIC -O3 -Wno-deprecated-gpu-targets /tmp/petsc-eg0070o7/config.setCompilers/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -Xcompiler -fPIC -O3 Added CUDA compiler flag -O3 ============================================================================================= TESTING: checkIntelHardwareSupport from config.compilerFlags(config/BuildSystem/config/compilerFlags.py:173) Use Linux/MacOS commands to determine what operations the hardware supports Executing: lscpu stdout: Architecture: x86_64 CPU op-mode(s): 32-bit, 64-bit Byte Order: Little Endian CPU(s): 88 On-line CPU(s) list: 0-87 Thread(s) per core: 2 Core(s) per socket: 22 Socket(s): 2 NUMA node(s): 2 Vendor ID: GenuineIntel CPU family: 6 Model: 85 Model name: Intel(R) Xeon(R) Gold 6152 CPU @ 2.10GHz Stepping: 4 CPU MHz: 2292.388 CPU max MHz: 3700.0000 CPU min MHz: 1000.0000 BogoMIPS: 4200.00 Virtualization: VT-x L1d cache: 32K L1i cache: 32K L2 cache: 1024K L3 cache: 30976K NUMA node0 CPU(s): 0-21,44-65 NUMA node1 CPU(s): 22-43,66-87 Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc aperfmperf eagerfpu pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch epb cat_l3 cdp_l3 invpcid_single intel_ppin intel_pt ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts pku ospke md_clear spec_ctrl intel_stibp flush_l1d ============================================================================================= TESTING: checkCompilerMacros from config.compilerFlags(config/BuildSystem/config/compilerFlags.py:164) Save the list of CPP macros defined by the C and C++ compiler, does not work for all compilers Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilerFlags/conftest.c -E -dM stdout: #define __DBL_MIN_EXP__ (-1021) #define __FLT32X_MAX_EXP__ 1024 #define __UINT_LEAST16_MAX__ 0xffff #define __ATOMIC_ACQUIRE 2 #define __FLT128_MAX_10_EXP__ 4932 #define __FLT_MIN__ 1.17549435082228750796873653722224568e-38F #define __GCC_IEC_559_COMPLEX 2 #define __UINT_LEAST8_TYPE__ unsigned char #define __SIZEOF_FLOAT80__ 16 #define __INTMAX_C(c) c ## L #define __CHAR_BIT__ 8 #define __UINT8_MAX__ 0xff #define __WINT_MAX__ 0xffffffffU #define __FLT32_MIN_EXP__ (-125) #define __ORDER_LITTLE_ENDIAN__ 1234 #define __SIZE_MAX__ 0xffffffffffffffffUL #define __WCHAR_MAX__ 0x7fffffff #define __GCC_HAVE_SYNC_COMPARE_AND_SWAP_1 1 #define __GCC_HAVE_SYNC_COMPARE_AND_SWAP_2 1 #define __GCC_HAVE_SYNC_COMPARE_AND_SWAP_4 1 #define __DBL_DENORM_MIN__ ((double)4.94065645841246544176568792868221372e-324L) #define __GCC_HAVE_SYNC_COMPARE_AND_SWAP_8 1 #define __GCC_ATOMIC_CHAR_LOCK_FREE 2 #define __GCC_IEC_559 2 #define __FLT32X_DECIMAL_DIG__ 17 #define __FLT_EVAL_METHOD__ 0 #define __unix__ 1 #define __FLT64_DECIMAL_DIG__ 17 #define __GCC_ATOMIC_CHAR32_T_LOCK_FREE 2 #define __x86_64 1 #define __UINT_FAST64_MAX__ 0xffffffffffffffffUL #define __SIG_ATOMIC_TYPE__ int #define __DBL_MIN_10_EXP__ (-307) #define __FINITE_MATH_ONLY__ 0 #define __GNUC_PATCHLEVEL__ 0 #define __FLT32_HAS_DENORM__ 1 #define __UINT_FAST8_MAX__ 0xff #define __has_include(STR) __has_include__(STR) #define __DEC64_MAX_EXP__ 385 #define __INT8_C(c) c #define __INT_LEAST8_WIDTH__ 8 #define __UINT_LEAST64_MAX__ 0xffffffffffffffffUL #define __SHRT_MAX__ 0x7fff #define __LDBL_MAX__ 1.18973149535723176502126385303097021e+4932L #define __FLT64X_MAX_10_EXP__ 4932 #define __UINT_LEAST8_MAX__ 0xff #define __GCC_ATOMIC_BOOL_LOCK_FREE 2 #define __FLT128_DENORM_MIN__ 6.47517511943802511092443895822764655e-4966F128 #define __UINTMAX_TYPE__ long unsigned int #define __linux 1 #define __DEC32_EPSILON__ 1E-6DF #define __FLT_EVAL_METHOD_TS_18661_3__ 0 #define __OPTIMIZE__ 1 #define __unix 1 #define __UINT32_MAX__ 0xffffffffU #define __LDBL_MAX_EXP__ 16384 #define __FLT128_MIN_EXP__ (-16381) #define __WINT_MIN__ 0U #define __linux__ 1 #define __FLT128_MIN_10_EXP__ (-4931) #define __INT_LEAST16_WIDTH__ 16 #define __SCHAR_MAX__ 0x7f #define __FLT128_MANT_DIG__ 113 #define __WCHAR_MIN__ (-__WCHAR_MAX__ - 1) #define __INT64_C(c) c ## L #define __DBL_DIG__ 15 #define __GCC_ATOMIC_POINTER_LOCK_FREE 2 #define __FLT64X_MANT_DIG__ 64 #define __SIZEOF_INT__ 4 #define __SIZEOF_POINTER__ 8 #define __USER_LABEL_PREFIX__ #define __FLT64X_EPSILON__ 1.08420217248550443400745280086994171e-19F64x #define __STDC_HOSTED__ 1 #define __LDBL_HAS_INFINITY__ 1 #define __FLT32_DIG__ 6 #define __FLT_EPSILON__ 1.19209289550781250000000000000000000e-7F #define __SHRT_WIDTH__ 16 #define __LDBL_MIN__ 3.36210314311209350626267781732175260e-4932L #define __STDC_UTF_16__ 1 #define __DEC32_MAX__ 9.999999E96DF #define __FLT64X_DENORM_MIN__ 3.64519953188247460252840593361941982e-4951F64x #define __FLT32X_HAS_INFINITY__ 1 #define __INT32_MAX__ 0x7fffffff #define __INT_WIDTH__ 32 #define __SIZEOF_LONG__ 8 #define __STDC_IEC_559__ 1 #define __STDC_ISO_10646__ 201103L #define __UINT16_C(c) c #define __PTRDIFF_WIDTH__ 64 #define __DECIMAL_DIG__ 21 #define __FLT64_EPSILON__ 2.22044604925031308084726333618164062e-16F64 #define __gnu_linux__ 1 #define __INTMAX_WIDTH__ 64 #define __has_include_next(STR) __has_include_next__(STR) #define __FLT64X_MIN_10_EXP__ (-4931) #define __LDBL_HAS_QUIET_NAN__ 1 #define __FLT64_MANT_DIG__ 53 #define __GNUC__ 9 #define __MMX__ 1 #define __FLT_HAS_DENORM__ 1 #define __SIZEOF_LONG_DOUBLE__ 16 #define __BIGGEST_ALIGNMENT__ 16 #define __FLT64_MAX_10_EXP__ 308 #define __DBL_MAX__ ((double)1.79769313486231570814527423731704357e+308L) #define __INT_FAST32_MAX__ 0x7fffffffffffffffL #define __DBL_HAS_INFINITY__ 1 #define __HAVE_SPECULATION_SAFE_VALUE 1 #define __DEC32_MIN_EXP__ (-94) #define __INTPTR_WIDTH__ 64 #define __FLT32X_HAS_DENORM__ 1 #define __INT_FAST16_TYPE__ long int #define __LDBL_HAS_DENORM__ 1 #define __FLT128_HAS_INFINITY__ 1 #define __DEC128_MAX__ 9.999999999999999999999999999999999E6144DL #define __INT_LEAST32_MAX__ 0x7fffffff #define __DEC32_MIN__ 1E-95DF #define __DBL_MAX_EXP__ 1024 #define __WCHAR_WIDTH__ 32 #define __FLT32_MAX__ 3.40282346638528859811704183484516925e+38F32 #define __DEC128_EPSILON__ 1E-33DL #define __SSE2_MATH__ 1 #define __ATOMIC_HLE_RELEASE 131072 #define __PTRDIFF_MAX__ 0x7fffffffffffffffL #define __amd64 1 #define __STDC_NO_THREADS__ 1 #define __ATOMIC_HLE_ACQUIRE 65536 #define __FLT32_HAS_QUIET_NAN__ 1 #define __LONG_LONG_MAX__ 0x7fffffffffffffffLL #define __SIZEOF_SIZE_T__ 8 #define __FLT64X_MIN_EXP__ (-16381) #define __SIZEOF_WINT_T__ 4 #define __LONG_LONG_WIDTH__ 64 #define __FLT32_MAX_EXP__ 128 #define __GCC_HAVE_DWARF2_CFI_ASM 1 #define __GXX_ABI_VERSION 1013 #define __FLT_MIN_EXP__ (-125) #define __FLT64X_HAS_QUIET_NAN__ 1 #define __INT_FAST64_TYPE__ long int #define __FLT64_DENORM_MIN__ 4.94065645841246544176568792868221372e-324F64 #define __DBL_MIN__ ((double)2.22507385850720138309023271733240406e-308L) #define __LP64__ 1 #define __FLT32X_EPSILON__ 2.22044604925031308084726333618164062e-16F32x #define __DECIMAL_BID_FORMAT__ 1 #define __FLT64_MIN_EXP__ (-1021) #define __FLT64_MIN_10_EXP__ (-307) #define __FLT64X_DECIMAL_DIG__ 21 #define __DEC128_MIN__ 1E-6143DL #define __REGISTER_PREFIX__ #define __UINT16_MAX__ 0xffff #define __DBL_HAS_DENORM__ 1 #define __FLT32_MIN__ 1.17549435082228750796873653722224568e-38F32 #define __UINT8_TYPE__ unsigned char #define __FLT_MANT_DIG__ 24 #define __LDBL_DECIMAL_DIG__ 21 #define __VERSION__ "9.3.0" #define __UINT64_C(c) c ## UL #define _STDC_PREDEF_H 1 #define __GCC_ATOMIC_INT_LOCK_FREE 2 #define __FLT128_MAX_EXP__ 16384 #define __FLT32_MANT_DIG__ 24 #define __FLOAT_WORD_ORDER__ __ORDER_LITTLE_ENDIAN__ #define __STDC_IEC_559_COMPLEX__ 1 #define __FLT128_HAS_DENORM__ 1 #define __FLT128_DIG__ 33 #define __SCHAR_WIDTH__ 8 #define __INT32_C(c) c #define __DEC64_EPSILON__ 1E-15DD #define __ORDER_PDP_ENDIAN__ 3412 #define __DEC128_MIN_EXP__ (-6142) #define __FLT32_MAX_10_EXP__ 38 #define __INT_FAST32_TYPE__ long int #define __UINT_LEAST16_TYPE__ short unsigned int #define __FLT64X_HAS_INFINITY__ 1 #define unix 1 #define __INT16_MAX__ 0x7fff #define __SIZE_TYPE__ long unsigned int #define __UINT64_MAX__ 0xffffffffffffffffUL #define __FLT64X_DIG__ 18 #define __INT8_TYPE__ signed char #define __ELF__ 1 #define __GCC_ASM_FLAG_OUTPUTS__ 1 #define __FLT_RADIX__ 2 #define __INT_LEAST16_TYPE__ short int #define __LDBL_EPSILON__ 1.08420217248550443400745280086994171e-19L #define __UINTMAX_C(c) c ## UL #define __SSE_MATH__ 1 #define __k8 1 #define __SIG_ATOMIC_MAX__ 0x7fffffff #define __GCC_ATOMIC_WCHAR_T_LOCK_FREE 2 #define __SIZEOF_PTRDIFF_T__ 8 #define __FLT32X_MANT_DIG__ 53 #define __x86_64__ 1 #define __FLT32X_MIN_EXP__ (-1021) #define __DEC32_SUBNORMAL_MIN__ 0.000001E-95DF #define __INT_FAST16_MAX__ 0x7fffffffffffffffL #define __FLT64_DIG__ 15 #define __UINT_FAST32_MAX__ 0xffffffffffffffffUL #define __UINT_LEAST64_TYPE__ long unsigned int #define __FLT_HAS_QUIET_NAN__ 1 #define __FLT_MAX_10_EXP__ 38 #define __LONG_MAX__ 0x7fffffffffffffffL #define __FLT64X_HAS_DENORM__ 1 #define __DEC128_SUBNORMAL_MIN__ 0.000000000000000000000000000000001E-6143DL #define __FLT_HAS_INFINITY__ 1 #define __UINT_FAST16_TYPE__ long unsigned int #define __DEC64_MAX__ 9.999999999999999E384DD #define __INT_FAST32_WIDTH__ 64 #define __CHAR16_TYPE__ short unsigned int #define __PRAGMA_REDEFINE_EXTNAME 1 #define __SIZE_WIDTH__ 64 #define __SEG_FS 1 #define __INT_LEAST16_MAX__ 0x7fff #define __DEC64_MANT_DIG__ 16 #define __INT64_MAX__ 0x7fffffffffffffffL #define __UINT_LEAST32_MAX__ 0xffffffffU #define __SEG_GS 1 #define __FLT32_DENORM_MIN__ 1.40129846432481707092372958328991613e-45F32 #define __GCC_ATOMIC_LONG_LOCK_FREE 2 #define __SIG_ATOMIC_WIDTH__ 32 #define __INT_LEAST64_TYPE__ long int #define __INT16_TYPE__ short int #define __INT_LEAST8_TYPE__ signed char #define __STDC_VERSION__ 201710L #define __DEC32_MAX_EXP__ 97 #define __INT_FAST8_MAX__ 0x7f #define __FLT128_MAX__ 1.18973149535723176508575932662800702e+4932F128 #define __INTPTR_MAX__ 0x7fffffffffffffffL #define linux 1 #define __FLT64_HAS_QUIET_NAN__ 1 #define __FLT32_MIN_10_EXP__ (-37) #define __SSE2__ 1 #define __FLT32X_DIG__ 15 #define __LDBL_MANT_DIG__ 64 #define __DBL_HAS_QUIET_NAN__ 1 #define __FLT64_HAS_INFINITY__ 1 #define __FLT64X_MAX__ 1.18973149535723176502126385303097021e+4932F64x #define __SIG_ATOMIC_MIN__ (-__SIG_ATOMIC_MAX__ - 1) #define __code_model_small__ 1 #define __k8__ 1 #define __INTPTR_TYPE__ long int #define __UINT16_TYPE__ short unsigned int #define __WCHAR_TYPE__ int #define __SIZEOF_FLOAT__ 4 #define __pic__ 2 #define __UINTPTR_MAX__ 0xffffffffffffffffUL #define __INT_FAST64_WIDTH__ 64 #define __DEC64_MIN_EXP__ (-382) #define __FLT32_DECIMAL_DIG__ 9 #define __INT_FAST64_MAX__ 0x7fffffffffffffffL #define __GCC_ATOMIC_TEST_AND_SET_TRUEVAL 1 #define __FLT_DIG__ 6 #define __FLT32_HAS_INFINITY__ 1 #define __FLT64X_MAX_EXP__ 16384 #define __UINT_FAST64_TYPE__ long unsigned int #define __INT_MAX__ 0x7fffffff #define __amd64__ 1 #define __INT64_TYPE__ long int #define __FLT_MAX_EXP__ 128 #define __ORDER_BIG_ENDIAN__ 4321 #define __DBL_MANT_DIG__ 53 #define __SIZEOF_FLOAT128__ 16 #define __INT_LEAST64_MAX__ 0x7fffffffffffffffL #define __GCC_ATOMIC_CHAR16_T_LOCK_FREE 2 #define __DEC64_MIN__ 1E-383DD #define __WINT_TYPE__ unsigned int #define __UINT_LEAST32_TYPE__ unsigned int #define __SIZEOF_SHORT__ 2 #define __SSE__ 1 #define __LDBL_MIN_EXP__ (-16381) #define __FLT64_MAX__ 1.79769313486231570814527423731704357e+308F64 #define __WINT_WIDTH__ 32 #define __INT_LEAST8_MAX__ 0x7f #define __FLT32X_MAX_10_EXP__ 308 #define __SSP__ 1 #define __SIZEOF_INT128__ 16 #define __LDBL_MAX_10_EXP__ 4932 #define __ATOMIC_RELAXED 0 #define __DBL_EPSILON__ ((double)2.22044604925031308084726333618164062e-16L) #define __FLT128_MIN__ 3.36210314311209350626267781732175260e-4932F128 #define _LP64 1 #define __UINT8_C(c) c #define __FLT64_MAX_EXP__ 1024 #define __INT_LEAST32_TYPE__ int #define __SIZEOF_WCHAR_T__ 4 #define __UINT64_TYPE__ long unsigned int #define __FLT128_HAS_QUIET_NAN__ 1 #define __INT_FAST8_TYPE__ signed char #define __FLT64X_MIN__ 3.36210314311209350626267781732175260e-4932F64x #define __GNUC_STDC_INLINE__ 1 #define __FLT64_HAS_DENORM__ 1 #define __FLT32_EPSILON__ 1.19209289550781250000000000000000000e-7F32 #define __DBL_DECIMAL_DIG__ 17 #define __STDC_UTF_32__ 1 #define __INT_FAST8_WIDTH__ 8 #define __FXSR__ 1 #define __DEC_EVAL_METHOD__ 2 #define __FLT32X_MAX__ 1.79769313486231570814527423731704357e+308F32x #define __UINT32_C(c) c ## U #define __INTMAX_MAX__ 0x7fffffffffffffffL #define __BYTE_ORDER__ __ORDER_LITTLE_ENDIAN__ #define __FLT_DENORM_MIN__ 1.40129846432481707092372958328991613e-45F #define __INT8_MAX__ 0x7f #define __LONG_WIDTH__ 64 #define __PIC__ 2 #define __UINT_FAST32_TYPE__ long unsigned int #define __CHAR32_TYPE__ unsigned int #define __FLT_MAX__ 3.40282346638528859811704183484516925e+38F #define __INT32_TYPE__ int #define __SIZEOF_DOUBLE__ 8 #define __FLT_MIN_10_EXP__ (-37) #define __FLT64_MIN__ 2.22507385850720138309023271733240406e-308F64 #define __INT_LEAST32_WIDTH__ 32 #define __INTMAX_TYPE__ long int #define __DEC128_MAX_EXP__ 6145 #define __FLT32X_HAS_QUIET_NAN__ 1 #define __ATOMIC_CONSUME 1 #define __GNUC_MINOR__ 3 #define __INT_FAST16_WIDTH__ 64 #define __UINTMAX_MAX__ 0xffffffffffffffffUL #define __DEC32_MANT_DIG__ 7 #define __FLT32X_DENORM_MIN__ 4.94065645841246544176568792868221372e-324F32x #define __DBL_MAX_10_EXP__ 308 #define __LDBL_DENORM_MIN__ 3.64519953188247460252840593361941982e-4951L #define __INT16_C(c) c #define __STDC__ 1 #define __PTRDIFF_TYPE__ long int #define __ATOMIC_SEQ_CST 5 #define __UINT32_TYPE__ unsigned int #define __FLT32X_MIN_10_EXP__ (-307) #define __UINTPTR_TYPE__ long unsigned int #define __DEC64_SUBNORMAL_MIN__ 0.000000000000001E-383DD #define __DEC128_MANT_DIG__ 34 #define __LDBL_MIN_10_EXP__ (-4931) #define __FLT128_EPSILON__ 1.92592994438723585305597794258492732e-34F128 #define __SIZEOF_LONG_LONG__ 8 #define __FLT128_DECIMAL_DIG__ 36 #define __GCC_ATOMIC_LLONG_LOCK_FREE 2 #define __FLT32X_MIN__ 2.22507385850720138309023271733240406e-308F32x #define __LDBL_DIG__ 18 #define __FLT_DECIMAL_DIG__ 9 #define __UINT_FAST16_MAX__ 0xffffffffffffffffUL #define __GCC_ATOMIC_SHORT_LOCK_FREE 2 #define __INT_LEAST64_WIDTH__ 64 #define __UINT_FAST8_TYPE__ unsigned char #define __ATOMIC_ACQ_REL 4 #define __ATOMIC_RELEASE 3 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilerFlags -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC /tmp/petsc-eg0070o7/config.compilerFlags/conftest.cc -E -dM stdout: #define __DBL_MIN_EXP__ (-1021) #define __FLT32X_MAX_EXP__ 1024 #define __cpp_attributes 200809 #define __UINT_LEAST16_MAX__ 0xffff #define __ATOMIC_ACQUIRE 2 #define __FLT128_MAX_10_EXP__ 4932 #define __FLT_MIN__ 1.17549435082228750796873653722224568e-38F #define __GCC_IEC_559_COMPLEX 2 #define __cpp_aggregate_nsdmi 201304 #define __UINT_LEAST8_TYPE__ unsigned char #define __SIZEOF_FLOAT80__ 16 #define __INTMAX_C(c) c ## L #define __CHAR_BIT__ 8 #define __UINT8_MAX__ 0xff #define __WINT_MAX__ 0xffffffffU #define __FLT32_MIN_EXP__ (-125) #define __cpp_static_assert 200410 #define __ORDER_LITTLE_ENDIAN__ 1234 #define __SIZE_MAX__ 0xffffffffffffffffUL #define __WCHAR_MAX__ 0x7fffffff #define __GCC_HAVE_SYNC_COMPARE_AND_SWAP_1 1 #define __GCC_HAVE_SYNC_COMPARE_AND_SWAP_2 1 #define __GCC_HAVE_SYNC_COMPARE_AND_SWAP_4 1 #define __DBL_DENORM_MIN__ double(4.94065645841246544176568792868221372e-324L) #define __GCC_HAVE_SYNC_COMPARE_AND_SWAP_8 1 #define __GCC_ATOMIC_CHAR_LOCK_FREE 2 #define __GCC_IEC_559 2 #define __FLT32X_DECIMAL_DIG__ 17 #define __FLT_EVAL_METHOD__ 0 #define __unix__ 1 #define __cpp_binary_literals 201304 #define __FLT64_DECIMAL_DIG__ 17 #define __GCC_ATOMIC_CHAR32_T_LOCK_FREE 2 #define __x86_64 1 #define __cpp_variadic_templates 200704 #define __UINT_FAST64_MAX__ 0xffffffffffffffffUL #define __SIG_ATOMIC_TYPE__ int #define __DBL_MIN_10_EXP__ (-307) #define __FINITE_MATH_ONLY__ 0 #define __cpp_variable_templates 201304 #define __GNUC_PATCHLEVEL__ 0 #define __FLT32_HAS_DENORM__ 1 #define __UINT_FAST8_MAX__ 0xff #define __cpp_rvalue_reference 200610 #define __has_include(STR) __has_include__(STR) #define __DEC64_MAX_EXP__ 385 #define __INT8_C(c) c #define __INT_LEAST8_WIDTH__ 8 #define __UINT_LEAST64_MAX__ 0xffffffffffffffffUL #define __SHRT_MAX__ 0x7fff #define __LDBL_MAX__ 1.18973149535723176502126385303097021e+4932L #define __FLT64X_MAX_10_EXP__ 4932 #define __UINT_LEAST8_MAX__ 0xff #define __GCC_ATOMIC_BOOL_LOCK_FREE 2 #define __FLT128_DENORM_MIN__ 6.47517511943802511092443895822764655e-4966F128 #define __UINTMAX_TYPE__ long unsigned int #define __linux 1 #define __DEC32_EPSILON__ 1E-6DF #define __FLT_EVAL_METHOD_TS_18661_3__ 0 #define __OPTIMIZE__ 1 #define __unix 1 #define __UINT32_MAX__ 0xffffffffU #define __GXX_EXPERIMENTAL_CXX0X__ 1 #define __LDBL_MAX_EXP__ 16384 #define __FLT128_MIN_EXP__ (-16381) #define __WINT_MIN__ 0U #define __linux__ 1 #define __FLT128_MIN_10_EXP__ (-4931) #define __INT_LEAST16_WIDTH__ 16 #define __SCHAR_MAX__ 0x7f #define __FLT128_MANT_DIG__ 113 #define __WCHAR_MIN__ (-__WCHAR_MAX__ - 1) #define __INT64_C(c) c ## L #define __DBL_DIG__ 15 #define __GCC_ATOMIC_POINTER_LOCK_FREE 2 #define __FLT64X_MANT_DIG__ 64 #define __SIZEOF_INT__ 4 #define __SIZEOF_POINTER__ 8 #define __GCC_ATOMIC_CHAR16_T_LOCK_FREE 2 #define __USER_LABEL_PREFIX__ #define __FLT64X_EPSILON__ 1.08420217248550443400745280086994171e-19F64x #define __STDC_HOSTED__ 1 #define __LDBL_HAS_INFINITY__ 1 #define __FLT32_DIG__ 6 #define __FLT_EPSILON__ 1.19209289550781250000000000000000000e-7F #define __GXX_WEAK__ 1 #define __SHRT_WIDTH__ 16 #define __LDBL_MIN__ 3.36210314311209350626267781732175260e-4932L #define __DEC32_MAX__ 9.999999E96DF #define __cpp_threadsafe_static_init 200806 #define __FLT64X_DENORM_MIN__ 3.64519953188247460252840593361941982e-4951F64x #define __FLT32X_HAS_INFINITY__ 1 #define __INT32_MAX__ 0x7fffffff #define __INT_WIDTH__ 32 #define __SIZEOF_LONG__ 8 #define __STDC_IEC_559__ 1 #define __STDC_ISO_10646__ 201103L #define __UINT16_C(c) c #define __PTRDIFF_WIDTH__ 64 #define __DECIMAL_DIG__ 21 #define __FLT64_EPSILON__ 2.22044604925031308084726333618164062e-16F64 #define __gnu_linux__ 1 #define __INTMAX_WIDTH__ 64 #define __FLT64_MIN_EXP__ (-1021) #define __has_include_next(STR) __has_include_next__(STR) #define __FLT64X_MIN_10_EXP__ (-4931) #define __LDBL_HAS_QUIET_NAN__ 1 #define __FLT64_MANT_DIG__ 53 #define __GNUC__ 9 #define __GXX_RTTI 1 #define __MMX__ 1 #define __cpp_delegating_constructors 200604 #define __FLT_HAS_DENORM__ 1 #define __SIZEOF_LONG_DOUBLE__ 16 #define __BIGGEST_ALIGNMENT__ 16 #define __STDC_UTF_16__ 1 #define __FLT64_MAX_10_EXP__ 308 #define __FLT32_HAS_INFINITY__ 1 #define __DBL_MAX__ double(1.79769313486231570814527423731704357e+308L) #define __cpp_raw_strings 200710 #define __INT_FAST32_MAX__ 0x7fffffffffffffffL #define __DBL_HAS_INFINITY__ 1 #define __HAVE_SPECULATION_SAFE_VALUE 1 #define __DEC32_MIN_EXP__ (-94) #define __INTPTR_WIDTH__ 64 #define __FLT32X_HAS_DENORM__ 1 #define __INT_FAST16_TYPE__ long int #define __LDBL_HAS_DENORM__ 1 #define __cplusplus 201402L #define __cpp_ref_qualifiers 200710 #define __DEC128_MAX__ 9.999999999999999999999999999999999E6144DL #define __INT_LEAST32_MAX__ 0x7fffffff #define __DEC32_MIN__ 1E-95DF #define __DEPRECATED 1 #define __cpp_rvalue_references 200610 #define __DBL_MAX_EXP__ 1024 #define __WCHAR_WIDTH__ 32 #define __FLT32_MAX__ 3.40282346638528859811704183484516925e+38F32 #define __DEC128_EPSILON__ 1E-33DL #define __SSE2_MATH__ 1 #define __ATOMIC_HLE_RELEASE 131072 #define __PTRDIFF_MAX__ 0x7fffffffffffffffL #define __amd64 1 #define __STDC_NO_THREADS__ 1 #define __ATOMIC_HLE_ACQUIRE 65536 #define __FLT32_HAS_QUIET_NAN__ 1 #define __GNUG__ 9 #define __LONG_LONG_MAX__ 0x7fffffffffffffffLL #define __SIZEOF_SIZE_T__ 8 #define __cpp_nsdmi 200809 #define __FLT64X_MIN_EXP__ (-16381) #define __SIZEOF_WINT_T__ 4 #define __LONG_LONG_WIDTH__ 64 #define __cpp_initializer_lists 200806 #define __FLT32_MAX_EXP__ 128 #define __cpp_hex_float 201603 #define __GCC_HAVE_DWARF2_CFI_ASM 1 #define __GXX_ABI_VERSION 1013 #define __FLT128_HAS_INFINITY__ 1 #define __FLT_MIN_EXP__ (-125) #define __cpp_lambdas 200907 #define __FLT64X_HAS_QUIET_NAN__ 1 #define __INT_FAST64_TYPE__ long int #define __FLT64_DENORM_MIN__ 4.94065645841246544176568792868221372e-324F64 #define __DBL_MIN__ double(2.22507385850720138309023271733240406e-308L) #define __LP64__ 1 #define __FLT32X_EPSILON__ 2.22044604925031308084726333618164062e-16F32x #define __DECIMAL_BID_FORMAT__ 1 #define __FLT64_MIN_10_EXP__ (-307) #define __FLT64X_DECIMAL_DIG__ 21 #define __DEC128_MIN__ 1E-6143DL #define __REGISTER_PREFIX__ #define __UINT16_MAX__ 0xffff #define __FLT32_MIN__ 1.17549435082228750796873653722224568e-38F32 #define __UINT8_TYPE__ unsigned char #define __FLT_MANT_DIG__ 24 #define __LDBL_DECIMAL_DIG__ 21 #define __VERSION__ "9.3.0" #define __UINT64_C(c) c ## UL #define __cpp_unicode_characters 200704 #define _STDC_PREDEF_H 1 #define __cpp_decltype_auto 201304 #define __GCC_ATOMIC_INT_LOCK_FREE 2 #define __FLT128_MAX_EXP__ 16384 #define __FLT32_MANT_DIG__ 24 #define __FLOAT_WORD_ORDER__ __ORDER_LITTLE_ENDIAN__ #define __STDC_IEC_559_COMPLEX__ 1 #define __FLT128_HAS_DENORM__ 1 #define __FLT128_DIG__ 33 #define __SCHAR_WIDTH__ 8 #define __INT32_C(c) c #define __DEC64_EPSILON__ 1E-15DD #define __ORDER_PDP_ENDIAN__ 3412 #define __DEC128_MIN_EXP__ (-6142) #define __FLT32_MAX_10_EXP__ 38 #define __INT_FAST32_TYPE__ long int #define __UINT_LEAST16_TYPE__ short unsigned int #define __FLT64X_HAS_INFINITY__ 1 #define unix 1 #define __DBL_HAS_DENORM__ 1 #define __INT16_MAX__ 0x7fff #define __cpp_rtti 199711 #define __SIZE_TYPE__ long unsigned int #define __UINT64_MAX__ 0xffffffffffffffffUL #define __FLT64X_DIG__ 18 #define __INT8_TYPE__ signed char #define __cpp_digit_separators 201309 #define __ELF__ 1 #define __GCC_ASM_FLAG_OUTPUTS__ 1 #define __FLT_RADIX__ 2 #define __INT_LEAST16_TYPE__ short int #define __LDBL_EPSILON__ 1.08420217248550443400745280086994171e-19L #define __UINTMAX_C(c) c ## UL #define __GLIBCXX_BITSIZE_INT_N_0 128 #define __k8 1 #define __SIG_ATOMIC_MAX__ 0x7fffffff #define __GCC_ATOMIC_WCHAR_T_LOCK_FREE 2 #define __SIZEOF_PTRDIFF_T__ 8 #define __FLT32X_MANT_DIG__ 53 #define __x86_64__ 1 #define __FLT32X_MIN_EXP__ (-1021) #define __DEC32_SUBNORMAL_MIN__ 0.000001E-95DF #define __INT_FAST16_MAX__ 0x7fffffffffffffffL #define __FLT64_DIG__ 15 #define __UINT_FAST32_MAX__ 0xffffffffffffffffUL #define __UINT_LEAST64_TYPE__ long unsigned int #define __FLT_HAS_QUIET_NAN__ 1 #define __FLT_MAX_10_EXP__ 38 #define __LONG_MAX__ 0x7fffffffffffffffL #define __FLT64X_HAS_DENORM__ 1 #define __DEC128_SUBNORMAL_MIN__ 0.000000000000000000000000000000001E-6143DL #define __FLT_HAS_INFINITY__ 1 #define __cpp_unicode_literals 200710 #define __UINT_FAST16_TYPE__ long unsigned int #define __DEC64_MAX__ 9.999999999999999E384DD #define __INT_FAST32_WIDTH__ 64 #define __CHAR16_TYPE__ short unsigned int #define __PRAGMA_REDEFINE_EXTNAME 1 #define __SIZE_WIDTH__ 64 #define __SEG_FS 1 #define __INT_LEAST16_MAX__ 0x7fff #define __DEC64_MANT_DIG__ 16 #define __INT64_MAX__ 0x7fffffffffffffffL #define __UINT_LEAST32_MAX__ 0xffffffffU #define __SEG_GS 1 #define __FLT32_DENORM_MIN__ 1.40129846432481707092372958328991613e-45F32 #define __GCC_ATOMIC_LONG_LOCK_FREE 2 #define __SIG_ATOMIC_WIDTH__ 32 #define __INT_LEAST64_TYPE__ long int #define __INT16_TYPE__ short int #define __INT_LEAST8_TYPE__ signed char #define __DEC32_MAX_EXP__ 97 #define __INT_FAST8_MAX__ 0x7f #define __FLT128_MAX__ 1.18973149535723176508575932662800702e+4932F128 #define __INTPTR_MAX__ 0x7fffffffffffffffL #define __cpp_sized_deallocation 201309 #define linux 1 #define __cpp_range_based_for 200907 #define __FLT64_HAS_QUIET_NAN__ 1 #define __FLT32_MIN_10_EXP__ (-37) #define __SSE2__ 1 #define __EXCEPTIONS 1 #define __LDBL_MANT_DIG__ 64 #define __DBL_HAS_QUIET_NAN__ 1 #define __FLT64_HAS_INFINITY__ 1 #define __FLT64X_MAX__ 1.18973149535723176502126385303097021e+4932F64x #define __SIG_ATOMIC_MIN__ (-__SIG_ATOMIC_MAX__ - 1) #define __code_model_small__ 1 #define __cpp_return_type_deduction 201304 #define __k8__ 1 #define __INTPTR_TYPE__ long int #define __UINT16_TYPE__ short unsigned int #define __WCHAR_TYPE__ int #define __SIZEOF_FLOAT__ 4 #define __pic__ 2 #define __UINTPTR_MAX__ 0xffffffffffffffffUL #define __INT_FAST64_WIDTH__ 64 #define __DEC64_MIN_EXP__ (-382) #define __cpp_decltype 200707 #define __FLT32_DECIMAL_DIG__ 9 #define __INT_FAST64_MAX__ 0x7fffffffffffffffL #define __GCC_ATOMIC_TEST_AND_SET_TRUEVAL 1 #define __FLT_DIG__ 6 #define __FLT64X_MAX_EXP__ 16384 #define __UINT_FAST64_TYPE__ long unsigned int #define __INT_MAX__ 0x7fffffff #define __amd64__ 1 #define __INT64_TYPE__ long int #define __FLT_MAX_EXP__ 128 #define __ORDER_BIG_ENDIAN__ 4321 #define __DBL_MANT_DIG__ 53 #define __cpp_inheriting_constructors 201511 #define __SIZEOF_FLOAT128__ 16 #define __INT_LEAST64_MAX__ 0x7fffffffffffffffL #define __DEC64_MIN__ 1E-383DD #define __WINT_TYPE__ unsigned int #define __UINT_LEAST32_TYPE__ unsigned int #define __SIZEOF_SHORT__ 2 #define __SSE__ 1 #define __LDBL_MIN_EXP__ (-16381) #define __FLT64_MAX__ 1.79769313486231570814527423731704357e+308F64 #define __WINT_WIDTH__ 32 #define __INT_LEAST8_MAX__ 0x7f #define __FLT32X_MAX_10_EXP__ 308 #define __SSP__ 1 #define __SIZEOF_INT128__ 16 #define __LDBL_MAX_10_EXP__ 4932 #define __ATOMIC_RELAXED 0 #define __DBL_EPSILON__ double(2.22044604925031308084726333618164062e-16L) #define __FLT128_MIN__ 3.36210314311209350626267781732175260e-4932F128 #define _LP64 1 #define __UINT8_C(c) c #define __FLT64_MAX_EXP__ 1024 #define __INT_LEAST32_TYPE__ int #define __SIZEOF_WCHAR_T__ 4 #define __FLT128_HAS_QUIET_NAN__ 1 #define __INT_FAST8_TYPE__ signed char #define __FLT64X_MIN__ 3.36210314311209350626267781732175260e-4932F64x #define __GNUC_STDC_INLINE__ 1 #define __FLT64_HAS_DENORM__ 1 #define __FLT32_EPSILON__ 1.19209289550781250000000000000000000e-7F32 #define __DBL_DECIMAL_DIG__ 17 #define __STDC_UTF_32__ 1 #define __INT_FAST8_WIDTH__ 8 #define __FXSR__ 1 #define __DEC_EVAL_METHOD__ 2 #define __FLT32X_MAX__ 1.79769313486231570814527423731704357e+308F32x #define __cpp_runtime_arrays 198712 #define __UINT64_TYPE__ long unsigned int #define __UINT32_C(c) c ## U #define __INTMAX_MAX__ 0x7fffffffffffffffL #define __cpp_alias_templates 200704 #define __BYTE_ORDER__ __ORDER_LITTLE_ENDIAN__ #define __FLT_DENORM_MIN__ 1.40129846432481707092372958328991613e-45F #define __INT8_MAX__ 0x7f #define __LONG_WIDTH__ 64 #define __PIC__ 2 #define __UINT_FAST32_TYPE__ long unsigned int #define __CHAR32_TYPE__ unsigned int #define __FLT_MAX__ 3.40282346638528859811704183484516925e+38F #define __cpp_constexpr 201304 #define __INT32_TYPE__ int #define __SIZEOF_DOUBLE__ 8 #define __cpp_exceptions 199711 #define __FLT_MIN_10_EXP__ (-37) #define __FLT64_MIN__ 2.22507385850720138309023271733240406e-308F64 #define __INT_LEAST32_WIDTH__ 32 #define __INTMAX_TYPE__ long int #define __DEC128_MAX_EXP__ 6145 #define __FLT32X_HAS_QUIET_NAN__ 1 #define __ATOMIC_CONSUME 1 #define __GNUC_MINOR__ 3 #define __GLIBCXX_TYPE_INT_N_0 __int128 #define __INT_FAST16_WIDTH__ 64 #define __UINTMAX_MAX__ 0xffffffffffffffffUL #define __DEC32_MANT_DIG__ 7 #define __FLT32X_DENORM_MIN__ 4.94065645841246544176568792868221372e-324F32x #define __DBL_MAX_10_EXP__ 308 #define __LDBL_DENORM_MIN__ 3.64519953188247460252840593361941982e-4951L #define __INT16_C(c) c #define __cpp_generic_lambdas 201304 #define __STDC__ 1 #define __FLT32X_DIG__ 15 #define __PTRDIFF_TYPE__ long int #define __ATOMIC_SEQ_CST 5 #define __UINT32_TYPE__ unsigned int #define __FLT32X_MIN_10_EXP__ (-307) #define __UINTPTR_TYPE__ long unsigned int #define __DEC64_SUBNORMAL_MIN__ 0.000000000000001E-383DD #define __DEC128_MANT_DIG__ 34 #define __LDBL_MIN_10_EXP__ (-4931) #define __FLT128_EPSILON__ 1.92592994438723585305597794258492732e-34F128 #define __SSE_MATH__ 1 #define __SIZEOF_LONG_LONG__ 8 #define __cpp_user_defined_literals 200809 #define __FLT128_DECIMAL_DIG__ 36 #define __GCC_ATOMIC_LLONG_LOCK_FREE 2 #define __FLT32X_MIN__ 2.22507385850720138309023271733240406e-308F32x #define __LDBL_DIG__ 18 #define __FLT_DECIMAL_DIG__ 9 #define __UINT_FAST16_MAX__ 0xffffffffffffffffUL #define __GCC_ATOMIC_SHORT_LOCK_FREE 2 #define __INT_LEAST64_WIDTH__ 64 #define __UINT_FAST8_TYPE__ unsigned char #define _GNU_SOURCE 1 #define __cpp_init_captures 201304 #define __ATOMIC_ACQ_REL 4 #define __ATOMIC_RELEASE 3 child config.compilerFlags 1.724113 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/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 Detected GNU compiler ============================================================================================= TESTING: checkC99Flag from config.compilers(config/BuildSystem/config/compilers.py:1684) Check for -std=c99 or equivalent flag Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.setCompilers/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.setCompilers/conftest.c:7:11: warning: variable ‘x’ set but not used [-Wunused-but-set-variable] 7 | 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; } Output from compiling with -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.setCompilers/conftest.c:7:11: warning: variable ‘x’ set but not used [-Wunused-but-set-variable] 7 | float x[2],y; | ^ Accepted C99 compile flag: ============================================================================================= TESTING: checkRestrict from config.compilers(config/BuildSystem/config/compilers.py:160) Check for the C/CXX restrict keyword Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -V ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.compilers/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.compilers/conftest.c:5:20: warning: unused variable ‘x’ [-Wunused-variable] 5 | 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" ============================================================================================= TESTING: checkCFormatting from config.compilers(config/BuildSystem/config/compilers.py:421) Activate format string checking if using the GNU compilers ============================================================================================= TESTING: checkCInline from config.compilers(config/BuildSystem/config/compilers.py:130) Check for C inline keyword ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ============================================================================================= TESTING: checkDynamicLoadFlag from config.compilers(config/BuildSystem/config/compilers.py:432) Checks that dlopen() takes RTLD_XXX, and defines PETSC_HAVE_RTLD_XXX if it does ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ============================================================================================= TESTING: checkCLibraries from config.compilers(config/BuildSystem/config/compilers.py:224) Determines the libraries needed to link with C compiled code ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include void asub(void) {char s[16];printf("testing %s",s);} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : C libraries are not needed when using Fortran linker ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include void asub(void) {char s[16];printf("testing %s",s);} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC /tmp/petsc-eg0070o7/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main(int argc,char **args) {return 0;} Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -o /tmp/petsc-eg0070o7/config.compilers/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -ldl C libraries are not needed when using C++ linker ============================================================================================= TESTING: checkDependencyGenerationFlag from config.compilers(config/BuildSystem/config/compilers.py:1635) Check if -MMD works for dependency generation, and add it if it does Trying C compiler flag -MMD -MP Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -MMD -MP /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -MMD -MP Defined make macro "C_DEPFLAGS" to "-MMD -MP" Trying Cxx compiler flag -MMD -MP Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -MMD -MP /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -fPIC -MMD -MP Defined make macro "CXX_DEPFLAGS" to "-MMD -MP" Trying CUDA compiler flag -MMD -MP Executing: /usr/local/cuda/bin/nvcc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Xcompiler -fPIC -O3 -MMD -MP -Wno-deprecated-gpu-targets /tmp/petsc-eg0070o7/config.setCompilers/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -Xcompiler -fPIC -O3 -MMD -MP Defined make macro "CUDA_DEPFLAGS" to "-MMD -MP" ============================================================================================= TESTING: checkDeviceHostCompiler from config.compilers(config/BuildSystem/config/compilers.py:478) Set the host compiler (HC) of the device compiler (DC) to the HC unless the DC already explicitly sets its HC. This may be needed if the default HC used by the DC is ancient and PETSc uses a different HC (e.g., through --with-cxx=...). checkDeviceHostCompiler: checking /usr/local/cuda/bin/nvcc accepts host compiler /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx Executing: /usr/local/cuda/bin/nvcc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Xcompiler -fPIC -O3 -ccbin /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -Wno-deprecated-gpu-targets /tmp/petsc-eg0070o7/config.setCompilers/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Output from compiling with -Xcompiler -fPIC -O3 -ccbin /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx Added CUDA compiler flag -ccbin /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx ============================================================================================= TESTING: checkCxxDialect from config.compilers(config/BuildSystem/config/compilers.py:501) Determine the CXX dialect supported by the compiler(language) [and correspoding compiler option - if any]. isGNUish indicates if the compiler is gnu compliant (i.e. clang). -with--dialect can take options: auto: use highest dialect configure can determine cxx20: [future!] cxx17: gnu++17 or c++17 cxx14: gnu++14 or c++14 cxx11: gnu++11 or c++11 0: disable CxxDialect check and use compiler default On return this function sets the following values: - if needed, appends the relevant CXX dialect flag to compiler flags - self.lang+'dialect' = maxSupportedDialect (e.g. 'c++14') - self.cxxDialectRange = (self.cxxDialectRange[0],maxSupportedDialect) (e.g. ('c++03','c++14')) - self.addDefine('HAVE_{LANG}_DIALECT_CXX{DIALECT_NUM}',1) for every supported dialect or raises a RuntimeException if either: - The combination of specifically requested packages cannnot all be compiled with the same flag - The compiler does not support at minimum -std=c++03 (or its equivalent) checkCxxDialect: checking C++ dialect version for language "CUDA" using compiler "/usr/local/cuda/bin/nvcc" checkCxxDialect: user has NOT explicitly selected CUDA dialect c++17 checkCxxDialect: compiler is NOT GNUish, using flag base -std=c++ checkCxxDialect: checking CXX 17 for CUDA with flag: -std=c++17 Executing: /usr/local/cuda/bin/nvcc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -Xcompiler -fPIC -O3 -ccbin /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -std=c++17 -Wno-deprecated-gpu-targets /tmp/petsc-eg0070o7/config.setCompilers/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" // C++03 includes #include template void ignore(const T&) {} // silence unused variable warnings class valClass { public: int i; valClass() { i = 3; } valClass(int x) : i(x) { } }; // c++11 includes #include #include #include class MoveSemantics { std::unique_ptr _member; public: MoveSemantics(int val = 4) : _member(new valClass(val)) { } MoveSemantics& operator=(MoveSemantics &&other) noexcept = default; }; template constexpr T Cubed( T x ) { return x*x*x; } auto trailing(int x) -> int { return x+2;} enum class Shapes : int {SQUARE,CIRCLE}; template struct Tuple {}; using PetscErrorCode = int; // c++14 includes template constexpr T pi = T(3.1415926535897932385L); // variable template // C++17 includes #include #include #include #include [[nodiscard]] int nodiscardFunc() { return 0;} struct S2 { // static inline member variables since c++17 static inline int var = 8675309; void f(int i); }; void S2::f(int i) { // until C++17: Error: invalid syntax // since C++17: OK: captures the enclosing S2 by copy auto lmbd = [=, *this] {std::cout<var<(rci) = 4; // C++11 body PetscErrorCode ierr = 0; auto ret = trailing(ierr); MoveSemantics bob; MoveSemantics alice; alice = std::move(bob);ignore(alice); Tuple<> t0;ignore(t0); Tuple t1;ignore(t1); Tuple t2;ignore(t2); std::random_device rd; std::mt19937 mt(rd()); std::normal_distribution dist(0,1); const double x = dist(mt); std::cout << x << ret << std::endl; // C++14 body std::cout<< I(0.0,1.0); auto lambda = [](auto x, auto y) {return x + y;}; std::cout< v,w; v = 42; // v contains int int ivar = std::get(v); w = std::get<0>(v); // same effect as the previous line w = v; // same effect as the previous line S2 foo; foo.f(ivar); if constexpr (std::is_arithmetic_v) std::cout << "c++17" << std::endl; typedef std::integral_constant squareShape; // static_assert with no message since c++17 static_assert(std::is_same_v); auto val = nodiscardFunc();ignore(val); ; return 0; } Output from compiling with -Xcompiler -fPIC -O3 -ccbin /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -std=c++17 Added CUDA compiler flag -std=c++17 Defined "HAVE_CUDA_DIALECT_CXX03" to "1" Defined "HAVE_CUDA_DIALECT_CXX11" to "1" Defined "HAVE_CUDA_DIALECT_CXX14" to "1" Defined "HAVE_CUDA_DIALECT_CXX17" to "1" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/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 Detected GNU compiler ============================================================================================= TESTING: checkRestrict from config.compilers(config/BuildSystem/config/compilers.py:160) Check for the C/CXX restrict keyword Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -V ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC /tmp/petsc-eg0070o7/config.compilers/conftest.cc Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.compilers/conftest.cc: In function ‘int main()’: /tmp/petsc-eg0070o7/config.compilers/conftest.cc:5:20: warning: unused variable ‘x’ [-Wunused-variable] 5 | 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" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx --help | head -n 500 ============================================================================================= TESTING: checkCxxDialect from config.compilers(config/BuildSystem/config/compilers.py:501) Determine the CXX dialect supported by the compiler(language) [and correspoding compiler option - if any]. isGNUish indicates if the compiler is gnu compliant (i.e. clang). -with--dialect can take options: auto: use highest dialect configure can determine cxx20: [future!] cxx17: gnu++17 or c++17 cxx14: gnu++14 or c++14 cxx11: gnu++11 or c++11 0: disable CxxDialect check and use compiler default On return this function sets the following values: - if needed, appends the relevant CXX dialect flag to compiler flags - self.lang+'dialect' = maxSupportedDialect (e.g. 'c++14') - self.cxxDialectRange = (self.cxxDialectRange[0],maxSupportedDialect) (e.g. ('c++03','c++14')) - self.addDefine('HAVE_{LANG}_DIALECT_CXX{DIALECT_NUM}',1) for every supported dialect or raises a RuntimeException if either: - The combination of specifically requested packages cannnot all be compiled with the same flag - The compiler does not support at minimum -std=c++03 (or its equivalent) checkCxxDialect: checking C++ dialect version for language "CXX" using compiler "/scratch/app_sequana/openmpi/2.1.1/bin/mpicxx" checkCxxDialect: user has NOT explicitly selected CXX dialect c++17 checkCxxDialect: compiler is GNUish, using flag base -std=gnu++ checkCxxDialect: checking CXX 17 for Cxx with flag: -std=gnu++17 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" // C++03 includes #include template void ignore(const T&) {} // silence unused variable warnings class valClass { public: int i; valClass() { i = 3; } valClass(int x) : i(x) { } }; // c++11 includes #include #include #include class MoveSemantics { std::unique_ptr _member; public: MoveSemantics(int val = 4) : _member(new valClass(val)) { } MoveSemantics& operator=(MoveSemantics &&other) noexcept = default; }; template constexpr T Cubed( T x ) { return x*x*x; } auto trailing(int x) -> int { return x+2;} enum class Shapes : int {SQUARE,CIRCLE}; template struct Tuple {}; using PetscErrorCode = int; // c++14 includes template constexpr T pi = T(3.1415926535897932385L); // variable template // C++17 includes #include #include #include #include [[nodiscard]] int nodiscardFunc() { return 0;} struct S2 { // static inline member variables since c++17 static inline int var = 8675309; void f(int i); }; void S2::f(int i) { // until C++17: Error: invalid syntax // since C++17: OK: captures the enclosing S2 by copy auto lmbd = [=, *this] {std::cout<var<(rci) = 4; // C++11 body PetscErrorCode ierr = 0; auto ret = trailing(ierr); MoveSemantics bob; MoveSemantics alice; alice = std::move(bob);ignore(alice); Tuple<> t0;ignore(t0); Tuple t1;ignore(t1); Tuple t2;ignore(t2); std::random_device rd; std::mt19937 mt(rd()); std::normal_distribution dist(0,1); const double x = dist(mt); std::cout << x << ret << std::endl; // C++14 body std::cout<< I(0.0,1.0); auto lambda = [](auto x, auto y) {return x + y;}; std::cout< v,w; v = 42; // v contains int int ivar = std::get(v); w = std::get<0>(v); // same effect as the previous line w = v; // same effect as the previous line S2 foo; foo.f(ivar); if constexpr (std::is_arithmetic_v) std::cout << "c++17" << std::endl; typedef std::integral_constant squareShape; // static_assert with no message since c++17 static_assert(std::is_same_v); auto val = nodiscardFunc();ignore(val); ; return 0; } Output from compiling with -fPIC -std=gnu++17 Added Cxx compiler flag -std=gnu++17 Defined "HAVE_CXX_DIALECT_CXX03" to "1" Defined "HAVE_CXX_DIALECT_CXX11" to "1" Defined "HAVE_CXX_DIALECT_CXX14" to "1" Defined "HAVE_CXX_DIALECT_CXX17" to "1" ============================================================================================= TESTING: checkCxxOptionalExtensions from config.compilers(config/BuildSystem/config/compilers.py:451) Check whether the C++ compiler (IBM xlC, OSF5) need special flag for .c files which contain C++ Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { class somename { int i; };; return 0; } Output from compiling with -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 ============================================================================================= TESTING: checkCxxInline from config.compilers(config/BuildSystem/config/compilers.py:145) Check for C++ inline keyword ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/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" ============================================================================================= TESTING: checkCxxComplexFix from config.compilers(config/BuildSystem/config/compilers.py:752) Determine if the CXX compiler supports utilities provided by petsccxxcomplexfix.h ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #define Type int #define PetscReal double #define PetscComplex std::complex /* The two lines, from petsccxxcomplexfix.h, can cause the combination "C++14 + GCC-4.x libstdc++ library" to fail, complaining imag() is not marked const. If the compiler can compile these two lines, it should be able to compile other lines. */ static inline PetscComplex operator-(const Type& lhs, const PetscComplex& rhs) { return PetscReal(lhs) - const_cast(rhs); } static inline PetscComplex operator/(const Type& lhs, const PetscComplex& rhs) { return PetscReal(lhs) / const_cast(rhs); } int main() { Type x = 2; PetscComplex y(1.0,1.0),z,w; z = x - y; w = x / y; std::cout << z << w; ; return 0; } the CXX compiler supports petsccxxcomplexfix.h Defined "HAVE_CXX_COMPLEX_FIX" to "1" ============================================================================================= TESTING: checkCxxLibraries from config.compilers(config/BuildSystem/config/compilers.py:781) Determines the libraries needed to link with C++ from C and Fortran ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/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"; }} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main(int argc,char **args) {return 0;} Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.compilers/confc.o: In function `asub()': conftest.cc:(.text.unlikely+0x7): undefined reference to `__cxa_allocate_exception' conftest.cc:(.text.unlikely+0xe): undefined reference to `typeinfo for int' conftest.cc:(.text.unlikely+0x1e): undefined reference to `__cxa_throw' conftest.cc:(.text.unlikely+0x2b): undefined reference to `__cxa_begin_catch' conftest.cc:(.text.unlikely+0x32): undefined reference to `std::cout' conftest.cc:(.text.unlikely+0x3e): undefined reference to `std::basic_ostream >& std::operator<< >(std::basic_ostream >&, char const*)' conftest.cc:(.text.unlikely+0x4c): undefined reference to `__cxa_end_catch' conftest.cc:(.text.unlikely+0x44): undefined reference to `__cxa_end_catch' /tmp/petsc-eg0070o7/config.compilers/confc.o: In function `_GLOBAL__sub_I_conftest.cc': conftest.cc:(.text.startup+0xc): undefined reference to `std::ios_base::Init::Init()' conftest.cc:(.text.startup+0x13): undefined reference to `std::ios_base::Init::~Init()' /tmp/petsc-eg0070o7/config.compilers/confc.o:(.data.rel.local.DW.ref._ZTIi[DW.ref._ZTIi]+0x0): undefined reference to `typeinfo for int' /tmp/petsc-eg0070o7/config.compilers/confc.o:(.data.rel.local.DW.ref.__gxx_personality_v0[DW.ref.__gxx_personality_v0]+0x0): undefined reference to `__gxx_personality_v0' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.compilers/confc.o: In function `asub()': conftest.cc:(.text.unlikely+0x7): undefined reference to `__cxa_allocate_exception' conftest.cc:(.text.unlikely+0xe): undefined reference to `typeinfo for int' conftest.cc:(.text.unlikely+0x1e): undefined reference to `__cxa_throw' conftest.cc:(.text.unlikely+0x2b): undefined reference to `__cxa_begin_catch' conftest.cc:(.text.unlikely+0x32): undefined reference to `std::cout' conftest.cc:(.text.unlikely+0x3e): undefined reference to `std::basic_ostream >& std::operator<< >(std::basic_ostream >&, char const*)' conftest.cc:(.text.unlikely+0x4c): undefined reference to `__cxa_end_catch' conftest.cc:(.text.unlikely+0x44): undefined reference to `__cxa_end_catch' /tmp/petsc-eg0070o7/config.compilers/confc.o: In function `_GLOBAL__sub_I_conftest.cc': conftest.cc:(.text.startup+0xc): undefined reference to `std::ios_base::Init::Init()' conftest.cc:(.text.startup+0x13): undefined reference to `std::ios_base::Init::~Init()' /tmp/petsc-eg0070o7/config.compilers/confc.o:(.data.rel.local.DW.ref._ZTIi[DW.ref._ZTIi]+0x0): undefined reference to `typeinfo for int' /tmp/petsc-eg0070o7/config.compilers/confc.o:(.data.rel.local.DW.ref.__gxx_personality_v0[DW.ref.__gxx_personality_v0]+0x0): undefined reference to `__gxx_personality_v0' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.compilers/confc.o: In function `asub()': conftest.cc:(.text.unlikely+0x7): undefined reference to `__cxa_allocate_exception' conftest.cc:(.text.unlikely+0xe): undefined reference to `typeinfo for int' conftest.cc:(.text.unlikely+0x1e): undefined reference to `__cxa_throw' conftest.cc:(.text.unlikely+0x2b): undefined reference to `__cxa_begin_catch' conftest.cc:(.text.unlikely+0x32): undefined reference to `std::cout' conftest.cc:(.text.unlikely+0x3e): undefined reference to `std::basic_ostream >& std::operator<< >(std::basic_ostream >&, char const*)' conftest.cc:(.text.unlikely+0x4c): undefined reference to `__cxa_end_catch' conftest.cc:(.text.unlikely+0x44): undefined reference to `__cxa_end_catch' /tmp/petsc-eg0070o7/config.compilers/confc.o: In function `_GLOBAL__sub_I_conftest.cc': conftest.cc:(.text.startup+0xc): undefined reference to `std::ios_base::Init::Init()' conftest.cc:(.text.startup+0x13): undefined reference to `std::ios_base::Init::~Init()' /tmp/petsc-eg0070o7/config.compilers/confc.o:(.data.rel.local.DW.ref._ZTIi[DW.ref._ZTIi]+0x0): undefined reference to `typeinfo for int' /tmp/petsc-eg0070o7/config.compilers/confc.o:(.data.rel.local.DW.ref.__gxx_personality_v0[DW.ref.__gxx_personality_v0]+0x0): undefined reference to `__gxx_personality_v0' collect2: error: ld returned 1 exit status: Executing: uname -s stdout: Linux ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/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"; }} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main(int argc,char **args) {return 0;} Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lstdc++ -ldl compilers: C++ requires -lstdc++ to link with C compiler ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/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"; }} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : C++ libraries are not needed when using FC linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -V ============================================================================================= TESTING: checkFortranNameMangling from config.compilers(config/BuildSystem/config/compilers.py:1097) Checks Fortran name mangling, and defines HAVE_FORTRAN_UNDERSCORE, HAVE_FORTRAN_NOUNDERSCORE, HAVE_FORTRAN_CAPS Testing Fortran mangling type underscore with code void d1chk_(void){return;} ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" void d1chk_(void){return;} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main call d1chk() end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : compilers: Fortran name mangling is underscore Defined "HAVE_FORTRAN_UNDERSCORE" to "1" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 --version stdout: GNU Fortran (GCC) 9.3.0 Copyright (C) 2019 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. Detected GFortran8plus compiler Defined "FORTRAN_CHARLEN_T" to "size_t" ============================================================================================= TESTING: checkFortranNameManglingDouble from config.compilers(config/BuildSystem/config/compilers.py:1135) Checks if symbols containing an underscore append an extra underscore, and defines HAVE_FORTRAN_UNDERSCORE_UNDERSCORE if necessary ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" void d1_chk__(void){return;} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main call d1_chk() end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /tmp/petsc-eg0070o7/config.compilers/conftest.o: In function `main': conftest.F90:(.text.startup+0x1d): undefined reference to `d1_chk_' collect2: error: ld returned 1 exit status Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /tmp/petsc-eg0070o7/config.compilers/conftest.o: In function `main': conftest.F90:(.text.startup+0x1d): undefined reference to `d1_chk_' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.compilers/conftest.o: In function `main': conftest.F90:(.text.startup+0x1d): undefined reference to `d1_chk_' collect2: error: ld returned 1 exit status: ============================================================================================= TESTING: checkFortranLibraries from config.compilers(config/BuildSystem/config/compilers.py:1145) Substitutes for FLIBS the libraries needed to link with Fortran This macro is intended to be used in those situations when it is necessary to mix, e.g. C++ and Fortran 77, source code into a single program or shared library. For example, if object files from a C++ and Fortran 77 compiler must be linked together, then the C++ compiler/linker must be used for linking (since special C++-ish things need to happen at link time like calling global constructors, instantiating templates, enabling exception support, etc.). However, the Fortran 77 intrinsic and run-time libraries must be linked in as well, but the C++ compiler/linker does not know how to add these Fortran 77 libraries. This code was translated from the autoconf macro which was packaged in its current form by Matthew D. Langston . However, nearly all of this macro came from the OCTAVE_FLIBS macro in octave-2.0.13/aclocal.m4, and full credit should go to John W. Eaton for writing this extremely useful macro. ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.compilers/conftest.F90:2:10: 2 | use mpi | 1 Fatal Error: Cannot read module file ‘mpi.mod’ opened at (1), because it was created by a different version of GNU Fortran compilation terminated. Source: program main use mpi call MPI_Allreduce() end Compile failed inside link ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main #include call MPI_Allreduce() end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: subroutine asub() print*,'testing' call MPI_Allreduce() return end ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" extern void asub_(void); int main(int argc,char **args) { asub_(); return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.compilers/confc.o: In function `asub_': conftest.F90:(.text+0x31): undefined reference to `_gfortran_st_write' conftest.F90:(.text+0x45): undefined reference to `_gfortran_transfer_character_write' conftest.F90:(.text+0x4d): undefined reference to `_gfortran_st_write_done' conftest.F90:(.text+0x5c): undefined reference to `mpi_allreduce_' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.compilers/confc.o: In function `asub_': conftest.F90:(.text+0x31): undefined reference to `_gfortran_st_write' conftest.F90:(.text+0x45): undefined reference to `_gfortran_transfer_character_write' conftest.F90:(.text+0x4d): undefined reference to `_gfortran_st_write_done' conftest.F90:(.text+0x5c): undefined reference to `mpi_allreduce_' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.compilers/confc.o: In function `asub_': conftest.F90:(.text+0x31): undefined reference to `_gfortran_st_write' conftest.F90:(.text+0x45): undefined reference to `_gfortran_transfer_character_write' conftest.F90:(.text+0x4d): undefined reference to `_gfortran_st_write_done' conftest.F90:(.text+0x5c): undefined reference to `mpi_allreduce_' collect2: error: ld returned 1 exit status: Fortran code cannot directly be linked with C linker, therefore will determine needed Fortran libraries Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -v -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o -lstdc++ -ldl Possible ERROR while running linker: stderr: Driving: /scratch/app/gcc/9.3/bin/gfortran -o /tmp/petsc-eg0070o7/config.compilers/conftest -v -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o -lstdc++ -ldl -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -I/scratch/app_sequana/openmpi/2.1.1/lib -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -l gfortran -l m -shared-libgcc Using built-in specs. COLLECT_GCC=/scratch/app/gcc/9.3/bin/gfortran COLLECT_LTO_WRAPPER=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/lto-wrapper Target: x86_64-pc-linux-gnu Configured with: ./configure --prefix=/scratch/app/gcc/9.3 --disable-multilib --enable-threads --with-system-zlib --enable-languages=c,c++,d,fortran,objc,obj-c++ --enable-lto --enable-bootstrap Thread model: posix gcc version 9.3.0 (GCC) Reading specs from /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64/libgfortran.spec rename spec lib to liborig COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-eg0070o7/config.compilers/conftest' '-v' '-fPIC' '-Wall' '-ffree-line-length-0' '-Wno-unused-dummy-argument' '-O3' '-I' '/scratch/app_sequana/openmpi/2.1.1/include' '-pthread' '-I' '/scratch/app_sequana/openmpi/2.1.1/lib' '-L/scratch/app_sequana/openmpi/2.1.1/lib' '-shared-libgcc' '-mtune=generic' '-march=x86-64' COMPILER_PATH=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/ LIBRARY_PATH=/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../:/lib/:/usr/lib/ COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-eg0070o7/config.compilers/conftest' '-v' '-fPIC' '-Wall' '-ffree-line-length-0' '-Wno-unused-dummy-argument' '-O3' '-I' '/scratch/app_sequana/openmpi/2.1.1/include' '-pthread' '-I' '/scratch/app_sequana/openmpi/2.1.1/lib' '-L/scratch/app_sequana/openmpi/2.1.1/lib' '-shared-libgcc' '-mtune=generic' '-march=x86-64' /scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/collect2 -plugin /scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/liblto_plugin.so -plugin-opt=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/lto-wrapper -plugin-opt=-fresolution=/tmp/cch9c3Pg.res -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lquadmath -plugin-opt=-pass-through=-lm -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lpthread -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc --eh-frame-hdr -m elf_x86_64 -dynamic-linker /lib64/ld-linux-x86-64.so.2 -o /tmp/petsc-eg0070o7/config.compilers/conftest /lib/../lib64/crt1.o /lib/../lib64/crti.o /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/crtbegin.o -L/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../.. /tmp/petsc-eg0070o7/config.compilers/conftest.o -lstdc++ -ldl -rpath /scratch/app_sequana/openmpi/2.1.1/lib --enable-new-dtags -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -lgcc_s -lgcc -lquadmath -lm -lgcc_s -lgcc -lpthread -lc -lgcc_s -lgcc /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/crtend.o /lib/../lib64/crtn.o /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-eg0070o7/config.compilers/conftest' '-v' '-fPIC' '-Wall' '-ffree-line-length-0' '-Wno-unused-dummy-argument' '-O3' '-I' '/scratch/app_sequana/openmpi/2.1.1/include' '-pthread' '-I' '/scratch/app_sequana/openmpi/2.1.1/lib' '-L/scratch/app_sequana/openmpi/2.1.1/lib' '-shared-libgcc' '-mtune=generic' '-march=x86-64' Linker output before filtering: Driving: /scratch/app/gcc/9.3/bin/gfortran -o /tmp/petsc-eg0070o7/config.compilers/conftest -v -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o -lstdc++ -ldl -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -I/scratch/app_sequana/openmpi/2.1.1/lib -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -l gfortran -l m -shared-libgcc Using built-in specs. COLLECT_GCC=/scratch/app/gcc/9.3/bin/gfortran COLLECT_LTO_WRAPPER=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/lto-wrapper Target: x86_64-pc-linux-gnu Configured with: ./configure --prefix=/scratch/app/gcc/9.3 --disable-multilib --enable-threads --with-system-zlib --enable-languages=c,c++,d,fortran,objc,obj-c++ --enable-lto --enable-bootstrap Thread model: posix gcc version 9.3.0 (GCC) Reading specs from /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64/libgfortran.spec rename spec lib to liborig COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-eg0070o7/config.compilers/conftest' '-v' '-fPIC' '-Wall' '-ffree-line-length-0' '-Wno-unused-dummy-argument' '-O3' '-I' '/scratch/app_sequana/openmpi/2.1.1/include' '-pthread' '-I' '/scratch/app_sequana/openmpi/2.1.1/lib' '-L/scratch/app_sequana/openmpi/2.1.1/lib' '-shared-libgcc' '-mtune=generic' '-march=x86-64' COMPILER_PATH=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/ LIBRARY_PATH=/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../:/lib/:/usr/lib/ COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-eg0070o7/config.compilers/conftest' '-v' '-fPIC' '-Wall' '-ffree-line-length-0' '-Wno-unused-dummy-argument' '-O3' '-I' '/scratch/app_sequana/openmpi/2.1.1/include' '-pthread' '-I' '/scratch/app_sequana/openmpi/2.1.1/lib' '-L/scratch/app_sequana/openmpi/2.1.1/lib' '-shared-libgcc' '-mtune=generic' '-march=x86-64' /scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/collect2 -plugin /scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/liblto_plugin.so -plugin-opt=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/lto-wrapper -plugin-opt=-fresolution=/tmp/cch9c3Pg.res -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lquadmath -plugin-opt=-pass-through=-lm -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lpthread -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc --eh-frame-hdr -m elf_x86_64 -dynamic-linker /lib64/ld-linux-x86-64.so.2 -o /tmp/petsc-eg0070o7/config.compilers/conftest /lib/../lib64/crt1.o /lib/../lib64/crti.o /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/crtbegin.o -L/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../.. /tmp/petsc-eg0070o7/config.compilers/conftest.o -lstdc++ -ldl -rpath /scratch/app_sequana/openmpi/2.1.1/lib --enable-new-dtags -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -lgcc_s -lgcc -lquadmath -lm -lgcc_s -lgcc -lpthread -lc -lgcc_s -lgcc /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/crtend.o /lib/../lib64/crtn.o /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-eg0070o7/config.compilers/conftest' '-v' '-fPIC' '-Wall' '-ffree-line-length-0' '-Wno-unused-dummy-argument' '-O3' '-I' '/scratch/app_sequana/openmpi/2.1.1/include' '-pthread' '-I' '/scratch/app_sequana/openmpi/2.1.1/lib' '-L/scratch/app_sequana/openmpi/2.1.1/lib' '-shared-libgcc' '-mtune=generic' '-march=x86-64' : Linker output after filtering: Driving: /scratch/app/gcc/9.3/bin/gfortran -o /tmp/petsc-eg0070o7/config.compilers/conftest -v -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o -lstdc++ -ldl -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -I/scratch/app_sequana/openmpi/2.1.1/lib -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -l gfortran -l m -shared-libgcc Using built-in specs. COLLECT_GCC=/scratch/app/gcc/9.3/bin/gfortran COLLECT_LTO_WRAPPER=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/lto-wrapper Target: x86_64-pc-linux-gnu Configured with: ./configure --prefix=/scratch/app/gcc/9.3 --disable-multilib --enable-threads --with-system-zlib --enable-languages=c,c++,d,fortran,objc,obj-c++ --enable-lto --enable-bootstrap Thread model: posix gcc version 9.3.0 (GCC) Reading specs from /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64/libgfortran.spec rename spec lib to liborig COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-eg0070o7/config.compilers/conftest' '-v' '-fPIC' '-Wall' '-ffree-line-length-0' '-Wno-unused-dummy-argument' '-O3' '-I' '/scratch/app_sequana/openmpi/2.1.1/include' '-pthread' '-I' '/scratch/app_sequana/openmpi/2.1.1/lib' '-L/scratch/app_sequana/openmpi/2.1.1/lib' '-shared-libgcc' '-mtune=generic' '-march=x86-64' COMPILER_PATH=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/ LIBRARY_PATH=/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../:/lib/:/usr/lib/ COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-eg0070o7/config.compilers/conftest' '-v' '-fPIC' '-Wall' '-ffree-line-length-0' '-Wno-unused-dummy-argument' '-O3' '-I' '/scratch/app_sequana/openmpi/2.1.1/include' '-pthread' '-I' '/scratch/app_sequana/openmpi/2.1.1/lib' '-L/scratch/app_sequana/openmpi/2.1.1/lib' '-shared-libgcc' '-mtune=generic' '-march=x86-64' /scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/collect2 -plugin /scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/liblto_plugin.so -plugin-opt=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/lto-wrapper -plugin-opt=-fresolution=/tmp/cch9c3Pg.res -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lquadmath -plugin-opt=-pass-through=-lm -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lpthread -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc --eh-frame-hdr -m elf_x86_64 -dynamic-linker /lib64/ld-linux-x86-64.so.2 -o /tmp/petsc-eg0070o7/config.compilers/conftest /lib/../lib64/crt1.o /lib/../lib64/crti.o /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/crtbegin.o -L/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../.. /tmp/petsc-eg0070o7/config.compilers/conftest.o -lstdc++ -ldl -rpath /scratch/app_sequana/openmpi/2.1.1/lib --enable-new-dtags -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -lgcc_s -lgcc -lquadmath -lm -lgcc_s -lgcc -lpthread -lc -lgcc_s -lgcc /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/crtend.o /lib/../lib64/crtn.o COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-eg0070o7/config.compilers/conftest' '-v' '-fPIC' '-Wall' '-ffree-line-length-0' '-Wno-unused-dummy-argument' '-O3' '-I' '/scratch/app_sequana/openmpi/2.1.1/include' '-pthread' '-I' '/scratch/app_sequana/openmpi/2.1.1/lib' '-L/scratch/app_sequana/openmpi/2.1.1/lib' '-shared-libgcc' '-mtune=generic' '-march=x86-64': Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -V compilers: Checking arg Driving: compilers: Unknown arg Driving: compilers: Checking arg /scratch/app/gcc/9.3/bin/gfortran compilers: Unknown arg /scratch/app/gcc/9.3/bin/gfortran compilers: Checking arg -o compilers: Unknown arg -o compilers: Checking arg /tmp/petsc-eg0070o7/config.compilers/conftest compilers: Unknown arg /tmp/petsc-eg0070o7/config.compilers/conftest compilers: Checking arg -v compilers: Unknown arg -v compilers: Checking arg -fPIC compilers: Unknown arg -fPIC compilers: Checking arg -Wall compilers: Unknown arg -Wall compilers: Checking arg -ffree-line-length-0 compilers: Unknown arg -ffree-line-length-0 compilers: Checking arg -Wno-unused-dummy-argument compilers: Unknown arg -Wno-unused-dummy-argument compilers: Checking arg -O3 compilers: Unknown arg -O3 compilers: Checking arg /tmp/petsc-eg0070o7/config.compilers/conftest.o compilers: Unknown arg /tmp/petsc-eg0070o7/config.compilers/conftest.o compilers: Checking arg -lstdc++ compilers: Found library: -lstdc++ compilers: Checking arg -ldl compilers: Found library: -ldl compilers: Checking arg -I/scratch/app_sequana/openmpi/2.1.1/include compilers: Found include directory: /scratch/app_sequana/openmpi/2.1.1/include compilers: Checking arg -pthread compilers: Unknown arg -pthread compilers: Checking arg -I/scratch/app_sequana/openmpi/2.1.1/lib compilers: Found include directory: /scratch/app_sequana/openmpi/2.1.1/lib compilers: Checking arg -Wl,-rpath compilers: Unknown arg -Wl,-rpath compilers: Checking arg -Wl,/scratch/app_sequana/openmpi/2.1.1/lib compilers: Unknown arg -Wl,/scratch/app_sequana/openmpi/2.1.1/lib compilers: Checking arg -Wl,--enable-new-dtags compilers: Unknown arg -Wl,--enable-new-dtags compilers: Checking arg -L/scratch/app_sequana/openmpi/2.1.1/lib compilers: Found library directory: -L/scratch/app_sequana/openmpi/2.1.1/lib compilers: Checking arg -lmpi_usempi compilers: Found library: -lmpi_usempi compilers: Checking arg -lmpi_mpifh compilers: Found library: -lmpi_mpifh compilers: Checking arg -lmpi compilers: Found library: -lmpi compilers: Checking arg -l compilers: Found canonical library: -lgfortran compilers: Checking arg -l compilers: Found canonical library: -lm compilers: Checking arg -shared-libgcc compilers: Unknown arg -shared-libgcc compilers: Checking arg Using compilers: Unknown arg Using compilers: Checking arg built-in compilers: Unknown arg built-in compilers: Checking arg specs. compilers: Unknown arg specs. compilers: Checking arg COLLECT_GCC=/scratch/app/gcc/9.3/bin/gfortran compilers: Unknown arg COLLECT_GCC=/scratch/app/gcc/9.3/bin/gfortran compilers: Checking arg COLLECT_LTO_WRAPPER=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/lto-wrapper compilers: Unknown arg COLLECT_LTO_WRAPPER=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/lto-wrapper compilers: Checking arg Target: compilers: Unknown arg Target: compilers: Checking arg x86_64-pc-linux-gnu compilers: Unknown arg x86_64-pc-linux-gnu compilers: Checking arg Configured compilers: Unknown arg Configured compilers: Checking arg with: compilers: Unknown arg with: compilers: Checking arg ./configure compilers: Unknown arg ./configure compilers: Checking arg --prefix=/scratch/app/gcc/9.3 compilers: Unknown arg --prefix=/scratch/app/gcc/9.3 compilers: Checking arg --disable-multilib compilers: Unknown arg --disable-multilib compilers: Checking arg --enable-threads compilers: Unknown arg --enable-threads compilers: Checking arg --with-system-zlib compilers: Unknown arg --with-system-zlib compilers: Checking arg --enable-languages=c,c++,d,fortran,objc,obj-c++ compilers: Unknown arg --enable-languages=c,c++,d,fortran,objc,obj-c++ compilers: Checking arg --enable-lto compilers: Unknown arg --enable-lto compilers: Checking arg --enable-bootstrap compilers: Unknown arg --enable-bootstrap compilers: Checking arg Thread compilers: Unknown arg Thread compilers: Checking arg model: compilers: Unknown arg model: compilers: Checking arg posix compilers: Unknown arg posix compilers: Checking arg gcc compilers: Unknown arg gcc compilers: Checking arg version compilers: Unknown arg version compilers: Checking arg 9.3.0 compilers: Unknown arg 9.3.0 compilers: Checking arg (GCC) compilers: Unknown arg (GCC) compilers: Checking arg Reading compilers: Unknown arg Reading compilers: Checking arg specs compilers: Unknown arg specs compilers: Checking arg from compilers: Unknown arg from compilers: Checking arg /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64/libgfortran.spec compilers: Unknown arg /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64/libgfortran.spec compilers: Checking arg rename compilers: Unknown arg rename compilers: Checking arg spec compilers: Unknown arg spec compilers: Checking arg lib compilers: Unknown arg lib compilers: Checking arg to compilers: Unknown arg to compilers: Checking arg liborig compilers: Unknown arg liborig compilers: Checking arg COLLECT_GCC_OPTIONS= compilers: Unknown arg COLLECT_GCC_OPTIONS= compilers: Checking arg COMPILER_PATH=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/ compilers: Skipping arg COMPILER_PATH=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/ compilers: Checking arg LIBRARY_PATH=/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../:/lib/:/usr/lib/ compilers: Skipping arg LIBRARY_PATH=/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8/:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib/:/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../:/lib/:/usr/lib/ compilers: Checking arg COLLECT_GCC_OPTIONS= compilers: Unknown arg COLLECT_GCC_OPTIONS= compilers: Checking arg /scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/collect2 compilers: Unknown arg /scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/collect2 compilers: Checking arg -plugin compilers: Unknown arg -plugin compilers: Checking arg /scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/liblto_plugin.so compilers: Unknown arg /scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/liblto_plugin.so compilers: Checking arg -plugin-opt=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/lto-wrapper compilers: Unknown arg -plugin-opt=/scratch/app/gcc/9.3/libexec/gcc/x86_64-pc-linux-gnu/9.3.0/lto-wrapper compilers: Checking arg -plugin-opt=-fresolution=/tmp/cch9c3Pg.res compilers: Unknown arg -plugin-opt=-fresolution=/tmp/cch9c3Pg.res compilers: Checking arg -plugin-opt=-pass-through=-lgcc_s compilers: Unknown arg -plugin-opt=-pass-through=-lgcc_s compilers: Checking arg -plugin-opt=-pass-through=-lgcc compilers: Unknown arg -plugin-opt=-pass-through=-lgcc compilers: Checking arg -plugin-opt=-pass-through=-lquadmath compilers: Unknown arg -plugin-opt=-pass-through=-lquadmath compilers: Checking arg -plugin-opt=-pass-through=-lm compilers: Unknown arg -plugin-opt=-pass-through=-lm compilers: Checking arg -plugin-opt=-pass-through=-lgcc_s compilers: Unknown arg -plugin-opt=-pass-through=-lgcc_s compilers: Checking arg -plugin-opt=-pass-through=-lgcc compilers: Unknown arg -plugin-opt=-pass-through=-lgcc compilers: Checking arg -plugin-opt=-pass-through=-lpthread compilers: Unknown arg -plugin-opt=-pass-through=-lpthread compilers: Checking arg -plugin-opt=-pass-through=-lc compilers: Unknown arg -plugin-opt=-pass-through=-lc compilers: Checking arg -plugin-opt=-pass-through=-lgcc_s compilers: Unknown arg -plugin-opt=-pass-through=-lgcc_s compilers: Checking arg -plugin-opt=-pass-through=-lgcc compilers: Unknown arg -plugin-opt=-pass-through=-lgcc compilers: Checking arg --eh-frame-hdr compilers: Unknown arg --eh-frame-hdr compilers: Checking arg -m compilers: Unknown arg -m compilers: Checking arg elf_x86_64 compilers: Unknown arg elf_x86_64 compilers: Checking arg -dynamic-linker compilers: Unknown arg -dynamic-linker compilers: Checking arg /lib64/ld-linux-x86-64.so.2 compilers: Unknown arg /lib64/ld-linux-x86-64.so.2 compilers: Checking arg -o compilers: Unknown arg -o compilers: Checking arg /tmp/petsc-eg0070o7/config.compilers/conftest compilers: Unknown arg /tmp/petsc-eg0070o7/config.compilers/conftest compilers: Checking arg /lib/../lib64/crt1.o compilers: Unknown arg /lib/../lib64/crt1.o compilers: Checking arg /lib/../lib64/crti.o compilers: Unknown arg /lib/../lib64/crti.o compilers: Checking arg /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/crtbegin.o compilers: Unknown arg /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/crtbegin.o compilers: Checking arg -L/scratch/app_sequana/openmpi/2.1.1/lib compilers: Already in lflags so skipping: -L/scratch/app_sequana/openmpi/2.1.1/lib compilers: Checking arg -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 compilers: Found library directory: -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 compilers: Checking arg -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64 compilers: Found library directory: -L/scratch/app/gcc/9.3/lib64 compilers: Checking arg -L/lib/../lib64 compilers: Checking arg -L/usr/lib/../lib64 compilers: Checking arg -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 compilers: Found library directory: -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 compilers: Checking arg -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 compilers: Found library directory: -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 compilers: Checking arg -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib compilers: Found library directory: -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib compilers: Checking arg -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../.. compilers: Found library directory: -L/scratch/app/gcc/9.3/lib compilers: Checking arg /tmp/petsc-eg0070o7/config.compilers/conftest.o compilers: Unknown arg /tmp/petsc-eg0070o7/config.compilers/conftest.o compilers: Checking arg -lstdc++ compilers: Already in lflags: -lstdc++ compilers: Checking arg -ldl compilers: Already in lflags: -ldl compilers: Checking arg -rpath compilers: Found -rpath library: /scratch/app_sequana/openmpi/2.1.1/lib compilers: Checking arg --enable-new-dtags compilers: Unknown arg --enable-new-dtags compilers: Checking arg -lmpi_usempi compilers: Already in lflags: -lmpi_usempi compilers: Checking arg -lmpi_mpifh compilers: Already in lflags: -lmpi_mpifh compilers: Checking arg -lmpi compilers: Already in lflags: -lmpi compilers: Checking arg -lgfortran compilers: Found library: -lgfortran compilers: Checking arg -lm compilers: Found library: -lm compilers: Checking arg -lgcc_s compilers: Found library: -lgcc_s compilers: Checking arg -lgcc compilers: Found system library therefore skipping: -lgcc compilers: Checking arg -lquadmath compilers: Found library: -lquadmath compilers: Checking arg -lm compilers: Already in lflags: -lm compilers: Checking arg -lgcc_s compilers: Already in lflags: -lgcc_s compilers: Checking arg -lgcc compilers: Found system library therefore skipping: -lgcc compilers: Checking arg -lpthread compilers: Found library: -lpthread compilers: Checking arg -lc compilers: Found system library therefore skipping: -lc compilers: Checking arg -lgcc_s compilers: Already in lflags: -lgcc_s compilers: Checking arg -lgcc compilers: Found system library therefore skipping: -lgcc compilers: Checking arg /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/crtend.o compilers: Unknown arg /scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/crtend.o compilers: Checking arg /lib/../lib64/crtn.o compilers: Unknown arg /lib/../lib64/crtn.o compilers: Checking arg COLLECT_GCC_OPTIONS= compilers: Unknown arg COLLECT_GCC_OPTIONS= compilers: Libraries needed to link Fortran code with the C linker: ['-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] compilers: Libraries needed to link Fortran main with the C linker: [] compilers: Check that Fortran libraries can be used with Fortran as the linker ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : ======== Checking running linked program ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Testing executable /tmp/petsc-eg0070o7/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-eg0070o7/config.setCompilers/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-eg0070o7/config.setCompilers/conftest compilers: Check that Fortran libraries can be used with C as the linker ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : ======== Checking running linked program ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Testing executable /tmp/petsc-eg0070o7/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-eg0070o7/config.setCompilers/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-eg0070o7/config.setCompilers/conftest compilers: Check that Fortran libraries can be used with C++ as linker ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : ======== Checking running linked program ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -o /tmp/petsc-eg0070o7/config.setCompilers/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Testing executable /tmp/petsc-eg0070o7/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-eg0070o7/config.setCompilers/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-eg0070o7/config.setCompilers/conftest compilers: Fortran libraries can be used from C++ ============================================================================================= TESTING: checkFortranLinkingCxx from config.compilers(config/BuildSystem/config/compilers.py:1600) Check that Fortran can link C++ libraries ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" extern "C" void d1chk_(void); void foo(void){d1chk_();} ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" extern "C" void d1chk_(void); void d1chk_(void){return;} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main call d1chk() end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/cxxobj.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : compilers: Fortran can link C++ functions ============================================================================================= TESTING: setupFrameworkCompilers from config.compilers(config/BuildSystem/config/compilers.py:1766) child config.compilers 8.688249 ============================================================================================= TESTING: configureClosure from config.utilities.closure(config/BuildSystem/config/utilities/closure.py:17) Determine if Apple ^close syntax is supported in C ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.closure/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.closure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.utilities.closure/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.utilities.closure/conftest.c:6:6: error: expected identifier or ‘(’ before ‘^’ token 6 | 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 0.036483 ============================================================================================= TESTING: checkFortranTypeSizes from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:56) Check whether real*8 is supported and suggest flags which will allow support Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90 Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90:2:21: 2 | real*8 variable | 1 Warning: Unused variable ‘variable’ declared at (1) [-Wunused-variable] Source: program main real*8 variable end ============================================================================================= TESTING: checkFortranPreprocessor from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:73) Determine if Fortran handles preprocessing properly Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main #define dummy dummy #ifndef dummy fooey #endif end Output from compiling with -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 compilers: Fortran uses preprocessor ============================================================================================= TESTING: checkFortranDefineCompilerOption from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:96) Check if -WF,-Dfoobar or -Dfoobar is the compiler option to define a macro Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 -DTesting /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main #define dummy dummy #ifndef Testing fooey #endif end Output from compiling with -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 -DTesting Defined make macro "FC_DEFINE_FLAG" to "-D" compilers: Fortran uses -D for defining macro ============================================================================================= TESTING: checkFortran90 from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:146) Determine whether the Fortran compiler handles F90 ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90 Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90:3:43: 3 | REAL(KIND=SELECTED_REAL_KIND(10)) d | 1 Warning: Unused variable ‘d’ declared at (1) [-Wunused-variable] Source: program main REAL(KIND=SELECTED_REAL_KIND(10)) d INTEGER, PARAMETER :: int = SELECTED_INT_KIND(8) INTEGER (KIND=int) :: ierr ierr = 1 end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Fortran compiler supports F90 ============================================================================================= TESTING: checkFortran90FreeForm from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:162) Determine whether the Fortran compiler handles F90FreeForm We also require that the compiler handles lines longer than 132 characters ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90 Successful compile: Source: program main INTEGER, PARAMETER :: int = SELECTED_INT_KIND(8); INTEGER (KIND=int) :: ierr; ierr = 1 end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "USING_F90FREEFORM" to "1" Fortran compiler supports F90FreeForm ============================================================================================= TESTING: checkFortran2003 from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:176) Determine whether the Fortran compiler handles F2003 ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90 Successful compile: Source: module Base_module type, public :: base_type integer :: A contains procedure, public :: Print => BasePrint end type base_type contains subroutine BasePrint(this) class(base_type) :: this end subroutine BasePrint end module Base_module program main use,intrinsic :: iso_c_binding Type(C_Ptr),Dimension(:),Pointer :: CArray character(kind=c_char),pointer :: nullc => null() character(kind=c_char,len=5),dimension(:),pointer::list1 allocate(list1(5)) CArray = (/(c_loc(list1(i)),i=1,5),c_loc(nullc)/) end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "USING_F2003" to "1" Fortran compiler supports F2003 ============================================================================================= TESTING: checkFortran90Array from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:211) Check for F90 array interfaces Executing: uname -s stdout: Linux ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include void f90arraytest_(void* a1, void* a2,void* a3, void* i) { printf("arrays [%p %p %p]\n",a1,a2,a3); fflush(stdout); return; } void f90ptrtest_(void* a1, void* a2,void* a3, void* i, void* p1 ,void* p2, void* p3) { printf("arrays [%p %p %p]\n",a1,a2,a3); if ((p1 == p3) && (p1 != p2)) { printf("pointers match! [%p %p] [%p]\n",p1,p3,p2); fflush(stdout); } else { printf("pointers do not match! [%p %p] [%p]\n",p1,p3,p2); fflush(stdout); exit(111); } return; } ======== Checking running linked program ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90 Successful compile: Source: program main Interface Subroutine f90ptrtest(p1,p2,p3,i) integer, pointer :: p1(:,:) integer, pointer :: p2(:,:) integer, pointer :: p3(:,:) integer i End Subroutine End Interface integer, pointer :: ptr1(:,:),ptr2(:,:) integer, target :: array(6:8,9:21) integer in in = 25 ptr1 => array ptr2 => array call f90arraytest(ptr1,ptr2,ptr1,in) call f90ptrtest(ptr1,ptr2,ptr1,in) end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o /tmp/petsc-eg0070o7/config.compilersFortran/fooobj.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Testing executable /tmp/petsc-eg0070o7/config.compilersFortran/conftest to see if it can be run Executing: /tmp/petsc-eg0070o7/config.compilersFortran/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-eg0070o7/config.compilersFortran/conftest stdout: arrays [0x7ffc55175ca0 0x7ffc55175ca0 0x7ffc55175ca0] arrays [0x7ffc55175be0 0x7ffc55175c40 0x7ffc55175be0] pointers do not match! [0x7f6ee8400780 (nil)] [0x7f6ee637a2cd] ERROR while running executable: Could not execute "['/tmp/petsc-eg0070o7/config.compilersFortran/conftest']": arrays [0x7ffc55175ca0 0x7ffc55175ca0 0x7ffc55175ca0] arrays [0x7ffc55175be0 0x7ffc55175c40 0x7ffc55175be0] pointers do not match! [0x7f6ee8400780 (nil)] [0x7f6ee637a2cd] compilers: F90 uses a single argument for array pointers ============================================================================================= TESTING: checkFortran90AssumedType from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:298) Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -qversion ============================================================================================= TESTING: checkFortranModuleInclude from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:303) Figures out what flag is used to specify the include path for Fortran modules ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90 Successful compile: Source: module configtest integer testint parameter (testint = 42) end module configtest ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilersFortran/confdir -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90 Successful compile: Source: program main use configtest write(*,*) testint end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest -I/tmp/petsc-eg0070o7/config.compilersFortran/confdir -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o /tmp/petsc-eg0070o7/config.compilersFortran/configtest.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : compilers: Fortran module include flag -I found ============================================================================================= TESTING: checkFortranModuleOutput from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:369) Figures out what flag is used to specify the output path for Fortran modules ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -module /tmp/petsc-eg0070o7/config.compilersFortran/confdir -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90 Possible ERROR while running compiler: exit code 1 stderr: gfortran: error: unrecognized command line option ‘-module’ Source: module configtest integer testint parameter (testint = 42) end module configtest compilers: Fortran module output flag -module compile failed ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -module:/tmp/petsc-eg0070o7/config.compilersFortran/confdir -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90 Possible ERROR while running compiler: exit code 1 stderr: gfortran: error: unrecognized command line option ‘-module:/tmp/petsc-eg0070o7/config.compilersFortran/confdir’ Source: module configtest integer testint parameter (testint = 42) end module configtest compilers: Fortran module output flag -module: compile failed ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fmod=/tmp/petsc-eg0070o7/config.compilersFortran/confdir -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90 Possible ERROR while running compiler: exit code 1 stderr: gfortran: error: unrecognized command line option ‘-fmod=/tmp/petsc-eg0070o7/config.compilersFortran/confdir’ Source: module configtest integer testint parameter (testint = 42) end module configtest compilers: Fortran module output flag -fmod= compile failed ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -J/tmp/petsc-eg0070o7/config.compilersFortran/confdir -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90 Successful compile: Source: module configtest integer testint parameter (testint = 42) end module configtest compilers: Fortran module output flag -J found ============================================================================================= TESTING: checkFortranTypeStar from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:135) Determine whether the Fortran compiler handles type(*) ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90 Successful compile: Source: program main interface subroutine a(b) type(*) :: b(:) end subroutine end interface end Defined "HAVE_FORTRAN_TYPE_STAR" to "1" Fortran compiler supports type(*) ============================================================================================= TESTING: checkFortranTypeInitialize from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:125) Determines if PETSc objects in Fortran are initialized by default (doesn't work with common blocks) Defined "FORTRAN_TYPE_INITIALIZE" to " = -2" Initializing Fortran objects ============================================================================================= TESTING: configureFortranFlush from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:116) ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.F90 Successful compile: Source: program main call flush(6) end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilersFortran/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilersFortran/conftest.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_FORTRAN_FLUSH" to "1" ============================================================================================= TESTING: checkDependencyGenerationFlag from config.compilersFortran(config/BuildSystem/config/compilersFortran.py:414) Check if -MMD works for dependency generation, and add it if it does Trying FC compiler flag -MMD -MP Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 -MMD -MP /tmp/petsc-eg0070o7/config.setCompilers/conftest.F90 Successful compile: Source: program main end Output from compiling with -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 -MMD -MP Defined make macro "FC_DEPFLAGS" to "-MMD -MP" child config.compilersFortran 1.247058 ============================================================================================= TESTING: checkStdC from config.headers(config/BuildSystem/config/headers.py:107) ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.headers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c ======== Checking running linked program ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.headers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.headers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #define ISLOWER(c) ('a' <= (c) && (c) <= 'z') #define TOUPPER(c) (ISLOWER(c) ? 'A' + ((c) - 'a') : (c)) #define XOR(e, f) (((e) && !(f)) || (!(e) && (f))) int main() { int i; for(i = 0; i < 256; i++) if (XOR(islower(i), ISLOWER(i)) || toupper(i) != TOUPPER(i)) exit(2); exit(0); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.headers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.headers/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-eg0070o7/config.headers/conftest to see if it can be run Executing: /tmp/petsc-eg0070o7/config.headers/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-eg0070o7/config.headers/conftest ============================================================================================= TESTING: checkStat from config.headers(config/BuildSystem/config/headers.py:140) 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c ============================================================================================= TESTING: checkSysWait from config.headers(config/BuildSystem/config/headers.py:175) Check for POSIX.1 compatible sys/wait.h, and defines HAVE_SYS_WAIT_H if found ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.headers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ============================================================================================= TESTING: checkTime from config.headers(config/BuildSystem/config/headers.py:197) 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_TIME_H" to "1" Checking for header: sys/time.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_TIME_H" to "1" ============================================================================================= TESTING: checkMath from config.headers(config/BuildSystem/config/headers.py:203) Checks for the math headers and defines Checking for header: math.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.headers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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 ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SETJMP_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: dos.h: No such file or directory 3 | #include | ^~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: dos.h: No such file or directory 3 | #include | ^~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: dos.h: No such file or directory 3 | #include | ^~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_FCNTL_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_FLOAT_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: io.h: No such file or directory 3 | #include | ^~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: io.h: No such file or directory 3 | #include | ^~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: io.h: No such file or directory 3 | #include | ^~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_MALLOC_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_PWD_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_STRINGS_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_UNISTD_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_SYSINFO_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: machine/endian.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: machine/endian.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: machine/endian.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_PARAM_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_PROCFS_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_RESOURCE_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: sys/systeminfo.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: sys/systeminfo.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: sys/systeminfo.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_TIMES_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_UTSNAME_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_SOCKET_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_WAIT_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_NETINET_IN_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_NETDB_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: direct.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: direct.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: direct.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_TIME_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: Ws2tcpip.h: No such file or directory 3 | #include | ^~~~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: Ws2tcpip.h: No such file or directory 3 | #include | ^~~~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: Ws2tcpip.h: No such file or directory 3 | #include | ^~~~~~~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_TYPES_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: WindowsX.h: No such file or directory 3 | #include | ^~~~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: WindowsX.h: No such file or directory 3 | #include | ^~~~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: WindowsX.h: No such file or directory 3 | #include | ^~~~~~~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_FLOAT_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: ieeefp.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: ieeefp.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: ieeefp.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_STDINT_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_PTHREAD_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_INTTYPES_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_IMMINTRIN_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: zmmintrin.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: zmmintrin.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: zmmintrin.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SETJMP_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: dos.h: No such file or directory 3 | #include | ^~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: dos.h: No such file or directory 3 | #include | ^~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: dos.h: No such file or directory 3 | #include | ^~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_FCNTL_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_FLOAT_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: io.h: No such file or directory 3 | #include | ^~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: io.h: No such file or directory 3 | #include | ^~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: io.h: No such file or directory 3 | #include | ^~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_MALLOC_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_PWD_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_STRINGS_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_UNISTD_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_SYSINFO_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: machine/endian.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: machine/endian.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: machine/endian.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_PARAM_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_PROCFS_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_RESOURCE_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: sys/systeminfo.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: sys/systeminfo.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: sys/systeminfo.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_TIMES_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_UTSNAME_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_SOCKET_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_WAIT_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_NETINET_IN_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_NETDB_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: direct.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: direct.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: direct.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_TIME_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: Ws2tcpip.h: No such file or directory 3 | #include | ^~~~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: Ws2tcpip.h: No such file or directory 3 | #include | ^~~~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: Ws2tcpip.h: No such file or directory 3 | #include | ^~~~~~~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_TYPES_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: WindowsX.h: No such file or directory 3 | #include | ^~~~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: WindowsX.h: No such file or directory 3 | #include | ^~~~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: WindowsX.h: No such file or directory 3 | #include | ^~~~~~~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_FLOAT_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: ieeefp.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: ieeefp.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: ieeefp.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated.: ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_STDINT_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_PTHREAD_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_INTTYPES_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_IMMINTRIN_H" to "1" ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: zmmintrin.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: zmmintrin.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: zmmintrin.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~ compilation terminated.: ============================================================================================= TESTING: checkRecursiveMacros from config.headers(config/BuildSystem/config/headers.py:218) Checks that the preprocessor allows recursive macros, and if not defines HAVE_BROKEN_RECURSIVE_MACRO ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.headers/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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 2.450052 ============================================================================================= TESTING: configureCacheDetails from config.utilities.cacheDetails(config/BuildSystem/config/utilities/cacheDetails.py:78) Try to determine the size and associativity of the cache. ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.cacheDetails/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } ======== Checking running linked program ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.cacheDetails/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.cacheDetails/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include long getconf_LEVEL1_DCACHE_LINESIZE() { long val = sysconf(_SC_LEVEL1_DCACHE_LINESIZE); return (16 <= val && val <= 2147483647) ? val : 32; } int main() { FILE *output = fopen("conftestval","w"); if (!output) return 1; fprintf(output,"%ld",getconf_LEVEL1_DCACHE_LINESIZE()); fclose(output);; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.utilities.cacheDetails/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.cacheDetails/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-eg0070o7/config.utilities.cacheDetails/conftest to see if it can be run Executing: /tmp/petsc-eg0070o7/config.utilities.cacheDetails/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-eg0070o7/config.utilities.cacheDetails/conftest Defined "LEVEL1_DCACHE_LINESIZE" to "64" child config.utilities.cacheDetails 0.189586 ============================================================================================= TESTING: check_struct_sigaction from config.types(config/BuildSystem/config/types.py:42) Checks if "struct sigaction" exists in signal.h. This check is for C89 check. Checking for type: struct sigaction ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.types/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.types/conftest.c:11:18: warning: unused variable ‘a’ [-Wunused-variable] 11 | 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" ============================================================================================= TESTING: check__int64 from config.types(config/BuildSystem/config/types.py:48) Checks if __int64 exists. This is primarily for windows. Checking for type: __int64 ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.types/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.types/conftest.c:11:1: error: unknown type name ‘__int64’; did you mean ‘__int64_t’? 11 | __int64 a;; | ^~~~~~~ | __int64_t /tmp/petsc-eg0070o7/config.types/conftest.c:11:9: warning: unused variable ‘a’ [-Wunused-variable] 11 | __int64 a;; | ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { __int64 a;; return 0; } __int64 found ============================================================================================= TESTING: checkSizeTypes from config.types(config/BuildSystem/config/types.py:54) Checks for types associated with sizes, such as size_t. Checking for type: size_t ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.types/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.types/conftest.c:11:8: warning: unused variable ‘a’ [-Wunused-variable] 11 | size_t a;; | ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { size_t a;; return 0; } size_t found ============================================================================================= TESTING: checkFileTypes from config.types(config/BuildSystem/config/types.py:64) Checks for types associated with files, such as mode_t, off_t, etc. Checking for type: mode_t ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.types/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.types/conftest.c:11:8: warning: unused variable ‘a’ [-Wunused-variable] 11 | 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 ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.types/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.types/conftest.c:11:7: warning: unused variable ‘a’ [-Wunused-variable] 11 | off_t a;; | ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { off_t a;; return 0; } off_t found ============================================================================================= TESTING: checkIntegerTypes from config.types(config/BuildSystem/config/types.py:59) Checks for types associated with integers, such as int32_t. Checking for type: int32_t ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.types/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.types/conftest.c:11:9: warning: unused variable ‘a’ [-Wunused-variable] 11 | int32_t a;; | ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { int32_t a;; return 0; } int32_t found ============================================================================================= TESTING: checkPID from config.types(config/BuildSystem/config/types.py:70) Checks for pid_t, and defines it if necessary Checking for type: pid_t ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.types/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.types/conftest.c:11:7: warning: unused variable ‘a’ [-Wunused-variable] 11 | pid_t a;; | ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { pid_t a;; return 0; } pid_t found ============================================================================================= TESTING: checkUID from config.types(config/BuildSystem/config/types.py:74) Checks for uid_t and gid_t, and defines them if necessary Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.types /tmp/petsc-eg0070o7/config.types/conftest.c ============================================================================================= TESTING: checkC99Complex from config.types(config/BuildSystem/config/types.py:81) Check for complex numbers in in C99 std Note that since PETSc source code uses _Complex we test specifically for that, not complex ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.types/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.types/conftest.c:6:17: warning: variable ‘x’ set but not used [-Wunused-but-set-variable] 6 | double _Complex x; | ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double _Complex x; x = I; ; return 0; } ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.types/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.types/conftest.c:6:17: warning: variable ‘x’ set but not used [-Wunused-but-set-variable] 6 | double _Complex x; | ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double _Complex x; x = I; ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.o -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.types/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.types/conftest.c:7:17: warning: variable ‘x’ set but not used [-Wunused-but-set-variable] 7 | double _Complex x; | ^ Source: #include "confdefs.h" #include "conffix.h" #define _GNU_SOURCE #include int main() { double _Complex x; x = I; ; return 0; } Defined "HAVE_C99_COMPLEX" to "1" ============================================================================================= TESTING: checkCxxComplex from config.types(config/BuildSystem/config/types.py:95) Check for complex numbers in namespace std ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/config.types/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { std::complex x; ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -o /tmp/petsc-eg0070o7/config.types/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.o -lstdc++ -ldl Defined "HAVE_CXX_COMPLEX" to "1" ============================================================================================= TESTING: checkConst from config.types(config/BuildSystem/config/types.py:106) Checks for working const, and if not found defines it to empty string ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.types/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.types/conftest.c:25:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 25 | if (x[0]); | ^~ /tmp/petsc-eg0070o7/config.types/conftest.c:26:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 26 | { /* SCO 3.2v4 cc rejects this. */ | ^ /tmp/petsc-eg0070o7/config.types/conftest.c:25:10: warning: ‘x[0]’ is used uninitialized in this function [-Wuninitialized] 25 | if (x[0]); | ~^~~ /tmp/petsc-eg0070o7/config.types/conftest.c:30:9: warning: ‘t’ is used uninitialized in this function [-Wuninitialized] 30 | *t++ = 0; | ~^~ /tmp/petsc-eg0070o7/config.types/conftest.c:46:25: warning: ‘b’ is used uninitialized in this function [-Wuninitialized] 46 | 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; } ============================================================================================= TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:162) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: void * ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ============================================================================================= TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:162) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: short ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ============================================================================================= TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:162) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: int ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ============================================================================================= TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:162) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: long ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ============================================================================================= TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:162) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: long long ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ============================================================================================= TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:162) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: enum ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ============================================================================================= TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:162) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: size_t ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" Defined "USING_64BIT_PTR" to "1" ============================================================================================= TESTING: checkVisibility from config.types(config/BuildSystem/config/types.py:196) ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/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" ============================================================================================= TESTING: checkMaxPathLen from config.types(config/BuildSystem/config/types.py:218) Determining PETSC_MAX_PATH_LEN ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #if defined(MAXPATHLEN) # define PETSC_MAX_PATH_LEN MAXPATHLEN #elif defined(MAX_PATH) # define PETSC_MAX_PATH_LEN MAX_PATH #elif defined(_MAX_PATH) # define PETSC_MAX_PATH_LEN _MAX_PATH #else # define PETSC_MAX_PATH_LEN 4096 #endif #define xstr(s) str(s) #define str(s) #s char petsc_max_path_len[] = xstr(PETSC_MAX_PATH_LEN); int main() { ; return 0; } Preprocessing source: #include "confdefs.h" #include "conffix.h" #include #include #if defined(MAXPATHLEN) # define PETSC_MAX_PATH_LEN MAXPATHLEN #elif defined(MAX_PATH) # define PETSC_MAX_PATH_LEN MAX_PATH #elif defined(_MAX_PATH) # define PETSC_MAX_PATH_LEN _MAX_PATH #else # define PETSC_MAX_PATH_LEN 4096 #endif #define xstr(s) str(s) #define str(s) #s char petsc_max_path_len[] = xstr(PETSC_MAX_PATH_LEN); Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.types /tmp/petsc-eg0070o7/config.types/conftest.c Defined "MAX_PATH_LEN" to "4096" child config.types 1.624761 ============================================================================================= 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 0.001434 ============================================================================================= 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'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char handle_sigfpes(); static void _check_handle_sigfpes() { handle_sigfpes(); } int main() { _check_handle_sigfpes();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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 Linker output before filtering: /usr/bin/ld: cannot find -lfpe collect2: error: ld returned 1 exit status : Linker output after filtering: /usr/bin/ld: cannot find -lfpe collect2: error: ld returned 1 exit status: ============================================================================================= 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'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char socket(); static void _check_socket() { socket(); } int main() { _check_socket();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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 Linker output before filtering: /usr/bin/ld: cannot find -lsocket collect2: error: ld returned 1 exit status : Linker output after filtering: /usr/bin/ld: cannot find -lsocket collect2: error: ld returned 1 exit status: ============================================================================================= 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'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char handle_sigfpes(); static void _check_handle_sigfpes() { handle_sigfpes(); } int main() { _check_handle_sigfpes();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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 Linker output before filtering: /usr/bin/ld: cannot find -lfpe collect2: error: ld returned 1 exit status : Linker output after filtering: /usr/bin/ld: cannot find -lfpe collect2: error: ld returned 1 exit status: ============================================================================================= 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'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char socket(); static void _check_socket() { socket(); } int main() { _check_socket();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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 Linker output before filtering: /usr/bin/ld: cannot find -lsocket collect2: error: ld returned 1 exit status : Linker output after filtering: /usr/bin/ld: cannot find -lsocket collect2: error: ld returned 1 exit status: ============================================================================================= TESTING: checkMath from config.libraries(config/BuildSystem/config/libraries.py:286) Check for sin() in libm, the math library Checking for functions [sin floor log10 pow] in library [''] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include double sin(double); static void _check_sin() { double x,y; scanf("%lf",&x); y = sin(x); printf("%f",y); ; } #include double floor(double); static void _check_floor() { double x,y; scanf("%lf",&x); y = floor(x); printf("%f",y); ; } #include double log10(double); static void _check_log10() { double x,y; scanf("%lf",&x); y = log10(x); printf("%f",y); ; } #include double pow(double, double); static void _check_pow() { double x,y; scanf("%lf",&x); y = pow(x,x); printf("%f",y); ; } int main() { _check_sin(); _check_floor(); _check_log10(); _check_pow();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/bin/ld: /tmp/petsc-eg0070o7/config.libraries/conftest.o: undefined reference to symbol 'sin@@GLIBC_2.2.5' //usr/lib64/libm.so.6: error adding symbols: DSO missing from command line collect2: error: ld returned 1 exit status Linker output before filtering: /usr/bin/ld: /tmp/petsc-eg0070o7/config.libraries/conftest.o: undefined reference to symbol 'sin@@GLIBC_2.2.5' //usr/lib64/libm.so.6: error adding symbols: DSO missing from command line collect2: error: ld returned 1 exit status : Linker output after filtering: /usr/bin/ld: /tmp/petsc-eg0070o7/config.libraries/conftest.o: undefined reference to symbol 'sin@@GLIBC_2.2.5' //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'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include double sin(double); static void _check_sin() { double x,y; scanf("%lf",&x); y = sin(x); printf("%f",y); ; } #include double floor(double); static void _check_floor() { double x,y; scanf("%lf",&x); y = floor(x); printf("%f",y); ; } #include double log10(double); static void _check_log10() { double x,y; scanf("%lf",&x); y = log10(x); printf("%f",y); ; } #include double pow(double, double); static void _check_pow() { double x,y; scanf("%lf",&x); y = pow(x,x); printf("%f",y); ; } int main() { _check_sin(); _check_floor(); _check_log10(); _check_pow();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lm -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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); ; } void dummy(void) {_check_sin(); _check_floor(); _check_log10(); _check_pow();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lm -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBM" to "1" CheckMath: using math library ['libm.a'] ============================================================================================= TESTING: checkMathErf from config.libraries(config/BuildSystem/config/libraries.py:305) Check for erf() in libm, the math library Checking for functions [erf] in library ['libm.a'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.c: In function ‘_check_erf’: /tmp/petsc-eg0070o7/config.libraries/conftest.c:5:74: warning: variable ‘y’ set but not used [-Wunused-but-set-variable] 5 | 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lm -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.compilers/conftest.c: In function ‘_check_erf’: /tmp/petsc-eg0070o7/config.compilers/conftest.c:5:74: warning: variable ‘y’ set but not used [-Wunused-but-set-variable] 5 | 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); } void dummy(void) {_check_erf();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lm -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBM" to "1" erf() found Defined "HAVE_ERF" to "1" ============================================================================================= TESTING: checkMathTgamma from config.libraries(config/BuildSystem/config/libraries.py:314) Check for tgamma() in libm, the math library Checking for functions [tgamma] in library ['libm.a'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.c: In function ‘_check_tgamma’: /tmp/petsc-eg0070o7/config.libraries/conftest.c:5:83: warning: variable ‘y’ set but not used [-Wunused-but-set-variable] 5 | 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lm -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.compilers/conftest.c: In function ‘_check_tgamma’: /tmp/petsc-eg0070o7/config.compilers/conftest.c:5:83: warning: variable ‘y’ set but not used [-Wunused-but-set-variable] 5 | 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); } void dummy(void) {_check_tgamma();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lm -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBM" to "1" tgamma() found Defined "HAVE_TGAMMA" to "1" ============================================================================================= TESTING: checkMathLgamma from config.libraries(config/BuildSystem/config/libraries.py:323) Check for lgamma() in libm, the math library Checking for functions [lgamma] in library ['libm.a'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lm -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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(); } void dummy(void) {_check_lgamma();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lm -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBM" to "1" lgamma() found Defined "HAVE_LGAMMA" to "1" ============================================================================================= TESTING: checkMathFenv from config.libraries(config/BuildSystem/config/libraries.py:336) Checks if can be used with FE_DFL_ENV Checking for functions [fesetenv] in library ['libm.a'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_fesetenv() { fesetenv(FE_DFL_ENV);; } int main() { _check_fesetenv();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lm -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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);; } void dummy(void) {_check_fesetenv();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lm -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBM" to "1" Defined "HAVE_FENV_H" to "1" ============================================================================================= TESTING: checkMathLog2 from config.libraries(config/BuildSystem/config/libraries.py:344) Check for log2() in libm, the math library Checking for functions [log2] in library ['libm.a'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.c: In function ‘_check_log2’: /tmp/petsc-eg0070o7/config.libraries/conftest.c:5:81: warning: unused variable ‘y’ [-Wunused-variable] 5 | 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lm -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.compilers/conftest.c: In function ‘_check_log2’: /tmp/petsc-eg0070o7/config.compilers/conftest.c:5:81: warning: unused variable ‘y’ [-Wunused-variable] 5 | 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); } void dummy(void) {_check_log2();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lm -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBM" to "1" log2() found Defined "HAVE_LOG2" to "1" ============================================================================================= TESTING: checkRealtime from config.libraries(config/BuildSystem/config/libraries.py:353) Check for presence of clock_gettime() in realtime library (POSIX Realtime extensions) Checking for functions [clock_gettime] in library [''] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_clock_gettime() { struct timespec tp; clock_gettime(CLOCK_REALTIME,&tp);; } int main() { _check_clock_gettime();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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);; } void dummy(void) {_check_clock_gettime();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : realtime functions are linked in by default ============================================================================================= TESTING: checkDynamic from config.libraries(config/BuildSystem/config/libraries.py:369) Check for the header and libraries necessary for dynamic library manipulation Checking for functions [dlopen] in library ['dl'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char dlopen(); static void _check_dlopen() { dlopen(); } int main() { _check_dlopen();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -ldl -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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(); } void dummy(void) {_check_dlopen();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.compilersFortran -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -ldl -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBDL" to "1" Checking for header: dlfcn.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.types /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_DLFCN_H" to "1" child config.libraries 3.642460 ============================================================================================= TESTING: configureLibraryOptions from PETSc.options.libraryOptions(config/PETSc/options/libraryOptions.py:38) 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" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -qversion Defined "USE_MALLOC_COALESCED" to "1" Defined "USE_INFO" to "1" Defined "USE_CTABLE" to "1" **********Checking if running on BGL/IBM detected Checking for functions [bgl_perfctr_void] in library [''] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char bgl_perfctr_void(); static void _check_bgl_perfctr_void() { bgl_perfctr_void(); } int main() { _check_bgl_perfctr_void();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `bgl_perfctr_void' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.libraries/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `bgl_perfctr_void' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.libraries/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `bgl_perfctr_void' collect2: error: ld returned 1 exit status: Checking for functions [ADIOI_BGL_Open] in library [''] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char ADIOI_BGL_Open(); static void _check_ADIOI_BGL_Open() { ADIOI_BGL_Open(); } int main() { _check_ADIOI_BGL_Open();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `ADIOI_BGL_Open' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.libraries/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `ADIOI_BGL_Open' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.libraries/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `ADIOI_BGL_Open' collect2: error: ld returned 1 exit status: *********BGL/IBM test failure Defined "USE_BACKWARD_LOOP" to "1" Defined "USE_AVX512_KERNELS" to "1" Defined "Alignx(a,b)" to " " ============================================================================================= TESTING: configureISColorValueType from PETSc.options.libraryOptions(config/PETSc/options/libraryOptions.py:99) Sets PETSC_IS_COLORING_VALUE_TYPE, PETSC_MPIU_IS_COLORING_VALUE_TYPE, and PETSC_IS_COLORING_MAX as required by ISColoring Defined "MPIU_IS_COLORING_VALUE_TYPE" to "MPI_UNSIGNED_SHORT" Defined "IS_COLORING_MAX" to "USHRT_MAX" Defined "IS_COLORING_VALUE_TYPE" to "short" Defined "IS_COLORING_VALUE_TYPE_F" to "integer2" child PETSc.options.libraryOptions 0.247234 child config.atomics 0.000012 ============================================================================================= 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] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char sysinfo(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_sysinfo) || defined (__stub___sysinfo) sysinfo_will_always_fail_with_ENOSYS(); #else sysinfo(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_SYSINFO" to "1" ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.c:9:4: error: #error "Cannot check sysinfo without special headers" 9 | # error "Cannot check sysinfo without special headers" | ^~~~~ /tmp/petsc-eg0070o7/config.functions/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.functions/conftest.c:13:30: warning: implicit declaration of function ‘sysinfo’ [-Wimplicit-function-declaration] 13 | 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 ============================================================================================= 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 ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { va_list Argp; vprintf( "%d", Argp ); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl ============================================================================================= 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 ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { va_list Argp; vfprintf(stdout, "%d", Argp ); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl ============================================================================================= 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 ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { va_list Argp;char str[6]; vsnprintf(str,5, "%d", Argp ); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_VSNPRINTF" to "1" ============================================================================================= 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 ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { struct timespec tp; tp.tv_sec = 0; tp.tv_nsec = (long)(1e9); nanosleep(&tp,0); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_NANOSLEEP" to "1" ============================================================================================= 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 ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { char c1[1], c2[1] = "c"; size_t n=1; memmove(c1,c2,n); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_MEMMOVE" to "1" ============================================================================================= 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 ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/config.functions/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include static void myhandler(int sig) {} int main() { signal(SIGFPE,myhandler); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -o /tmp/petsc-eg0070o7/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "SIGNAL_CAST" to " " ============================================================================================= TESTING: checkFreeReturnType from config.functions(config/BuildSystem/config/functions.py:153) Checks whether free returns void or int, and defines HAVE_FREE_RETURN_INT ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.functions/conftest.c:6:25: error: void value not ignored as it ought to be 6 | int ierr; void *p; ierr = free(p); return 0; | ^ /tmp/petsc-eg0070o7/config.functions/conftest.c:6:5: warning: variable ‘ierr’ set but not used [-Wunused-but-set-variable] 6 | 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 ============================================================================================= TESTING: checkVariableArgumentLists from config.functions(config/BuildSystem/config/functions.py:159) Checks whether the variable argument list functionality is working ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { va_list l1, l2; va_copy(l1, l2); return 0; ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_VA_COPY" to "1" ============================================================================================= 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 [_getcwd _snprintf _lseek getrusage stricmp drand48 dlerror access dlclose fork time getwd memalign rand _access usleep getdomainname _set_output_format socket lseek _mkdir strcasecmp sleep clock fpresetsticky realpath fpsetsticky getpagesize popen dlopen _sleep readlink getcwd gethostbyname bzero _pipe gethostname sbreak dlsym PXFGETARG snprintf uname] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.functions/conftest.c:22:6: warning: conflicting types for built-in function ‘fork’; expected ‘int(void)’ [-Wbuiltin-declaration-mismatch] 22 | char fork(); | ^~~~ /tmp/petsc-eg0070o7/config.functions/conftest.c:34:6: warning: conflicting types for built-in function ‘strcasecmp’; expected ‘int(const char *, const char *)’ [-Wbuiltin-declaration-mismatch] 34 | char strcasecmp(); | ^~~~~~~~~~ /tmp/petsc-eg0070o7/config.functions/conftest.c:47:6: warning: conflicting types for built-in function ‘bzero’; expected ‘void(void *, long unsigned int)’ [-Wbuiltin-declaration-mismatch] 47 | char bzero(); | ^~~~~ /tmp/petsc-eg0070o7/config.functions/conftest.c:53:6: warning: conflicting types for built-in function ‘snprintf’; expected ‘int(char *, long unsigned int, const char *, ...)’ [-Wbuiltin-declaration-mismatch] 53 | char snprintf(); | ^~~~~~~~ /tmp/petsc-eg0070o7/config.functions/conftest.c:6:1: note: ‘snprintf’ is declared in header ‘’ 5 | #include +++ |+#include 6 | /* Override any gcc2 internal prototype to avoid an error. */ 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(); char _snprintf(); char _lseek(); char getrusage(); char stricmp(); char drand48(); char dlerror(); char access(); char dlclose(); char fork(); char time(); char getwd(); char memalign(); char rand(); char _access(); char usleep(); char getdomainname(); char _set_output_format(); char socket(); char lseek(); char _mkdir(); char strcasecmp(); char sleep(); char clock(); char fpresetsticky(); char realpath(); char fpsetsticky(); char getpagesize(); char popen(); char dlopen(); char _sleep(); char readlink(); char getcwd(); char gethostbyname(); char bzero(); char _pipe(); char gethostname(); char sbreak(); char dlsym(); char PXFGETARG(); char snprintf(); char uname(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__getcwd) || defined (__stub____getcwd) _getcwd_will_always_fail_with_ENOSYS(); #else _getcwd(); #endif #if defined (__stub__snprintf) || defined (__stub____snprintf) _snprintf_will_always_fail_with_ENOSYS(); #else _snprintf(); #endif #if defined (__stub__lseek) || defined (__stub____lseek) _lseek_will_always_fail_with_ENOSYS(); #else _lseek(); #endif #if defined (__stub_getrusage) || defined (__stub___getrusage) getrusage_will_always_fail_with_ENOSYS(); #else getrusage(); #endif #if defined (__stub_stricmp) || defined (__stub___stricmp) stricmp_will_always_fail_with_ENOSYS(); #else stricmp(); #endif #if defined (__stub_drand48) || defined (__stub___drand48) drand48_will_always_fail_with_ENOSYS(); #else drand48(); #endif #if defined (__stub_dlerror) || defined (__stub___dlerror) dlerror_will_always_fail_with_ENOSYS(); #else dlerror(); #endif #if defined (__stub_access) || defined (__stub___access) access_will_always_fail_with_ENOSYS(); #else access(); #endif #if defined (__stub_dlclose) || defined (__stub___dlclose) dlclose_will_always_fail_with_ENOSYS(); #else dlclose(); #endif #if defined (__stub_fork) || defined (__stub___fork) fork_will_always_fail_with_ENOSYS(); #else fork(); #endif #if defined (__stub_time) || defined (__stub___time) time_will_always_fail_with_ENOSYS(); #else time(); #endif #if defined (__stub_getwd) || defined (__stub___getwd) getwd_will_always_fail_with_ENOSYS(); #else getwd(); #endif #if defined (__stub_memalign) || defined (__stub___memalign) memalign_will_always_fail_with_ENOSYS(); #else memalign(); #endif #if defined (__stub_rand) || defined (__stub___rand) rand_will_always_fail_with_ENOSYS(); #else rand(); #endif #if defined (__stub__access) || defined (__stub____access) _access_will_always_fail_with_ENOSYS(); #else _access(); #endif #if defined (__stub_usleep) || defined (__stub___usleep) usleep_will_always_fail_with_ENOSYS(); #else usleep(); #endif #if defined (__stub_getdomainname) || defined (__stub___getdomainname) getdomainname_will_always_fail_with_ENOSYS(); #else getdomainname(); #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_socket) || defined (__stub___socket) socket_will_always_fail_with_ENOSYS(); #else socket(); #endif #if defined (__stub_lseek) || defined (__stub___lseek) lseek_will_always_fail_with_ENOSYS(); #else lseek(); #endif #if defined (__stub__mkdir) || defined (__stub____mkdir) _mkdir_will_always_fail_with_ENOSYS(); #else _mkdir(); #endif #if defined (__stub_strcasecmp) || defined (__stub___strcasecmp) strcasecmp_will_always_fail_with_ENOSYS(); #else strcasecmp(); #endif #if defined (__stub_sleep) || defined (__stub___sleep) sleep_will_always_fail_with_ENOSYS(); #else sleep(); #endif #if defined (__stub_clock) || defined (__stub___clock) clock_will_always_fail_with_ENOSYS(); #else clock(); #endif #if defined (__stub_fpresetsticky) || defined (__stub___fpresetsticky) fpresetsticky_will_always_fail_with_ENOSYS(); #else fpresetsticky(); #endif #if defined (__stub_realpath) || defined (__stub___realpath) realpath_will_always_fail_with_ENOSYS(); #else realpath(); #endif #if defined (__stub_fpsetsticky) || defined (__stub___fpsetsticky) fpsetsticky_will_always_fail_with_ENOSYS(); #else fpsetsticky(); #endif #if defined (__stub_getpagesize) || defined (__stub___getpagesize) getpagesize_will_always_fail_with_ENOSYS(); #else getpagesize(); #endif #if defined (__stub_popen) || defined (__stub___popen) popen_will_always_fail_with_ENOSYS(); #else popen(); #endif #if defined (__stub_dlopen) || defined (__stub___dlopen) dlopen_will_always_fail_with_ENOSYS(); #else dlopen(); #endif #if defined (__stub__sleep) || defined (__stub____sleep) _sleep_will_always_fail_with_ENOSYS(); #else _sleep(); #endif #if defined (__stub_readlink) || defined (__stub___readlink) readlink_will_always_fail_with_ENOSYS(); #else readlink(); #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_bzero) || defined (__stub___bzero) bzero_will_always_fail_with_ENOSYS(); #else bzero(); #endif #if defined (__stub__pipe) || defined (__stub____pipe) _pipe_will_always_fail_with_ENOSYS(); #else _pipe(); #endif #if defined (__stub_gethostname) || defined (__stub___gethostname) gethostname_will_always_fail_with_ENOSYS(); #else gethostname(); #endif #if defined (__stub_sbreak) || defined (__stub___sbreak) sbreak_will_always_fail_with_ENOSYS(); #else sbreak(); #endif #if defined (__stub_dlsym) || defined (__stub___dlsym) dlsym_will_always_fail_with_ENOSYS(); #else dlsym(); #endif #if defined (__stub_PXFGETARG) || defined (__stub___PXFGETARG) PXFGETARG_will_always_fail_with_ENOSYS(); #else PXFGETARG(); #endif #if defined (__stub_snprintf) || defined (__stub___snprintf) snprintf_will_always_fail_with_ENOSYS(); #else snprintf(); #endif #if defined (__stub_uname) || defined (__stub___uname) uname_will_always_fail_with_ENOSYS(); #else uname(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x54): warning: the `getwd' function is dangerous and should not be used. conftest.c:(.text.startup+0x7): undefined reference to `_getcwd' conftest.c:(.text.startup+0xe): undefined reference to `_snprintf' conftest.c:(.text.startup+0x15): undefined reference to `_lseek' conftest.c:(.text.startup+0x23): undefined reference to `stricmp' conftest.c:(.text.startup+0x69): undefined reference to `_access' conftest.c:(.text.startup+0x7e): undefined reference to `_set_output_format' conftest.c:(.text.startup+0x93): undefined reference to `_mkdir' conftest.c:(.text.startup+0xaf): undefined reference to `fpresetsticky' conftest.c:(.text.startup+0xbd): undefined reference to `fpsetsticky' conftest.c:(.text.startup+0xd9): undefined reference to `_sleep' conftest.c:(.text.startup+0xfc): undefined reference to `_pipe' conftest.c:(.text.startup+0x10a): undefined reference to `sbreak' conftest.c:(.text.startup+0x118): undefined reference to `PXFGETARG' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x54): warning: the `getwd' function is dangerous and should not be used. conftest.c:(.text.startup+0x7): undefined reference to `_getcwd' conftest.c:(.text.startup+0xe): undefined reference to `_snprintf' conftest.c:(.text.startup+0x15): undefined reference to `_lseek' conftest.c:(.text.startup+0x23): undefined reference to `stricmp' conftest.c:(.text.startup+0x69): undefined reference to `_access' conftest.c:(.text.startup+0x7e): undefined reference to `_set_output_format' conftest.c:(.text.startup+0x93): undefined reference to `_mkdir' conftest.c:(.text.startup+0xaf): undefined reference to `fpresetsticky' conftest.c:(.text.startup+0xbd): undefined reference to `fpsetsticky' conftest.c:(.text.startup+0xd9): undefined reference to `_sleep' conftest.c:(.text.startup+0xfc): undefined reference to `_pipe' conftest.c:(.text.startup+0x10a): undefined reference to `sbreak' conftest.c:(.text.startup+0x118): undefined reference to `PXFGETARG' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x54): warning: the `getwd' function is dangerous and should not be used. conftest.c:(.text.startup+0x7): undefined reference to `_getcwd' conftest.c:(.text.startup+0xe): undefined reference to `_snprintf' conftest.c:(.text.startup+0x15): undefined reference to `_lseek' conftest.c:(.text.startup+0x23): undefined reference to `stricmp' conftest.c:(.text.startup+0x69): undefined reference to `_access' conftest.c:(.text.startup+0x7e): undefined reference to `_set_output_format' conftest.c:(.text.startup+0x93): undefined reference to `_mkdir' conftest.c:(.text.startup+0xaf): undefined reference to `fpresetsticky' conftest.c:(.text.startup+0xbd): undefined reference to `fpsetsticky' conftest.c:(.text.startup+0xd9): undefined reference to `_sleep' conftest.c:(.text.startup+0xfc): undefined reference to `_pipe' conftest.c:(.text.startup+0x10a): undefined reference to `sbreak' conftest.c:(.text.startup+0x118): undefined reference to `PXFGETARG' collect2: error: ld returned 1 exit status: Checking for functions [getrusage drand48 dlerror dlclose fork time memalign rand usleep getdomainname socket] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.functions/conftest.c:17:6: warning: conflicting types for built-in function ‘fork’; expected ‘int(void)’ [-Wbuiltin-declaration-mismatch] 17 | char fork(); | ^~~~ Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char getrusage(); char drand48(); char dlerror(); char dlclose(); char fork(); char time(); char memalign(); char rand(); char usleep(); char getdomainname(); char socket(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_getrusage) || defined (__stub___getrusage) getrusage_will_always_fail_with_ENOSYS(); #else getrusage(); #endif #if defined (__stub_drand48) || defined (__stub___drand48) drand48_will_always_fail_with_ENOSYS(); #else drand48(); #endif #if defined (__stub_dlerror) || defined (__stub___dlerror) dlerror_will_always_fail_with_ENOSYS(); #else dlerror(); #endif #if defined (__stub_dlclose) || defined (__stub___dlclose) dlclose_will_always_fail_with_ENOSYS(); #else dlclose(); #endif #if defined (__stub_fork) || defined (__stub___fork) fork_will_always_fail_with_ENOSYS(); #else fork(); #endif #if defined (__stub_time) || defined (__stub___time) time_will_always_fail_with_ENOSYS(); #else time(); #endif #if defined (__stub_memalign) || defined (__stub___memalign) memalign_will_always_fail_with_ENOSYS(); #else memalign(); #endif #if defined (__stub_rand) || defined (__stub___rand) rand_will_always_fail_with_ENOSYS(); #else rand(); #endif #if defined (__stub_usleep) || defined (__stub___usleep) usleep_will_always_fail_with_ENOSYS(); #else usleep(); #endif #if defined (__stub_getdomainname) || defined (__stub___getdomainname) getdomainname_will_always_fail_with_ENOSYS(); #else getdomainname(); #endif #if defined (__stub_socket) || defined (__stub___socket) socket_will_always_fail_with_ENOSYS(); #else socket(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_GETRUSAGE" to "1" Defined "HAVE_DRAND48" to "1" Defined "HAVE_DLERROR" to "1" Defined "HAVE_DLCLOSE" to "1" Defined "HAVE_FORK" to "1" Defined "HAVE_TIME" to "1" Defined "HAVE_MEMALIGN" to "1" Defined "HAVE_RAND" to "1" Defined "HAVE_USLEEP" to "1" Defined "HAVE_GETDOMAINNAME" to "1" Defined "HAVE_SOCKET" to "1" Checking for functions [strcasecmp clock realpath getpagesize popen dlopen readlink gethostbyname bzero gethostname dlsym uname] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.functions/conftest.c:13:6: warning: conflicting types for built-in function ‘strcasecmp’; expected ‘int(const char *, const char *)’ [-Wbuiltin-declaration-mismatch] 13 | char strcasecmp(); | ^~~~~~~~~~ /tmp/petsc-eg0070o7/config.functions/conftest.c:21:6: warning: conflicting types for built-in function ‘bzero’; expected ‘void(void *, long unsigned int)’ [-Wbuiltin-declaration-mismatch] 21 | 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 strcasecmp(); char clock(); char realpath(); char getpagesize(); char popen(); char dlopen(); char readlink(); char gethostbyname(); char bzero(); char gethostname(); char dlsym(); char uname(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_strcasecmp) || defined (__stub___strcasecmp) strcasecmp_will_always_fail_with_ENOSYS(); #else strcasecmp(); #endif #if defined (__stub_clock) || defined (__stub___clock) clock_will_always_fail_with_ENOSYS(); #else clock(); #endif #if defined (__stub_realpath) || defined (__stub___realpath) realpath_will_always_fail_with_ENOSYS(); #else realpath(); #endif #if defined (__stub_getpagesize) || defined (__stub___getpagesize) getpagesize_will_always_fail_with_ENOSYS(); #else getpagesize(); #endif #if defined (__stub_popen) || defined (__stub___popen) popen_will_always_fail_with_ENOSYS(); #else popen(); #endif #if defined (__stub_dlopen) || defined (__stub___dlopen) dlopen_will_always_fail_with_ENOSYS(); #else dlopen(); #endif #if defined (__stub_readlink) || defined (__stub___readlink) readlink_will_always_fail_with_ENOSYS(); #else readlink(); #endif #if defined (__stub_gethostbyname) || defined (__stub___gethostbyname) gethostbyname_will_always_fail_with_ENOSYS(); #else gethostbyname(); #endif #if defined (__stub_bzero) || defined (__stub___bzero) bzero_will_always_fail_with_ENOSYS(); #else bzero(); #endif #if defined (__stub_gethostname) || defined (__stub___gethostname) gethostname_will_always_fail_with_ENOSYS(); #else gethostname(); #endif #if defined (__stub_dlsym) || defined (__stub___dlsym) dlsym_will_always_fail_with_ENOSYS(); #else dlsym(); #endif #if defined (__stub_uname) || defined (__stub___uname) uname_will_always_fail_with_ENOSYS(); #else uname(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_STRCASECMP" to "1" Defined "HAVE_CLOCK" to "1" Defined "HAVE_REALPATH" to "1" Defined "HAVE_GETPAGESIZE" to "1" Defined "HAVE_POPEN" to "1" Defined "HAVE_DLOPEN" to "1" Defined "HAVE_READLINK" to "1" Defined "HAVE_GETHOSTBYNAME" to "1" Defined "HAVE_BZERO" to "1" Defined "HAVE_GETHOSTNAME" to "1" Defined "HAVE_DLSYM" to "1" Defined "HAVE_UNAME" to "1" Checking for functions [_getcwd] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _getcwd(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__getcwd) || defined (__stub____getcwd) _getcwd_will_always_fail_with_ENOSYS(); #else _getcwd(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_getcwd' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_getcwd' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_getcwd' collect2: error: ld returned 1 exit status: Checking for functions [_snprintf] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _snprintf(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__snprintf) || defined (__stub____snprintf) _snprintf_will_always_fail_with_ENOSYS(); #else _snprintf(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_snprintf' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_snprintf' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_snprintf' collect2: error: ld returned 1 exit status: Checking for functions [_lseek] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _lseek(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__lseek) || defined (__stub____lseek) _lseek_will_always_fail_with_ENOSYS(); #else _lseek(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_lseek' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_lseek' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_lseek' collect2: error: ld returned 1 exit status: Checking for functions [stricmp] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char stricmp(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_stricmp) || defined (__stub___stricmp) stricmp_will_always_fail_with_ENOSYS(); #else stricmp(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `stricmp' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `stricmp' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `stricmp' collect2: error: ld returned 1 exit status: Checking for functions [access] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char access(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_access) || defined (__stub___access) access_will_always_fail_with_ENOSYS(); #else access(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_ACCESS" to "1" Checking for functions [getwd] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char getwd(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_getwd) || defined (__stub___getwd) getwd_will_always_fail_with_ENOSYS(); #else getwd(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): warning: the `getwd' function is dangerous and should not be used. Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): warning: the `getwd' function is dangerous and should not be used. : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): warning: the `getwd' function is dangerous and should not be used.: Checking for functions [_access] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _access(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__access) || defined (__stub____access) _access_will_always_fail_with_ENOSYS(); #else _access(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_access' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_access' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_access' collect2: error: ld returned 1 exit status: Checking for functions [_set_output_format] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _set_output_format(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__set_output_format) || defined (__stub____set_output_format) _set_output_format_will_always_fail_with_ENOSYS(); #else _set_output_format(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_set_output_format' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_set_output_format' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_set_output_format' collect2: error: ld returned 1 exit status: Checking for functions [lseek] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char lseek(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_lseek) || defined (__stub___lseek) lseek_will_always_fail_with_ENOSYS(); #else lseek(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_LSEEK" to "1" Checking for functions [_mkdir] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _mkdir(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__mkdir) || defined (__stub____mkdir) _mkdir_will_always_fail_with_ENOSYS(); #else _mkdir(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_mkdir' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_mkdir' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_mkdir' collect2: error: ld returned 1 exit status: Checking for functions [sleep] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char sleep(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_sleep) || defined (__stub___sleep) sleep_will_always_fail_with_ENOSYS(); #else sleep(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_SLEEP" to "1" Checking for functions [fpresetsticky] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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 fpresetsticky(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_fpresetsticky) || defined (__stub___fpresetsticky) fpresetsticky_will_always_fail_with_ENOSYS(); #else fpresetsticky(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `fpresetsticky' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `fpresetsticky' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `fpresetsticky' collect2: error: ld returned 1 exit status: Checking for functions [fpsetsticky] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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 fpsetsticky(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_fpsetsticky) || defined (__stub___fpsetsticky) fpsetsticky_will_always_fail_with_ENOSYS(); #else fpsetsticky(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `fpsetsticky' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `fpsetsticky' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `fpsetsticky' collect2: error: ld returned 1 exit status: Checking for functions [_sleep] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _sleep(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__sleep) || defined (__stub____sleep) _sleep_will_always_fail_with_ENOSYS(); #else _sleep(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_sleep' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_sleep' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_sleep' collect2: error: ld returned 1 exit status: Checking for functions [getcwd] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char getcwd(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_getcwd) || defined (__stub___getcwd) getcwd_will_always_fail_with_ENOSYS(); #else getcwd(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_GETCWD" to "1" Checking for functions [_pipe] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_pipe' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_pipe' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `_pipe' collect2: error: ld returned 1 exit status: Checking for functions [sbreak] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char sbreak(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_sbreak) || defined (__stub___sbreak) sbreak_will_always_fail_with_ENOSYS(); #else sbreak(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `sbreak' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `sbreak' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `sbreak' collect2: error: ld returned 1 exit status: Checking for functions [PXFGETARG] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char PXFGETARG(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_PXFGETARG) || defined (__stub___PXFGETARG) PXFGETARG_will_always_fail_with_ENOSYS(); #else PXFGETARG(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `PXFGETARG' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `PXFGETARG' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.functions/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `PXFGETARG' collect2: error: ld returned 1 exit status: Checking for functions [snprintf] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.functions/conftest.c:13:6: warning: conflicting types for built-in function ‘snprintf’; expected ‘int(char *, long unsigned int, const char *, ...)’ [-Wbuiltin-declaration-mismatch] 13 | char snprintf(); | ^~~~~~~~ /tmp/petsc-eg0070o7/config.functions/conftest.c:6:1: note: ‘snprintf’ is declared in header ‘’ 5 | #include +++ |+#include 6 | /* Override any gcc2 internal prototype to avoid an error. */ Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char snprintf(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_snprintf) || defined (__stub___snprintf) snprintf_will_always_fail_with_ENOSYS(); #else snprintf(); #endif ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_SNPRINTF" to "1" ============================================================================================= TESTING: checkMmap from config.functions(config/BuildSystem/config/functions.py:179) Check for functional mmap() to allocate shared memory and define HAVE_MMAP ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.functions/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include int main() { int fd; fd=open("/tmp/file",O_RDWR); mmap((void*)0,100,PROT_READ|PROT_WRITE,MAP_SHARED,fd,0); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_MMAP" to "1" child config.functions 3.709993 ============================================================================================= 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 0.001374 ============================================================================================= TESTING: configureFortranCommandLine from config.utilities.fortranCommandLine(config/BuildSystem/config/utilities/fortranCommandLine.py:27) Check for the mechanism to retrieve command line arguments in Fortran Checking for functions [] in library [''] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.F90 Successful compile: Source: program main integer i character*(80) arg i = command_argument_count() call get_command_argument(i,arg) end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_FORTRAN_GET_COMMAND_ARGUMENT" to "1" child config.utilities.fortranCommandLine 0.130287 ============================================================================================= 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.types /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: sigfpe.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: sigfpe.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: sigfpe.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated.: Checking for header: fpxcp.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.types /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: fpxcp.h: No such file or directory 3 | #include | ^~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: fpxcp.h: No such file or directory 3 | #include | ^~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: fpxcp.h: No such file or directory 3 | #include | ^~~~~~~~~ compilation terminated.: Checking for header: floatingpoint.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.types /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: floatingpoint.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: floatingpoint.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: floatingpoint.h: No such file or directory 3 | #include | ^~~~~~~~~~~~~~~~~ compilation terminated.: child config.utilities.FPTrap 0.073394 ============================================================================================= TESTING: configureFeatureTestMacros from config.utilities.featureTestMacros(config/BuildSystem/config/utilities/featureTestMacros.py:13) Checks if certain feature test macros are support ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.featureTestMacros/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.utilities.featureTestMacros/conftest.c:4:10: fatal error: sysctl.h: No such file or directory 4 | #include | ^~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #define _POSIX_C_SOURCE 200112L #include int main() { ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.featureTestMacros/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #define _GNU_SOURCE #include #include int main() { Dl_info info; if (dladdr(exit, &info)) return 0;; return 0; } Defined "_GNU_SOURCE" to "1" child config.utilities.featureTestMacros 0.223125 ============================================================================================= TESTING: configureMissingUtypeTypedefs from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:55) Checks if u_short is undefined ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c:6:9: warning: unused variable ‘foo’ [-Wunused-variable] 6 | u_short foo; | ^~~ Source: #include "confdefs.h" #include "conffix.h" #include int main() { u_short foo; ; return 0; } ============================================================================================= TESTING: configureMissingFunctions from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:61) Checks for SOCKETS ============================================================================================= TESTING: configureMissingSignals from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:79) Check for missing signals, and define MISSING_ if necessary ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGABRT; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGALRM; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGBUS; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGCHLD; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGCONT; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGFPE; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGHUP; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGILL; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGINT; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGKILL; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGPIPE; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGQUIT; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGSEGV; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGSTOP; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGSYS; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGTERM; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGTRAP; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGTSTP; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGURG; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGUSR1; if (i); ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGUSR2; if (i); ; return 0; } ============================================================================================= TESTING: configureMissingGetdomainnamePrototype from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:96) ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #if !defined(_BSD_SOURCE) #define _BSD_SOURCE #endif #if !defined(_DEFAULT_SOURCE) #define _DEFAULT_SOURCE #endif #if !defined(_GNU_SOURCE) #define _GNU_SOURCE #endif #ifdef PETSC_HAVE_UNISTD_H #include #endif #ifdef PETSC_HAVE_NETDB_H #include #endif int main() { int (*getdomainname_ptr)(char*,size_t) = getdomainname; char test[10]; if (getdomainname_ptr(test,10)) return 1; ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -lstdc++ -ldl ============================================================================================= TESTING: configureMissingSrandPrototype from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:121) ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -o /tmp/petsc-eg0070o7/config.utilities.missing/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.utilities.missing/conftest.o -lstdc++ -ldl child config.utilities.missing 1.458225 ============================================================================================= TESTING: checkSharedDynamicPicOptions from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:34) ============================================================================================= TESTING: configureSharedLibraries from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:49) 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 Executing: uname -s stdout: Linux Defined make rule "shared_arch" with dependencies "shared_linux" and code [] Defined make macro "SONAME_FUNCTION" to "$(1).$(SL_LINKER_SUFFIX).$(2)" Defined make macro "SL_LINKER_FUNCTION" to " -shared -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -Wl,-soname,$(call SONAME_FUNCTION,$(notdir $(1)),$(2))" Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -v Defined make macro "BUILDSHAREDLIB" to "yes" Defined "USE_SHARED_LIBRARIES" to "1" ============================================================================================= TESTING: configureDynamicLibraries from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:93) Checks whether dynamic loading is available (with dlfcn.h and libdl) Defined "HAVE_DYNAMIC_LIBRARIES" to "1" ============================================================================================= TESTING: configureSerializedFunctions from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:99) Defines PETSC_SERIALIZE_FUNCTIONS if they are used Requires shared libraries ============================================================================================= TESTING: checkSymbolResolution from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:108) Checks that dladdr() works ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.options.sharedLibraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.options.sharedLibraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #define _GNU_SOURCE #include #include int main() { Dl_info info; if (dladdr(exit, &info)) return 0; ; return 0; } Defined "HAVE_DLADDR" to "1" Checking for header: cxxabi.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.types /tmp/petsc-eg0070o7/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "" # 1 "" # 31 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 32 "" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conftest.c" # 1 "/tmp/petsc-eg0070o7/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 # 1 "/tmp/petsc-eg0070o7/config.headers/conffix.h" 1 # 3 "/tmp/petsc-eg0070o7/config.headers/conftest.c" 2 stderr: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: cxxabi.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess output before filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: cxxabi.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated. : Preprocess output after filtering: /tmp/petsc-eg0070o7/config.headers/conftest.c:3:10: fatal error: cxxabi.h: No such file or directory 3 | #include | ^~~~~~~~~~ compilation terminated.: child PETSc.options.sharedLibraries 0.102033 ============================================================================================= TESTING: configureScalarType from PETSc.options.scalarTypes(config/PETSc/options/scalarTypes.py:39) Choose between real and complex numbers Scalar type is real ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.c:6:21: warning: unused variable ‘a’ [-Wunused-variable] 6 | 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.o -lstdc++ -ldl Defined "HAVE_ISNORMAL" to "1" ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.c:6:21: warning: unused variable ‘a’ [-Wunused-variable] 6 | 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.o -lstdc++ -ldl Defined "HAVE_ISNAN" to "1" ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.c:6:21: warning: unused variable ‘a’ [-Wunused-variable] 6 | 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.options.scalarTypes/conftest.o -lstdc++ -ldl Defined "HAVE_ISINF" to "1" ============================================================================================= TESTING: configurePrecision from PETSc.options.scalarTypes(config/PETSc/options/scalarTypes.py:80) Set the default real number precision for PETSc objects Checking C compiler works with __float128 Checking for functions [logq] in library ['quadmath'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.c: In function ‘_check_logq’: /tmp/petsc-eg0070o7/config.libraries/conftest.c:5:43: warning: ‘f’ is used uninitialized in this function [-Wuninitialized] 5 | static void _check_logq() { __float128 f; logq(f);; } | ^~~~~~~ /tmp/petsc-eg0070o7/config.libraries/conftest.c:5:40: note: ‘f’ was declared here 5 | static void _check_logq() { __float128 f; logq(f);; } | ^ 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lquadmath -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.compilers/conftest.c: In function ‘_check_logq’: /tmp/petsc-eg0070o7/config.compilers/conftest.c:5:43: warning: ‘f’ is used uninitialized in this function [-Wuninitialized] 5 | static void _check_logq() { __float128 f; logq(f);; } | ^~~~~~~ /tmp/petsc-eg0070o7/config.compilers/conftest.c:5:40: note: ‘f’ was declared here 5 | static void _check_logq() { __float128 f; logq(f);; } | ^ 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);; } void dummy(void) {_check_logq();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBQUADMATH" to "1" C compiler with quadmath library Checking Fortran works with quadmath library Checking for functions [ ] in library ['quadmath'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.F90 Successful compile: Source: program main real*16 s,w; w = 2.0 ;s = cos(w) end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Fortran works with quadmath library Checking for functions [logq] in library ['quadmath'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.c: In function ‘_check_logq’: /tmp/petsc-eg0070o7/config.libraries/conftest.c:5:43: warning: ‘f’ is used uninitialized in this function [-Wuninitialized] 5 | static void _check_logq() { __float128 f; logq(f);; } | ^~~~~~~ /tmp/petsc-eg0070o7/config.libraries/conftest.c:5:40: note: ‘f’ was declared here 5 | static void _check_logq() { __float128 f; logq(f);; } | ^ 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lquadmath -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.compilers/conftest.c: In function ‘_check_logq’: /tmp/petsc-eg0070o7/config.compilers/conftest.c:5:43: warning: ‘f’ is used uninitialized in this function [-Wuninitialized] 5 | static void _check_logq() { __float128 f; logq(f);; } | ^~~~~~~ /tmp/petsc-eg0070o7/config.compilers/conftest.c:5:40: note: ‘f’ was declared here 5 | static void _check_logq() { __float128 f; logq(f);; } | ^ 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);; } void dummy(void) {_check_logq();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBQUADMATH" to "1" Adding ['quadmath'] to LIBS Defined "HAVE_REAL___FLOAT128" to "1" Defined "USE_REAL_DOUBLE" to "1" Defined make macro "PETSC_SCALAR_SIZE" to "64" Precision is double child PETSc.options.scalarTypes 1.121823 ============================================================================================= TESTING: configureMkdir from config.programs(config/BuildSystem/config/programs.py:22) Make sure we can have mkdir automatically make intermediate directories Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/mkdir...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/mkdir...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/mkdir...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/mkdir...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/mkdir...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/mkdir...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mkdir...not found Checking for program /scratch/app/cmake/3.17.3/bin/mkdir...not found Checking for program /scratch/app/gcc/9.3/bin/mkdir...not found Checking for program /opt/xcs/App/Scripts/mkdir...not found Checking for program /specific/bin/mkdir...not found Checking for program /usr/local/bin/mkdir...not found Checking for program /usr/bin/mkdir...found 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" ============================================================================================= TESTING: configureAutoreconf from config.programs(config/BuildSystem/config/programs.py:44) Check for autoreconf Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/autoreconf...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/autoreconf...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/autoreconf...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/autoreconf...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/autoreconf...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/autoreconf...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/autoreconf...not found Checking for program /scratch/app/cmake/3.17.3/bin/autoreconf...not found Checking for program /scratch/app/gcc/9.3/bin/autoreconf...not found Checking for program /opt/xcs/App/Scripts/autoreconf...not found Checking for program /specific/bin/autoreconf...not found Checking for program /usr/local/bin/autoreconf...not found Checking for program /usr/bin/autoreconf...found Executing: ['/usr/bin/autoreconf'] autoreconf test successful! Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/libtoolize...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/libtoolize...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/libtoolize...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/libtoolize...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/libtoolize...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/libtoolize...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/libtoolize...not found Checking for program /scratch/app/cmake/3.17.3/bin/libtoolize...not found Checking for program /scratch/app/gcc/9.3/bin/libtoolize...not found Checking for program /opt/xcs/App/Scripts/libtoolize...not found Checking for program /specific/bin/libtoolize...not found Checking for program /usr/local/bin/libtoolize...not found Checking for program /usr/bin/libtoolize...found ============================================================================================= TESTING: configurePrograms from config.programs(config/BuildSystem/config/programs.py:71) Check for the programs needed to build and run PETSc Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/bash...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/bash...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/bash...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/bash...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/bash...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/bash...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/bash...not found Checking for program /scratch/app/cmake/3.17.3/bin/bash...not found Checking for program /scratch/app/gcc/9.3/bin/bash...not found Checking for program /opt/xcs/App/Scripts/bash...not found Checking for program /specific/bin/bash...not found Checking for program /usr/local/bin/bash...not found Checking for program /usr/bin/bash...found Defined make macro "SHELL" to "/usr/bin/bash" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/sed...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/sed...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/sed...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/sed...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/sed...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/sed...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/sed...not found Checking for program /scratch/app/cmake/3.17.3/bin/sed...not found Checking for program /scratch/app/gcc/9.3/bin/sed...not found Checking for program /opt/xcs/App/Scripts/sed...not found Checking for program /specific/bin/sed...not found Checking for program /usr/local/bin/sed...not found Checking for program /usr/bin/sed...found Defined make macro "SED" to "/usr/bin/sed" Executing: /usr/bin/sed -i s/sed/sd/g "/tmp/petsc-eg0070o7/config.programs/sed1" Adding SEDINPLACE cmd: /usr/bin/sed -i Defined make macro "SEDINPLACE" to "/usr/bin/sed -i" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/mv...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/mv...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/mv...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/mv...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/mv...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/mv...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mv...not found Checking for program /scratch/app/cmake/3.17.3/bin/mv...not found Checking for program /scratch/app/gcc/9.3/bin/mv...not found Checking for program /opt/xcs/App/Scripts/mv...not found Checking for program /specific/bin/mv...not found Checking for program /usr/local/bin/mv...not found Checking for program /usr/bin/mv...found Defined make macro "MV" to "/usr/bin/mv" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/cp...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/cp...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/cp...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/cp...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/cp...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/cp...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/cp...not found Checking for program /scratch/app/cmake/3.17.3/bin/cp...not found Checking for program /scratch/app/gcc/9.3/bin/cp...not found Checking for program /opt/xcs/App/Scripts/cp...not found Checking for program /specific/bin/cp...not found Checking for program /usr/local/bin/cp...not found Checking for program /usr/bin/cp...found Defined make macro "CP" to "/usr/bin/cp" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/grep...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/grep...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/grep...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/grep...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/grep...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/grep...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/grep...not found Checking for program /scratch/app/cmake/3.17.3/bin/grep...not found Checking for program /scratch/app/gcc/9.3/bin/grep...not found Checking for program /opt/xcs/App/Scripts/grep...not found Checking for program /specific/bin/grep...not found Checking for program /usr/local/bin/grep...not found Checking for program /usr/bin/grep...found Defined make macro "GREP" to "/usr/bin/grep" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/rm...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/rm...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/rm...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/rm...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/rm...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/rm...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/rm...not found Checking for program /scratch/app/cmake/3.17.3/bin/rm...not found Checking for program /scratch/app/gcc/9.3/bin/rm...not found Checking for program /opt/xcs/App/Scripts/rm...not found Checking for program /specific/bin/rm...not found Checking for program /usr/local/bin/rm...not found Checking for program /usr/bin/rm...found Defined make macro "RM" to "/usr/bin/rm -f" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/diff...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/diff...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/diff...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/diff...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/diff...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/diff...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/diff...not found Checking for program /scratch/app/cmake/3.17.3/bin/diff...not found Checking for program /scratch/app/gcc/9.3/bin/diff...not found Checking for program /opt/xcs/App/Scripts/diff...not found Checking for program /specific/bin/diff...not found Checking for program /usr/local/bin/diff...not found Checking for program /usr/bin/diff...found Executing: "/usr/bin/diff" -w "/tmp/petsc-eg0070o7/config.programs/diff1" "/tmp/petsc-eg0070o7/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 /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/ps...not found Unable to find programs: ['ps'] in listing of the specific search path: ['/usr/ucb', '/usr/usb'] 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' Defined make macro "PYTHON" to "/usr/bin/python3" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/m4...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/m4...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/m4...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/m4...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/m4...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/m4...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/m4...not found Checking for program /scratch/app/cmake/3.17.3/bin/m4...not found Checking for program /scratch/app/gcc/9.3/bin/m4...not found Checking for program /opt/xcs/App/Scripts/m4...not found Checking for program /specific/bin/m4...not found Checking for program /usr/local/bin/m4...not found Checking for program /usr/bin/m4...found Defined make macro "M4" to "/usr/bin/m4" child config.programs 1.699292 ============================================================================================= TESTING: consistencyChecks from config.packages.make(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.make(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default ============================================================================================= TESTING: configureMake from config.packages.make(config/BuildSystem/config/packages/make.py:96) Check Guesses for GNU make Executing: gmake --version stdout: GNU Make 3.82 Built for x86_64-redhat-linux-gnu Copyright (C) 2010 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/gmake...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/gmake...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/gmake...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/gmake...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/gmake...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/gmake...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/gmake...not found Checking for program /scratch/app/cmake/3.17.3/bin/gmake...not found Checking for program /scratch/app/gcc/9.3/bin/gmake...not found Checking for program /opt/xcs/App/Scripts/gmake...not found Checking for program /specific/bin/gmake...not found Checking for program /usr/local/bin/gmake...not found Checking for program /usr/bin/gmake...found Defined make macro "MAKE" to "/usr/bin/gmake" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/make...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/make...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/make...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/make...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/make...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/make...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/make...not found Checking for program /scratch/app/cmake/3.17.3/bin/make...not found Checking for program /scratch/app/gcc/9.3/bin/make...not found Checking for program /opt/xcs/App/Scripts/make...not found Checking for program /specific/bin/make...not found Checking for program /usr/local/bin/make...not found Checking for program /usr/bin/make...found Defined make macro "MAKE_USER" to "make" ============================================================================================= ***** WARNING: You have a version of GNU make older than 4.0. 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 ***** ============================================================================================= ============================================================================================= TESTING: setupGNUMake from config.packages.make(config/BuildSystem/config/packages/make.py:150) 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 "" ============================================================================================= TESTING: configureMakeNP from config.packages.make(config/BuildSystem/config/packages/make.py:197) check no of cores on the build machine [perhaps to do make '-j ncores'] module multiprocessing found 88 cores: using make_np = 47 Defined make macro "MAKE_NP" to "47" Defined make macro "MAKE_TEST_NP" to "35" Defined make macro "MAKE_LOAD" to "122.4" Defined make macro "NPMAX" to "88" child config.packages.make 0.021853 ============================================================================================= TESTING: consistencyChecks from config.packages.hip(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.hip(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.hip 0.000853 ============================================================================================= TESTING: consistencyChecks from config.packages.X(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: checkDependencies from config.packages.X(config/BuildSystem/config/package.py:905) ============================================================================================= TESTING: configureLibrary from config.packages.X(config/BuildSystem/config/package.py:930) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional X Checking for library in Compiler specific search X: [] ============================================================================================= 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 [XSetWMName] in library [] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char XSetWMName(); static void _check_XSetWMName() { XSetWMName(); } int main() { _check_XSetWMName();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lquadmath -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `XSetWMName' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.libraries/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `XSetWMName' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.libraries/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `XSetWMName' collect2: error: ld returned 1 exit status: Checking for library in Compiler specific search X: ['libX11.a'] ============================================================================================= 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 [XSetWMName] in library ['libX11.a'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char XSetWMName(); static void _check_XSetWMName() { XSetWMName(); } int main() { _check_XSetWMName();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lX11 -lquadmath -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char XSetWMName(); static void _check_XSetWMName() { XSetWMName(); } void dummy(void) {_check_XSetWMName();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lX11 -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBX11" to "1" Checking for optional headers [] in Compiler specific search X: ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= 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 ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Found header files [] in ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Checking for headers ['X11/Xlib.h'] in Compiler specific search X: ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['X11/Xlib.h'] in ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Checking include with compiler flags var CPPFLAGS ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.types -I/scratch/app_sequana/openmpi/2.1.1/include -I/scratch/app_sequana/openmpi/2.1.1/lib /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Found header files ['X11/Xlib.h'] in ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= TESTING: checkVersion from config.packages.X(config/BuildSystem/config/package.py:1071) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version For x unable to run preprocessor to obtain version information, skipping version check ============================================================================================= TESTING: checkSharedLibrary from config.packages.X(config/BuildSystem/config/package.py:996) By default we don't care about checking if the library is shared child config.packages.X 0.452873 ============================================================================================= TESTING: consistencyChecks from config.packages.hwloc(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.hwloc(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.hwloc 0.002219 ============================================================================================= TESTING: consistencyChecks from config.packages.thrust(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.thrust(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.thrust 0.000918 ============================================================================================= TESTING: consistencyChecks from config.packages.cuda(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.cuda(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.cuda 0.000809 ============================================================================================= TESTING: consistencyChecks from config.packages.OpenMPI(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.OpenMPI(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.OpenMPI 0.000930 ============================================================================================= TESTING: consistencyChecks from config.packages.MPICH(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.MPICH(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.MPICH 0.001606 ============================================================================================= TESTING: consistencyChecks from config.packages.MPI(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: checkDependencies from config.packages.MPI(config/BuildSystem/config/package.py:905) ============================================================================================= TESTING: configureLibrary from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:758) ================================================================================== Checking for a functional MPI Checking for library in User specified root directory MPI: [] Contents of /scratch/app_sequana/openmpi/2.1.1: ['bin', 'etc', 'share', 'lib', 'include'] Contents /scratch/app_sequana/openmpi/2.1.1/: ['bin', 'etc', 'share', 'lib', 'include'] ============================================================================================= 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 [] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lquadmath -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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(); } void dummy(void) {_check_MPI_Init(); _check_MPI_Comm_create();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Checking for optional headers [] in User specified root directory MPI: ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= 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 ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Found header files [] in ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Checking for headers ['mpi.h'] in User specified root directory MPI: ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= 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 ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Checking include with compiler flags var CPPFLAGS ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.types -I/scratch/app_sequana/openmpi/2.1.1/include -I/scratch/app_sequana/openmpi/2.1.1/lib /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Found header files ['mpi.h'] in ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Defined "HAVE_MPI_F90MODULE_VISIBILITY" to "1" ============================================================================================= TESTING: checkMPIDistro from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:574) Determine if MPICH_NUMVERSION, OMPI_MAJOR_VERSION or MSMPI_VER exist in mpi.h Used for consistency checking of MPI installation at compile time ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:4:25: error: ‘I_MPI_VERSION’ undeclared here (not in a function); did you mean ‘MPI_VERSION’? 4 | const char *mpich_ver = I_MPI_VERSION; | ^~~~~~~~~~~~~ | MPI_VERSION Source: #include "confdefs.h" #include "conffix.h" #include const char *mpich_ver = I_MPI_VERSION; int main() { ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:4:17: error: ‘I_MPI_NUMVERSION’ undeclared here (not in a function); did you mean ‘MPI_SUBVERSION’? 4 | int mpich_ver = I_MPI_NUMVERSION; | ^~~~~~~~~~~~~~~~ | MPI_SUBVERSION Source: #include "confdefs.h" #include "conffix.h" #include int mpich_ver = I_MPI_NUMVERSION; int main() { ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:4:17: error: ‘MVAPICH2_NUMVERSION’ undeclared here (not in a function); did you mean ‘MPI_SUBVERSION’? 4 | int mpich_ver = MVAPICH2_NUMVERSION; | ^~~~~~~~~~~~~~~~~~~ | MPI_SUBVERSION Source: #include "confdefs.h" #include "conffix.h" #include int mpich_ver = MVAPICH2_NUMVERSION; int main() { ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:4:17: error: ‘MPICH_NUMVERSION’ undeclared here (not in a function); did you mean ‘MPI_SUBVERSION’? 4 | int mpich_ver = MPICH_NUMVERSION; | ^~~~~~~~~~~~~~~~ | MPI_SUBVERSION Source: #include "confdefs.h" #include "conffix.h" #include int mpich_ver = MPICH_NUMVERSION; int main() { ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:4:1: error: unknown type name ‘MPI_NEC_Function’; did you mean ‘MPI_User_function’? 4 | MPI_NEC_Function f = MPI_NEC_FUNCTION_NULL; | ^~~~~~~~~~~~~~~~ | MPI_User_function /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:4:22: error: ‘MPI_NEC_FUNCTION_NULL’ undeclared here (not in a function) 4 | MPI_NEC_Function f = MPI_NEC_FUNCTION_NULL; | ^~~~~~~~~~~~~~~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include MPI_NEC_Function f = MPI_NEC_FUNCTION_NULL; int main() { ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/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; Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.packages.MPI -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Defined "HAVE_OMPI_MAJOR_VERSION" to "2" Defined "HAVE_OMPI_MINOR_VERSION" to "1" Defined "HAVE_OMPI_RELEASE_VERSION" to "1" Executing: uname -s stdout: Linux ============================================================================================= TESTING: configureMPI2 from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:352) Check for functions added to the interface in MPI-2 ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_MPI_FINALIZED" to "1" ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_MPI_IN_PLACE" to "1" ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Successful compile: 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]={MPI_INT,MPI_DOUBLE}; MPI_Datatype *newtype = 0; if (MPI_Type_create_struct(count, blocklens, indices, old_types, newtype)); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_MPI_REDUCE_LOCAL" to "1" ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_MPI_GET_LIBRARY_VERSION" to "1" ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_MPI_WIN_CREATE" to "1" ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:6:30: warning: ‘win’ is used uninitialized in this function [-Wuninitialized] 6 | int ptr[1]; MPI_Win win; if (MPI_Accumulate(ptr,1,MPI_INT,0,0,1,MPI_INT,MPI_REPLACE,win)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int ptr[1]; MPI_Win win; if (MPI_Accumulate(ptr,1,MPI_INT,0,0,1,MPI_INT,MPI_REPLACE,win)); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_MPI_ONE_SIDED" to "1" ============================================================================================= TESTING: configureMPI3 from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:399) Check for functions added to the interface in MPI-3 ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_MPI_PROCESS_SHARED_MEMORY" to "1" ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_Aint size=128; int disp_unit=8,*baseptr; MPI_Win win; if (MPI_Win_allocate(size,disp_unit,MPI_INFO_NULL,MPI_COMM_WORLD,&baseptr,&win)); if (MPI_Win_attach(win,baseptr,size)); if (MPI_Win_create_dynamic(MPI_INFO_NULL,MPI_COMM_WORLD,&win)); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_MPI_FEATURE_DYNAMIC_WINDOW" to "1" ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:7:24: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 7 | if (MPI_Iscatter(&send,1,MPI_INT,&recv,1,MPI_INT,0,MPI_COMM_WORLD,&req)); | ^~ /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:8:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 8 | 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_MPI_NONBLOCKING_COLLECTIVES" to "1" ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_MPI_NEIGHBORHOOD_COLLECTIVES" to "1" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:7:3: error: #error This OpenMPI is not CUDA-aware 7 | #error This OpenMPI is not CUDA-aware | ^~~~~ 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; } ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:6:30: warning: ‘win’ is used uninitialized in this function [-Wuninitialized] 6 | 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_MPI_GET_ACCUMULATE" to "1" ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:6:47: warning: ‘win’ is used uninitialized in this function [-Wuninitialized] 6 | 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_MPI_RGET" to "1" ============================================================================================= TESTING: configureMPIEXEC from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:185) Checking for location of mpiexec Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpiexec...found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mpiexec...found Defined make macro "MPIEXECEXECUTABLE" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpiexec" Running Executable with threads to time it out at 120 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpiexec -n 1 printenv stdout: OMPI_MCA_btl_openib_allow_ib=1 OMPI_PATH=/scratch/app_sequana/openmpi/2.1.1/bin OMPI_LD_LIBRARY_PATH=/scratch/app_sequana/openmpi/2.1.1/lib OMPI_MCA_pmix=^s1,s2,cray OMPI_COMMAND=printenv OMPI_MCA_orte_precondition_transports=7e22f9ee35b2fe84-d6ecc08714ec2c0a MKLROOT=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 XF_DEFAULT_PLACEMENT= MPI_INCLUDE=/scratch/app_sequana/openmpi/2.1.1/include MANPATH=/scratch/app_sequana/openmpi/2.1.1/share/man:/scratch/app/cmake/3.17.3/share/man:/scratch/app/gcc/9.3/share/man:/usr/kerberos/man:/usr/local/share/man:/usr/share/man/en:/usr/share/man:/opt/xcs/App/Scripts/Man: XF_SPECIFIC=/specific XF_ROOT=/opt/xcs FOAM_SOLVERS=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/applications/solvers FOAM_EXT_LIBBIN=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64GccDPInt64/lib FOAM_APPBIN=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin XF_EXE_CUSTOMER=/specific/App XDG_SESSION_ID=14398 FOAM_TUTORIALS=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/tutorials WM_ARCH=linux64 WM_COMPILER_TYPE=system XF_LICENSE_DEBUG_FILE=/specific/License/xf_License.log XF_APP_LIC_DIR=/opt/xcs/App/Scripts/Env XF_SCHEDULER_TYPE=SLURM HOSTNAME=sdumont18 XF_DEFAULT_MEMORY_CORE_SIZE= XF_MIN_DESKTOP_DISPLAY=101 XF_XRV_DESKTOP_GEOMETRY=1270x940 XF_SPECIFIC_FILE=/specific/xf_Specific.rc XF_PUBLIC_HOSTNAME=studio.extremefactory.com XF_VNC_QUALITY=49 TERM=xterm-256color SHELL=/bin/bash MPI_ARCH_PATH=/scratch/app_sequana/openmpi/2.1.1 WM_THIRD_PARTY_DIR=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012 XF_VIZ_DEFAULT_SMALL_WIN_SIZE=1024x768 XF_MAX_REMOTE_VIZ_DISPLAY=100 HISTSIZE=1000 XF_LICENSE_LOGS=/specific/License/Logs XF_DEFAULT_HPC_QUEUE_NAME=compute.q SSH_CLIENT=172.20.4.1 39620 22 LIBRARY_PATH=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib XF_CONTAINER_OPTIONS= XF_MAX_NCORES_PER_NODE=16 CGAL_ARCH_PATH=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/CGAL-4.12.2 FOAM_SITE_APPBIN=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin XF_OPTIONSDS_SCRIPTS_DIR=/opt/xcs/App/Scripts/OptionsDs XF_MAX_VIZ_SESSIONS_PER_NODE=10 XF_START_DESKTOP_ENVIRONMENT=0 XF_COMPILERS_ROOT=/opt/xcs/Compilers SCOTCH_ARCH_PATH=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64GccDPInt64/scotch_6.0.9 XF_TERM_LOG_FILE=/prj/song/juan.salazar/.xf/logs/xf_Terminate.log XF_INSTALLED=Installed XF_STAGE_IN_MODE=OUTPUT_LINK BOOST_ARCH_PATH=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/boost_1_66_0 XF_LICENSE_DIR=/specific/License XF_EXE_ROOT=/opt/xcs/App XF_STAGE_OUT_MODE=NOP SSH_TTY=/dev/pts/3 FOAM_APP=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/applications WM_PROJECT_VERSION=v2012 XF_MAX_DESKTOP_DISPLAY=200 XF_DEBUG_FILE=/prj/song/juan.salazar/.xf/logs/xf_Run_debug.log XF_DEFAULT_MEMORY_NODE_SIZE= XF_MAX_CORES_PER_NODE=16 XF_LOGS_DIR=/prj/song/juan.salazar/.xf/logs XF_ENABLE_OUTPUT_SUBDIR=0 QT_GRAPHICSSYSTEM_CHECKED=1 XF_ARRAY_INPUT_FILE_LIST=.xf_JobArrayInputFileList XF_SHM_DIR=/dev/shm USER=juan.salazar FOAM_SITE_LIBBIN=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/lib LD_LIBRARY_PATH=/scratch/app_sequana/openmpi/2.1.1/lib:/scratch/app_sequana/openmpi/2.1.1/lib:/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/fftw-3.3.7/lib64:/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/CGAL-4.12.2/lib64:/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/boost_1_66_0/lib64:/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/lib64:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/lib/sys-openmpi:/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64GccDPInt64/lib/sys-openmpi:/scratch/app_sequana/openmpi/2.1.1/lib:/scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/lib:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/lib:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/lib:/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64GccDPInt64/lib:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/lib/dummy:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib/x64:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib/emu:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/compiler/lib/intel64_lin:/scratch/app/gcc/9.3/lib64:/scratch/app/gcc/9.3/lib:/scratch/app_sequana/openmpi/2.1.1/lib LS_COLORS=rs=0:di=38;5;27:ln=38;5;51:mh=44;38;5;15:pi=40;38;5;11:so=38;5;13:do=38;5;5:bd=48;5;232;38;5;11:cd=48;5;232;38;5;3:or=48;5;232;38;5;9:mi=05;48;5;232;38;5;15:su=48;5;196;38;5;15:sg=48;5;11;38;5;16:ca=48;5;196;38;5;226:tw=48;5;10;38;5;16:ow=48;5;10;38;5;21:st=48;5;21;38;5;15:ex=38;5;34:*.tar=38;5;9:*.tgz=38;5;9:*.arc=38;5;9:*.arj=38;5;9:*.taz=38;5;9:*.lha=38;5;9:*.lz4=38;5;9:*.lzh=38;5;9:*.lzma=38;5;9:*.tlz=38;5;9:*.txz=38;5;9:*.tzo=38;5;9:*.t7z=38;5;9:*.zip=38;5;9:*.z=38;5;9:*.Z=38;5;9:*.dz=38;5;9:*.gz=38;5;9:*.lrz=38;5;9:*.lz=38;5;9:*.lzo=38;5;9:*.xz=38;5;9:*.bz2=38;5;9:*.bz=38;5;9:*.tbz=38;5;9:*.tbz2=38;5;9:*.tz=38;5;9:*.deb=38;5;9:*.rpm=38;5;9:*.jar=38;5;9:*.war=38;5;9:*.ear=38;5;9:*.sar=38;5;9:*.rar=38;5;9:*.alz=38;5;9:*.ace=38;5;9:*.zoo=38;5;9:*.cpio=38;5;9:*.7z=38;5;9:*.rz=38;5;9:*.cab=38;5;9:*.jpg=38;5;13:*.jpeg=38;5;13:*.gif=38;5;13:*.bmp=38;5;13:*.pbm=38;5;13:*.pgm=38;5;13:*.ppm=38;5;13:*.tga=38;5;13:*.xbm=38;5;13:*.xpm=38;5;13:*.tif=38;5;13:*.tiff=38;5;13:*.png=38;5;13:*.svg=38;5;13:*.svgz=38;5;13:*.mng=38;5;13:*.pcx=38;5;13:*.mov=38;5;13:*.mpg=38;5;13:*.mpeg=38;5;13:*.m2v=38;5;13:*.mkv=38;5;13:*.webm=38;5;13:*.ogm=38;5;13:*.mp4=38;5;13:*.m4v=38;5;13:*.mp4v=38;5;13:*.vob=38;5;13:*.qt=38;5;13:*.nuv=38;5;13:*.wmv=38;5;13:*.asf=38;5;13:*.rm=38;5;13:*.rmvb=38;5;13:*.flc=38;5;13:*.avi=38;5;13:*.fli=38;5;13:*.flv=38;5;13:*.gl=38;5;13:*.dl=38;5;13:*.xcf=38;5;13:*.xwd=38;5;13:*.yuv=38;5;13:*.cgm=38;5;13:*.emf=38;5;13:*.axv=38;5;13:*.anx=38;5;13:*.ogv=38;5;13:*.ogx=38;5;13:*.aac=38;5;45:*.au=38;5;45:*.flac=38;5;45:*.mid=38;5;45:*.midi=38;5;45:*.mka=38;5;45:*.mp3=38;5;45:*.mpc=38;5;45:*.ogg=38;5;45:*.ra=38;5;45:*.wav=38;5;45:*.axa=38;5;45:*.oga=38;5;45:*.spx=38;5;45:*.xspf=38;5;45: WM_COMPILER_LIB_ARCH=64 INTELOPENCLSDK=/scratch/app_sequana/intel-opencl/2020/system_studio_2020/opencl/SDK FOAM_SRC=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/src XF_WIN_FS_ROOT= XF_VIZ_XRV_BATCH_MIN_DELAY=40 FOAM_UTILITIES=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/applications/utilities FOAM_API=2012 WM_PROJECT_DIR=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012 CPATH=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/include:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/include:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/include XF_PACKAGES=Packages MPI_LIB=/scratch/app_sequana/openmpi/2.1.1/lib XF_CONTAINER_REGISTRY=cl-nexus.xf.priv:5000 XF_TMP_DIR=/tmp COLUMNS=161 WM_LABEL_OPTION=Int64 XF_ARCH=em64t XF_DEFAULT_JOBS_SUBDIR=JOBID XF_SCHEDULER_VERSION=17.02 WM_PROJECT=OpenFOAM XF_DEBUG=0 XF_USER_ROOT=/prj/song/juan.salazar/.specific WM_COMPILER=Gcc NLSPATH=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/locale/%l_%t/%N XF_CONTAINER_IMAGE= XF_DEFAULT_MEMORY_CHUNK_SIZE= WM_MPLIB=SYSTEMOPENMPI MAIL=/var/spool/mail/juan.salazar PATH=/scratch/app_sequana/openmpi/2.1.1/bin:/scratch/app_sequana/openmpi/2.1.1/bin:/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin:/scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin:/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake:/scratch/app_sequana/openmpi/2.1.1/bin:/scratch/app/cmake/3.17.3/bin:/scratch/app/gcc/9.3/bin:/opt/xcs/App/Scripts:/specific/bin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/opt/ibutils/bin:/opt/xcs/Admin/Scripts:/prj/song/juan.salazar/.local/bin:/prj/song/juan.salazar/bin FOAM_USER_LIBBIN=/scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/lib XF_RUN_VERBOSE=1 TBBROOT=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1 GID=61348 XF_MIN_REMOTE_VIZ_DISPLAY=1 PWD=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc _LMFILES_=/scratch/app/modulos/sequana/current:/scratch/app_sequana/modulos/gcc/9.3_sequana:/scratch/app_sequana/modulos/cmake/3.17.3_sequana:/scratch/app_sequana/modulos/openmpi/gnu/2.1.1_sequana:/scratch/app_sequana/modulos/intel-oneapi/2021_sequana:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/modulefiles/compiler-rt/2021.1.1:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/modulefiles/tbb/2021.1.1:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/modulefiles/mkl/latest XF_APP_ENV_DIR=/opt/xcs/App/Scripts/Env FOAM_ETC=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/etc XF_CUSTOMER_ROOT=/specific LANG=en_US.UTF-8 XF_HTTP=https MODULEPATH=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/modulefiles:/scratch/app_sequana/modulos:/usr/share/Modules/modulefiles XF_TASK_USE_SUBDIR=0 LOADEDMODULES=sequana/current:gcc/9.3_sequana:cmake/3.17.3_sequana:openmpi/gnu/2.1.1_sequana:intel-oneapi/2021_sequana:compiler-rt/2021.1.1:tbb/2021.1.1:mkl/latest XF_CONTAINER_PORT=8888 LINES=43 XF_SGE_ORTE_PENV=orte FOAM_MPI=sys-openmpi FOAM_LIBBIN=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/lib WM_COMPILE_OPTION=Opt XF_MPI_ROOT=/opt/xcs/Mpi XF_SENSOR_DIR=/specific/Sensor HISTCONTROL=ignoredups WM_DIR=/scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake XF_EXE_VERSION_NOCHECK=0 XF_DEFAULT_VIZ_QUEUE_NAME=viz.q XF_SUBMIT_SCRIPTS_DIR=/opt/xcs/App/Scripts WM_LABEL_SIZE=64 XF_CONTAINER_TYPE=DOCKER XF_JOBS_DIR=/prj/song/juan.salazar/.xf/jobs XF_PRIORITY_ENABLE=1 SHLVL=2 HOME=/prj/song/juan.salazar XF_SCHEDULER_CUSTOM_ARGS= XF_VNC_GEOMETRY=-geometry 1280x1024 XF_X_SERVER_WITH_GPUS=:0 XF_SUBMIT_TYPE=SLURM XF_HOSTFILE_NAME=.xf_Hostfile XF_SCRATCH_DIR=/scratch/juan.salazar MPI_ROOT=/scratch/app_sequana/openmpi/2.1.1 LOGNAME=juan.salazar WM_PROJECT_USER_DIR=/scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012 XF_CONTAINER_SECURE_REGISTRY=0 FOAM_RUN=/scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/run XF_SGE_MPI_PENV=mpi XDG_DATA_DIRS=/prj/song/juan.salazar/.local/share/flatpak/exports/share:/var/lib/flatpak/exports/share:/usr/local/share:/usr/share SSH_CONNECTION=172.20.4.1 39620 172.20.12.18 22 XF_EXCLUSIVE_NODE=1 MODULESHOME=/usr/share/Modules WM_OPTIONS=linux64GccDPInt64Opt PKG_CONFIG_PATH=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/tools/pkgconfig:/scratch/app_sequana/openmpi/2.1.1/lib/pkgconfig:/scratch/app/gcc/9.3/lib64/pkgconfig XF_LICENSE_HOST=xf-batch.extremefactory.priv XF_DEFAULT_MEMORY_PROC_SIZE= XF_USE_SENSOR=0 LESSOPEN=||/usr/bin/lesspipe.sh %s XF_VIZ_XRV_CLIENT_OPENGL=auto CMAKE_PREFIX_PATH=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1 XDG_RUNTIME_DIR=/run/user/62272 WM_PRECISION_OPTION=DP FFTW_ARCH_PATH=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/fftw-3.3.7 XF_DEFAULT_WALLTIME=1000:00:00 FOAM_USER_APPBIN=/scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin SCRATCH=/scratch/song/juan.salazar ADIOS2_ARCH_PATH=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0 BASH_FUNC_module()=() { eval `/usr/bin/modulecmd bash $*` } _=/scratch/app_sequana/openmpi/2.1.1/bin/mpiexec IPATH_NO_BACKTRACE=1 HFI_NO_BACKTRACE=1 OMPI_MCA_orte_local_daemon_uri=947519488.0;usock;tcp://10.0.2.18,146.134.143.248,172.20.12.18:58147 OMPI_MCA_orte_hnp_uri=947519488.0;usock;tcp://10.0.2.18,146.134.143.248,172.20.12.18:58147 OMPI_MCA_mpi_yield_when_idle=0 OMPI_MCA_orte_app_num=0 OMPI_UNIVERSE_SIZE=1 OMPI_MCA_orte_num_nodes=1 OMPI_MCA_shmem_RUNTIME_QUERY_hint=mmap OMPI_MCA_orte_bound_at_launch=1 OMPI_MCA_ess=pmi OMPI_MCA_orte_ess_num_procs=1 OMPI_COMM_WORLD_SIZE=1 OMPI_COMM_WORLD_LOCAL_SIZE=1 OMPI_MCA_orte_tmpdir_base=/tmp OMPI_NUM_APP_CTX=1 OMPI_FIRST_RANKS=0 OMPI_APP_CTX_NUM_PROCS=1 OMPI_MCA_initial_wdir=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc PMIX_NAMESPACE=947519489 PMIX_RANK=0 PMIX_SERVER_URI=pmix-server:165348:/tmp/openmpi-sessions-62272@sdumont18_0/14458/pmix-165348 PMIX_SECURITY_MODE=native PMIX_DSTORE_ESH_BASE_PATH=/tmp/openmpi-sessions-62272@sdumont18_0/14458/pmix_dstor_165348 OMPI_MCA_orte_launch=1 OMPI_MCA_ess_base_jobid=947519489 OMPI_MCA_ess_base_vpid=0 OMPI_COMM_WORLD_RANK=0 OMPI_COMM_WORLD_LOCAL_RANK=0 OMPI_COMM_WORLD_NODE_RANK=0 OMPI_MCA_orte_ess_node_rank=0 PMIX_ID=947519489.0 OMPI_FILE_LOCATION=/tmp/openmpi-sessions-62272@sdumont18_0/14458/1/0 OPAL_OUTPUT_STDERR_FD=33 Defined "HAVE_MPIEXEC_ENVIRONMENTAL_VARIABLE" to "OMP" Defined make macro "MPIEXEC" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpiexec" Checking for program /usr/libexec/ApplicationFirewall/socketfilterfw...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/socketfilterfw...not found Unable to find programs: ['socketfilterfw'] in listing of the specific search path: ['/usr/libexec/ApplicationFirewall'] Warning accessing /usr/libexec/ApplicationFirewall gives errors: [Errno 2] No such file or directory: '/usr/libexec/ApplicationFirewall' Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/hostname...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/hostname...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/hostname...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/hostname...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/hostname...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/hostname...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/hostname...not found Checking for program /scratch/app/cmake/3.17.3/bin/hostname...not found Checking for program /scratch/app/gcc/9.3/bin/hostname...not found Checking for program /opt/xcs/App/Scripts/hostname...not found Checking for program /specific/bin/hostname...not found Checking for program /usr/local/bin/hostname...not found Checking for program /usr/bin/hostname...found Defined make macro "HOSTNAME" to "hostname" Running Executable with threads to time it out at 60 Executing: hostname stdout: sdumont18 Return code from hostname: 0 Hostname works, running network checks Checking for program /sbin/ping...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/ping...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/ping...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/ping...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/ping...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/ping...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/ping...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/ping...not found Checking for program /scratch/app/cmake/3.17.3/bin/ping...not found Checking for program /scratch/app/gcc/9.3/bin/ping...not found Checking for program /opt/xcs/App/Scripts/ping...not found Checking for program /specific/bin/ping...not found Checking for program /usr/local/bin/ping...not found Checking for program /usr/bin/ping...found Defined make macro "PING" to "ping" Executing: uname -s stdout: Linux Running Executable with threads to time it out at 60 Executing: ping -c 2 sdumont18 stdout: PING sdumont18-ic1 (172.20.12.18) 56(84) bytes of data. 64 bytes from sdumont18-ic1 (172.20.12.18): icmp_seq=1 ttl=64 time=0.017 ms 64 bytes from sdumont18-ic1 (172.20.12.18): icmp_seq=2 ttl=64 time=0.008 ms --- sdumont18-ic1 ping statistics --- 2 packets transmitted, 2 received, 0% packet loss, time 1000ms rtt min/avg/max/mdev = 0.008/0.012/0.017/0.005 ms Return code from ping: 0 ============================================================================================= ======== Checking running linked program ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Testing executable /tmp/petsc-eg0070o7/config.packages.MPI/conftest to see if it can be run Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpiexec -n 1 /tmp/petsc-eg0070o7/config.packages.MPI/conftest Running Executable with threads to time it out at 120 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpiexec -n 1 /tmp/petsc-eg0070o7/config.packages.MPI/conftest ============================================================================================= TESTING: configureMPITypes from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:456) Checking for MPI Datatype handles ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/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; } Defined "HAVE_MPI_LONG_DOUBLE" to "1" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/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; } Defined "HAVE_MPI_INT64_T" to "1" ============================================================================================= TESTING: SGIMPICheck from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:502) Returns true if SGI MPI is used Checking for functions [MPI_SGI_barrier] in library [] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lquadmath -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `MPI_SGI_barrier' collect2: error: ld returned 1 exit status Linker output before filtering: /tmp/petsc-eg0070o7/config.libraries/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `MPI_SGI_barrier' collect2: error: ld returned 1 exit status : Linker output after filtering: /tmp/petsc-eg0070o7/config.libraries/conftest.o: In function `main': conftest.c:(.text.startup+0x7): undefined reference to `MPI_SGI_barrier' collect2: error: ld returned 1 exit status: SGI MPI test failure ============================================================================================= TESTING: CxxMPICheck from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:512) Make sure C++ can compile and link Checking for header mpi.h Checking for C++ MPI_Finalize() Checking for functions [MPI_Finalize] in library [] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.libraries/conftest.cc Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.cc: In function ‘void _check_MPI_Finalize()’: /tmp/petsc-eg0070o7/config.libraries/conftest.cc:5:41: warning: variable ‘ierr’ set but not used [-Wunused-but-set-variable] 5 | 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -o /tmp/petsc-eg0070o7/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lquadmath -lstdc++ -ldl ============================================================================================= TESTING: FortranMPICheck from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:528) Make sure fortran include [mpif.h] and library symbols are found Checking for fortran mpi_init() Checking for functions [] in library [] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.libraries/conftest.F90 Successful compile: Source: program main #include "mpif.h" integer ierr call mpi_init(ierr) end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Checking for mpi.mod Checking for functions [] in library [] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.libraries/conftest.F90 Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.F90:2:11: 2 | use mpi | 1 Fatal Error: Cannot read module file ‘mpi.mod’ opened at (1), because it was created by a different version of GNU Fortran compilation terminated. Source: program main use mpi integer(kind=selected_int_kind(5)) ierr,rank call mpi_init(ierr) call mpi_comm_rank(MPI_COMM_WORLD,rank,ierr) end Compile failed inside link ============================================================================================= TESTING: configureIO from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:550) Check for the functions in MPI/IO - Define HAVE_MPIIO if they are present - Some older MPI 1 implementations are missing these ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:7:1: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 7 | if (MPI_Type_get_extent(MPI_INT, &lb, &extent)); | ^~ /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:9:50: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 9 | MPI_File fh; | ^~~~~~~~ /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:12:1: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 12 | if (MPI_File_write_all(fh, buf, 1, MPI_INT, &status)); | ^~ /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:14:50: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 14 | if (MPI_File_read_all(fh, buf, 1, MPI_INT, &status)); | ^~ /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:18:1: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 18 | if (MPI_File_set_view(fh, disp, MPI_INT, MPI_INT, "", info)); | ^~ /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:20:50: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 20 | if (MPI_File_open(MPI_COMM_SELF, "", 0, info, &fh)); | ^~ /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:12:5: warning: ‘buf’ is used uninitialized in this function [-Wuninitialized] 12 | if (MPI_File_write_all(fh, buf, 1, MPI_INT, &status)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:18:5: warning: ‘disp’ is used uninitialized in this function [-Wuninitialized] 18 | if (MPI_File_set_view(fh, disp, MPI_INT, MPI_INT, "", info)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_MPIIO" to "1" ============================================================================================= TESTING: findMPIIncludeAndLib from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:663) Find MPI include paths and libraries from "mpicc -show" or Cray "cc --cray-print-opts=cflags/libs" and save. ============================================================================================= TESTING: PetscArchMPICheck from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:733) 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 [] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lquadmath -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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(); } void dummy(void) {_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();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : 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 compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:6:5: warning: unused variable ‘combiner’ [-Wunused-variable] 6 | 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" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:6:5: warning: unused variable ‘combiner’ [-Wunused-variable] 6 | 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" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.MPI/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c:6:5: warning: unused variable ‘combiner’ [-Wunused-variable] 6 | 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" ============================================================================================= TESTING: checkVersion from config.packages.MPI(config/BuildSystem/config/package.py:1071) 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); Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.packages.MPI -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.packages.MPI/conftest.c For mpi need 2 <= 3 <= ============================================================================================= TESTING: checkSharedLibrary from config.packages.MPI(config/BuildSystem/config/package.py:996) By default we don't care about checking if the library is shared child config.packages.MPI 5.223212 ============================================================================================= TESTING: consistencyChecks from config.packages.zstd(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.zstd(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.zstd 0.001496 ============================================================================================= TESTING: consistencyChecks from config.packages.yaml(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.yaml(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.yaml 0.000963 ============================================================================================= TESTING: consistencyChecks from config.packages.sycl(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.sycl(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.sycl 0.000819 ============================================================================================= TESTING: consistencyChecks from config.packages.ssl(config/BuildSystem/config/packages/ssl.py:31) ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.ssl(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.ssl 0.001393 ============================================================================================= TESTING: consistencyChecks from config.packages.sprng(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.sprng(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.sprng 0.000891 PETSc clone, checking for Sowing Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/pdflatex...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/pdflatex...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/pdflatex...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/pdflatex...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/pdflatex...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/pdflatex...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/pdflatex...not found Checking for program /scratch/app/cmake/3.17.3/bin/pdflatex...not found Checking for program /scratch/app/gcc/9.3/bin/pdflatex...not found Checking for program /opt/xcs/App/Scripts/pdflatex...not found Checking for program /specific/bin/pdflatex...not found Checking for program /usr/local/bin/pdflatex...not found Checking for program /usr/bin/pdflatex...found Defined make macro "PDFLATEX" to "/usr/bin/pdflatex" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/bfort...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/bfort...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/bfort...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/bfort...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/bfort...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/bfort...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/bfort...not found Checking for program /scratch/app/cmake/3.17.3/bin/bfort...not found Checking for program /scratch/app/gcc/9.3/bin/bfort...not found Checking for program /opt/xcs/App/Scripts/bfort...not found Checking for program /specific/bin/bfort...not found Checking for program /usr/local/bin/bfort...not found Checking for program /usr/bin/bfort...not found Checking for program /usr/local/sbin/bfort...not found Checking for program /usr/sbin/bfort...not found Checking for program /opt/ibutils/bin/bfort...not found Checking for program /opt/xcs/Admin/Scripts/bfort...not found Checking for program /prj/song/juan.salazar/.local/bin/bfort...not found Checking for program /prj/song/juan.salazar/bin/bfort...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/bfort...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/doctext...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/doctext...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/doctext...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/doctext...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/doctext...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/doctext...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/doctext...not found Checking for program /scratch/app/cmake/3.17.3/bin/doctext...not found Checking for program /scratch/app/gcc/9.3/bin/doctext...not found Checking for program /opt/xcs/App/Scripts/doctext...not found Checking for program /specific/bin/doctext...not found Checking for program /usr/local/bin/doctext...not found Checking for program /usr/bin/doctext...not found Checking for program /usr/local/sbin/doctext...not found Checking for program /usr/sbin/doctext...not found Checking for program /opt/ibutils/bin/doctext...not found Checking for program /opt/xcs/Admin/Scripts/doctext...not found Checking for program /prj/song/juan.salazar/.local/bin/doctext...not found Checking for program /prj/song/juan.salazar/bin/doctext...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/doctext...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/mapnames...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/mapnames...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/mapnames...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/mapnames...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/mapnames...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/mapnames...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/mapnames...not found Checking for program /scratch/app/cmake/3.17.3/bin/mapnames...not found Checking for program /scratch/app/gcc/9.3/bin/mapnames...not found Checking for program /opt/xcs/App/Scripts/mapnames...not found Checking for program /specific/bin/mapnames...not found Checking for program /usr/local/bin/mapnames...not found Checking for program /usr/bin/mapnames...not found Checking for program /usr/local/sbin/mapnames...not found Checking for program /usr/sbin/mapnames...not found Checking for program /opt/ibutils/bin/mapnames...not found Checking for program /opt/xcs/Admin/Scripts/mapnames...not found Checking for program /prj/song/juan.salazar/.local/bin/mapnames...not found Checking for program /prj/song/juan.salazar/bin/mapnames...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/mapnames...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/bib2html...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/bib2html...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/bib2html...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/bib2html...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/bib2html...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/bib2html...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/bib2html...not found Checking for program /scratch/app/cmake/3.17.3/bin/bib2html...not found Checking for program /scratch/app/gcc/9.3/bin/bib2html...not found Checking for program /opt/xcs/App/Scripts/bib2html...not found Checking for program /specific/bin/bib2html...not found Checking for program /usr/local/bin/bib2html...not found Checking for program /usr/bin/bib2html...not found Checking for program /usr/local/sbin/bib2html...not found Checking for program /usr/sbin/bib2html...not found Checking for program /opt/ibutils/bin/bib2html...not found Checking for program /opt/xcs/Admin/Scripts/bib2html...not found Checking for program /prj/song/juan.salazar/.local/bin/bib2html...not found Checking for program /prj/song/juan.salazar/bin/bib2html...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/bib2html...not found Bfort not found. Installing sowing for FortranStubs ============================================================================================= TESTING: consistencyChecks from config.packages.sowing(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: checkDependencies from config.packages.sowing(config/BuildSystem/config/package.py:905) ============================================================================================= TESTING: configureLibrary from config.packages.sowing(config/BuildSystem/config/package.py:930) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional sowing Looking for SOWING at git.sowing, hg.sowing or a directory starting with ['petsc-pkg-sowing'] Found a copy of SOWING in git.sowing Executing: ['git', 'rev-parse', '--git-dir'] stdout: .git Executing: ['git', 'cat-file', '-e', 'v1.1.26-p3^{commit}'] Executing: ['git', 'rev-parse', 'v1.1.26-p3'] stdout: 13424d57b61e6792e3fcd99cde4ffe5cd06b4c82 Executing: ['git', '-c', 'user.name=petsc-configure', '-c', 'user.email=petsc@configure', 'stash'] stdout: No local changes to save Executing: ['git', 'clean', '-f', '-d', '-x'] stdout: Removing pkg.gitcommit Removing sowing.petscconf Executing: ['git', 'checkout', '-f', '13424d57b61e6792e3fcd99cde4ffe5cd06b4c82'] Makefile /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib/petsc/conf/pkg.conf.sowing has correct checksum Commit file /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib/petsc/conf/pkg.gitcommit.sowing has correct checksum Do not need to rebuild SOWING Not checking for library in Download SOWING: [] because no functions given to check for ============================================================================================= 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 Download SOWING: ['/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include', '/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= 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 ['/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include', '/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Found header files [] in ['/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include', '/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Checking for headers [] in Download SOWING: ['/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include', '/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= TESTING: checkVersion from config.packages.sowing(config/BuildSystem/config/package.py:1071) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version For sowing unable to find version information since includes and version includes are missing skipping version check ============================================================================================= TESTING: checkSharedLibrary from config.packages.sowing(config/BuildSystem/config/package.py:996) By default we don't care about checking if the library is shared Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/bfort...found Defined make macro "BFORT" to "/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/bfort" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/doctext...found Defined make macro "DOCTEXT" to "/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/doctext" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/mapnames...found Defined make macro "MAPNAMES" to "/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/mapnames" Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/bib2html...found Defined make macro "BIB2HTML" to "/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/bib2html" Executing: /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/bfort -version stdout: bfort (sowing) release 1.1.26 of Date unknown ============================================================================================= Running linux64GccDPInt64Opt/bin/bfort to generate fortran stubs ============================================================================================= child config.packages.sowing 18.784935 ============================================================================================= TESTING: consistencyChecks from config.packages.revolve(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.revolve(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.revolve 0.001575 ============================================================================================= TESTING: consistencyChecks from config.packages.radau5(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.radau5(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.radau5 0.000909 ============================================================================================= TESTING: consistencyChecks from config.packages.pami(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.pami(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.pami 0.000813 ============================================================================================= TESTING: consistencyChecks from config.packages.opengles(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.opengles(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.opengles 0.000812 ============================================================================================= TESTING: consistencyChecks from config.packages.opencl(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.opencl(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.opencl 0.000797 ============================================================================================= TESTING: consistencyChecks from config.packages.muparser(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.muparser(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.muparser 0.000910 ============================================================================================= TESTING: consistencyChecks from config.packages.mpe(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.mpe(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.mpe 0.000957 ============================================================================================= TESTING: consistencyChecks from config.packages.memkind(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.memkind(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.memkind 0.000812 ============================================================================================= TESTING: consistencyChecks from config.packages.libmesh(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.libmesh(config/BuildSystem/config/packages/libmesh.py:69) Defined make rule "libmesh-build" with dependencies "" and code [] Defined make rule "libmesh-install" with dependencies "" and code [] child config.packages.libmesh 0.001554 ============================================================================================= TESTING: consistencyChecks from config.packages.moose(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.moose(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.moose 0.000882 ============================================================================================= TESTING: consistencyChecks from config.packages.libjpeg(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.libjpeg(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.libjpeg 0.000993 Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/lgrind...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/lgrind...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/lgrind...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/lgrind...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/lgrind...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/lgrind...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/lgrind...not found Checking for program /scratch/app/cmake/3.17.3/bin/lgrind...not found Checking for program /scratch/app/gcc/9.3/bin/lgrind...not found Checking for program /opt/xcs/App/Scripts/lgrind...not found Checking for program /specific/bin/lgrind...not found Checking for program /usr/local/bin/lgrind...not found Checking for program /usr/bin/lgrind...not found Checking for program /usr/local/sbin/lgrind...not found Checking for program /usr/sbin/lgrind...not found Checking for program /opt/ibutils/bin/lgrind...not found Checking for program /opt/xcs/Admin/Scripts/lgrind...not found Checking for program /prj/song/juan.salazar/.local/bin/lgrind...not found Checking for program /prj/song/juan.salazar/bin/lgrind...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/lgrind...not found child config.packages.lgrind 0.002639 ============================================================================================= TESTING: consistencyChecks from config.packages.gsl(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.gsl(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.gsl 0.000835 child config.packages.gmsh 0.000113 ============================================================================================= TESTING: consistencyChecks from config.packages.gmp(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.gmp(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.gmp 0.000831 ============================================================================================= TESTING: consistencyChecks from config.packages.mpfr(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.mpfr(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.mpfr 0.000812 ============================================================================================= TESTING: consistencyChecks from config.packages.giflib(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.giflib(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.giflib 0.000829 ============================================================================================= TESTING: consistencyChecks from config.packages.cub(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.cub(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.cub 0.000826 ============================================================================================= TESTING: consistencyChecks from config.packages.ctetgen(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.ctetgen(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.ctetgen 0.000900 ============================================================================================= TESTING: consistencyChecks from config.packages.concurrencykit(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.concurrencykit(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.concurrencykit 0.000883 ============================================================================================= TESTING: consistencyChecks from config.packages.cams(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.cams(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.cams 0.000806 ============================================================================================= TESTING: locateC2html from config.packages.c2html(config/BuildSystem/config/packages/c2html.py:30) Looking for default C2html executable Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/c2html...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/c2html...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/c2html...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/c2html...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/c2html...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/c2html...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/c2html...not found Checking for program /scratch/app/cmake/3.17.3/bin/c2html...not found Checking for program /scratch/app/gcc/9.3/bin/c2html...not found Checking for program /opt/xcs/App/Scripts/c2html...not found Checking for program /specific/bin/c2html...not found Checking for program /usr/local/bin/c2html...not found Checking for program /usr/bin/c2html...not found Checking for program /usr/local/sbin/c2html...not found Checking for program /usr/sbin/c2html...not found Checking for program /opt/ibutils/bin/c2html...not found Checking for program /opt/xcs/Admin/Scripts/c2html...not found Checking for program /prj/song/juan.salazar/.local/bin/c2html...not found Checking for program /prj/song/juan.salazar/bin/c2html...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/lib/petsc/bin/win32fe/c2html...not found child config.packages.c2html 0.001451 ============================================================================================= TESTING: consistencyChecks from config.packages.boost(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.boost(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.boost 0.000874 ============================================================================================= TESTING: consistencyChecks from config.packages.silo(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.silo(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.silo 0.000821 ============================================================================================= TESTING: consistencyChecks from config.packages.Random123(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.Random123(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.Random123 0.000829 ============================================================================================= TESTING: consistencyChecks from config.packages.PARTY(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.PARTY(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.PARTY 0.000815 ============================================================================================= TESTING: consistencyChecks from config.packages.NVSHMEM(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.NVSHMEM(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.NVSHMEM 0.000774 ============================================================================================= TESTING: consistencyChecks from config.packages.Matlab(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.Matlab(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.Matlab 0.000710 ============================================================================================= TESTING: consistencyChecks from config.packages.MatlabEngine(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.MatlabEngine(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.MatlabEngine 0.000776 ============================================================================================= TESTING: consistencyChecks from config.packages.Mathematica(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.Mathematica(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.Mathematica 0.000757 ============================================================================================= TESTING: consistencyChecks from config.packages.regex(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: checkDependencies from config.packages.regex(config/BuildSystem/config/package.py:905) ============================================================================================= TESTING: configureLibrary from config.packages.regex(config/BuildSystem/config/package.py:930) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional regex Checking for library in Compiler specific search REGEX: [] ============================================================================================= 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 [] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lquadmath -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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(); } void dummy(void) {_check_regexec(); _check_regcomp(); _check_regfree();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Checking for optional headers [] in Compiler specific search REGEX: ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= 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 ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Found header files [] in ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Checking for headers ['regex.h'] in Compiler specific search REGEX: ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= 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 ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Checking include with compiler flags var CPPFLAGS ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.packages.MPI -I/scratch/app_sequana/openmpi/2.1.1/include -I/scratch/app_sequana/openmpi/2.1.1/lib /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Found header files ['regex.h'] in ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= TESTING: checkVersion from config.packages.regex(config/BuildSystem/config/package.py:1071) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version ============================================================================================= TESTING: checkSharedLibrary from config.packages.regex(config/BuildSystem/config/package.py:996) By default we don't care about checking if the library is shared child config.packages.regex 0.337618 ============================================================================================= TESTING: consistencyChecks from config.packages.libceed(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.libceed(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.libceed 0.001392 Defined "PYTHON_EXE" to ""/usr/bin/python3"" Executing: /usr/bin/python3 -c "import Cython" Executing: /usr/bin/python3 -c "import numpy" child config.packages.python 0.042053 ============================================================================================= TESTING: consistencyChecks from config.packages.petsc4py(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.petsc4py(config/BuildSystem/config/packages/petsc4py.py:129) Defined make rule "petsc4py-build" with dependencies "" and code [] Defined make rule "petsc4py-install" with dependencies "" and code [] Defined make rule "petsc4pytest" with dependencies "" and code [] child config.packages.petsc4py 0.002115 ============================================================================================= TESTING: consistencyChecks from config.packages.mpi4py(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.mpi4py(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.mpi4py 0.000947 ============================================================================================= TESTING: consistencyChecks from config.packages.opengl(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.opengl(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.opengl 0.000778 ============================================================================================= TESTING: consistencyChecks from config.packages.glut(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.glut(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.glut 0.000776 ============================================================================================= TESTING: consistencyChecks from config.packages.GLVis(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.GLVis(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.GLVis 0.000832 ============================================================================================= TESTING: consistencyChecks from config.packages.CoDiPack(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.CoDiPack(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.CoDiPack 0.000828 ============================================================================================= TESTING: consistencyChecks from config.packages.adblaslapack(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.adblaslapack(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.adblaslapack 0.000819 child config.packages.cxxlibs 0.000015 ============================================================================================= TESTING: locateCMake from config.packages.cmake(config/BuildSystem/config/packages/cmake.py:51) Looking for default CMake executable Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/cmake...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/cmake...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/cmake...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/cmake...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/cmake...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/cmake...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/cmake...not found Checking for program /scratch/app/cmake/3.17.3/bin/cmake...found Defined make macro "CMAKE" to "/scratch/app/cmake/3.17.3/bin/cmake" Looking for default CTest executable Checking for program /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/platforms/linux64Gcc/ADIOS2-2.6.0/bin/ctest...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/juan.salazar-v2012/platforms/linux64GccDPInt64Opt/bin/ctest...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/site/2012/platforms/linux64GccDPInt64Opt/bin/ctest...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/platforms/linux64GccDPInt64Opt/bin/ctest...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/bin/ctest...not found Checking for program /scratch/song/juan.salazar/sequana/openfoam/OpenFOAM-v2012/wmake/ctest...not found Checking for program /scratch/app_sequana/openmpi/2.1.1/bin/ctest...not found Checking for program /scratch/app/cmake/3.17.3/bin/ctest...found Defined make macro "CTEST" to "/scratch/app/cmake/3.17.3/bin/ctest" Executing: /scratch/app/cmake/3.17.3/bin/cmake --version stdout: cmake version 3.17.3 CMake suite maintained and supported by Kitware (kitware.com/cmake). cmake version found 3.17.3 child config.packages.cmake 0.013980 ============================================================================================= TESTING: consistencyChecks from config.packages.unittestcpp(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.unittestcpp(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.unittestcpp 0.001650 ============================================================================================= TESTING: consistencyChecks from config.packages.googletest(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.googletest(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.googletest 0.000917 ============================================================================================= TESTING: consistencyChecks from config.packages.opencascade(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.opencascade(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.opencascade 0.000835 ============================================================================================= TESTING: consistencyChecks from config.packages.eigen(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.eigen(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.eigen 0.000897 ============================================================================================= TESTING: consistencyChecks from config.packages.szlib(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.szlib(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.szlib 0.000868 ============================================================================================= TESTING: consistencyChecks from config.packages.zlib(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.zlib(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.zlib 0.000983 child config.packages.mathlib 0.000024 ============================================================================================= TESTING: consistencyChecks from config.packages.tetgen(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.tetgen(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.tetgen 0.000896 ============================================================================================= TESTING: consistencyChecks from config.packages.tchem(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.tchem(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.tchem 0.000860 ============================================================================================= TESTING: consistencyChecks from config.packages.saws(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.saws(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.saws 0.000898 ============================================================================================= TESTING: consistencyChecks from config.packages.libpng(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.libpng(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.libpng 0.000870 ============================================================================================= TESTING: consistencyChecks from config.packages.combblas(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.combblas(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.combblas 0.000955 ============================================================================================= TESTING: consistencyChecks from config.packages.Triangle(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.Triangle(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.Triangle 0.000843 ============================================================================================= TESTING: consistencyChecks from config.packages.metis(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.metis(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.metis 0.000876 ============================================================================================= TESTING: consistencyChecks from config.packages.pragmatic(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.pragmatic(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.pragmatic 0.000875 ============================================================================================= TESTING: consistencyChecks from config.packages.parmetis(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.parmetis(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.parmetis 0.000913 ============================================================================================= TESTING: consistencyChecks from config.packages.Chaco(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.Chaco(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.Chaco 0.000883 Executing: uname -s stdout: Linux ============================================================================================= TESTING: consistencyChecks from config.packages.hdf5(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.hdf5(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.hdf5 0.007523 ============================================================================================= TESTING: consistencyChecks from config.packages.med(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.med(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.med 0.000891 ============================================================================================= TESTING: consistencyChecks from config.packages.cgns(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.cgns(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.cgns 0.000822 ============================================================================================= TESTING: consistencyChecks from config.packages.ascem-io(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.ascem-io(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.ascem-io 0.000893 ============================================================================================= TESTING: consistencyChecks from config.packages.pflotran(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.pflotran(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.pflotran 0.000866 ============================================================================================= TESTING: consistencyChecks from config.packages.alquimia(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.alquimia(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.alquimia 0.000918 ============================================================================================= TESTING: consistencyChecks from config.packages.SAMRAI(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.SAMRAI(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.SAMRAI 0.000864 child config.packages.flibs 0.000018 ============================================================================================= TESTING: consistencyChecks from config.packages.pnetcdf(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.pnetcdf(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.pnetcdf 0.000893 ============================================================================================= TESTING: consistencyChecks from config.packages.netcdf(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.netcdf(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.netcdf 0.000862 ============================================================================================= TESTING: consistencyChecks from config.packages.exodusii(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.exodusii(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.exodusii 0.000900 ============================================================================================= TESTING: consistencyChecks from config.packages.fblaslapack(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.fblaslapack(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.fblaslapack 0.000867 ============================================================================================= TESTING: consistencyChecks from config.packages.pthread(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: checkDependencies from config.packages.pthread(config/BuildSystem/config/package.py:905) ============================================================================================= 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: [] ============================================================================================= 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 [] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -lquadmath -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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(); } void dummy(void) {_check_pthread_create();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Checking for optional headers [] in Compiler specific search PTHREAD: ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= 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 ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Found header files [] in ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Checking for headers ['pthread.h'] in Compiler specific search PTHREAD: ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= 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 ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Checking include with compiler flags var CPPFLAGS ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.packages.MPI -I/scratch/app_sequana/openmpi/2.1.1/include -I/scratch/app_sequana/openmpi/2.1.1/lib /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Found header files ['pthread.h'] in ['/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.pthread/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.pthread/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.packages.pthread/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.packages.pthread/conftest.c:6:20: warning: unused variable ‘a’ [-Wunused-variable] 6 | 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" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.pthread/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.pthread/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.packages.pthread/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.packages.pthread/conftest.c:6:12: warning: unused variable ‘a’ [-Wunused-variable] 6 | 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 Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread /tmp/petsc-eg0070o7/config.packages.pthread/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Defined "HAVE_SYS_SYSCTL_H" to "1" ============================================================================================= TESTING: checkVersion from config.packages.pthread(config/BuildSystem/config/package.py:1071) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version ============================================================================================= TESTING: checkSharedLibrary from config.packages.pthread(config/BuildSystem/config/package.py:996) By default we don't care about checking if the library is shared child config.packages.pthread 0.452739 ============================================================================================= TESTING: consistencyChecks from config.packages.egads(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.egads(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.egads 0.001455 ============================================================================================= TESTING: consistencyChecks from config.packages.PTScotch(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.PTScotch(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.PTScotch 0.000902 ============================================================================================= TESTING: consistencyChecks from config.packages.mmg(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.mmg(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.mmg 0.000899 ============================================================================================= TESTING: consistencyChecks from config.packages.parmmg(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.parmmg(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.parmmg 0.000917 ============================================================================================= TESTING: consistencyChecks from config.packages.Zoltan(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.Zoltan(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.Zoltan 0.000879 ============================================================================================= TESTING: consistencyChecks from config.packages.ADIOS(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.ADIOS(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.ADIOS 0.000926 ============================================================================================= TESTING: consistencyChecks from config.packages.openmp(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.openmp(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.openmp 0.000854 ============================================================================================= TESTING: consistencyChecks from config.packages.viennacl(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.viennacl(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.viennacl 0.000930 ============================================================================================= TESTING: consistencyChecks from config.packages.ColPack(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.ColPack(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.ColPack 0.000921 ============================================================================================= TESTING: consistencyChecks from config.packages.ADOLC(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.ADOLC(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.ADOLC 0.000902 ============================================================================================= TESTING: consistencyChecks from config.packages.openblas(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.openblas(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.openblas 0.000920 ============================================================================================= TESTING: consistencyChecks from config.packages.blis(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.blis(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.blis 0.000904 ============================================================================================= TESTING: consistencyChecks from config.packages.f2cblaslapack(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.f2cblaslapack(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.f2cblaslapack 0.000905 ============================================================================================= TESTING: consistencyChecks from config.packages.BlasLapack(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: checkDependencies from config.packages.BlasLapack(config/BuildSystem/config/package.py:905) ============================================================================================= TESTING: configureLibrary from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:485) Looking for BLAS/LAPACK in user specified directory: /scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 Files and directories in that directory: ['tools', 'env', 'bin', 'interfaces', 'benchmarks', 'licensing', 'documentation', 'examples', 'modulefiles', 'lib', 'include'] Files and directories in that directory: ['tools', 'env', 'bin', 'interfaces', 'benchmarks', 'licensing', 'documentation', 'examples', 'modulefiles', 'lib', 'include'] ================================================================================ Checking for BLAS and LAPACK in User specified MATLAB [ILP64] MKL Linux lib dir ============================================================================================= TESTING: checkLib from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:109) Checking for BLAS and LAPACK symbols Checking for Fortran name mangling underscore on BLAS/LAPACK Checking for functions [ddot_] in library ['/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/bin/glnxa64/mkl.so', '/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/sys/os/glnxa64/libiomp5.so', 'pthread'] ['libm.a', '-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] Checking directory of requested libraries:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/bin/glnxa64 for first library:mkl.s Directory of requested libraries /scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/bin/glnxa64 does not exist Checking for no name mangling on BLAS/LAPACK Checking for functions [ddot] in library ['/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/bin/glnxa64/mkl.so', '/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/sys/os/glnxa64/libiomp5.so', 'pthread'] ['libm.a', '-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] Checking directory of requested libraries:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/bin/glnxa64 for first library:mkl.s Directory of requested libraries /scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/bin/glnxa64 does not exist Unknown name mangling in BLAS/LAPACK ================================================================================ Checking for BLAS and LAPACK in User specified MATLAB [ILP64] MKL MacOS lib dir ============================================================================================= TESTING: checkLib from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:109) Checking for BLAS and LAPACK symbols Checking for Fortran name mangling underscore on BLAS/LAPACK Checking for functions [ddot_] in library ['/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/bin/maci64/mkl.dylib', '/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/sys/os/maci64/libiomp5.dylib', 'pthread'] ['libm.a', '-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] Checking directory of requested libraries:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/bin/maci64 for first library:mkl.dyli Directory of requested libraries /scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/bin/maci64 does not exist Checking for no name mangling on BLAS/LAPACK Checking for functions [ddot] in library ['/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/bin/maci64/mkl.dylib', '/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/sys/os/maci64/libiomp5.dylib', 'pthread'] ['libm.a', '-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] Checking directory of requested libraries:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/bin/maci64 for first library:mkl.dyli Directory of requested libraries /scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/bin/maci64 does not exist Unknown name mangling in BLAS/LAPACK ================================================================================ Checking for BLAS and LAPACK in User specified MKL11/12 and later ============================================================================================= TESTING: checkLib from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:109) Checking for BLAS and LAPACK symbols Checking for Fortran name mangling underscore on BLAS/LAPACK Checking for functions [ddot_] in library ['/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/libmkl_intel_lp64.a', 'mkl_core', 'mkl_sequential', 'pthread'] ['libm.a', '-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] Checking directory of requested libraries:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 for first library:libmkl_intel_lp64. Files in directory:['tools', 'env', 'bin', 'interfaces', 'benchmarks', 'licensing', 'documentation', 'examples', 'modulefiles', 'lib', 'include'] Checking for no name mangling on BLAS/LAPACK Checking for functions [ddot] in library ['/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/libmkl_intel_lp64.a', 'mkl_core', 'mkl_sequential', 'pthread'] ['libm.a', '-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] Checking directory of requested libraries:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 for first library:libmkl_intel_lp64. Files in directory:['tools', 'env', 'bin', 'interfaces', 'benchmarks', 'licensing', 'documentation', 'examples', 'modulefiles', 'lib', 'include'] Unknown name mangling in BLAS/LAPACK Files and directories in that directory: ['libmkl_blas95_lp64.a', 'libmkl_vml_avx512.so.1', 'libmkl_blacs_sgimpt_ilp64.so.1', 'libmkl_scalapack_lp64.a', 'libmkl_rt.so', 'libmkl_sycl.so.1', 'libmkl_gnu_thread.so', 'libmkl_blacs_sgimpt_lp64.so.1', 'libmkl_scalapack_lp64.so', 'libmkl_pgi_thread.so', 'libmkl_blacs_sgimpt_lp64.a', 'libmkl_intel_lp64.a', 'libmkl_intel_thread.so', 'libmkl_core.so.1', 'libmkl_blacs_openmpi_ilp64.so', 'libmkl_core.so', 'libmkl_blacs_intelmpi_lp64.so', 'libmkl_avx.so.1', 'libmkl_scalapack_ilp64.so', 'libmkl_gf_ilp64.so', 'libmkl_gf_lp64.so.1', 'libmkl_scalapack_ilp64.a', 'libmkl_gnu_thread.so.1', 'libmkl_gf_ilp64.so.1', 'libmkl_gnu_thread.a', 'libmkl_vml_avx2.so.1', 'libmkl_blacs_sgimpt_ilp64.a', 'libmkl_blacs_intelmpi_lp64.a', 'libmkl_lapack95_lp64.a', 'libmkl_vml_mc3.so.1', 'libmkl_avx512.so.1', 'libmkl_sequential.so', 'libmkl_intel_thread.a', 'libmkl_sequential.so.1', 'libmkl_intel_lp64.so.1', 'libmkl_scalapack_ilp64.so.1', 'libmkl_vml_def.so.1', 'libmkl_blacs_intelmpi_ilp64.a', 'libmkl_tbb_thread.so.1', 'libmkl_blacs_openmpi_lp64.so', 'libmkl_vml_avx512_mic.so.1', 'libmkl_blacs_intelmpi_ilp64.so', 'libmkl_blas95_ilp64.a', 'libmkl_gf_ilp64.a', 'libmkl_core.a', 'libmkl_blacs_intelmpi_ilp64.so.1', 'libmkl_blacs_openmpi_ilp64.so.1', 'libmkl_gf_lp64.so', 'libmkl_avx512_mic.so.1', 'libmkl_vml_mc2.so.1', 'libmkl_blacs_openmpi_lp64.a', 'locale', 'libmkl_blacs_sgimpt_ilp64.so', 'libmkl_sycl.so', 'libmkl_vml_avx.so.1', 'libmkl_tbb_thread.so', 'libmkl_avx2.so.1', 'libmkl_pgi_thread.so.1', 'libmkl_cdft_core.so.1', 'libmkl_lapack95_ilp64.a', 'libmkl_mc3.so.1', 'libmkl_scalapack_lp64.so.1', 'libmkl_sequential.a', 'libmkl_tbb_thread.a', 'libmkl_pgi_thread.a', 'libmkl_blacs_openmpi_lp64.so.1', 'libmkl_cdft_core.a', 'libmkl_vml_cmpt.so.1', 'libmkl_def.so.1', 'libmkl_blacs_openmpi_ilp64.a', 'libmkl_mc.so.1', 'libmkl_intel_lp64.so', 'libmkl_sycl.a', 'libmkl_cdft_core.so', 'libmkl_intel_ilp64.so', 'libmkl_vml_mc.so.1', 'libmkl_gf_lp64.a', 'libmkl_blacs_intelmpi_lp64.so.1', 'libmkl_intel_ilp64.a', 'libmkl_rt.so.1', 'libmkl_intel_thread.so.1', 'libmkl_intel_ilp64.so.1', 'libmkl_blacs_sgimpt_lp64.so'] ================================================================================ Checking for BLAS and LAPACK in User specified MKL11/12 Linux32 ============================================================================================= TESTING: checkLib from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:109) Checking for BLAS and LAPACK symbols Checking for Fortran name mangling underscore on BLAS/LAPACK Checking for functions [ddot_] in library ['/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/libmkl_intel_lp64.a', 'mkl_core', 'mkl_sequential', 'pthread'] ['libm.a', '-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] Checking directory of requested libraries:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 for first library:libmkl_intel_lp64. Files in directory:['libmkl_blas95_lp64.a', 'libmkl_vml_avx512.so.1', 'libmkl_blacs_sgimpt_ilp64.so.1', 'libmkl_scalapack_lp64.a', 'libmkl_rt.so', 'libmkl_sycl.so.1', 'libmkl_gnu_thread.so', 'libmkl_blacs_sgimpt_lp64.so.1', 'libmkl_scalapack_lp64.so', 'libmkl_pgi_thread.so', 'libmkl_blacs_sgimpt_lp64.a', 'libmkl_intel_lp64.a', 'libmkl_intel_thread.so', 'libmkl_core.so.1', 'libmkl_blacs_openmpi_ilp64.so', 'libmkl_core.so', 'libmkl_blacs_intelmpi_lp64.so', 'libmkl_avx.so.1', 'libmkl_scalapack_ilp64.so', 'libmkl_gf_ilp64.so', 'libmkl_gf_lp64.so.1', 'libmkl_scalapack_ilp64.a', 'libmkl_gnu_thread.so.1', 'libmkl_gf_ilp64.so.1', 'libmkl_gnu_thread.a', 'libmkl_vml_avx2.so.1', 'libmkl_blacs_sgimpt_ilp64.a', 'libmkl_blacs_intelmpi_lp64.a', 'libmkl_lapack95_lp64.a', 'libmkl_vml_mc3.so.1', 'libmkl_avx512.so.1', 'libmkl_sequential.so', 'libmkl_intel_thread.a', 'libmkl_sequential.so.1', 'libmkl_intel_lp64.so.1', 'libmkl_scalapack_ilp64.so.1', 'libmkl_vml_def.so.1', 'libmkl_blacs_intelmpi_ilp64.a', 'libmkl_tbb_thread.so.1', 'libmkl_blacs_openmpi_lp64.so', 'libmkl_vml_avx512_mic.so.1', 'libmkl_blacs_intelmpi_ilp64.so', 'libmkl_blas95_ilp64.a', 'libmkl_gf_ilp64.a', 'libmkl_core.a', 'libmkl_blacs_intelmpi_ilp64.so.1', 'libmkl_blacs_openmpi_ilp64.so.1', 'libmkl_gf_lp64.so', 'libmkl_avx512_mic.so.1', 'libmkl_vml_mc2.so.1', 'libmkl_blacs_openmpi_lp64.a', 'locale', 'libmkl_blacs_sgimpt_ilp64.so', 'libmkl_sycl.so', 'libmkl_vml_avx.so.1', 'libmkl_tbb_thread.so', 'libmkl_avx2.so.1', 'libmkl_pgi_thread.so.1', 'libmkl_cdft_core.so.1', 'libmkl_lapack95_ilp64.a', 'libmkl_mc3.so.1', 'libmkl_scalapack_lp64.so.1', 'libmkl_sequential.a', 'libmkl_tbb_thread.a', 'libmkl_pgi_thread.a', 'libmkl_blacs_openmpi_lp64.so.1', 'libmkl_cdft_core.a', 'libmkl_vml_cmpt.so.1', 'libmkl_def.so.1', 'libmkl_blacs_openmpi_ilp64.a', 'libmkl_mc.so.1', 'libmkl_intel_lp64.so', 'libmkl_sycl.a', 'libmkl_cdft_core.so', 'libmkl_intel_ilp64.so', 'libmkl_vml_mc.so.1', 'libmkl_gf_lp64.a', 'libmkl_blacs_intelmpi_lp64.so.1', 'libmkl_intel_ilp64.a', 'libmkl_rt.so.1', 'libmkl_intel_thread.so.1', 'libmkl_intel_ilp64.so.1', 'libmkl_blacs_sgimpt_lp64.so'] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.packages.pthread -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.pthread -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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_(); } void dummy(void) {_check_ddot_();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBMKL_INTEL_LP64" to "1" Defined "HAVE_LIBMKL_CORE" to "1" Defined "HAVE_LIBMKL_SEQUENTIAL" to "1" Defined "HAVE_LIBPTHREAD" to "1" Checking for functions [dgetrs_] in library ['/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/libmkl_intel_lp64.a', 'mkl_core', 'mkl_sequential', 'pthread'] ['libm.a', '-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] Checking directory of requested libraries:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 for first library:libmkl_intel_lp64. Files in directory:['libmkl_blas95_lp64.a', 'libmkl_vml_avx512.so.1', 'libmkl_blacs_sgimpt_ilp64.so.1', 'libmkl_scalapack_lp64.a', 'libmkl_rt.so', 'libmkl_sycl.so.1', 'libmkl_gnu_thread.so', 'libmkl_blacs_sgimpt_lp64.so.1', 'libmkl_scalapack_lp64.so', 'libmkl_pgi_thread.so', 'libmkl_blacs_sgimpt_lp64.a', 'libmkl_intel_lp64.a', 'libmkl_intel_thread.so', 'libmkl_core.so.1', 'libmkl_blacs_openmpi_ilp64.so', 'libmkl_core.so', 'libmkl_blacs_intelmpi_lp64.so', 'libmkl_avx.so.1', 'libmkl_scalapack_ilp64.so', 'libmkl_gf_ilp64.so', 'libmkl_gf_lp64.so.1', 'libmkl_scalapack_ilp64.a', 'libmkl_gnu_thread.so.1', 'libmkl_gf_ilp64.so.1', 'libmkl_gnu_thread.a', 'libmkl_vml_avx2.so.1', 'libmkl_blacs_sgimpt_ilp64.a', 'libmkl_blacs_intelmpi_lp64.a', 'libmkl_lapack95_lp64.a', 'libmkl_vml_mc3.so.1', 'libmkl_avx512.so.1', 'libmkl_sequential.so', 'libmkl_intel_thread.a', 'libmkl_sequential.so.1', 'libmkl_intel_lp64.so.1', 'libmkl_scalapack_ilp64.so.1', 'libmkl_vml_def.so.1', 'libmkl_blacs_intelmpi_ilp64.a', 'libmkl_tbb_thread.so.1', 'libmkl_blacs_openmpi_lp64.so', 'libmkl_vml_avx512_mic.so.1', 'libmkl_blacs_intelmpi_ilp64.so', 'libmkl_blas95_ilp64.a', 'libmkl_gf_ilp64.a', 'libmkl_core.a', 'libmkl_blacs_intelmpi_ilp64.so.1', 'libmkl_blacs_openmpi_ilp64.so.1', 'libmkl_gf_lp64.so', 'libmkl_avx512_mic.so.1', 'libmkl_vml_mc2.so.1', 'libmkl_blacs_openmpi_lp64.a', 'locale', 'libmkl_blacs_sgimpt_ilp64.so', 'libmkl_sycl.so', 'libmkl_vml_avx.so.1', 'libmkl_tbb_thread.so', 'libmkl_avx2.so.1', 'libmkl_pgi_thread.so.1', 'libmkl_cdft_core.so.1', 'libmkl_lapack95_ilp64.a', 'libmkl_mc3.so.1', 'libmkl_scalapack_lp64.so.1', 'libmkl_sequential.a', 'libmkl_tbb_thread.a', 'libmkl_pgi_thread.a', 'libmkl_blacs_openmpi_lp64.so.1', 'libmkl_cdft_core.a', 'libmkl_vml_cmpt.so.1', 'libmkl_def.so.1', 'libmkl_blacs_openmpi_ilp64.a', 'libmkl_mc.so.1', 'libmkl_intel_lp64.so', 'libmkl_sycl.a', 'libmkl_cdft_core.so', 'libmkl_intel_ilp64.so', 'libmkl_vml_mc.so.1', 'libmkl_gf_lp64.a', 'libmkl_blacs_intelmpi_lp64.so.1', 'libmkl_intel_ilp64.a', 'libmkl_rt.so.1', 'libmkl_intel_thread.so.1', 'libmkl_intel_ilp64.so.1', 'libmkl_blacs_sgimpt_lp64.so'] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.pthread -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.pthread -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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_(); } void dummy(void) {_check_dgetrs_();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBMKL_INTEL_LP64" to "1" Defined "HAVE_LIBMKL_CORE" to "1" Defined "HAVE_LIBMKL_SEQUENTIAL" to "1" Defined "HAVE_LIBPTHREAD" to "1" Checking for functions [dgeev_] in library ['/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/libmkl_intel_lp64.a', 'mkl_core', 'mkl_sequential', 'pthread'] ['libm.a', '-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] Checking directory of requested libraries:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 for first library:libmkl_intel_lp64. Files in directory:['libmkl_blas95_lp64.a', 'libmkl_vml_avx512.so.1', 'libmkl_blacs_sgimpt_ilp64.so.1', 'libmkl_scalapack_lp64.a', 'libmkl_rt.so', 'libmkl_sycl.so.1', 'libmkl_gnu_thread.so', 'libmkl_blacs_sgimpt_lp64.so.1', 'libmkl_scalapack_lp64.so', 'libmkl_pgi_thread.so', 'libmkl_blacs_sgimpt_lp64.a', 'libmkl_intel_lp64.a', 'libmkl_intel_thread.so', 'libmkl_core.so.1', 'libmkl_blacs_openmpi_ilp64.so', 'libmkl_core.so', 'libmkl_blacs_intelmpi_lp64.so', 'libmkl_avx.so.1', 'libmkl_scalapack_ilp64.so', 'libmkl_gf_ilp64.so', 'libmkl_gf_lp64.so.1', 'libmkl_scalapack_ilp64.a', 'libmkl_gnu_thread.so.1', 'libmkl_gf_ilp64.so.1', 'libmkl_gnu_thread.a', 'libmkl_vml_avx2.so.1', 'libmkl_blacs_sgimpt_ilp64.a', 'libmkl_blacs_intelmpi_lp64.a', 'libmkl_lapack95_lp64.a', 'libmkl_vml_mc3.so.1', 'libmkl_avx512.so.1', 'libmkl_sequential.so', 'libmkl_intel_thread.a', 'libmkl_sequential.so.1', 'libmkl_intel_lp64.so.1', 'libmkl_scalapack_ilp64.so.1', 'libmkl_vml_def.so.1', 'libmkl_blacs_intelmpi_ilp64.a', 'libmkl_tbb_thread.so.1', 'libmkl_blacs_openmpi_lp64.so', 'libmkl_vml_avx512_mic.so.1', 'libmkl_blacs_intelmpi_ilp64.so', 'libmkl_blas95_ilp64.a', 'libmkl_gf_ilp64.a', 'libmkl_core.a', 'libmkl_blacs_intelmpi_ilp64.so.1', 'libmkl_blacs_openmpi_ilp64.so.1', 'libmkl_gf_lp64.so', 'libmkl_avx512_mic.so.1', 'libmkl_vml_mc2.so.1', 'libmkl_blacs_openmpi_lp64.a', 'locale', 'libmkl_blacs_sgimpt_ilp64.so', 'libmkl_sycl.so', 'libmkl_vml_avx.so.1', 'libmkl_tbb_thread.so', 'libmkl_avx2.so.1', 'libmkl_pgi_thread.so.1', 'libmkl_cdft_core.so.1', 'libmkl_lapack95_ilp64.a', 'libmkl_mc3.so.1', 'libmkl_scalapack_lp64.so.1', 'libmkl_sequential.a', 'libmkl_tbb_thread.a', 'libmkl_pgi_thread.a', 'libmkl_blacs_openmpi_lp64.so.1', 'libmkl_cdft_core.a', 'libmkl_vml_cmpt.so.1', 'libmkl_def.so.1', 'libmkl_blacs_openmpi_ilp64.a', 'libmkl_mc.so.1', 'libmkl_intel_lp64.so', 'libmkl_sycl.a', 'libmkl_cdft_core.so', 'libmkl_intel_ilp64.so', 'libmkl_vml_mc.so.1', 'libmkl_gf_lp64.a', 'libmkl_blacs_intelmpi_lp64.so.1', 'libmkl_intel_ilp64.a', 'libmkl_rt.so.1', 'libmkl_intel_thread.so.1', 'libmkl_intel_ilp64.so.1', 'libmkl_blacs_sgimpt_lp64.so'] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.pthread -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.pthread -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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_(); } void dummy(void) {_check_dgeev_();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBMKL_INTEL_LP64" to "1" Defined "HAVE_LIBMKL_CORE" to "1" Defined "HAVE_LIBMKL_SEQUENTIAL" to "1" Defined "HAVE_LIBPTHREAD" to "1" Found Fortran mangling on BLAS/LAPACK which is underscore Defined "BLASLAPACK_UNDERSCORE" to "1" ============================================================================================= TESTING: checkMKL from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:557) Check for Intel MKL library Checking for functions [mkl_set_num_threads] in library ['/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/libmkl_intel_lp64.a', 'mkl_core', 'mkl_sequential', 'pthread', 'libm.a', '-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] [] Checking directory of requested libraries:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 for first library:libmkl_intel_lp64. Files in directory:['libmkl_blas95_lp64.a', 'libmkl_vml_avx512.so.1', 'libmkl_blacs_sgimpt_ilp64.so.1', 'libmkl_scalapack_lp64.a', 'libmkl_rt.so', 'libmkl_sycl.so.1', 'libmkl_gnu_thread.so', 'libmkl_blacs_sgimpt_lp64.so.1', 'libmkl_scalapack_lp64.so', 'libmkl_pgi_thread.so', 'libmkl_blacs_sgimpt_lp64.a', 'libmkl_intel_lp64.a', 'libmkl_intel_thread.so', 'libmkl_core.so.1', 'libmkl_blacs_openmpi_ilp64.so', 'libmkl_core.so', 'libmkl_blacs_intelmpi_lp64.so', 'libmkl_avx.so.1', 'libmkl_scalapack_ilp64.so', 'libmkl_gf_ilp64.so', 'libmkl_gf_lp64.so.1', 'libmkl_scalapack_ilp64.a', 'libmkl_gnu_thread.so.1', 'libmkl_gf_ilp64.so.1', 'libmkl_gnu_thread.a', 'libmkl_vml_avx2.so.1', 'libmkl_blacs_sgimpt_ilp64.a', 'libmkl_blacs_intelmpi_lp64.a', 'libmkl_lapack95_lp64.a', 'libmkl_vml_mc3.so.1', 'libmkl_avx512.so.1', 'libmkl_sequential.so', 'libmkl_intel_thread.a', 'libmkl_sequential.so.1', 'libmkl_intel_lp64.so.1', 'libmkl_scalapack_ilp64.so.1', 'libmkl_vml_def.so.1', 'libmkl_blacs_intelmpi_ilp64.a', 'libmkl_tbb_thread.so.1', 'libmkl_blacs_openmpi_lp64.so', 'libmkl_vml_avx512_mic.so.1', 'libmkl_blacs_intelmpi_ilp64.so', 'libmkl_blas95_ilp64.a', 'libmkl_gf_ilp64.a', 'libmkl_core.a', 'libmkl_blacs_intelmpi_ilp64.so.1', 'libmkl_blacs_openmpi_ilp64.so.1', 'libmkl_gf_lp64.so', 'libmkl_avx512_mic.so.1', 'libmkl_vml_mc2.so.1', 'libmkl_blacs_openmpi_lp64.a', 'locale', 'libmkl_blacs_sgimpt_ilp64.so', 'libmkl_sycl.so', 'libmkl_vml_avx.so.1', 'libmkl_tbb_thread.so', 'libmkl_avx2.so.1', 'libmkl_pgi_thread.so.1', 'libmkl_cdft_core.so.1', 'libmkl_lapack95_ilp64.a', 'libmkl_mc3.so.1', 'libmkl_scalapack_lp64.so.1', 'libmkl_sequential.a', 'libmkl_tbb_thread.a', 'libmkl_pgi_thread.a', 'libmkl_blacs_openmpi_lp64.so.1', 'libmkl_cdft_core.a', 'libmkl_vml_cmpt.so.1', 'libmkl_def.so.1', 'libmkl_blacs_openmpi_ilp64.a', 'libmkl_mc.so.1', 'libmkl_intel_lp64.so', 'libmkl_sycl.a', 'libmkl_cdft_core.so', 'libmkl_intel_ilp64.so', 'libmkl_vml_mc.so.1', 'libmkl_gf_lp64.a', 'libmkl_blacs_intelmpi_lp64.so.1', 'libmkl_intel_ilp64.a', 'libmkl_rt.so.1', 'libmkl_intel_thread.so.1', 'libmkl_intel_ilp64.so.1', 'libmkl_blacs_sgimpt_lp64.so'] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.pthread -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.pthread -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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(); } void dummy(void) {_check_mkl_set_num_threads();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBMKL_INTEL_LP64" to "1" Defined "HAVE_LIBMKL_CORE" to "1" Defined "HAVE_LIBMKL_SEQUENTIAL" to "1" Defined "HAVE_LIBPTHREAD" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBSTDC__" to "1" Defined "HAVE_LIBDL" to "1" Defined "HAVE_LIBMPI_USEMPI" to "1" Defined "HAVE_LIBMPI_MPIFH" to "1" Defined "HAVE_LIBMPI" to "1" Defined "HAVE_LIBGFORTRAN" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBGFORTRAN" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBGCC_S" to "1" Defined "HAVE_LIBQUADMATH" to "1" Defined "HAVE_LIBPTHREAD" to "1" Defined "HAVE_MKL" to "1" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include "mkl_spblas.h" int main() { ; return 0; } MKL mkl_spblas.h found in default include path. Preprocessing source: #include "confdefs.h" #include "conffix.h" #include "mkl_version.h" petscpkgver(INTEL_MKL_VERSION); Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.packages.BlasLapack /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest.c For blaslapack need <= 202101 <= ============================================================================================= TESTING: checklsame from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:662) Do the BLAS/LAPACK libraries have a valid lsame() function with correct binding. Checking for functions [lsame_] in library ['/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/libmkl_intel_lp64.a', 'mkl_core', 'mkl_sequential', 'pthread', 'libm.a', '-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] [] Checking directory of requested libraries:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 for first library:libmkl_intel_lp64. Files in directory:['libmkl_blas95_lp64.a', 'libmkl_vml_avx512.so.1', 'libmkl_blacs_sgimpt_ilp64.so.1', 'libmkl_scalapack_lp64.a', 'libmkl_rt.so', 'libmkl_sycl.so.1', 'libmkl_gnu_thread.so', 'libmkl_blacs_sgimpt_lp64.so.1', 'libmkl_scalapack_lp64.so', 'libmkl_pgi_thread.so', 'libmkl_blacs_sgimpt_lp64.a', 'libmkl_intel_lp64.a', 'libmkl_intel_thread.so', 'libmkl_core.so.1', 'libmkl_blacs_openmpi_ilp64.so', 'libmkl_core.so', 'libmkl_blacs_intelmpi_lp64.so', 'libmkl_avx.so.1', 'libmkl_scalapack_ilp64.so', 'libmkl_gf_ilp64.so', 'libmkl_gf_lp64.so.1', 'libmkl_scalapack_ilp64.a', 'libmkl_gnu_thread.so.1', 'libmkl_gf_ilp64.so.1', 'libmkl_gnu_thread.a', 'libmkl_vml_avx2.so.1', 'libmkl_blacs_sgimpt_ilp64.a', 'libmkl_blacs_intelmpi_lp64.a', 'libmkl_lapack95_lp64.a', 'libmkl_vml_mc3.so.1', 'libmkl_avx512.so.1', 'libmkl_sequential.so', 'libmkl_intel_thread.a', 'libmkl_sequential.so.1', 'libmkl_intel_lp64.so.1', 'libmkl_scalapack_ilp64.so.1', 'libmkl_vml_def.so.1', 'libmkl_blacs_intelmpi_ilp64.a', 'libmkl_tbb_thread.so.1', 'libmkl_blacs_openmpi_lp64.so', 'libmkl_vml_avx512_mic.so.1', 'libmkl_blacs_intelmpi_ilp64.so', 'libmkl_blas95_ilp64.a', 'libmkl_gf_ilp64.a', 'libmkl_core.a', 'libmkl_blacs_intelmpi_ilp64.so.1', 'libmkl_blacs_openmpi_ilp64.so.1', 'libmkl_gf_lp64.so', 'libmkl_avx512_mic.so.1', 'libmkl_vml_mc2.so.1', 'libmkl_blacs_openmpi_lp64.a', 'locale', 'libmkl_blacs_sgimpt_ilp64.so', 'libmkl_sycl.so', 'libmkl_vml_avx.so.1', 'libmkl_tbb_thread.so', 'libmkl_avx2.so.1', 'libmkl_pgi_thread.so.1', 'libmkl_cdft_core.so.1', 'libmkl_lapack95_ilp64.a', 'libmkl_mc3.so.1', 'libmkl_scalapack_lp64.so.1', 'libmkl_sequential.a', 'libmkl_tbb_thread.a', 'libmkl_pgi_thread.a', 'libmkl_blacs_openmpi_lp64.so.1', 'libmkl_cdft_core.a', 'libmkl_vml_cmpt.so.1', 'libmkl_def.so.1', 'libmkl_blacs_openmpi_ilp64.a', 'libmkl_mc.so.1', 'libmkl_intel_lp64.so', 'libmkl_sycl.a', 'libmkl_cdft_core.so', 'libmkl_intel_ilp64.so', 'libmkl_vml_mc.so.1', 'libmkl_gf_lp64.a', 'libmkl_blacs_intelmpi_lp64.so.1', 'libmkl_intel_ilp64.a', 'libmkl_rt.so.1', 'libmkl_intel_thread.so.1', 'libmkl_intel_ilp64.so.1', 'libmkl_blacs_sgimpt_lp64.so'] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/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_(); } void dummy(void) {_check_lsame_();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBMKL_INTEL_LP64" to "1" Defined "HAVE_LIBMKL_CORE" to "1" Defined "HAVE_LIBMKL_SEQUENTIAL" to "1" Defined "HAVE_LIBPTHREAD" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBSTDC__" to "1" Defined "HAVE_LIBDL" to "1" Defined "HAVE_LIBMPI_USEMPI" to "1" Defined "HAVE_LIBMPI_MPIFH" to "1" Defined "HAVE_LIBMPI" to "1" Defined "HAVE_LIBGFORTRAN" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBGFORTRAN" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBGCC_S" to "1" Defined "HAVE_LIBQUADMATH" to "1" Defined "HAVE_LIBPTHREAD" to "1" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" char *dgeev_(void); char* testroutine(void){return dgeev_(); } ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" char *dgeev_(void); char* testroutine(void){return dgeev_(); } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.setCompilers/libconftest.so -shared -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.setCompilers/conftest.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl ============================================================================================= TESTING: checkRuntimeIssues from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:721) Determines if BLAS/LAPACK routines use 32 or 64 bit integers 32 bit blas indices based on the BLAS/LAPACK library being used Checking if sdot() returns a float or a double ======== Checking running linked program ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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 float sdot_(const int*,const float*,const int *,const float*,const int*); float x1[1] = {3.0}; int one1 = 1; long long int ione1 = 1; float sdotresult = 0; int blasint64 = 0; if (!blasint64) { sdotresult = sdot_(&one1,x1,&one1,x1,&one1); } else { sdotresult = sdot_((const int*)&ione1,x1,(const int*)&ione1,x1,(const int*)&ione1); } fprintf(output, "--known-sdot-returns-double=%d",sdotresult != 9); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Testing executable /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest to see if it can be run Executing: /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest Checking for sdot() return double: result 0 Checking if snrm() returns a float or a double ======== Checking running linked program ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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 float snrm2_(const int*,const float*,const int*); float x2[1] = {3.0}; int one2 = 1; long long int ione2 = 1; float normresult = 0; int blasint64 = 0; if (!blasint64) { normresult = snrm2_(&one2,x2,&one2); } else { normresult = snrm2_((const int*)&ione2,x2,(const int*)&ione2); } fprintf(output, "--known-snrm2-returns-double=%d",normresult != 3); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Testing executable /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest to see if it can be run Executing: /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest Checking for snrm2() return double: result 0 ============================================================================================= TESTING: checkVersion from config.packages.BlasLapack(config/BuildSystem/config/package.py:1071) 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 "mkl_version.h" petscpkgver(INTEL_MKL_VERSION); Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.packages.BlasLapack /tmp/petsc-eg0070o7/config.packages.BlasLapack/conftest.c For blaslapack need <= 202101 <= ============================================================================================= TESTING: checkSharedLibrary from config.packages.BlasLapack(config/BuildSystem/config/package.py:996) By default we don't care about checking if the library is shared child config.packages.BlasLapack 3.180269 ============================================================================================= TESTING: consistencyChecks from config.packages.sundials2(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.sundials2(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.sundials2 0.001792 ============================================================================================= TESTING: consistencyChecks from config.packages.spai(config/BuildSystem/config/packages/spai.py:53) ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.spai(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.spai 0.001774 ============================================================================================= TESTING: consistencyChecks from config.packages.pARMS(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.pARMS(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.pARMS 0.001051 ============================================================================================= TESTING: consistencyChecks from config.packages.p4est(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.p4est(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.p4est 0.001046 ============================================================================================= TESTING: consistencyChecks from config.packages.mkl_sparse_optimize(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.mkl_sparse_optimize(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.mkl_sparse_optimize 0.001200 ============================================================================================= TESTING: consistencyChecks from config.packages.mkl_sparse(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.mkl_sparse(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.mkl_sparse 0.001107 ============================================================================================= TESTING: consistencyChecks from config.packages.mkl_cpardiso(config/BuildSystem/config/packages/mkl_cpardiso.py:20) ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.mkl_cpardiso(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.mkl_cpardiso 0.001492 ============================================================================================= TESTING: consistencyChecks from config.packages.kokkos(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.kokkos(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.kokkos 0.001090 ============================================================================================= TESTING: consistencyChecks from config.packages.kokkos-kernels(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.kokkos-kernels(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.kokkos-kernels 0.001148 ============================================================================================= TESTING: consistencyChecks from config.packages.htool(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.htool(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.htool 0.000995 ============================================================================================= TESTING: consistencyChecks from config.packages.magma(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.magma(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.magma 0.001067 ============================================================================================= TESTING: consistencyChecks from config.packages.kblas(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.kblas(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.kblas 0.001033 ============================================================================================= TESTING: consistencyChecks from config.packages.h2opus(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.h2opus(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.h2opus 0.000945 ============================================================================================= TESTING: consistencyChecks from config.packages.fftw(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.fftw(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.fftw 0.001038 ============================================================================================= TESTING: consistencyChecks from config.packages.elemental(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.elemental(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.elemental 0.000986 ============================================================================================= TESTING: consistencyChecks from config.packages.ml(config/BuildSystem/config/packages/ml.py:62) ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.ml(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.ml 0.001491 ============================================================================================= TESTING: consistencyChecks from config.packages.mkl_pardiso(config/BuildSystem/config/packages/mkl_pardiso.py:21) ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.mkl_pardiso(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.mkl_pardiso 0.001408 ============================================================================================= TESTING: consistencyChecks from config.packages.SuperLU_DIST(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.SuperLU_DIST(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.SuperLU_DIST 0.000978 ============================================================================================= TESTING: consistencyChecks from config.packages.SuperLU(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.SuperLU(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.SuperLU 0.001005 ============================================================================================= TESTING: consistencyChecks from config.packages.PaStiX(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.PaStiX(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.PaStiX 0.000936 ============================================================================================= TESTING: consistencyChecks from config.packages.scalapack(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.scalapack(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.scalapack 0.000934 ============================================================================================= TESTING: consistencyChecks from config.packages.strumpack(config/BuildSystem/config/packages/strumpack.py:68) ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.strumpack(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.strumpack 0.001371 ============================================================================================= TESTING: consistencyChecks from config.packages.MUMPS(config/BuildSystem/config/packages/MUMPS.py:59) ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.MUMPS(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.MUMPS 0.001604 ============================================================================================= TESTING: consistencyChecks from config.packages.MOAB(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.MOAB(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.MOAB 0.000905 Executing: uname -s stdout: Linux ============================================================================================= TESTING: consistencyChecks from config.packages.SuiteSparse(config/BuildSystem/config/packages/SuiteSparse.py:176) ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.SuiteSparse(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.SuiteSparse 0.007998 ============================================================================================= TESTING: consistencyChecks from config.packages.Chombo(config/BuildSystem/config/packages/Chombo.py:130) ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.Chombo(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.Chombo 0.001434 ============================================================================================= TESTING: consistencyChecks from config.packages.hypre(config/BuildSystem/config/packages/hypre.py:171) Checking for functions [dgels_] in library ['/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/libmkl_intel_lp64.a', 'mkl_core', 'mkl_sequential', 'pthread', 'libm.a', '-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] [] Checking directory of requested libraries:/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 for first library:libmkl_intel_lp64. Files in directory:['libmkl_blas95_lp64.a', 'libmkl_vml_avx512.so.1', 'libmkl_blacs_sgimpt_ilp64.so.1', 'libmkl_scalapack_lp64.a', 'libmkl_rt.so', 'libmkl_sycl.so.1', 'libmkl_gnu_thread.so', 'libmkl_blacs_sgimpt_lp64.so.1', 'libmkl_scalapack_lp64.so', 'libmkl_pgi_thread.so', 'libmkl_blacs_sgimpt_lp64.a', 'libmkl_intel_lp64.a', 'libmkl_intel_thread.so', 'libmkl_core.so.1', 'libmkl_blacs_openmpi_ilp64.so', 'libmkl_core.so', 'libmkl_blacs_intelmpi_lp64.so', 'libmkl_avx.so.1', 'libmkl_scalapack_ilp64.so', 'libmkl_gf_ilp64.so', 'libmkl_gf_lp64.so.1', 'libmkl_scalapack_ilp64.a', 'libmkl_gnu_thread.so.1', 'libmkl_gf_ilp64.so.1', 'libmkl_gnu_thread.a', 'libmkl_vml_avx2.so.1', 'libmkl_blacs_sgimpt_ilp64.a', 'libmkl_blacs_intelmpi_lp64.a', 'libmkl_lapack95_lp64.a', 'libmkl_vml_mc3.so.1', 'libmkl_avx512.so.1', 'libmkl_sequential.so', 'libmkl_intel_thread.a', 'libmkl_sequential.so.1', 'libmkl_intel_lp64.so.1', 'libmkl_scalapack_ilp64.so.1', 'libmkl_vml_def.so.1', 'libmkl_blacs_intelmpi_ilp64.a', 'libmkl_tbb_thread.so.1', 'libmkl_blacs_openmpi_lp64.so', 'libmkl_vml_avx512_mic.so.1', 'libmkl_blacs_intelmpi_ilp64.so', 'libmkl_blas95_ilp64.a', 'libmkl_gf_ilp64.a', 'libmkl_core.a', 'libmkl_blacs_intelmpi_ilp64.so.1', 'libmkl_blacs_openmpi_ilp64.so.1', 'libmkl_gf_lp64.so', 'libmkl_avx512_mic.so.1', 'libmkl_vml_mc2.so.1', 'libmkl_blacs_openmpi_lp64.a', 'locale', 'libmkl_blacs_sgimpt_ilp64.so', 'libmkl_sycl.so', 'libmkl_vml_avx.so.1', 'libmkl_tbb_thread.so', 'libmkl_avx2.so.1', 'libmkl_pgi_thread.so.1', 'libmkl_cdft_core.so.1', 'libmkl_lapack95_ilp64.a', 'libmkl_mc3.so.1', 'libmkl_scalapack_lp64.so.1', 'libmkl_sequential.a', 'libmkl_tbb_thread.a', 'libmkl_pgi_thread.a', 'libmkl_blacs_openmpi_lp64.so.1', 'libmkl_cdft_core.a', 'libmkl_vml_cmpt.so.1', 'libmkl_def.so.1', 'libmkl_blacs_openmpi_ilp64.a', 'libmkl_mc.so.1', 'libmkl_intel_lp64.so', 'libmkl_sycl.a', 'libmkl_cdft_core.so', 'libmkl_intel_ilp64.so', 'libmkl_vml_mc.so.1', 'libmkl_gf_lp64.a', 'libmkl_blacs_intelmpi_lp64.so.1', 'libmkl_intel_ilp64.a', 'libmkl_rt.so.1', 'libmkl_intel_thread.so.1', 'libmkl_intel_ilp64.so.1', 'libmkl_blacs_sgimpt_lp64.so'] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char dgels_(); static void _check_dgels_() { dgels_(); } int main() { _check_dgels_();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char dgels_(); static void _check_dgels_() { dgels_(); } void dummy(void) {_check_dgels_();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBMKL_INTEL_LP64" to "1" Defined "HAVE_LIBMKL_CORE" to "1" Defined "HAVE_LIBMKL_SEQUENTIAL" to "1" Defined "HAVE_LIBPTHREAD" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBSTDC__" to "1" Defined "HAVE_LIBDL" to "1" Defined "HAVE_LIBMPI_USEMPI" to "1" Defined "HAVE_LIBMPI_MPIFH" to "1" Defined "HAVE_LIBMPI" to "1" Defined "HAVE_LIBGFORTRAN" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBGFORTRAN" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBGCC_S" to "1" Defined "HAVE_LIBQUADMATH" to "1" Defined "HAVE_LIBPTHREAD" to "1" Found dgels() in Lapack library as needed by hypre ============================================================================================= TESTING: checkDependencies from config.packages.hypre(config/BuildSystem/config/package.py:905) ============================================================================================= TESTING: configureLibrary from config.packages.hypre(config/BuildSystem/config/packages/hypre.py:179) ================================================================================== Checking for a functional hypre Looking for HYPRE at git.hypre, hg.hypre or a directory starting with ['hypre'] Found a copy of HYPRE in git.hypre Executing: ['git', 'rev-parse', '--git-dir'] stdout: .git Executing: ['git', 'cat-file', '-e', 'v2.23.0^{commit}'] Executing: ['git', 'rev-parse', 'v2.23.0'] stdout: 91935f22da3cdf77f44bbc166eaaf47f603c8f93 Executing: ['git', '-c', 'user.name=petsc-configure', '-c', 'user.email=petsc@configure', 'stash'] stdout: No local changes to save Executing: ['git', 'clean', '-f', '-d', '-x'] stdout: Removing pkg.gitcommit Removing src/HYPRE_config.h Removing src/IJ_mv/F90_HYPRE_IJMatrix.o Removing src/IJ_mv/F90_HYPRE_IJVector.o Removing src/IJ_mv/F90_IJMatrix.o Removing src/IJ_mv/HYPRE_IJMatrix.o Removing src/IJ_mv/HYPRE_IJVector.o Removing src/IJ_mv/IJMatrix.o Removing src/IJ_mv/IJMatrix_parcsr.o Removing src/IJ_mv/IJMatrix_parcsr_device.obj Removing src/IJ_mv/IJVector.o Removing src/IJ_mv/IJVector_parcsr.o Removing src/IJ_mv/IJVector_parcsr_device.obj Removing src/IJ_mv/IJ_assumed_part.o Removing src/IJ_mv/aux_par_vector.o Removing src/IJ_mv/aux_parcsr_matrix.o Removing src/IJ_mv/libHYPRE_IJ_mv-2.23.0.so Removing src/IJ_mv/libHYPRE_IJ_mv.so Removing src/blas/dasum.o Removing src/blas/daxpy.o Removing src/blas/dcopy.o Removing src/blas/ddot.o Removing src/blas/dgemm.o Removing src/blas/dgemv.o Removing src/blas/dger.o Removing src/blas/dnrm2.o Removing src/blas/drot.o Removing src/blas/dscal.o Removing src/blas/dswap.o Removing src/blas/dsymm.o Removing src/blas/dsymv.o Removing src/blas/dsyr2.o Removing src/blas/dsyr2k.o Removing src/blas/dsyrk.o Removing src/blas/dtrmm.o Removing src/blas/dtrmv.o Removing src/blas/dtrsm.o Removing src/blas/dtrsv.o 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src/struct_mv/struct_axpy.obj Removing src/struct_mv/struct_communication.obj Removing src/struct_mv/struct_copy.obj Removing src/struct_mv/struct_grid.o Removing src/struct_mv/struct_innerprod.obj Removing src/struct_mv/struct_io.o Removing src/struct_mv/struct_matrix.obj Removing src/struct_mv/struct_matrix_mask.o Removing src/struct_mv/struct_matvec.obj Removing src/struct_mv/struct_scale.obj Removing src/struct_mv/struct_stencil.o Removing src/struct_mv/struct_vector.obj Removing src/utilities/F90_HYPRE_error.o Removing src/utilities/F90_HYPRE_general.o Removing src/utilities/HYPRE_handle.o Removing src/utilities/HYPRE_version.o Removing src/utilities/amg_linklist.o Removing src/utilities/ap.o Removing src/utilities/binsearch.o Removing src/utilities/complex.o Removing src/utilities/cuda_utils.obj Removing src/utilities/error.o Removing src/utilities/exchange_data.o Removing src/utilities/fortran_matrix.o Removing src/utilities/general.obj Removing src/utilities/handle.obj Removing src/utilities/hopscotch_hash.o Removing src/utilities/int_array.obj Removing src/utilities/libHYPRE_utilities-2.23.0.so Removing src/utilities/libHYPRE_utilities.so Removing src/utilities/log.o Removing src/utilities/memory.obj Removing src/utilities/merge_sort.o Removing src/utilities/mpi_comm_f2c.o Removing src/utilities/mpistubs.o Removing src/utilities/nvtx.obj Removing src/utilities/omp_device.obj Removing src/utilities/prefix_sum.o Removing src/utilities/printf.o Removing src/utilities/qsort.o Removing src/utilities/qsplit.o Removing src/utilities/random.o Removing src/utilities/threading.o Removing src/utilities/timer.o Removing src/utilities/timing.o Removing src/utilities/utilities.o Executing: ['git', 'checkout', '-f', '91935f22da3cdf77f44bbc166eaaf47f603c8f93'] Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -v Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -V Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 --version stdout: GNU Fortran (GCC) 9.3.0 Copyright (C) 2019 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. Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -V Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 --version stdout: GNU Fortran (GCC) 9.3.0 Copyright (C) 2019 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. Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -V Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 --version stdout: GNU Fortran (GCC) 9.3.0 Copyright (C) 2019 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. Removing configure arguments ['AR="/usr/bin/ar"', 'ARFLAGS="cr"'] Removing configure arguments [] Have to rebuild HYPRE, /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre.petscconf != /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib/petsc/conf/pkg.conf.hypre ============================================================================================= Running configure on HYPRE; this may take several minutes ============================================================================================= Executing: ./configure --prefix=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt MAKE=/usr/bin/gmake --libdir=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib CC="/scratch/app_sequana/openmpi/2.1.1/bin/mpicc" CFLAGS="-fPIC -fstack-protector -O3" CXX="/scratch/app_sequana/openmpi/2.1.1/bin/mpicxx" CXXFLAGS="-fstack-protector -O3 -fPIC -std=gnu++17" F90="/scratch/app_sequana/openmpi/2.1.1/bin/mpif90" F90FLAGS="-fPIC -ffree-line-length-0 -O3" FFLAGS="-fPIC -ffree-line-length-0 -O3" FC="/scratch/app_sequana/openmpi/2.1.1/bin/mpif90" F77="/scratch/app_sequana/openmpi/2.1.1/bin/mpif90" FCFLAGS="-fPIC -ffree-line-length-0 -O3" --enable-shared --with-MPI-include="/scratch/app_sequana/openmpi/2.1.1/include" --with-MPI-lib-dirs="" --with-MPI-libs="" --with-blas-lib="-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread" --with-lapack-lib=" " --with-blas=no --with-lapack=no CUCC="" CUFLAGS="" --with-fmangle-blas=one-underscore --with-fmangle-lapack=one-underscore --without-mli --without-superlu --enable-bigint AR="/usr/bin/ar cr" LDFLAGS="" stdout: checking for /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/../.git... yes configure: NOTE: On branch , not the main development branch checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking whether /usr/bin/gmake sets $(MAKE)... yes checking for ranlib... ranlib checking for gcc... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether /scratch/app_sequana/openmpi/2.1.1/bin/mpicc accepts -g... yes checking for /scratch/app_sequana/openmpi/2.1.1/bin/mpicc option to accept ISO C89... none needed checking whether we are using the GNU C++ compiler... yes checking whether /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx accepts -g... yes checking whether we are using the GNU Fortran compiler... yes checking whether /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 accepts -g... yes checking how to get verbose linking output from /scratch/app_sequana/openmpi/2.1.1/bin/mpif90... -v checking for Fortran libraries of /scratch/app_sequana/openmpi/2.1.1/bin/mpif90... -L/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../.. -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -lquadmath -lpthread checking for dummy main to link with Fortran libraries... none checking for Fortran name-mangling scheme... lower case, underscore, no extra underscore checking for MPI_Init... yes checking for mpi.h... yes checking for MPI_Comm_f2c... yes checking how to run the C preprocessor... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking whether MPI_Comm_f2c is a macro... no checking for cabs in -lm... yes checking the hostname... sdumont18 checking the architecture... LINUX configure: creating ./config.status config.status: creating config/Makefile.config config.status: creating HYPRE_config.h ============================================================================================= Running make on HYPRE; this may take several minutes ============================================================================================= Executing: /usr/bin/gmake clean stdout: Cleaning blas ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas' rm -rf *.o gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas' Cleaning lapack ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack' rm -rf *.o gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack' Cleaning utilities ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities' Cleaning multivector ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector' Cleaning krylov ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov' Cleaning seq_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv' Cleaning parcsr_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv' rm -f *.o *.obj libHYPRE* rm -f driver driver_matvec driver_matmul rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv' Cleaning parcsr_block_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv' rm -rf *.o libHYPRE_* rm -f driver driver_matvec driver_matmul gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv' Cleaning distributed_matrix ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix' Cleaning IJ_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv' Cleaning matrix_matrix ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix' rm -f *.o lib* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix' Cleaning parcsr_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls' Cleaning struct_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv' Cleaning struct_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls' Cleaning sstruct_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv' Cleaning sstruct_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls' Cleaning /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls' gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut' gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails' gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid' gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls' Cleaning lib ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lib' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lib' Cleaning docs ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/docs' make[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/docs/usr-manual' rm -rf _build/* make[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/docs/usr-manual' make[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/docs/ref-manual' make[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/docs/ref-manual' gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/docs' Cleaning test ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/test' rm -f *.o *.obj rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/test' Cleaning examples ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/examples' rm -f ex1.o ex2.o ex3.o ex4.o ex5.o ex5f.o ex6.o ex7.o ex8.o ex9.o ex11.o ex12.o ex12f.o ex13.o ex14.o ex15.o ex16.o rm -f ex5big.o ex15big.o rm -f ex5f.o ex12f.o rm -f ex17.o ex18.o rm -f ex18comp.o cd vis; make clean make[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/examples/vis' rm -f *mesh* *sol* *data* make[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/examples/vis' gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/examples' rm -rf tca.map pchdir *inslog* Executing: /usr/bin/gmake -j47 -l122.4 stdout: Making blas ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dasum.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c daxpy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dcopy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c ddot.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dgemm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dgemv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dger.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dnrm2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c drot.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dscal.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dswap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dsymm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dsymv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dsyr2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dsyr2k.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dsyrk.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dtrmm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dtrmv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dtrsm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dtrsv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c f2c.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c idamax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c lsame.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c xerbla.c gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas' Making lapack ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dbdsqr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgebd2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgebrd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgelq2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgelqf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgels.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgeqr2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgeqrf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgesvd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgetrf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgetri.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgetrs.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgetf2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlabad.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlabrd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlacpy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlae2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlaev2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlange.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlanst.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlansy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlapy2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlarfb.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlarf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlarfg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlarft.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlartg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlas2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlascl.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlaset.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasq1.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasq2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasq3.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasq4.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasq5.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasq6.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasrt.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlassq.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlaswp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasv2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlatrd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorg2l.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorg2r.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorgbr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorgl2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorglq.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorgql.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorgqr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorgtr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorm2r.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dormbr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorml2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dormlq.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dormqr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dpotf2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dpotrf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dpotrs.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsteqr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsterf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsyev.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsygs2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsygst.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsygv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsytd2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsytrd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dtrtri.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dtrti2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c ieeeck.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c ilaenv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c lsame.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c xerbla.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlamch.c gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack' Making utilities ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_error.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_general.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_handle.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_version.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c amg_linklist.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c binsearch.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c exchange_data.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c fortran_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c ap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c log.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c complex.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c error.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c hopscotch_hash.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c merge_sort.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c mpi_comm_f2c.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c prefix_sum.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c printf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c qsort.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c utilities.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c mpistubs.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c qsplit.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c random.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c threading.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c timer.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c timing.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c cuda_utils.c -o cuda_utils.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c general.c -o general.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c handle.c -o handle.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c int_array.c -o int_array.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c memory.c -o memory.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c omp_device.c -o omp_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c nvtx.c -o nvtx.obj Building libHYPRE_utilities.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_utilities-2.23.0.so F90_HYPRE_error.o F90_HYPRE_general.o HYPRE_handle.o HYPRE_version.o amg_linklist.o binsearch.o exchange_data.o fortran_matrix.o ap.o log.o complex.o error.o hopscotch_hash.o merge_sort.o mpi_comm_f2c.o prefix_sum.o printf.o qsort.o utilities.o mpistubs.o qsplit.o random.o threading.o timer.o timing.o cuda_utils.obj general.obj handle.obj int_array.obj memory.obj omp_device.obj nvtx.obj -Wl,-soname,libHYPRE_utilities-2.23.0.so ln -s libHYPRE_utilities-2.23.0.so libHYPRE_utilities.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_utilities.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_utilities.hpp /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./fortran*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities' Making multivector ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c multivector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c temp_multivector.c Building libHYPRE_multivector.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_multivector-2.23.0.so multivector.o temp_multivector.o -Wl,-soname,libHYPRE_multivector-2.23.0.so ln -s libHYPRE_multivector-2.23.0.so libHYPRE_multivector.so cp -fR *.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector' Making krylov ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c cgnr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c cogmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_cgnr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_cogmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_lobpcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c lobpcg.c Building libHYPRE_krylov.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_krylov-2.23.0.so bicgstab.o cgnr.o gmres.o cogmres.o flexgmres.o lgmres.o HYPRE_bicgstab.o HYPRE_cgnr.o HYPRE_gmres.o HYPRE_cogmres.o HYPRE_lgmres.o HYPRE_flexgmres.o HYPRE_pcg.o pcg.o HYPRE_lobpcg.o lobpcg.o -Wl,-soname,libHYPRE_krylov-2.23.0.so ln -s libHYPRE_krylov-2.23.0.so libHYPRE_krylov.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./krylov.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./lobpcg.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov' Making seq_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matop.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matvec.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c genpart.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_csr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_mapped_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_multiblock_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c mapped_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c multiblock_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c vector_batched.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matop_device.c -o csr_matop_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matrix_cuda_utils.c -o csr_matrix_cuda_utils.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matvec_device.c -o csr_matvec_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matvec_oomp.c -o csr_matvec_oomp.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spadd_device.c -o csr_spadd_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device.c -o csr_spgemm_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_attempt.c -o csr_spgemm_device_attempt.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_confident.c -o csr_spgemm_device_confident.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_cusparse.c -o csr_spgemm_device_cusparse.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_rocsparse.c -o csr_spgemm_device_rocsparse.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_rowbound.c -o csr_spgemm_device_rowbound.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_rowest.c -o csr_spgemm_device_rowest.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_util.c -o csr_spgemm_device_util.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spmv_device.c -o csr_spmv_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_sptrans_device.c -o csr_sptrans_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c vector.c -o vector.obj Building libHYPRE_seq_mv.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_seq_mv-2.23.0.so csr_matop.o csr_matrix.o csr_matvec.o genpart.o HYPRE_csr_matrix.o HYPRE_mapped_matrix.o HYPRE_multiblock_matrix.o HYPRE_vector.o mapped_matrix.o multiblock_matrix.o vector_batched.o csr_matop_device.obj csr_matrix_cuda_utils.obj csr_matvec_device.obj csr_matvec_oomp.obj csr_spadd_device.obj csr_spgemm_device.obj csr_spgemm_device_attempt.obj csr_spgemm_device_confident.obj csr_spgemm_device_cusparse.obj csr_spgemm_device_rocsparse.obj csr_spgemm_device_rowbound.obj csr_spgemm_device_rowest.obj csr_spgemm_device_util.obj csr_spmv_device.obj csr_sptrans_device.obj vector.obj -Wl,-soname,libHYPRE_seq_mv-2.23.0.so ln -s libHYPRE_seq_mv-2.23.0.so libHYPRE_seq_mv.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./seq_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv' Making parcsr_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c communicationT.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_parcsr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_par_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c gen_fffc.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c new_commpkg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c numbers.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_aat.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_assumed_part.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_bool_matop.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_bool_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_communication.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_matop.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_matop_marked.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_triplemat.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_make_system.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_vector_batched.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_matvec.c -o par_csr_matvec.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_fffc_device.c -o par_csr_fffc_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_matop_device.c -o par_csr_matop_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_triplemat_device.c -o par_csr_triplemat_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_vector_device.c -o par_vector_device.obj Building libHYPRE_parcsr_mv.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_parcsr_mv-2.23.0.so communicationT.o F90_HYPRE_parcsr_matrix.o F90_HYPRE_parcsr_vector.o F90_parcsr_matrix.o F90_par_vector.o HYPRE_parcsr_matrix.o HYPRE_parcsr_vector.o gen_fffc.o new_commpkg.o numbers.o par_csr_aat.o par_csr_assumed_part.o par_csr_bool_matop.o par_csr_bool_matrix.o par_csr_communication.o par_csr_matop.o par_csr_matrix.o par_csr_matop_marked.o par_csr_triplemat.o par_make_system.o par_vector.o par_vector_batched.o par_csr_matvec.obj par_csr_fffc_device.obj par_csr_matop_device.obj par_csr_triplemat_device.obj par_vector_device.obj -Wl,-soname,libHYPRE_parcsr_mv-2.23.0.so ln -s libHYPRE_parcsr_mv-2.23.0.so libHYPRE_parcsr_mv.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_parcsr_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv' Making parcsr_block_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_block_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_block_matvec.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_matvec.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_comm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_rap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_rap_communication.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_relax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_block_nodal_systems.c Building libHYPRE_parcsr_block_mv.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_parcsr_block_mv-2.23.0.so csr_block_matrix.o csr_block_matvec.o par_csr_block_matrix.o par_csr_block_matvec.o par_csr_block_comm.o par_csr_block_rap.o par_csr_block_rap_communication.o par_csr_block_interp.o par_csr_block_relax.o par_block_nodal_systems.o -Wl,-soname,libHYPRE_parcsr_block_mv-2.23.0.so ln -s libHYPRE_parcsr_block_mv-2.23.0.so libHYPRE_parcsr_block_mv.so cp -fR ./par_csr_block_matrix.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./csr_block_matrix.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv' Making distributed_matrix ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../parcsr_mv -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c distributed_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../parcsr_mv -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_distributed_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../parcsr_mv -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c distributed_matrix_ISIS.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../parcsr_mv -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c distributed_matrix_PETSc.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../parcsr_mv -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c distributed_matrix_parcsr.c Building libHYPRE_DistributedMatrix.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_DistributedMatrix-2.23.0.so distributed_matrix.o HYPRE_distributed_matrix.o distributed_matrix_ISIS.o distributed_matrix_PETSc.o distributed_matrix_parcsr.o -Wl,-soname,libHYPRE_DistributedMatrix-2.23.0.so ln -s libHYPRE_DistributedMatrix-2.23.0.so libHYPRE_DistributedMatrix.so cp -fR ./distributed_matrix.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix' Making IJ_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c aux_parcsr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c aux_par_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_IJMatrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_IJVector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_IJMatrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_IJMatrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_IJVector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJ_assumed_part.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJMatrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJMatrix_parcsr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJVector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJVector_parcsr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJMatrix_parcsr_device.c -o IJMatrix_parcsr_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJVector_parcsr_device.c -o IJVector_parcsr_device.obj Building libHYPRE_IJ_mv.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_IJ_mv-2.23.0.so aux_parcsr_matrix.o aux_par_vector.o F90_HYPRE_IJMatrix.o F90_HYPRE_IJVector.o F90_IJMatrix.o HYPRE_IJMatrix.o HYPRE_IJVector.o IJ_assumed_part.o IJMatrix.o IJMatrix_parcsr.o IJVector.o IJVector_parcsr.o IJMatrix_parcsr_device.obj IJVector_parcsr_device.obj -Wl,-soname,libHYPRE_IJ_mv-2.23.0.so ln -s libHYPRE_IJ_mv-2.23.0.so libHYPRE_IJ_mv.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_IJ_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv' Making matrix_matrix ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../distributed_matrix -I./../seq_mv -I./../parcsr_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_ConvertParCSRMatrixToDistributedMatrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../distributed_matrix -I./../seq_mv -I./../parcsr_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_ConvertPETScMatrixToDistributedMatrix.c Building libHYPRE_MatrixMatrix.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_MatrixMatrix-2.23.0.so HYPRE_ConvertParCSRMatrixToDistributedMatrix.o HYPRE_ConvertPETScMatrixToDistributedMatrix.o -Wl,-soname,libHYPRE_MatrixMatrix-2.23.0.so ln -s libHYPRE_MatrixMatrix-2.23.0.so libHYPRE_MatrixMatrix.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix' Making parcsr_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c amg_hybrid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c aux_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_hypre_laplace.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_amg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_block.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_cgnr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_Euclid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_cogmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_hybrid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_int.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_ParaSails.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_pilut.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_schwarz.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_ams.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c gen_redcs_mat.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_amg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_amgdd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_block.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_cgnr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_Euclid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_cogmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_hybrid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_int.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_mgr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_ilu.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_ParaSails.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_pilut.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_schwarz.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_ams.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_ads.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_ame.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_2s_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd_comp_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd_fac_cycle.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd_helpers.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amg_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amg_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amg_solveT.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_cg_relax_wt.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_coarsen.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_cgc_coarsen.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_cheby.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_coarse_parms.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_coordinates.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_cr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_cycle.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_add_cycle.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_difconv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_gauss_elim.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_gsmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_indepset.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_jacobi_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_krylov_func.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_mod_lr_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_multi_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_mod_multi_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_laplace.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_laplace_27pt.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_laplace_9pt.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_lr_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_mgr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_mgr_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_mgr_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_nongalerkin.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_nodal_systems.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_rap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_rap_communication.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_rotate_7pt.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_relax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_relax_more.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_relax_interface.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_scaled_matnorm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_schwarz.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_stats.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_strength.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_sv_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_sv_interp_ln.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_vardifconv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_vardifconv_rs.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c partial.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c schwarz.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c block_tridiag.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_restr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_lr_restr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c dsuperlu.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c ads.c -o ads.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c ams.c -o ams.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c ame.c -o ame.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_ilu.c -o par_ilu.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_ilu_setup.c -o par_ilu_setup.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_ilu_solve.c -o par_ilu_solve.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_cheby_device.c -o par_cheby_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_relax_more_device.c -o par_relax_more_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_coarsen_device.c -o par_coarsen_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_coarse_parms_device.c -o par_coarse_parms_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_indepset_device.c -o par_indepset_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_interp_device.c -o par_interp_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_lr_restr_device.c -o par_lr_restr_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_interp_trunc_device.c -o par_interp_trunc_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_lr_interp_device.c -o par_lr_interp_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_strength_device.c -o par_strength_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_strength2nd_device.c -o par_strength2nd_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd_fac_cycle_device.c -o par_amgdd_fac_cycle_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_2s_interp_device.c -o par_2s_interp_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_relax_device.c -o par_relax_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_mod_multi_interp_device.c -o par_mod_multi_interp_device.obj Building libHYPRE_parcsr_ls.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_parcsr_ls-2.23.0.so amg_hybrid.o aux_interp.o F90_hypre_laplace.o F90_HYPRE_parcsr_amg.o F90_HYPRE_parcsr_bicgstab.o F90_HYPRE_parcsr_block.o F90_HYPRE_parcsr_cgnr.o F90_HYPRE_parcsr_Euclid.o F90_HYPRE_parcsr_gmres.o F90_HYPRE_parcsr_cogmres.o F90_HYPRE_parcsr_flexgmres.o F90_HYPRE_parcsr_lgmres.o F90_HYPRE_parcsr_hybrid.o F90_HYPRE_parcsr_int.o F90_HYPRE_parcsr_ParaSails.o F90_HYPRE_parcsr_pcg.o F90_HYPRE_parcsr_pilut.o F90_HYPRE_parcsr_schwarz.o F90_HYPRE_ams.o gen_redcs_mat.o HYPRE_parcsr_amg.o HYPRE_parcsr_amgdd.o HYPRE_parcsr_bicgstab.o HYPRE_parcsr_block.o HYPRE_parcsr_cgnr.o HYPRE_parcsr_Euclid.o HYPRE_parcsr_gmres.o HYPRE_parcsr_cogmres.o HYPRE_parcsr_flexgmres.o HYPRE_parcsr_lgmres.o HYPRE_parcsr_hybrid.o HYPRE_parcsr_int.o HYPRE_parcsr_mgr.o HYPRE_parcsr_ilu.o HYPRE_parcsr_ParaSails.o HYPRE_parcsr_pcg.o HYPRE_parcsr_pilut.o HYPRE_parcsr_schwarz.o HYPRE_ams.o HYPRE_ads.o HYPRE_ame.o par_2s_interp.o par_amg.o par_amgdd.o par_amgdd_comp_grid.o par_amgdd_setup.o par_amgdd_solve.o par_amgdd_fac_cycle.o par_amgdd_helpers.o par_amg_setup.o par_amg_solve.o par_amg_solveT.o par_cg_relax_wt.o par_coarsen.o par_cgc_coarsen.o par_cheby.o par_coarse_parms.o par_coordinates.o par_cr.o par_cycle.o par_add_cycle.o par_difconv.o par_gauss_elim.o par_gsmg.o par_indepset.o par_interp.o par_jacobi_interp.o par_krylov_func.o par_mod_lr_interp.o par_multi_interp.o par_mod_multi_interp.o par_laplace.o par_laplace_27pt.o par_laplace_9pt.o par_lr_interp.o par_mgr.o par_mgr_setup.o par_mgr_solve.o par_nongalerkin.o par_nodal_systems.o par_rap.o par_rap_communication.o par_rotate_7pt.o par_relax.o par_relax_more.o par_relax_interface.o par_scaled_matnorm.o par_schwarz.o par_stats.o par_strength.o par_sv_interp.o par_sv_interp_ln.o par_vardifconv.o par_vardifconv_rs.o partial.o schwarz.o block_tridiag.o par_restr.o par_lr_restr.o dsuperlu.o ads.obj ams.obj ame.obj par_ilu.obj par_ilu_setup.obj par_ilu_solve.obj par_cheby_device.obj par_relax_more_device.obj par_coarsen_device.obj par_coarse_parms_device.obj par_indepset_device.obj par_interp_device.obj par_lr_restr_device.obj par_interp_trunc_device.obj par_lr_interp_device.obj par_strength_device.obj par_strength2nd_device.obj par_amgdd_fac_cycle_device.obj par_2s_interp_device.obj par_relax_device.obj par_mod_multi_interp_device.obj -Wl,-soname,libHYPRE_parcsr_ls-2.23.0.so ln -s libHYPRE_parcsr_ls-2.23.0.so libHYPRE_parcsr_ls.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_parcsr_ls.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls' Making struct_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c assumed_part.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c box_algebra.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c box_boundary.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c box.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c box_manager.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c communication_info.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c computation.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_stencil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_stencil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c project.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_io.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_matrix_mask.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_stencil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_axpy.c -o struct_axpy.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_communication.c -o struct_communication.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_copy.c -o struct_copy.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_innerprod.c -o struct_innerprod.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_matrix.c -o struct_matrix.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_matvec.c -o struct_matvec.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_scale.c -o struct_scale.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_vector.c -o struct_vector.obj Building libHYPRE_struct_mv.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_struct_mv-2.23.0.so assumed_part.o box_algebra.o box_boundary.o box.o box_manager.o communication_info.o computation.o F90_HYPRE_struct_grid.o F90_HYPRE_struct_matrix.o F90_HYPRE_struct_stencil.o F90_HYPRE_struct_vector.o HYPRE_struct_grid.o HYPRE_struct_matrix.o HYPRE_struct_stencil.o HYPRE_struct_vector.o project.o struct_grid.o struct_io.o struct_matrix_mask.o struct_stencil.o struct_axpy.obj struct_communication.obj struct_copy.obj struct_innerprod.obj struct_matrix.obj struct_matvec.obj struct_scale.obj struct_vector.obj -Wl,-soname,libHYPRE_struct_mv-2.23.0.so ln -s libHYPRE_struct_mv-2.23.0.so libHYPRE_struct_mv.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_struct_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_struct_mv.hpp /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv' Making struct_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c coarsen.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_cycred.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_hybrid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_int.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_jacobi.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_pfmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_smg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_sparse_msg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c hybrid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_cycred.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_hybrid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_jacobi.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_pfmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_smg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_sparse_msg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c jacobi.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pcg_struct.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_relax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_setup_rap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c semi.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_relax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_setup_rap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_setup_restrict.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg_setup_rap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c cyclic_reduction.c -o cyclic_reduction.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_int.c -o HYPRE_struct_int.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_pcg.c -o HYPRE_struct_pcg.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg2_setup_rap.c -o pfmg2_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg3_setup_rap.c -o pfmg3_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_setup.c -o pfmg_setup.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_setup_interp.c -o pfmg_setup_interp.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_setup_rap5.c -o pfmg_setup_rap5.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_setup_rap7.c -o pfmg_setup_rap7.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c point_relax.c -o point_relax.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c red_black_constantcoef_gs.c -o red_black_constantcoef_gs.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c red_black_gs.c -o red_black_gs.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c semi_interp.c -o semi_interp.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c semi_restrict.c -o semi_restrict.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c semi_setup_rap.c -o semi_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg2_setup_rap.c -o smg2_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg3_setup_rap.c -o smg3_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg.c -o smg.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_axpy.c -o smg_axpy.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_residual.c -o smg_residual.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_setup_interp.c -o smg_setup_interp.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg2_setup_rap.c -o sparse_msg2_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg3_setup_rap.c -o sparse_msg3_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg_filter.c -o sparse_msg_filter.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg_interp.c -o sparse_msg_interp.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg_restrict.c -o sparse_msg_restrict.obj Building libHYPRE_struct_ls.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_struct_ls-2.23.0.so coarsen.o F90_HYPRE_struct_bicgstab.o F90_HYPRE_struct_cycred.o F90_HYPRE_struct_flexgmres.o F90_HYPRE_struct_gmres.o F90_HYPRE_struct_lgmres.o F90_HYPRE_struct_hybrid.o F90_HYPRE_struct_int.o F90_HYPRE_struct_jacobi.o F90_HYPRE_struct_pcg.o F90_HYPRE_struct_pfmg.o F90_HYPRE_struct_smg.o F90_HYPRE_struct_sparse_msg.o hybrid.o HYPRE_struct_bicgstab.o HYPRE_struct_cycred.o HYPRE_struct_flexgmres.o HYPRE_struct_gmres.o HYPRE_struct_hybrid.o HYPRE_struct_jacobi.o HYPRE_struct_lgmres.o HYPRE_struct_pfmg.o HYPRE_struct_smg.o HYPRE_struct_sparse_msg.o jacobi.o pcg_struct.o pfmg.o pfmg_relax.o pfmg_setup_rap.o pfmg_solve.o semi.o smg_relax.o smg_setup.o smg_setup_rap.o smg_setup_restrict.o smg_solve.o sparse_msg.o sparse_msg_setup.o sparse_msg_setup_rap.o sparse_msg_solve.o cyclic_reduction.obj HYPRE_struct_int.obj HYPRE_struct_pcg.obj pfmg2_setup_rap.obj pfmg3_setup_rap.obj pfmg_setup.obj pfmg_setup_interp.obj pfmg_setup_rap5.obj pfmg_setup_rap7.obj point_relax.obj red_black_constantcoef_gs.obj red_black_gs.obj semi_interp.obj semi_restrict.obj semi_setup_rap.obj smg2_setup_rap.obj smg3_setup_rap.obj smg.obj smg_axpy.obj smg_residual.obj smg_setup_interp.obj sparse_msg2_setup_rap.obj sparse_msg3_setup_rap.obj sparse_msg_filter.obj sparse_msg_interp.obj sparse_msg_restrict.obj -Wl,-soname,libHYPRE_struct_ls-2.23.0.so ln -s libHYPRE_struct_ls-2.23.0.so libHYPRE_struct_ls.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_struct_ls.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls' Making sstruct_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_graph.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_stencil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_graph.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_stencil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_axpy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_copy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_graph.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_innerprod.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_matvec.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_scale.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_stencil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_matrix.c -o sstruct_matrix.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_vector.c -o sstruct_vector.obj Building libHYPRE_sstruct_mv.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_sstruct_mv-2.23.0.so F90_HYPRE_sstruct_graph.o F90_HYPRE_sstruct_grid.o F90_HYPRE_sstruct_matrix.o F90_HYPRE_sstruct_stencil.o F90_HYPRE_sstruct_vector.o HYPRE_sstruct_graph.o HYPRE_sstruct_grid.o HYPRE_sstruct_matrix.o HYPRE_sstruct_stencil.o HYPRE_sstruct_vector.o sstruct_axpy.o sstruct_copy.o sstruct_graph.o sstruct_grid.o sstruct_innerprod.o sstruct_matvec.o sstruct_scale.o sstruct_stencil.o sstruct_matrix.obj sstruct_vector.obj -Wl,-soname,libHYPRE_sstruct_mv-2.23.0.so ln -s libHYPRE_sstruct_mv-2.23.0.so libHYPRE_sstruct_mv.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_sstruct_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv' Making sstruct_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_InterFAC.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_int.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_maxwell.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_split.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_sys_pfmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_InterFAC.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_int.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_maxwell.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_split.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_sys_pfmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c bsearch.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_amr_zero_data.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_cf_coarsen.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_cfstencil_box.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_CFInterfaceExtents.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_interp2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_relax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_solve3.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_zero_cdata.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c krylov.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c krylov_sstruct.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c eliminate_rowscols.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_grad.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_physbdy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_PNedelec.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_PNedelec_bdy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_semi_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_solve2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_TV.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_TV_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_zeroBC.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c nd1_amge_interpolation.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_amr_intercommunication.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_owninfo.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_recvinfo.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_sendinfo.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_sharedDOFComm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_pfmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_pfmg_relax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_pfmg_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_pfmg_setup_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_pfmg_setup_rap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_pfmg_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_semi_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_semi_restrict.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_amr_fcoarsen.c -o fac_amr_fcoarsen.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_amr_rap.c -o fac_amr_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_restrict2.c -o fac_restrict2.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_setup2.c -o fac_setup2.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_zero_stencilcoef.c -o fac_zero_stencilcoef.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c node_relax.c -o node_relax.obj Building libHYPRE_sstruct_ls.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_sstruct_ls-2.23.0.so F90_HYPRE_sstruct_bicgstab.o F90_HYPRE_sstruct_gmres.o F90_HYPRE_sstruct_flexgmres.o F90_HYPRE_sstruct_lgmres.o F90_HYPRE_sstruct_InterFAC.o F90_HYPRE_sstruct_int.o F90_HYPRE_sstruct_maxwell.o F90_HYPRE_sstruct_pcg.o F90_HYPRE_sstruct_split.o F90_HYPRE_sstruct_sys_pfmg.o HYPRE_sstruct_bicgstab.o HYPRE_sstruct_gmres.o HYPRE_sstruct_flexgmres.o HYPRE_sstruct_lgmres.o HYPRE_sstruct_InterFAC.o HYPRE_sstruct_int.o HYPRE_sstruct_maxwell.o HYPRE_sstruct_pcg.o HYPRE_sstruct_split.o HYPRE_sstruct_sys_pfmg.o bsearch.o fac.o fac_amr_zero_data.o fac_cf_coarsen.o fac_cfstencil_box.o fac_CFInterfaceExtents.o fac_interp2.o fac_relax.o fac_solve3.o fac_zero_cdata.o krylov.o krylov_sstruct.o eliminate_rowscols.o maxwell_grad.o maxwell_physbdy.o maxwell_PNedelec.o maxwell_PNedelec_bdy.o maxwell_semi_interp.o maxwell_solve.o maxwell_solve2.o maxwell_TV.o maxwell_TV_setup.o maxwell_zeroBC.o nd1_amge_interpolation.o sstruct_amr_intercommunication.o sstruct_owninfo.o sstruct_recvinfo.o sstruct_sendinfo.o sstruct_sharedDOFComm.o sys_pfmg.o sys_pfmg_relax.o sys_pfmg_setup.o sys_pfmg_setup_interp.o sys_pfmg_setup_rap.o sys_pfmg_solve.o sys_semi_interp.o sys_semi_restrict.o fac_amr_fcoarsen.obj fac_amr_rap.obj fac_restrict2.obj fac_setup2.obj fac_zero_stencilcoef.obj node_relax.obj -Wl,-soname,libHYPRE_sstruct_ls-2.23.0.so ln -s libHYPRE_sstruct_ls-2.23.0.so libHYPRE_sstruct_ls.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_sstruct_ls.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls' Making /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls' Making pilut ... gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c comm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c debug.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c distributed_qsort.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c distributed_qsort_si.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_DistributedMatrixPilutSolver.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c ilut.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c parilut.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c parutil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c pblas1.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c serilut.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c trifactor.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c util.c Building libHYPRE_DistributedMatrixPilutSolver.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_DistributedMatrixPilutSolver-2.23.0.so comm.o debug.o distributed_qsort.o distributed_qsort_si.o HYPRE_DistributedMatrixPilutSolver.o ilut.o parilut.o parutil.o pblas1.o serilut.o trifactor.o util.o -Wl,-soname,libHYPRE_DistributedMatrixPilutSolver-2.23.0.so ln -s libHYPRE_DistributedMatrixPilutSolver-2.23.0.so libHYPRE_DistributedMatrixPilutSolver.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut' Making ParaSails ... gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c ConjGrad.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c DiagScale.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c FGmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c Hash.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c hypre_ParaSails.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c LoadBal.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c Matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c Mem.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c Numbering.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c OrderStat.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c ParaSails.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c PrunedRows.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c RowPatt.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c StoredRows.c Building libHYPRE_ParaSails.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_ParaSails-2.23.0.so ConjGrad.o DiagScale.o FGmres.o Hash.o hypre_ParaSails.o LoadBal.o Matrix.o Mem.o Numbering.o OrderStat.o ParaSails.o PrunedRows.o RowPatt.o StoredRows.o -Wl,-soname,libHYPRE_ParaSails-2.23.0.so ln -s libHYPRE_ParaSails-2.23.0.so libHYPRE_ParaSails.so gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails' Making Euclid ... gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c blas_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Euclid_apply.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Euclid_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c ExternalRows_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Factor_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c getRow_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c globalObjects.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Hash_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Hash_i_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c ilu_mpi_bj.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c ilu_mpi_pilu.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c ilu_seq.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c io_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c krylov_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Mat_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c mat_dh_private.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c MatGenFD.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Mem_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Numbering_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Parser_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c shellSort_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c sig_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c SortedList_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c SortedSet_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c SubdomainGraph_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c TimeLog_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Timer_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Vec_dh.c Building libHYPRE_Euclid.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_Euclid-2.23.0.so blas_dh.o Euclid_apply.o Euclid_dh.o ExternalRows_dh.o Factor_dh.o getRow_dh.o globalObjects.o Hash_dh.o Hash_i_dh.o ilu_mpi_bj.o ilu_mpi_pilu.o ilu_seq.o io_dh.o krylov_dh.o Mat_dh.o mat_dh_private.o MatGenFD.o Mem_dh.o Numbering_dh.o Parser_dh.o shellSort_dh.o sig_dh.o SortedList_dh.o SortedSet_dh.o SubdomainGraph_dh.o TimeLog_dh.o Timer_dh.o Vec_dh.o -Wl,-soname,libHYPRE_Euclid-2.23.0.so ln -s libHYPRE_Euclid-2.23.0.so libHYPRE_Euclid.so gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid' gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls' Making lib ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lib' Building libHYPRE.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE-2.23.0.so /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities/*.obj -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lm -Wl,-soname,libHYPRE-2.23.0.so -Wl,-z,defs ln -s libHYPRE-2.23.0.so libHYPRE.so cp -fR libHYPRE* /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/lib gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lib' ============================================================================================= Running make install on HYPRE; this may take several minutes ============================================================================================= Executing: /usr/bin/gmake install stdout: Making blas ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas' gmake[1]: Nothing to be done for `all'. gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas' Making lapack ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack' gmake[1]: Nothing to be done for `all'. gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack' Making utilities ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_utilities.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_utilities.hpp /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./fortran*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities' Making multivector ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector' cp -fR *.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector' Making krylov ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./krylov.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./lobpcg.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov' Making seq_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./seq_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv' Making parcsr_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_parcsr_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv' Making parcsr_block_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv' cp -fR ./par_csr_block_matrix.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./csr_block_matrix.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv' Making distributed_matrix ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix' cp -fR ./distributed_matrix.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix' Making IJ_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_IJ_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv' Making matrix_matrix ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix' Making parcsr_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_parcsr_ls.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls' Making struct_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_struct_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_struct_mv.hpp /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv' Making struct_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_struct_ls.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls' Making sstruct_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_sstruct_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv' Making sstruct_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_sstruct_ls.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls' Making /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls' Making pilut ... gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut' Making ParaSails ... gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails' gmake[2]: Nothing to be done for `all'. gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails' Making Euclid ... gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid' gmake[2]: Nothing to be done for `all'. gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid' gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls' Making lib ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lib' cp -fR libHYPRE* /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/lib gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lib' Installing hypre ... ********Output of running make on HYPRE follows ******* checking for /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/../.git... yes configure: NOTE: On branch , not the main development branch checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking whether /usr/bin/gmake sets $(MAKE)... yes checking for ranlib... ranlib checking for gcc... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether /scratch/app_sequana/openmpi/2.1.1/bin/mpicc accepts -g... yes checking for /scratch/app_sequana/openmpi/2.1.1/bin/mpicc option to accept ISO C89... none needed checking whether we are using the GNU C++ compiler... yes checking whether /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx accepts -g... yes checking whether we are using the GNU Fortran compiler... yes checking whether /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 accepts -g... yes checking how to get verbose linking output from /scratch/app_sequana/openmpi/2.1.1/bin/mpif90... -v checking for Fortran libraries of /scratch/app_sequana/openmpi/2.1.1/bin/mpif90... -L/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0/../../.. -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -lquadmath -lpthread checking for dummy main to link with Fortran libraries... none checking for Fortran name-mangling scheme... lower case, underscore, no extra underscore checking for MPI_Init... yes checking for mpi.h... yes checking for MPI_Comm_f2c... yes checking how to run the C preprocessor... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking whether MPI_Comm_f2c is a macro... no checking for cabs in -lm... yes checking the hostname... sdumont18 checking the architecture... LINUX configure: creating ./config.status config.status: creating config/Makefile.config config.status: creating HYPRE_config.hUnknown option: -C usage: git [--version] [--help] [-c name=value] [--exec-path[=]] [--html-path] [--man-path] [--info-path] [-p|--paginate|--no-pager] [--no-replace-objects] [--bare] [--git-dir=] [--work-tree=] [--namespace=] [] Unknown option: -C usage: git [--version] [--help] [-c name=value] [--exec-path[=]] [--html-path] [--man-path] [--info-path] [-p|--paginate|--no-pager] [--no-replace-objects] [--bare] [--git-dir=] [--work-tree=] [--namespace=] [] Unknown option: -C usage: git [--version] [--help] [-c name=value] [--exec-path[=]] [--html-path] [--man-path] [--info-path] [-p|--paginate|--no-pager] [--no-replace-objects] [--bare] [--git-dir=] [--work-tree=] [--namespace=] [] Unknown option: -C usage: git [--version] [--help] [-c name=value] [--exec-path[=]] [--html-path] [--man-path] [--info-path] [-p|--paginate|--no-pager] [--no-replace-objects] [--bare] [--git-dir=] [--work-tree=] [--namespace=] [] Cleaning blas ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas' rm -rf *.o gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas' Cleaning lapack ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack' rm -rf *.o gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack' Cleaning utilities ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities' Cleaning multivector ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector' Cleaning krylov ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov' Cleaning seq_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv' Cleaning parcsr_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv' rm -f *.o *.obj libHYPRE* rm -f driver driver_matvec driver_matmul rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv' Cleaning parcsr_block_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv' rm -rf *.o libHYPRE_* rm -f driver driver_matvec driver_matmul gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv' Cleaning distributed_matrix ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix' Cleaning IJ_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv' Cleaning matrix_matrix ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix' rm -f *.o lib* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix' Cleaning parcsr_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls' Cleaning struct_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv' Cleaning struct_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls' Cleaning sstruct_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv' Cleaning sstruct_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls' rm -f *.o *.obj libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls' Cleaning /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls' gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut' gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails' gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid' gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls' Cleaning lib ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lib' rm -f *.o libHYPRE* rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lib' Cleaning docs ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/docs' make[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/docs/usr-manual' rm -rf _build/* make[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/docs/usr-manual' make[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/docs/ref-manual' make[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/docs/ref-manual' gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/docs' Cleaning test ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/test' rm -f *.o *.obj rm -rf pchdir tca.map *inslog* gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/test' Cleaning examples ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/examples' rm -f ex1.o ex2.o ex3.o ex4.o ex5.o ex5f.o ex6.o ex7.o ex8.o ex9.o ex11.o ex12.o ex12f.o ex13.o ex14.o ex15.o ex16.o rm -f ex5big.o ex15big.o rm -f ex5f.o ex12f.o rm -f ex17.o ex18.o rm -f ex18comp.o cd vis; make clean make[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/examples/vis' rm -f *mesh* *sol* *data* make[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/examples/vis' gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/examples' rm -rf tca.map pchdir *inslog*Making blas ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dasum.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c daxpy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dcopy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c ddot.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dgemm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dgemv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dger.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dnrm2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c drot.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dscal.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dswap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dsymm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dsymv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dsyr2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dsyr2k.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dsyrk.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dtrmm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dtrmv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dtrsm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c dtrsv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c f2c.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c idamax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c lsame.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../utilities -c xerbla.c gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas' Making lapack ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dbdsqr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgebd2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgebrd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgelq2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgelqf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgels.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgeqr2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgeqrf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgesvd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgetrf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgetri.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgetrs.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dgetf2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlabad.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlabrd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlacpy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlae2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlaev2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlange.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlanst.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlansy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlapy2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlarfb.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlarf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlarfg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlarft.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlartg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlas2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlascl.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlaset.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasq1.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasq2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasq3.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasq4.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasq5.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasq6.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasrt.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlassq.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlaswp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlasv2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlatrd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorg2l.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorg2r.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorgbr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorgl2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorglq.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorgql.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorgqr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorgtr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorm2r.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dormbr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dorml2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dormlq.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dormqr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dpotf2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dpotrf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dpotrs.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsteqr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsterf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsyev.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsygs2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsygst.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsygv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsytd2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dsytrd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dtrtri.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dtrti2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c ieeeck.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c ilaenv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c lsame.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c xerbla.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../blas -I../utilities -c dlamch.c gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack' Making utilities ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_error.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_general.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_handle.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_version.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c amg_linklist.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c binsearch.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c exchange_data.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c fortran_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c ap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c log.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c complex.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c error.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c hopscotch_hash.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c merge_sort.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c mpi_comm_f2c.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c prefix_sum.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c printf.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c qsort.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c utilities.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c mpistubs.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c qsplit.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c random.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c threading.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c timer.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c timing.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c cuda_utils.c -o cuda_utils.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c general.c -o general.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c handle.c -o handle.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c int_array.c -o int_array.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c memory.c -o memory.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c omp_device.c -o omp_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../struct_mv -I. -I/scratch/app_sequana/openmpi/2.1.1/include -c nvtx.c -o nvtx.obj Building libHYPRE_utilities.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_utilities-2.23.0.so F90_HYPRE_error.o F90_HYPRE_general.o HYPRE_handle.o HYPRE_version.o amg_linklist.o binsearch.o exchange_data.o fortran_matrix.o ap.o log.o complex.o error.o hopscotch_hash.o merge_sort.o mpi_comm_f2c.o prefix_sum.o printf.o qsort.o utilities.o mpistubs.o qsplit.o random.o threading.o timer.o timing.o cuda_utils.obj general.obj handle.obj int_array.obj memory.obj omp_device.obj nvtx.obj -Wl,-soname,libHYPRE_utilities-2.23.0.so ln -s libHYPRE_utilities-2.23.0.so libHYPRE_utilities.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_utilities.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_utilities.hpp /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./fortran*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities' Making multivector ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c multivector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c temp_multivector.c Building libHYPRE_multivector.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_multivector-2.23.0.so multivector.o temp_multivector.o -Wl,-soname,libHYPRE_multivector-2.23.0.so ln -s libHYPRE_multivector-2.23.0.so libHYPRE_multivector.so cp -fR *.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector' Making krylov ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c cgnr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c cogmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_cgnr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_cogmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_lobpcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c lobpcg.c Building libHYPRE_krylov.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_krylov-2.23.0.so bicgstab.o cgnr.o gmres.o cogmres.o flexgmres.o lgmres.o HYPRE_bicgstab.o HYPRE_cgnr.o HYPRE_gmres.o HYPRE_cogmres.o HYPRE_lgmres.o HYPRE_flexgmres.o HYPRE_pcg.o pcg.o HYPRE_lobpcg.o lobpcg.o -Wl,-soname,libHYPRE_krylov-2.23.0.so ln -s libHYPRE_krylov-2.23.0.so libHYPRE_krylov.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./krylov.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./lobpcg.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov' Making seq_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matop.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matvec.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c genpart.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_csr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_mapped_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_multiblock_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c mapped_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c multiblock_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c vector_batched.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matop_device.c -o csr_matop_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matrix_cuda_utils.c -o csr_matrix_cuda_utils.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matvec_device.c -o csr_matvec_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_matvec_oomp.c -o csr_matvec_oomp.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spadd_device.c -o csr_spadd_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device.c -o csr_spgemm_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_attempt.c -o csr_spgemm_device_attempt.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_confident.c -o csr_spgemm_device_confident.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_cusparse.c -o csr_spgemm_device_cusparse.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_rocsparse.c -o csr_spgemm_device_rocsparse.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_rowbound.c -o csr_spgemm_device_rowbound.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_rowest.c -o csr_spgemm_device_rowest.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spgemm_device_util.c -o csr_spgemm_device_util.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_spmv_device.c -o csr_spmv_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_sptrans_device.c -o csr_sptrans_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c vector.c -o vector.obj Building libHYPRE_seq_mv.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_seq_mv-2.23.0.so csr_matop.o csr_matrix.o csr_matvec.o genpart.o HYPRE_csr_matrix.o HYPRE_mapped_matrix.o HYPRE_multiblock_matrix.o HYPRE_vector.o mapped_matrix.o multiblock_matrix.o vector_batched.o csr_matop_device.obj csr_matrix_cuda_utils.obj csr_matvec_device.obj csr_matvec_oomp.obj csr_spadd_device.obj csr_spgemm_device.obj csr_spgemm_device_attempt.obj csr_spgemm_device_confident.obj csr_spgemm_device_cusparse.obj csr_spgemm_device_rocsparse.obj csr_spgemm_device_rowbound.obj csr_spgemm_device_rowest.obj csr_spgemm_device_util.obj csr_spmv_device.obj csr_sptrans_device.obj vector.obj -Wl,-soname,libHYPRE_seq_mv-2.23.0.so ln -s libHYPRE_seq_mv-2.23.0.so libHYPRE_seq_mv.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./seq_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv' Making parcsr_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c communicationT.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_parcsr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_par_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c gen_fffc.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c new_commpkg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c numbers.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_aat.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_assumed_part.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_bool_matop.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_bool_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_communication.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_matop.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_matop_marked.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_triplemat.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_make_system.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_vector_batched.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_matvec.c -o par_csr_matvec.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_fffc_device.c -o par_csr_fffc_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_matop_device.c -o par_csr_matop_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_triplemat_device.c -o par_csr_triplemat_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../blas -I./../lapack -I./../utilities -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_vector_device.c -o par_vector_device.obj Building libHYPRE_parcsr_mv.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_parcsr_mv-2.23.0.so communicationT.o F90_HYPRE_parcsr_matrix.o F90_HYPRE_parcsr_vector.o F90_parcsr_matrix.o F90_par_vector.o HYPRE_parcsr_matrix.o HYPRE_parcsr_vector.o gen_fffc.o new_commpkg.o numbers.o par_csr_aat.o par_csr_assumed_part.o par_csr_bool_matop.o par_csr_bool_matrix.o par_csr_communication.o par_csr_matop.o par_csr_matrix.o par_csr_matop_marked.o par_csr_triplemat.o par_make_system.o par_vector.o par_vector_batched.o par_csr_matvec.obj par_csr_fffc_device.obj par_csr_matop_device.obj par_csr_triplemat_device.obj par_vector_device.obj -Wl,-soname,libHYPRE_parcsr_mv-2.23.0.so ln -s libHYPRE_parcsr_mv-2.23.0.so libHYPRE_parcsr_mv.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_parcsr_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv' Making parcsr_block_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_block_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c csr_block_matvec.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_matvec.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_comm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_rap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_rap_communication.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_csr_block_relax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../multivector -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I./../IJ_mv -I./../krylov -I/scratch/app_sequana/openmpi/2.1.1/include -c par_block_nodal_systems.c Building libHYPRE_parcsr_block_mv.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_parcsr_block_mv-2.23.0.so csr_block_matrix.o csr_block_matvec.o par_csr_block_matrix.o par_csr_block_matvec.o par_csr_block_comm.o par_csr_block_rap.o par_csr_block_rap_communication.o par_csr_block_interp.o par_csr_block_relax.o par_block_nodal_systems.o -Wl,-soname,libHYPRE_parcsr_block_mv-2.23.0.so ln -s libHYPRE_parcsr_block_mv-2.23.0.so libHYPRE_parcsr_block_mv.so cp -fR ./par_csr_block_matrix.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./csr_block_matrix.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv' Making distributed_matrix ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../parcsr_mv -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c distributed_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../parcsr_mv -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_distributed_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../parcsr_mv -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c distributed_matrix_ISIS.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../parcsr_mv -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c distributed_matrix_PETSc.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../parcsr_mv -I./../seq_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c distributed_matrix_parcsr.c Building libHYPRE_DistributedMatrix.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_DistributedMatrix-2.23.0.so distributed_matrix.o HYPRE_distributed_matrix.o distributed_matrix_ISIS.o distributed_matrix_PETSc.o distributed_matrix_parcsr.o -Wl,-soname,libHYPRE_DistributedMatrix-2.23.0.so ln -s libHYPRE_DistributedMatrix-2.23.0.so libHYPRE_DistributedMatrix.so cp -fR ./distributed_matrix.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix' Making IJ_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c aux_parcsr_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c aux_par_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_IJMatrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_IJVector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_IJMatrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_IJMatrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_IJVector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJ_assumed_part.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJMatrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJMatrix_parcsr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJVector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJVector_parcsr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJMatrix_parcsr_device.c -o IJMatrix_parcsr_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c IJVector_parcsr_device.c -o IJVector_parcsr_device.obj Building libHYPRE_IJ_mv.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_IJ_mv-2.23.0.so aux_parcsr_matrix.o aux_par_vector.o F90_HYPRE_IJMatrix.o F90_HYPRE_IJVector.o F90_IJMatrix.o HYPRE_IJMatrix.o HYPRE_IJVector.o IJ_assumed_part.o IJMatrix.o IJMatrix_parcsr.o IJVector.o IJVector_parcsr.o IJMatrix_parcsr_device.obj IJVector_parcsr_device.obj -Wl,-soname,libHYPRE_IJ_mv-2.23.0.so ln -s libHYPRE_IJ_mv-2.23.0.so libHYPRE_IJ_mv.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_IJ_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv' Making matrix_matrix ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../distributed_matrix -I./../seq_mv -I./../parcsr_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_ConvertParCSRMatrixToDistributedMatrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I./.. -I./../utilities -I./../distributed_matrix -I./../seq_mv -I./../parcsr_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_ConvertPETScMatrixToDistributedMatrix.c Building libHYPRE_MatrixMatrix.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_MatrixMatrix-2.23.0.so HYPRE_ConvertParCSRMatrixToDistributedMatrix.o HYPRE_ConvertPETScMatrixToDistributedMatrix.o -Wl,-soname,libHYPRE_MatrixMatrix-2.23.0.so ln -s libHYPRE_MatrixMatrix-2.23.0.so libHYPRE_MatrixMatrix.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix' Making parcsr_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c amg_hybrid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c aux_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_hypre_laplace.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_amg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_block.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_cgnr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_Euclid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_cogmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_hybrid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_int.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_ParaSails.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_pilut.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_parcsr_schwarz.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_ams.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c gen_redcs_mat.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_amg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_amgdd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_block.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_cgnr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_Euclid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_cogmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_hybrid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_int.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_mgr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_ilu.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_ParaSails.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_pilut.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_parcsr_schwarz.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_ams.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_ads.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_ame.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_2s_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd_comp_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd_fac_cycle.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd_helpers.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amg_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amg_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amg_solveT.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_cg_relax_wt.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_coarsen.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_cgc_coarsen.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_cheby.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_coarse_parms.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_coordinates.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_cr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_cycle.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_add_cycle.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_difconv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_gauss_elim.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_gsmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_indepset.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_jacobi_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_krylov_func.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_mod_lr_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_multi_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_mod_multi_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_laplace.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_laplace_27pt.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_laplace_9pt.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_lr_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_mgr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_mgr_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_mgr_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_nongalerkin.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_nodal_systems.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_rap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_rap_communication.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_rotate_7pt.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_relax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_relax_more.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_relax_interface.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_scaled_matnorm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_schwarz.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_stats.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_strength.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_sv_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_sv_interp_ln.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_vardifconv.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_vardifconv_rs.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c partial.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c schwarz.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c block_tridiag.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_restr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_lr_restr.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c dsuperlu.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c ads.c -o ads.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c ams.c -o ams.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c ame.c -o ame.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_ilu.c -o par_ilu.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_ilu_setup.c -o par_ilu_setup.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_ilu_solve.c -o par_ilu_solve.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_cheby_device.c -o par_cheby_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_relax_more_device.c -o par_relax_more_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_coarsen_device.c -o par_coarsen_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_coarse_parms_device.c -o par_coarse_parms_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_indepset_device.c -o par_indepset_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_interp_device.c -o par_interp_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_lr_restr_device.c -o par_lr_restr_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_interp_trunc_device.c -o par_interp_trunc_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_lr_interp_device.c -o par_lr_interp_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_strength_device.c -o par_strength_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_strength2nd_device.c -o par_strength2nd_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_amgdd_fac_cycle_device.c -o par_amgdd_fac_cycle_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_2s_interp_device.c -o par_2s_interp_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_relax_device.c -o par_relax_device.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I../distributed_ls/Euclid -I. -I./.. -I./../blas -I./../lapack -I./../multivector -I./../utilities -I./../krylov -I./../seq_mv -I./../parcsr_mv -I./../distributed_matrix -I./../matrix_matrix -I./../IJ_mv -I./../parcsr_block_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c par_mod_multi_interp_device.c -o par_mod_multi_interp_device.obj Building libHYPRE_parcsr_ls.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_parcsr_ls-2.23.0.so amg_hybrid.o aux_interp.o F90_hypre_laplace.o F90_HYPRE_parcsr_amg.o F90_HYPRE_parcsr_bicgstab.o F90_HYPRE_parcsr_block.o F90_HYPRE_parcsr_cgnr.o F90_HYPRE_parcsr_Euclid.o F90_HYPRE_parcsr_gmres.o F90_HYPRE_parcsr_cogmres.o F90_HYPRE_parcsr_flexgmres.o F90_HYPRE_parcsr_lgmres.o F90_HYPRE_parcsr_hybrid.o F90_HYPRE_parcsr_int.o F90_HYPRE_parcsr_ParaSails.o F90_HYPRE_parcsr_pcg.o F90_HYPRE_parcsr_pilut.o F90_HYPRE_parcsr_schwarz.o F90_HYPRE_ams.o gen_redcs_mat.o HYPRE_parcsr_amg.o HYPRE_parcsr_amgdd.o HYPRE_parcsr_bicgstab.o HYPRE_parcsr_block.o HYPRE_parcsr_cgnr.o HYPRE_parcsr_Euclid.o HYPRE_parcsr_gmres.o HYPRE_parcsr_cogmres.o HYPRE_parcsr_flexgmres.o HYPRE_parcsr_lgmres.o HYPRE_parcsr_hybrid.o HYPRE_parcsr_int.o HYPRE_parcsr_mgr.o HYPRE_parcsr_ilu.o HYPRE_parcsr_ParaSails.o HYPRE_parcsr_pcg.o HYPRE_parcsr_pilut.o HYPRE_parcsr_schwarz.o HYPRE_ams.o HYPRE_ads.o HYPRE_ame.o par_2s_interp.o par_amg.o par_amgdd.o par_amgdd_comp_grid.o par_amgdd_setup.o par_amgdd_solve.o par_amgdd_fac_cycle.o par_amgdd_helpers.o par_amg_setup.o par_amg_solve.o par_amg_solveT.o par_cg_relax_wt.o par_coarsen.o par_cgc_coarsen.o par_cheby.o par_coarse_parms.o par_coordinates.o par_cr.o par_cycle.o par_add_cycle.o par_difconv.o par_gauss_elim.o par_gsmg.o par_indepset.o par_interp.o par_jacobi_interp.o par_krylov_func.o par_mod_lr_interp.o par_multi_interp.o par_mod_multi_interp.o par_laplace.o par_laplace_27pt.o par_laplace_9pt.o par_lr_interp.o par_mgr.o par_mgr_setup.o par_mgr_solve.o par_nongalerkin.o par_nodal_systems.o par_rap.o par_rap_communication.o par_rotate_7pt.o par_relax.o par_relax_more.o par_relax_interface.o par_scaled_matnorm.o par_schwarz.o par_stats.o par_strength.o par_sv_interp.o par_sv_interp_ln.o par_vardifconv.o par_vardifconv_rs.o partial.o schwarz.o block_tridiag.o par_restr.o par_lr_restr.o dsuperlu.o ads.obj ams.obj ame.obj par_ilu.obj par_ilu_setup.obj par_ilu_solve.obj par_cheby_device.obj par_relax_more_device.obj par_coarsen_device.obj par_coarse_parms_device.obj par_indepset_device.obj par_interp_device.obj par_lr_restr_device.obj par_interp_trunc_device.obj par_lr_interp_device.obj par_strength_device.obj par_strength2nd_device.obj par_amgdd_fac_cycle_device.obj par_2s_interp_device.obj par_relax_device.obj par_mod_multi_interp_device.obj -Wl,-soname,libHYPRE_parcsr_ls-2.23.0.so ln -s libHYPRE_parcsr_ls-2.23.0.so libHYPRE_parcsr_ls.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_parcsr_ls.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls' Making struct_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c assumed_part.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c box_algebra.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c box_boundary.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c box.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c box_manager.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c communication_info.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c computation.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_stencil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_stencil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c project.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_io.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_matrix_mask.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_stencil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_axpy.c -o struct_axpy.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_communication.c -o struct_communication.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_copy.c -o struct_copy.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_innerprod.c -o struct_innerprod.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_matrix.c -o struct_matrix.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_matvec.c -o struct_matvec.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_scale.c -o struct_scale.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I/scratch/app_sequana/openmpi/2.1.1/include -c struct_vector.c -o struct_vector.obj Building libHYPRE_struct_mv.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_struct_mv-2.23.0.so assumed_part.o box_algebra.o box_boundary.o box.o box_manager.o communication_info.o computation.o F90_HYPRE_struct_grid.o F90_HYPRE_struct_matrix.o F90_HYPRE_struct_stencil.o F90_HYPRE_struct_vector.o HYPRE_struct_grid.o HYPRE_struct_matrix.o HYPRE_struct_stencil.o HYPRE_struct_vector.o project.o struct_grid.o struct_io.o struct_matrix_mask.o struct_stencil.o struct_axpy.obj struct_communication.obj struct_copy.obj struct_innerprod.obj struct_matrix.obj struct_matvec.obj struct_scale.obj struct_vector.obj -Wl,-soname,libHYPRE_struct_mv-2.23.0.so ln -s libHYPRE_struct_mv-2.23.0.so libHYPRE_struct_mv.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_struct_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_struct_mv.hpp /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv' Making struct_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c coarsen.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_cycred.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_hybrid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_int.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_jacobi.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_pfmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_smg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_struct_sparse_msg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c hybrid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_cycred.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_hybrid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_jacobi.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_pfmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_smg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_sparse_msg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c jacobi.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pcg_struct.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_relax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_setup_rap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c semi.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_relax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_setup_rap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_setup_restrict.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg_setup_rap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c cyclic_reduction.c -o cyclic_reduction.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_int.c -o HYPRE_struct_int.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_struct_pcg.c -o HYPRE_struct_pcg.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg2_setup_rap.c -o pfmg2_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg3_setup_rap.c -o pfmg3_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_setup.c -o pfmg_setup.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_setup_interp.c -o pfmg_setup_interp.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_setup_rap5.c -o pfmg_setup_rap5.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c pfmg_setup_rap7.c -o pfmg_setup_rap7.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c point_relax.c -o point_relax.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c red_black_constantcoef_gs.c -o red_black_constantcoef_gs.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c red_black_gs.c -o red_black_gs.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c semi_interp.c -o semi_interp.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c semi_restrict.c -o semi_restrict.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c semi_setup_rap.c -o semi_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg2_setup_rap.c -o smg2_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg3_setup_rap.c -o smg3_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg.c -o smg.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_axpy.c -o smg_axpy.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_residual.c -o smg_residual.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c smg_setup_interp.c -o smg_setup_interp.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg2_setup_rap.c -o sparse_msg2_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg3_setup_rap.c -o sparse_msg3_setup_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg_filter.c -o sparse_msg_filter.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg_interp.c -o sparse_msg_interp.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sparse_msg_restrict.c -o sparse_msg_restrict.obj Building libHYPRE_struct_ls.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_struct_ls-2.23.0.so coarsen.o F90_HYPRE_struct_bicgstab.o F90_HYPRE_struct_cycred.o F90_HYPRE_struct_flexgmres.o F90_HYPRE_struct_gmres.o F90_HYPRE_struct_lgmres.o F90_HYPRE_struct_hybrid.o F90_HYPRE_struct_int.o F90_HYPRE_struct_jacobi.o F90_HYPRE_struct_pcg.o F90_HYPRE_struct_pfmg.o F90_HYPRE_struct_smg.o F90_HYPRE_struct_sparse_msg.o hybrid.o HYPRE_struct_bicgstab.o HYPRE_struct_cycred.o HYPRE_struct_flexgmres.o HYPRE_struct_gmres.o HYPRE_struct_hybrid.o HYPRE_struct_jacobi.o HYPRE_struct_lgmres.o HYPRE_struct_pfmg.o HYPRE_struct_smg.o HYPRE_struct_sparse_msg.o jacobi.o pcg_struct.o pfmg.o pfmg_relax.o pfmg_setup_rap.o pfmg_solve.o semi.o smg_relax.o smg_setup.o smg_setup_rap.o smg_setup_restrict.o smg_solve.o sparse_msg.o sparse_msg_setup.o sparse_msg_setup_rap.o sparse_msg_solve.o cyclic_reduction.obj HYPRE_struct_int.obj HYPRE_struct_pcg.obj pfmg2_setup_rap.obj pfmg3_setup_rap.obj pfmg_setup.obj pfmg_setup_interp.obj pfmg_setup_rap5.obj pfmg_setup_rap7.obj point_relax.obj red_black_constantcoef_gs.obj red_black_gs.obj semi_interp.obj semi_restrict.obj semi_setup_rap.obj smg2_setup_rap.obj smg3_setup_rap.obj smg.obj smg_axpy.obj smg_residual.obj smg_setup_interp.obj sparse_msg2_setup_rap.obj sparse_msg3_setup_rap.obj sparse_msg_filter.obj sparse_msg_interp.obj sparse_msg_restrict.obj -Wl,-soname,libHYPRE_struct_ls-2.23.0.so ln -s libHYPRE_struct_ls-2.23.0.so libHYPRE_struct_ls.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_struct_ls.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls' Making sstruct_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_graph.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_stencil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_graph.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_stencil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_vector.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_axpy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_copy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_graph.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_grid.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_innerprod.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_matvec.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_scale.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_stencil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_matrix.c -o sstruct_matrix.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../utilities -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_vector.c -o sstruct_vector.obj Building libHYPRE_sstruct_mv.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_sstruct_mv-2.23.0.so F90_HYPRE_sstruct_graph.o F90_HYPRE_sstruct_grid.o F90_HYPRE_sstruct_matrix.o F90_HYPRE_sstruct_stencil.o F90_HYPRE_sstruct_vector.o HYPRE_sstruct_graph.o HYPRE_sstruct_grid.o HYPRE_sstruct_matrix.o HYPRE_sstruct_stencil.o HYPRE_sstruct_vector.o sstruct_axpy.o sstruct_copy.o sstruct_graph.o sstruct_grid.o sstruct_innerprod.o sstruct_matvec.o sstruct_scale.o sstruct_stencil.o sstruct_matrix.obj sstruct_vector.obj -Wl,-soname,libHYPRE_sstruct_mv-2.23.0.so ln -s libHYPRE_sstruct_mv-2.23.0.so libHYPRE_sstruct_mv.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_sstruct_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv' Making sstruct_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_InterFAC.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_int.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_maxwell.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_split.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c F90_HYPRE_sstruct_sys_pfmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_bicgstab.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_gmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_flexgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_lgmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_InterFAC.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_int.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_maxwell.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_pcg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_split.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_sstruct_sys_pfmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c bsearch.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_amr_zero_data.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_cf_coarsen.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_cfstencil_box.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_CFInterfaceExtents.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_interp2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_relax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_solve3.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_zero_cdata.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c krylov.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c krylov_sstruct.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c eliminate_rowscols.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_grad.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_physbdy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_PNedelec.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_PNedelec_bdy.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_semi_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_solve2.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_TV.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_TV_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c maxwell_zeroBC.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c nd1_amge_interpolation.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_amr_intercommunication.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_owninfo.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_recvinfo.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_sendinfo.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sstruct_sharedDOFComm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_pfmg.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_pfmg_relax.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_pfmg_setup.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_pfmg_setup_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_pfmg_setup_rap.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_pfmg_solve.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_semi_interp.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c sys_semi_restrict.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_amr_fcoarsen.c -o fac_amr_fcoarsen.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_amr_rap.c -o fac_amr_rap.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_restrict2.c -o fac_restrict2.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_setup2.c -o fac_setup2.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c fac_zero_stencilcoef.c -o fac_zero_stencilcoef.obj /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I.. -I. -I./.. -I./../multivector -I./../utilities -I./../krylov -I./../struct_mv -I./../seq_mv -I./../parcsr_mv -I./../IJ_mv -I./../parcsr_block_mv -I./../sstruct_mv -I./../struct_ls -I./../parcsr_ls -I/scratch/app_sequana/openmpi/2.1.1/include -c node_relax.c -o node_relax.obj Building libHYPRE_sstruct_ls.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_sstruct_ls-2.23.0.so F90_HYPRE_sstruct_bicgstab.o F90_HYPRE_sstruct_gmres.o F90_HYPRE_sstruct_flexgmres.o F90_HYPRE_sstruct_lgmres.o F90_HYPRE_sstruct_InterFAC.o F90_HYPRE_sstruct_int.o F90_HYPRE_sstruct_maxwell.o F90_HYPRE_sstruct_pcg.o F90_HYPRE_sstruct_split.o F90_HYPRE_sstruct_sys_pfmg.o HYPRE_sstruct_bicgstab.o HYPRE_sstruct_gmres.o HYPRE_sstruct_flexgmres.o HYPRE_sstruct_lgmres.o HYPRE_sstruct_InterFAC.o HYPRE_sstruct_int.o HYPRE_sstruct_maxwell.o HYPRE_sstruct_pcg.o HYPRE_sstruct_split.o HYPRE_sstruct_sys_pfmg.o bsearch.o fac.o fac_amr_zero_data.o fac_cf_coarsen.o fac_cfstencil_box.o fac_CFInterfaceExtents.o fac_interp2.o fac_relax.o fac_solve3.o fac_zero_cdata.o krylov.o krylov_sstruct.o eliminate_rowscols.o maxwell_grad.o maxwell_physbdy.o maxwell_PNedelec.o maxwell_PNedelec_bdy.o maxwell_semi_interp.o maxwell_solve.o maxwell_solve2.o maxwell_TV.o maxwell_TV_setup.o maxwell_zeroBC.o nd1_amge_interpolation.o sstruct_amr_intercommunication.o sstruct_owninfo.o sstruct_recvinfo.o sstruct_sendinfo.o sstruct_sharedDOFComm.o sys_pfmg.o sys_pfmg_relax.o sys_pfmg_setup.o sys_pfmg_setup_interp.o sys_pfmg_setup_rap.o sys_pfmg_solve.o sys_semi_interp.o sys_semi_restrict.o fac_amr_fcoarsen.obj fac_amr_rap.obj fac_restrict2.obj fac_setup2.obj fac_zero_stencilcoef.obj node_relax.obj -Wl,-soname,libHYPRE_sstruct_ls-2.23.0.so ln -s libHYPRE_sstruct_ls-2.23.0.so libHYPRE_sstruct_ls.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_sstruct_ls.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls' Making /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls' Making pilut ... gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c comm.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c debug.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c distributed_qsort.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c distributed_qsort_si.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c HYPRE_DistributedMatrixPilutSolver.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c ilut.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c parilut.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c parutil.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c pblas1.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c serilut.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c trifactor.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c util.c Building libHYPRE_DistributedMatrixPilutSolver.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_DistributedMatrixPilutSolver-2.23.0.so comm.o debug.o distributed_qsort.o distributed_qsort_si.o HYPRE_DistributedMatrixPilutSolver.o ilut.o parilut.o parutil.o pblas1.o serilut.o trifactor.o util.o -Wl,-soname,libHYPRE_DistributedMatrixPilutSolver-2.23.0.so ln -s libHYPRE_DistributedMatrixPilutSolver-2.23.0.so libHYPRE_DistributedMatrixPilutSolver.so cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut' Making ParaSails ... gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c ConjGrad.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c DiagScale.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c FGmres.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c Hash.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c hypre_ParaSails.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c LoadBal.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c Matrix.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c Mem.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c Numbering.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c OrderStat.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c ParaSails.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c PrunedRows.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c RowPatt.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../blas -I./../../lapack -I./../../utilities -I./../../distributed_matrix -I/scratch/app_sequana/openmpi/2.1.1/include -c StoredRows.c Building libHYPRE_ParaSails.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_ParaSails-2.23.0.so ConjGrad.o DiagScale.o FGmres.o Hash.o hypre_ParaSails.o LoadBal.o Matrix.o Mem.o Numbering.o OrderStat.o ParaSails.o PrunedRows.o RowPatt.o StoredRows.o -Wl,-soname,libHYPRE_ParaSails-2.23.0.so ln -s libHYPRE_ParaSails-2.23.0.so libHYPRE_ParaSails.so gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails' Making Euclid ... gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid' /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c blas_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Euclid_apply.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Euclid_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c ExternalRows_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Factor_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c getRow_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c globalObjects.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Hash_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Hash_i_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c ilu_mpi_bj.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c ilu_mpi_pilu.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c ilu_seq.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c io_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c krylov_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Mat_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c mat_dh_private.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c MatGenFD.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Mem_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Numbering_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Parser_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c shellSort_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c sig_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c SortedList_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c SortedSet_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c SubdomainGraph_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c TimeLog_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Timer_dh.c /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -fstack-protector -O3 -fPIC -DHAVE_CONFIG_H -I../.. -I. -I./../.. -I./../../utilities -I./../../parcsr_mv -I./../../seq_mv -I./../../distributed_matrix -I./../../hypre/include -I/scratch/app_sequana/openmpi/2.1.1/include -c Vec_dh.c Building libHYPRE_Euclid.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE_Euclid-2.23.0.so blas_dh.o Euclid_apply.o Euclid_dh.o ExternalRows_dh.o Factor_dh.o getRow_dh.o globalObjects.o Hash_dh.o Hash_i_dh.o ilu_mpi_bj.o ilu_mpi_pilu.o ilu_seq.o io_dh.o krylov_dh.o Mat_dh.o mat_dh_private.o MatGenFD.o Mem_dh.o Numbering_dh.o Parser_dh.o shellSort_dh.o sig_dh.o SortedList_dh.o SortedSet_dh.o SubdomainGraph_dh.o TimeLog_dh.o Timer_dh.o Vec_dh.o -Wl,-soname,libHYPRE_Euclid-2.23.0.so ln -s libHYPRE_Euclid-2.23.0.so libHYPRE_Euclid.so gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid' gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls' Making lib ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lib' Building libHYPRE.so ... /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -o libHYPRE-2.23.0.so /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack/*.o /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv/*.obj /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities/*.obj -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lm -Wl,-soname,libHYPRE-2.23.0.so -Wl,-z,defs ln -s libHYPRE-2.23.0.so libHYPRE.so cp -fR libHYPRE* /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/lib gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lib'Making blas ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas' gmake[1]: Nothing to be done for `all'. gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/blas' Making lapack ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack' gmake[1]: Nothing to be done for `all'. gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lapack' Making utilities ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_utilities.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_utilities.hpp /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./fortran*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/utilities' Making multivector ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector' cp -fR *.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/multivector' Making krylov ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./krylov.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./lobpcg.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/krylov' Making seq_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./seq_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/seq_mv' Making parcsr_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_parcsr_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_mv' Making parcsr_block_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv' cp -fR ./par_csr_block_matrix.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./csr_block_matrix.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_block_mv' Making distributed_matrix ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix' cp -fR ./distributed_matrix.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_matrix' Making IJ_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_IJ_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/IJ_mv' Making matrix_matrix ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/matrix_matrix' Making parcsr_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_parcsr_ls.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/parcsr_ls' Making struct_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_struct_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_struct_mv.hpp /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_mv' Making struct_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_struct_ls.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/struct_ls' Making sstruct_mv ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_sstruct_mv.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_mv' Making sstruct_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include cp -fR ./_hypre_sstruct_ls.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/sstruct_ls' Making /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls' Making pilut ... gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut' cp -fR ./HYPRE_*.h /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/include gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/pilut' Making ParaSails ... gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails' gmake[2]: Nothing to be done for `all'. gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/ParaSails' Making Euclid ... gmake[2]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid' gmake[2]: Nothing to be done for `all'. gmake[2]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls/Euclid' gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/distributed_ls' Making lib ... gmake[1]: Entering directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lib' cp -fR libHYPRE* /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/hypre/lib gmake[1]: Leaving directory `/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/externalpackages/git.hypre/src/lib' Installing hypre ...********End of Output of running make on HYPRE ******* Checking for library in Download HYPRE: ['/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib/libHYPRE.a'] Contents of /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt: ['bin', 'externalpackages', 'share', 'lib', 'include'] Contents /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib: ['pkgconfig', 'petsc', 'libHYPRE.so', 'libopenblas.so', 'libopenblas.a', 'libfblas.a', '.DIR', 'libHYPRE-2.23.0.so', 'libopenblas_skylakex-r0.3.10.a', 'libopenblas.so.0', 'cmake', 'libopenblas_skylakex-r0.3.10.so', 'libflapack.a'] ============================================================================================= 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 [HYPRE_IJMatrixCreate] in library ['/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib/libHYPRE.a'] ['/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64/libmkl_intel_lp64.a', 'mkl_core', 'mkl_sequential', 'pthread', 'libm.a', '-lstdc++', '-ldl', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-L/scratch/app_sequana/openmpi/2.1.1/lib', '-lmpi_usempi', '-lmpi_mpifh', '-lmpi', '-lgfortran', '-lm', '-Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0', '-Wl,-rpath,/scratch/app/gcc/9.3/lib64', '-L/scratch/app/gcc/9.3/lib64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8', '-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib', '-Wl,-rpath,/scratch/app/gcc/9.3/lib', '-L/scratch/app/gcc/9.3/lib', '-Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib', '-lgfortran', '-lm', '-lgcc_s', '-lquadmath', '-lpthread'] Checking directory of requested libraries:/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib for first library:libHYPRE. Files in directory:['pkgconfig', 'petsc', 'libHYPRE.so', 'libopenblas.so', 'libopenblas.a', 'libfblas.a', '.DIR', 'libHYPRE-2.23.0.so', 'libopenblas_skylakex-r0.3.10.a', 'libopenblas.so.0', 'cmake', 'libopenblas_skylakex-r0.3.10.so', 'libflapack.a'] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char HYPRE_IJMatrixCreate(); static void _check_HYPRE_IJMatrixCreate() { HYPRE_IJMatrixCreate(); } int main() { _check_HYPRE_IJMatrixCreate();; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.o -Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -L/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -lHYPRE -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char HYPRE_IJMatrixCreate(); static void _check_HYPRE_IJMatrixCreate() { HYPRE_IJMatrixCreate(); } void dummy(void) {_check_HYPRE_IJMatrixCreate();} ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -c -o /tmp/petsc-eg0070o7/config.compilers/conftest.o -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -o /tmp/petsc-eg0070o7/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-eg0070o7/config.compilers/conftest.o /tmp/petsc-eg0070o7/config.compilers/confc.o -Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -L/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -lHYPRE -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lstdc++ -ldl -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl Possible ERROR while running linker: stderr: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 Linker output before filtering: /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 /usr/bin/ld: warning: libgfortran.so.3, needed by /scratch/app_sequana/openmpi/2.1.1/lib/libmpi_usempi.so, may conflict with libgfortran.so.5 : Linker output after filtering: : Defined "HAVE_LIBHYPRE" to "1" Checking for optional headers [] in Download HYPRE: ['/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include', '/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= 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 ['/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include', '/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Found header files [] in ['/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include', '/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Checking for headers ['HYPRE.h'] in Download HYPRE: ['/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include', '/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ============================================================================================= 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 ['HYPRE.h'] in ['/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include', '/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] Checking include with compiler flags var CPPFLAGS ['/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include', '/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib', '/scratch/app_sequana/openmpi/2.1.1/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include -I/scratch/app_sequana/openmpi/2.1.1/include -I/scratch/app_sequana/openmpi/2.1.1/lib -I/scratch/app_sequana/openmpi/2.1.1/include /tmp/petsc-eg0070o7/config.headers/conftest.c Preprocess output before filtering: : Preprocess output after filtering: : Found header files ['HYPRE.h'] in ['/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include', '/scratch/app_sequana/openmpi/2.1.1/include', '/scratch/app_sequana/openmpi/2.1.1/lib'] ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.hypre/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include /tmp/petsc-eg0070o7/config.packages.hypre/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.packages.hypre/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.packages.hypre/conftest.c:8:7: warning: extra tokens at end of #endif directive [-Wendif-labels] 8 | #endif; | ^ Source: #include "confdefs.h" #include "conffix.h" #include "HYPRE_config.h" int main() { #if !defined(HYPRE_BIGINT) && !defined(HYPRE_MIXEDINT) #error HYPRE_BIGINT or HYPRE_MIXEDINT not defined! #endif; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.hypre/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include /tmp/petsc-eg0070o7/config.packages.hypre/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include "HYPRE_config.h" int main() { #if defined(HYPRE_MIXEDINT) #error HYPRE_MIXEDINT defined! #endif ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.packages.hypre/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include /tmp/petsc-eg0070o7/config.packages.hypre/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include "HYPRE_config.h" int main() { #if defined(HYPRE_USING_GPU) #error HYPRE_USING_GPU defined! #endif ; return 0; } ============================================================================================= TESTING: checkVersion from config.packages.hypre(config/BuildSystem/config/package.py:1071) 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 "HYPRE_config.h" petscpkgver(HYPRE_RELEASE_VERSION); Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include /tmp/petsc-eg0070o7/config.packages.hypre/conftest.c For hypre need 2.14 <= 2.23.0 <= ============================================================================================= TESTING: checkSharedLibrary from config.packages.hypre(config/BuildSystem/config/package.py:996) By default we don't care about checking if the library is shared child config.packages.hypre 36.406679 ============================================================================================= TESTING: consistencyChecks from config.packages.Trilinos(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.Trilinos(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.Trilinos 0.001472 ============================================================================================= TESTING: consistencyChecks from config.packages.xSDKTrilinos(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.xSDKTrilinos(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.xSDKTrilinos 0.000950 ============================================================================================= TESTING: consistencyChecks from config.packages.mstk(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.mstk(config/BuildSystem/config/package.py:1000) Called if --with-packagename=0; does nothing by default child config.packages.mstk 0.000898 ============================================================================================= TESTING: consistencyChecks from config.packages.slepc(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.slepc(config/BuildSystem/config/packages/slepc.py:97) Defined make rule "slepc-build" with dependencies "" and code [] Defined make rule "slepc-install" with dependencies "" and code [] child config.packages.slepc 0.001631 ============================================================================================= TESTING: consistencyChecks from config.packages.hpddm(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.hpddm(config/BuildSystem/config/packages/hpddm.py:110) Defined make rule "hpddm-build" with dependencies "" and code [] Defined make rule "hpddm-install" with dependencies "" and code [] child config.packages.hpddm 0.001658 ============================================================================================= TESTING: consistencyChecks from config.packages.bamg(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.bamg(config/BuildSystem/config/packages/bamg.py:86) Defined make rule "bamg-build" with dependencies "" and code [] Defined make rule "bamg-install" with dependencies "" and code [] child config.packages.bamg 0.001636 ============================================================================================= TESTING: consistencyChecks from config.packages.MFEM(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.MFEM(config/BuildSystem/config/packages/MFEM.py:218) Defined make rule "mfem-build" with dependencies "" and code [] Defined make rule "mfem-install" with dependencies "" and code [] child config.packages.MFEM 0.001569 ============================================================================================= TESTING: consistencyChecks from config.packages.AMReX(config/BuildSystem/config/package.py:1004) Checks run on the system and currently installed packages that need to be correct for the package now being configured ============================================================================================= TESTING: alternateConfigureLibrary from config.packages.AMReX(config/BuildSystem/config/packages/AMReX.py:151) Defined make rule "amrex-build" with dependencies "" and code [] Defined make rule "amrex-install" with dependencies "" and code [] child config.packages.AMReX 0.001630 ============================================================================================= TESTING: configureRTLDDefault from PETSc.Configure(config/PETSc/Configure.py:705) ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c:4:15: error: ‘RTLD_DEFAULT’ undeclared here (not in a function) 4 | void *ptr = RTLD_DEFAULT; | ^~~~~~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include void *ptr = RTLD_DEFAULT; int main() { ; return 0; } ============================================================================================= TESTING: configurePrefetch from PETSc.Configure(config/PETSc/Configure.py:523) Sees if there are any prefetch functions supported Executing: uname -s stdout: Linux ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { void *v = 0;_mm_prefetch((const char*)v,_MM_HINT_NTA); ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_XMMINTRIN_H" to "1" Defined "Prefetch(a,b,c)" to "_mm_prefetch((const char*)(a),(c))" Defined "PREFETCH_HINT_NTA" to "_MM_HINT_NTA" Defined "PREFETCH_HINT_T0" to "_MM_HINT_T0" Defined "PREFETCH_HINT_T1" to "_MM_HINT_T1" Defined "PREFETCH_HINT_T2" to "_MM_HINT_T2" ============================================================================================= TESTING: configureUnused from PETSc.Configure(config/PETSc/Configure.py:591) Sees if __attribute((unused)) is supported ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c:7:5: warning: unused variable ‘j’ [-Wunused-variable] 7 | 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -lquadmath -lstdc++ -ldl Defined "UNUSED" to "__attribute((unused))" ============================================================================================= TESTING: configureDeprecated from PETSc.Configure(config/PETSc/Configure.py:609) Check if __attribute((deprecated)) is supported ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c:3:38: warning: ‘myfunc’ defined but not used [-Wunused-function] 3 | __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))" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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))" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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)" ============================================================================================= TESTING: configureIsatty from PETSc.Configure(config/PETSc/Configure.py:603) 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" ============================================================================================= TESTING: configureExpect from PETSc.Configure(config/PETSc/Configure.py:658) Sees if the __builtin_expect directive is supported ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__builtin_expect(0,1)) return 1;; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_BUILTIN_EXPECT" to "1" ============================================================================================= TESTING: configureAlign from PETSc.Configure(config/PETSc/Configure.py:642) Check if __attribute(aligned) is supported ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ============================================================================================= TESTING: configureFunctionName from PETSc.Configure(config/PETSc/Configure.py:665) Sees if the compiler supports __func__ or a variant. ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -lquadmath -lstdc++ -ldl Defined "FUNCTION_NAME_C" to "__func__" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -lquadmath -lstdc++ -ldl Defined "FUNCTION_NAME_CXX" to "__func__" ============================================================================================= TESTING: configureIntptrt from PETSc.Configure(config/PETSc/Configure.py:683) Determine what to use for uintptr_t ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c:6:18: warning: unused variable ‘i’ [-Wunused-variable] 6 | 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" ============================================================================================= TESTING: configureSolaris from PETSc.Configure(config/PETSc/Configure.py:710) Solaris specific stuff ============================================================================================= TESTING: configureLinux from PETSc.Configure(config/PETSc/Configure.py:723) Linux specific stuff Defined "HAVE_DOUBLE_ALIGN_MALLOC" to "1" ============================================================================================= TESTING: configureWin32 from PETSc.Configure(config/PETSc/Configure.py:729) Win32 non-cygwin specific stuff Checking for functions [GetComputerName] in library ['Kernel32.lib'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.c:4:10: fatal error: windows.h: No such file or directory 4 | #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'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.c:4:10: fatal error: windows.h: No such file or directory 4 | #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'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.c:4:10: fatal error: windows.h: No such file or directory 4 | #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'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.c:4:10: fatal error: windows.h: No such file or directory 4 | #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'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.c:4:10: fatal error: windows.h: No such file or directory 4 | #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'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.c:4:10: fatal error: windows.h: No such file or directory 4 | #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'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.c:4:10: fatal error: windows.h: No such file or directory 4 | #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'] [] ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.libraries/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/config.libraries/conftest.c:4:10: fatal error: windows.h: No such file or directory 4 | #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 ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/config.types/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/config.types/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/config.types/conftest.c:11:9: warning: unused variable ‘a’ [-Wunused-variable] 11 | int32_t a;; | ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { int32_t a;; return 0; } int32_t found ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c:6:7: warning: unused variable ‘u’ [-Wunused-variable] 6 | uid_t u; | ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { uid_t u; ; return 0; } ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c:8:5: warning: unused variable ‘a’ [-Wunused-variable] 8 | 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -lquadmath -lstdc++ -ldl ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int a=0; if (S_ISDIR(a)){} ; return 0; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -lquadmath -lstdc++ -ldl ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c:3:10: fatal error: windows.h: No such file or directory 3 | #include | ^~~~~~~~~~~ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include int main() { LARGE_INTEGER a; DWORD b=a.u.HighPart; ; return 0; } ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c:3:10: fatal error: windows.h: No such file or directory 3 | #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 ""/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc"" Defined make macro "wPETSC_DIR" to "/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc" Defined "ARCH" to ""linux64GccDPInt64Opt"" ============================================================================================= TESTING: configureCygwinBrokenPipe from PETSc.Configure(config/PETSc/Configure.py:807) Cygwin version <= 1.7.18 had issues with pipes and long commands invoked from gnu-make http://cygwin.com/ml/cygwin/2013-05/msg00340.html Executing: uname -s stdout: Linux ============================================================================================= TESTING: configureDefaultArch from PETSc.Configure(config/PETSc/Configure.py:823) ============================================================================================= TESTING: configureScript from PETSc.Configure(config/PETSc/Configure.py:840) Output a script in the conf directory which will reproduce the configuration ============================================================================================= TESTING: configureInstall from PETSc.Configure(config/PETSc/Configure.py:879) Setup the directories for installation Defined make rule "print_mesg_after_build" with dependencies "" and code ['-@echo "========================================="', '-@echo "Now to check if the libraries are working do:"', '-@echo "${MAKE_USER} PETSC_DIR=${PETSC_DIR} PETSC_ARCH=${PETSC_ARCH} check"', '-@echo "========================================="'] ============================================================================================= TESTING: configureGCOV from PETSc.Configure(config/PETSc/Configure.py:895) ============================================================================================= TESTING: configureAtoll from PETSc.Configure(config/PETSc/Configure.py:586) Checks if atoll exists ===== Checking linker Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c: In function ‘main’: /tmp/petsc-eg0070o7/PETSc.Configure/conftest.c:7:6: warning: unused variable ‘v’ [-Wunused-variable] 7 | 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; } Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -lquadmath -lstdc++ -ldl Defined "HAVE_ATOLL" to "1" ============================================================================================= Executing: CC -VV Defined "USE_SOCKET_VIEWER" to "1" ===== Checking compiler Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -c -o /tmp/petsc-eg0070o7/PETSc.Configure/conftest.o -I/tmp/petsc-eg0070o7/config.compilerFlags -I/tmp/petsc-eg0070o7/config.utilities.closure -I/tmp/petsc-eg0070o7/config.compilersFortran -I/tmp/petsc-eg0070o7/config.headers -I/tmp/petsc-eg0070o7/config.utilities.cacheDetails -I/tmp/petsc-eg0070o7/config.functions -I/tmp/petsc-eg0070o7/config.utilities.featureTestMacros -I/tmp/petsc-eg0070o7/config.utilities.missing -I/tmp/petsc-eg0070o7/PETSc.options.sharedLibraries -I/tmp/petsc-eg0070o7/PETSc.options.scalarTypes -I/tmp/petsc-eg0070o7/config.packages.MPI -I/tmp/petsc-eg0070o7/config.packages.pthread -I/tmp/petsc-eg0070o7/config.setCompilers -I/tmp/petsc-eg0070o7/config.compilers -I/tmp/petsc-eg0070o7/config.packages.BlasLapack -I/tmp/petsc-eg0070o7/config.packages.hypre -I/tmp/petsc-eg0070o7/config.libraries -I/tmp/petsc-eg0070o7/config.types -I/tmp/petsc-eg0070o7/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-eg0070o7/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" ============================================================================================= Executing: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -show stdout: gcc -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi Defined "MPICC_SHOW" to ""gcc -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi"" Defined make macro "CC_FLAGS" to " -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 " 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 -O3 -fPIC -std=gnu++17 " Defined make macro "CXX_LINKER" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpicxx" Defined make macro "CXX_LINKER_FLAGS" to " -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3" Defined make macro "CPP_FLAGS" to " " Defined make macro "PCC" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpicc" Defined make macro "PCC_FLAGS" to " -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 " Defined make macro "CC_SUFFIX" to "o" Defined make macro "PCC_LINKER" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpicc" Defined make macro "PCC_LINKER_FLAGS" to " -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3" Defined make macro "CC_LINKER_SUFFIX" to "" Defined "HAVE_FORTRAN" to "1" Defined make macro "FPP_FLAGS" to "" Defined make macro "FC_FLAGS" to " -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 " Defined make macro "FC_SUFFIX" to "o" Defined make macro "FC_LINKER" to "/scratch/app_sequana/openmpi/2.1.1/bin/mpif90" Defined make macro "FC_LINKER_FLAGS" to " -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 " Defined make macro "FC_MODULE_FLAG" to "-I" Defined make macro "FC_MODULE_OUTPUT_FLAG" to "-J" Defined make macro "CUDAC_FLAGS" to " -Xcompiler -fPIC -O3 -ccbin /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -std=c++17 -Wno-deprecated-gpu-targets" Defined make macro "SL_LINKER" to "/scratch/app_sequana/openmpi/2.1.1/bin/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" ============================================================================================= Defined "HAVE_HYPRE" to "1" Defined make macro "HYPRE_LIB" to "-Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -L/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -lHYPRE" Defined make macro "HYPRE_INCLUDE" to "-I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include" Defined make macro "BLASLAPACK_LIB" to "-Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread" Defined make macro "BLASLAPACK_INCLUDE" to "" Defined "HAVE_PTHREAD" to "1" Defined make macro "PTHREAD_LIB" to "" Defined make macro "PTHREAD_INCLUDE" to "" Defined "HAVE_MATHLIB" to "1" Defined make macro "MATHLIB_LIB" to "-lm" Defined make macro "MATHLIB_INCLUDE" to "" Defined "HAVE_REGEX" to "1" Defined make macro "REGEX_LIB" to "" Defined make macro "REGEX_INCLUDE" to "" Defined "HAVE_SOWING" to "1" Defined make macro "SOWING_LIB" to "" Defined make macro "SOWING_INCLUDE" to "" Defined make macro "MPI_LIB" to "" Defined make macro "MPI_INCLUDE" to "-I/scratch/app_sequana/openmpi/2.1.1/include" Defined "HAVE_X" to "1" Defined make macro "X_LIB" to "-lX11" Defined make macro "X_INCLUDE" to "" Defined make macro "PETSC_EXTERNAL_LIB_BASIC" to "-Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -L/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -lHYPRE -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lX11 -lstdc++ -ldl -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl" Defined make macro "PETSC_CC_INCLUDES" to "-I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/include -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include -I/scratch/app_sequana/openmpi/2.1.1/include" Defined make macro "PETSC_CC_INCLUDES_INSTALL" to "-I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/include -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include -I/scratch/app_sequana/openmpi/2.1.1/include" Defined make macro "PETSC_FC_INCLUDES" to "-I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/include -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include -I/scratch/app_sequana/openmpi/2.1.1/include" Defined make macro "PETSC_FC_INCLUDES_INSTALL" to "-I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/include -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include -I/scratch/app_sequana/openmpi/2.1.1/include" Defined "LIB_DIR" to ""/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/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,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -L/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -lpetsc -lHYPRE -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lX11 -lstdc++ -ldl -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -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 "--force --with-64-bit-indices=1 --with-precision=double --with-debugging=0 --COPTFLAGS=-O3 --CXXOPTFLAGS=-O3 --FOPTFLAGS=-O3 PETSC_ARCH=linux64GccDPInt64Opt --with-blaslapack-dir=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 --with-mkl_sparse-dir=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 --with-mkl_sparse_optimize-dir=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 --with-mpi-dir=/scratch/app_sequana/openmpi/2.1.1 --download-hypre" ================================================================================ child PETSc.Configure 2.423986 child sum 102.428589 child total 102.450950 **** linux64GccDPInt64Opt/lib/petsc/conf/petscvariables **** FAST_AR_FLAGS = Scq AR_FLAGS = cr AR_ARGFILE = yes C_VERSION = gcc (GCC) 9.3.0 MPICC_SHOW = gcc -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi Cxx_VERSION = g++ (GCC) 9.3.0 MPICXX_SHOW = g++ -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi FC_VERSION = GNU Fortran (GCC) 9.3.0 MPIFC_SHOW = gfortran -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -I/scratch/app_sequana/openmpi/2.1.1/lib -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi_usempi -lmpi_mpifh -lmpi CUDA_VERSION = nvcc: NVIDIA (R) Cuda compiler driver C_DEPFLAGS = -MMD -MP CXX_DEPFLAGS = -MMD -MP CUDA_DEPFLAGS = -MMD -MP FC_DEFINE_FLAG = -D FC_DEPFLAGS = -MMD -MP wPETSC_DIR = /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc CC_FLAGS = -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 CXXPP_FLAGS = CXX_FLAGS = -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 CXX_LINKER = /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx CXX_LINKER_FLAGS = -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 CPP_FLAGS = PCC = /scratch/app_sequana/openmpi/2.1.1/bin/mpicc PCC_FLAGS = -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 CC_SUFFIX = o PCC_LINKER = /scratch/app_sequana/openmpi/2.1.1/bin/mpicc PCC_LINKER_FLAGS = -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 CC_LINKER_SUFFIX = FPP_FLAGS = FC_FLAGS = -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 FC_SUFFIX = o FC_LINKER = /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 FC_LINKER_FLAGS = -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 FC_MODULE_FLAG = -I FC_MODULE_OUTPUT_FLAG = -J CUDAC_FLAGS = -Xcompiler -fPIC -O3 -ccbin /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -std=c++17 -Wno-deprecated-gpu-targets SL_LINKER = /scratch/app_sequana/openmpi/2.1.1/bin/mpicc SL_LINKER_FLAGS = ${PCC_LINKER_FLAGS} SL_LINKER_SUFFIX = so SL_LINKER_LIBS = ${PETSC_EXTERNAL_LIB_BASIC} PETSC_LANGUAGE = CONLY PETSC_SCALAR = real PETSC_PRECISION = double HYPRE_LIB = -Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -L/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -lHYPRE HYPRE_INCLUDE = -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include BLASLAPACK_LIB = -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread BLASLAPACK_INCLUDE = PTHREAD_LIB = PTHREAD_INCLUDE = MATHLIB_LIB = -lm MATHLIB_INCLUDE = REGEX_LIB = REGEX_INCLUDE = SOWING_LIB = SOWING_INCLUDE = MPI_LIB = MPI_INCLUDE = -I/scratch/app_sequana/openmpi/2.1.1/include X_LIB = -lX11 X_INCLUDE = PETSC_EXTERNAL_LIB_BASIC = -Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -L/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -lHYPRE -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lX11 -lstdc++ -ldl -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl PETSC_CC_INCLUDES = -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/include -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include -I/scratch/app_sequana/openmpi/2.1.1/include PETSC_CC_INCLUDES_INSTALL = -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/include -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include -I/scratch/app_sequana/openmpi/2.1.1/include PETSC_FC_INCLUDES = -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/include -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include -I/scratch/app_sequana/openmpi/2.1.1/include PETSC_FC_INCLUDES_INSTALL = -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/include -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include -I/scratch/app_sequana/openmpi/2.1.1/include LIBNAME = ${INSTALL_LIB_DIR}/libpetsc.${AR_LIB_SUFFIX} SHLIBS = libpetsc PETSC_LIB_BASIC = -lpetsc PETSC_KSP_LIB_BASIC = -lpetsc PETSC_TS_LIB_BASIC = -lpetsc PETSC_TAO_LIB_BASIC = -lpetsc PETSC_WITH_EXTERNAL_LIB = -L${PETSC_DIR}/${PETSC_ARCH}/lib -Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -L/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -Wl,-rpath,/scratch/app_sequana/openmpi/2.1.1/lib -L/scratch/app_sequana/openmpi/2.1.1/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -L/scratch/app/gcc/9.3/lib/gcc/x86_64-pc-linux-gnu/9.3.0 -Wl,-rpath,/scratch/app/gcc/9.3/lib64 -L/scratch/app/gcc/9.3/lib64 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/tbb/2021.1.1/lib/intel64/gcc4.8 -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/compiler/2021.1.1/linux/lib -Wl,-rpath,/scratch/app/gcc/9.3/lib -L/scratch/app/gcc/9.3/lib -lpetsc -lHYPRE -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -lX11 -lstdc++ -ldl -lmpi_usempi -lmpi_mpifh -lmpi -lgfortran -lm -lgfortran -lm -lgcc_s -lquadmath -lpthread -lquadmath -lstdc++ -ldl PETSC_SYS_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_VEC_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_MAT_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_DM_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_KSP_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_SNES_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_TS_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_TAO_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_CHARACTERISTIC_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_CONTRIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} CONFIGURE_OPTIONS = --force --with-64-bit-indices=1 --with-precision=double --with-debugging=0 --COPTFLAGS=-O3 --CXXOPTFLAGS=-O3 --FOPTFLAGS=-O3 PETSC_ARCH=linux64GccDPInt64Opt --with-blaslapack-dir=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 --with-mkl_sparse-dir=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 --with-mkl_sparse_optimize-dir=/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1 --with-mpi-dir=/scratch/app_sequana/openmpi/2.1.1 --download-hypre MKDIR = /usr/bin/mkdir -p SHELL = /usr/bin/bash SED = /usr/bin/sed SEDINPLACE = /usr/bin/sed -i MV = /usr/bin/mv CP = /usr/bin/cp GREP = /usr/bin/grep RM = /usr/bin/rm -f DIFF = /usr/bin/diff -w PYTHON = /usr/bin/python3 M4 = /usr/bin/m4 CC = /scratch/app_sequana/openmpi/2.1.1/bin/mpicc CPP = /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -E CUDAC = /usr/local/cuda/bin/nvcc CUDAPP = /usr/local/cuda/bin/nvcc -E CXX = /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx CXXPP = /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -E FC = /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 AR = /usr/bin/ar RANLIB = /usr/bin/ranlib AR_LIB_SUFFIX = a LD_SHARED = /scratch/app_sequana/openmpi/2.1.1/bin/mpicc DYNAMICLINKER = /scratch/app_sequana/openmpi/2.1.1/bin/mpicc CC_LINKER_SLFLAG = -Wl,-rpath, FC_LINKER_SLFLAG = -Wl,-rpath, CLANGUAGE = C GIT = git PREFIXDIR = /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt PETSC_SCALAR_SIZE = 64 PETSC_INDEX_SIZE = 64 MAKE = /usr/bin/gmake MAKE_USER = make OMAKE_PRINTDIR = /usr/bin/gmake --print-directory OMAKE = /usr/bin/gmake --no-print-directory MAKE_PAR_OUT_FLG = MAKE_NP = 47 MAKE_TEST_NP = 35 MAKE_LOAD = 122.4 NPMAX = 88 SONAME_FUNCTION = $(1).$(SL_LINKER_SUFFIX).$(2) SL_LINKER_FUNCTION = -shared -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -Wl,-soname,$(call SONAME_FUNCTION,$(notdir $(1)),$(2)) BUILDSHAREDLIB = yes GDB = /usr/bin/gdb DSYMUTIL = true MPIEXECEXECUTABLE = /scratch/app_sequana/openmpi/2.1.1/bin/mpiexec MPIEXEC = /scratch/app_sequana/openmpi/2.1.1/bin/mpiexec HOSTNAME = hostname PING = ping CMAKE = /scratch/app/cmake/3.17.3/bin/cmake CTEST = /scratch/app/cmake/3.17.3/bin/ctest PDFLATEX = /usr/bin/pdflatex BFORT = /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/bfort DOCTEXT = /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/doctext MAPNAMES = /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/mapnames BIB2HTML = /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/bib2html PETSC_TEST_OPTIONS = -use_gpu_aware_mpi 0 -nox -nox_warning **** linux64GccDPInt64Opt/lib/petsc/conf/petscrules **** print_mesg_after_build: -@echo "=========================================" -@echo "Now to check if the libraries are working do:" -@echo "${MAKE_USER} PETSC_DIR=${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: slepc-build: slepc-install: bamg-build: bamg-install: hpddm-build: hpddm-install: libmesh-build: libmesh-install: petsc4py-build: petsc4py-install: petsc4pytest: **** linux64GccDPInt64Opt/include/petscconf.h **** #if !defined(INCLUDED_UNKNOWN) #define INCLUDED_UNKNOWN #define PETSC_ARCH "linux64GccDPInt64Opt" #define PETSC_ATTRIBUTEALIGNED(size) __attribute((aligned(size))) #define PETSC_Alignx(a,b) #define PETSC_BLASLAPACK_UNDERSCORE 1 #define PETSC_CLANGUAGE_C 1 #define PETSC_CXX_INLINE inline #define PETSC_CXX_RESTRICT __restrict #define PETSC_C_INLINE inline #define PETSC_C_RESTRICT __restrict #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 "/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc" #define PETSC_DIR_SEPARATOR '/' #define PETSC_FORTRAN_CHARLEN_T size_t #define PETSC_FORTRAN_TYPE_INITIALIZE = -2 #define PETSC_FUNCTION_NAME_C __func__ #define PETSC_FUNCTION_NAME_CXX __func__ #define PETSC_HAVE_ACCESS 1 #define PETSC_HAVE_ATOLL 1 #define PETSC_HAVE_ATTRIBUTEALIGNED 1 #define PETSC_HAVE_BUILTIN_EXPECT 1 #define PETSC_HAVE_BZERO 1 #define PETSC_HAVE_C99_COMPLEX 1 #define PETSC_HAVE_CLOCK 1 #define PETSC_HAVE_CUDA_DIALECT_CXX03 1 #define PETSC_HAVE_CUDA_DIALECT_CXX11 1 #define PETSC_HAVE_CUDA_DIALECT_CXX14 1 #define PETSC_HAVE_CUDA_DIALECT_CXX17 1 #define PETSC_HAVE_CXX 1 #define PETSC_HAVE_CXX_COMPLEX 1 #define PETSC_HAVE_CXX_COMPLEX_FIX 1 #define PETSC_HAVE_CXX_DIALECT_CXX03 1 #define PETSC_HAVE_CXX_DIALECT_CXX11 1 #define PETSC_HAVE_CXX_DIALECT_CXX14 1 #define PETSC_HAVE_CXX_DIALECT_CXX17 1 #define PETSC_HAVE_DLADDR 1 #define PETSC_HAVE_DLCLOSE 1 #define PETSC_HAVE_DLERROR 1 #define PETSC_HAVE_DLFCN_H 1 #define PETSC_HAVE_DLOPEN 1 #define PETSC_HAVE_DLSYM 1 #define PETSC_HAVE_DOUBLE_ALIGN_MALLOC 1 #define PETSC_HAVE_DRAND48 1 #define PETSC_HAVE_DYNAMIC_LIBRARIES 1 #define PETSC_HAVE_ERF 1 #define PETSC_HAVE_FCNTL_H 1 #define PETSC_HAVE_FENV_H 1 #define PETSC_HAVE_FLOAT_H 1 #define PETSC_HAVE_FORK 1 #define PETSC_HAVE_FORTRAN 1 #define PETSC_HAVE_FORTRAN_FLUSH 1 #define PETSC_HAVE_FORTRAN_GET_COMMAND_ARGUMENT 1 #define PETSC_HAVE_FORTRAN_TYPE_STAR 1 #define PETSC_HAVE_FORTRAN_UNDERSCORE 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_HYPRE 1 #define PETSC_HAVE_IMMINTRIN_H 1 #define PETSC_HAVE_INTTYPES_H 1 #define PETSC_HAVE_ISINF 1 #define PETSC_HAVE_ISNAN 1 #define PETSC_HAVE_ISNORMAL 1 #define PETSC_HAVE_LGAMMA 1 #define PETSC_HAVE_LOG2 1 #define PETSC_HAVE_LSEEK 1 #define PETSC_HAVE_MALLOC_H 1 #define PETSC_HAVE_MEMALIGN 1 #define PETSC_HAVE_MEMMOVE 1 #define PETSC_HAVE_MKL 1 #define PETSC_HAVE_MMAP 1 #define PETSC_HAVE_MPIEXEC_ENVIRONMENTAL_VARIABLE OMP #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_F90MODULE_VISIBILITY 1 #define PETSC_HAVE_MPI_FEATURE_DYNAMIC_WINDOW 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_IALLREDUCE 1 #define PETSC_HAVE_MPI_IBARRIER 1 #define PETSC_HAVE_MPI_INIT_THREAD 1 #define PETSC_HAVE_MPI_INT64_T 1 #define PETSC_HAVE_MPI_IN_PLACE 1 #define PETSC_HAVE_MPI_LONG_DOUBLE 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_NANOSLEEP 1 #define PETSC_HAVE_NETDB_H 1 #define PETSC_HAVE_NETINET_IN_H 1 #define PETSC_HAVE_OMPI_MAJOR_VERSION 2 #define PETSC_HAVE_OMPI_MINOR_VERSION 1 #define PETSC_HAVE_OMPI_RELEASE_VERSION 1 #define PETSC_HAVE_POPEN 1 #define PETSC_HAVE_PTHREAD 1 #define PETSC_HAVE_PTHREAD_BARRIER_T 1 #define PETSC_HAVE_PTHREAD_H 1 #define PETSC_HAVE_PWD_H 1 #define PETSC_HAVE_RAND 1 #define PETSC_HAVE_READLINK 1 #define PETSC_HAVE_REALPATH 1 #define PETSC_HAVE_REAL___FLOAT128 1 #define PETSC_HAVE_REGEX 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_SCHED_CPU_SET_T 1 #define PETSC_HAVE_SETJMP_H 1 #define PETSC_HAVE_SLEEP 1 #define PETSC_HAVE_SNPRINTF 1 #define PETSC_HAVE_SOCKET 1 #define PETSC_HAVE_SOWING 1 #define PETSC_HAVE_SO_REUSEADDR 1 #define PETSC_HAVE_STDINT_H 1 #define PETSC_HAVE_STRCASECMP 1 #define PETSC_HAVE_STRINGS_H 1 #define PETSC_HAVE_STRUCT_SIGACTION 1 #define PETSC_HAVE_SYSINFO 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_SYSCTL_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_TGAMMA 1 #define PETSC_HAVE_TIME 1 #define PETSC_HAVE_TIME_H 1 #define PETSC_HAVE_UNAME 1 #define PETSC_HAVE_UNISTD_H 1 #define PETSC_HAVE_USLEEP 1 #define PETSC_HAVE_VA_COPY 1 #define PETSC_HAVE_VSNPRINTF 1 #define PETSC_HAVE_X 1 #define PETSC_HAVE_XMMINTRIN_H 1 #define PETSC_IS_COLORING_MAX USHRT_MAX #define PETSC_IS_COLORING_VALUE_TYPE short #define PETSC_IS_COLORING_VALUE_TYPE_F integer2 #define PETSC_LEVEL1_DCACHE_LINESIZE 64 #define PETSC_LIB_DIR "/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib" #define PETSC_MAX_PATH_LEN 4096 #define PETSC_MEMALIGN 16 #define PETSC_MPICC_SHOW "gcc -I/scratch/app_sequana/openmpi/2.1.1/include -pthread -Wl,-rpath -Wl,/scratch/app_sequana/openmpi/2.1.1/lib -Wl,--enable-new-dtags -L/scratch/app_sequana/openmpi/2.1.1/lib -lmpi" #define PETSC_MPIU_IS_COLORING_VALUE_TYPE MPI_UNSIGNED_SHORT #define PETSC_PREFETCH_HINT_NTA _MM_HINT_NTA #define PETSC_PREFETCH_HINT_T0 _MM_HINT_T0 #define PETSC_PREFETCH_HINT_T1 _MM_HINT_T1 #define PETSC_PREFETCH_HINT_T2 _MM_HINT_T2 #define PETSC_PYTHON_EXE "/usr/bin/python3" #define PETSC_Prefetch(a,b,c) _mm_prefetch((const char*)(a),(c)) #define PETSC_REPLACE_DIR_SEPARATOR '\\' #define PETSC_SIGNAL_CAST #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_SLSUFFIX "so" #define PETSC_UINTPTR_T uintptr_t #define PETSC_UNUSED __attribute((unused)) #define PETSC_USE_64BIT_INDICES 1 #define PETSC_USE_AVX512_KERNELS 1 #define PETSC_USE_BACKWARD_LOOP 1 #define PETSC_USE_CTABLE 1 #define PETSC_USE_DEBUGGER "gdb" #define PETSC_USE_INFO 1 #define PETSC_USE_ISATTY 1 #define PETSC_USE_LOG 1 #define PETSC_USE_MALLOC_COALESCED 1 #define PETSC_USE_PROC_FOR_SIZE 1 #define PETSC_USE_REAL_DOUBLE 1 #define PETSC_USE_SHARED_LIBRARIES 1 #define PETSC_USE_SINGLE_LIBRARY 1 #define PETSC_USE_SOCKET_VIEWER 1 #define PETSC_USE_VISIBILITY_C 1 #define PETSC_USE_VISIBILITY_CXX 1 #define PETSC_USING_64BIT_PTR 1 #define PETSC_USING_F2003 1 #define PETSC_USING_F90FREEFORM 1 #define PETSC_VERSION_BRANCH_GIT "release" #define PETSC_VERSION_DATE_GIT "2022-02-02 18:36:30 +0000" #define PETSC_VERSION_GIT "v3.16.4-2-g8998db1" #define PETSC__BSD_SOURCE 1 #define PETSC__DEFAULT_SOURCE 1 #define PETSC__GNU_SOURCE 1 #endif **** linux64GccDPInt64Opt/include/petscfix.h **** #if !defined(INCLUDED_UNKNOWN) #define INCLUDED_UNKNOWN #if defined(__cplusplus) extern "C" { } #else #endif #endif **** linux64GccDPInt64Opt/include/petscpkg_version.h **** #if !defined(INCLUDED_UNKNOWN) #define INCLUDED_UNKNOWN #define PETSC_PKG_BLASLAPACK_VERSION_MAJOR 202101 #define PETSC_PKG_BLASLAPACK_VERSION_MINOR 0 #define PETSC_PKG_BLASLAPACK_VERSION_SUBMINOR 0 #define PETSC_PKG_BLASLAPACK_VERSION_ PETSC_PKG_BLASLAPACK_VERSION_EQ #define PETSC_PKG_BLASLAPACK_VERSION_EQ(MAJOR,MINOR,SUBMINOR) \ ((PETSC_PKG_BLASLAPACK_VERSION_MAJOR == (MAJOR)) && \ (PETSC_PKG_BLASLAPACK_VERSION_MINOR == (MINOR)) && \ (PETSC_PKG_BLASLAPACK_VERSION_SUBMINOR == (SUBMINOR))) #define PETSC_PKG_BLASLAPACK_VERSION_LT(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_BLASLAPACK_VERSION_MAJOR < (MAJOR) || \ (PETSC_PKG_BLASLAPACK_VERSION_MAJOR == (MAJOR) && \ (PETSC_PKG_BLASLAPACK_VERSION_MINOR < (MINOR) || \ (PETSC_PKG_BLASLAPACK_VERSION_MINOR == (MINOR) && \ (PETSC_PKG_BLASLAPACK_VERSION_SUBMINOR < (SUBMINOR)))))) #define PETSC_PKG_BLASLAPACK_VERSION_LE(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_BLASLAPACK_VERSION_LT(MAJOR,MINOR,SUBMINOR) || \ PETSC_PKG_BLASLAPACK_VERSION_EQ(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_BLASLAPACK_VERSION_GT(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_BLASLAPACK_VERSION_LE(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_BLASLAPACK_VERSION_GE(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_BLASLAPACK_VERSION_LT(MAJOR,MINOR,SUBMINOR)) #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_HYPRE_VERSION_MAJOR 2 #define PETSC_PKG_HYPRE_VERSION_MINOR 23 #define PETSC_PKG_HYPRE_VERSION_SUBMINOR 0 #define PETSC_PKG_HYPRE_VERSION_ PETSC_PKG_HYPRE_VERSION_EQ #define PETSC_PKG_HYPRE_VERSION_EQ(MAJOR,MINOR,SUBMINOR) \ ((PETSC_PKG_HYPRE_VERSION_MAJOR == (MAJOR)) && \ (PETSC_PKG_HYPRE_VERSION_MINOR == (MINOR)) && \ (PETSC_PKG_HYPRE_VERSION_SUBMINOR == (SUBMINOR))) #define PETSC_PKG_HYPRE_VERSION_LT(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_HYPRE_VERSION_MAJOR < (MAJOR) || \ (PETSC_PKG_HYPRE_VERSION_MAJOR == (MAJOR) && \ (PETSC_PKG_HYPRE_VERSION_MINOR < (MINOR) || \ (PETSC_PKG_HYPRE_VERSION_MINOR == (MINOR) && \ (PETSC_PKG_HYPRE_VERSION_SUBMINOR < (SUBMINOR)))))) #define PETSC_PKG_HYPRE_VERSION_LE(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_HYPRE_VERSION_LT(MAJOR,MINOR,SUBMINOR) || \ PETSC_PKG_HYPRE_VERSION_EQ(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_HYPRE_VERSION_GT(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_HYPRE_VERSION_LE(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_HYPRE_VERSION_GE(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_HYPRE_VERSION_LT(MAJOR,MINOR,SUBMINOR)) #endif Attempting to save configure hash file: linux64GccDPInt64Opt/lib/petsc/conf/configure-hash Saved configure hash file: linux64GccDPInt64Opt/lib/petsc/conf/configure-hash Configure Actions These are the actions performed by configure on the filesystem ----------------------------------------------------------------- PETSc: File creation : Generated Fortran stubs Build : Set default architecture to linux64GccDPInt64Opt in lib/petsc/conf/petscvariables File creation : Created linux64GccDPInt64Opt/lib/petsc/conf/reconfigure-linux64GccDPInt64Opt.py for automatic reconfiguration HYPRE: Install : Installed HYPRE into /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt Framework: RDict update : Substitutions were stored in RDict with parent None File creation : Created makefile configure header linux64GccDPInt64Opt/lib/petsc/conf/petscvariables File creation : Created makefile configure header linux64GccDPInt64Opt/lib/petsc/conf/petscrules File creation : Created configure header linux64GccDPInt64Opt/include/petscconf.h File creation : Created C specific configure header linux64GccDPInt64Opt/include/petscfix.h File creation : Created configure pkg header linux64GccDPInt64Opt/include/petscpkg_version.h Compilers: C Compiler: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 Version: gcc (GCC) 9.3.0 CUDA Compiler: /usr/local/cuda/bin/nvcc -Xcompiler -fPIC -O3 -ccbin /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -std=c++17 -Wno-deprecated-gpu-targets Version: nvcc: NVIDIA (R) Cuda compiler driver C++ Compiler: /scratch/app_sequana/openmpi/2.1.1/bin/mpicxx -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -fPIC -std=gnu++17 Version: g++ (GCC) 9.3.0 Fortran Compiler: /scratch/app_sequana/openmpi/2.1.1/bin/mpif90 -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 Version: GNU Fortran (GCC) 9.3.0 Linkers: Shared linker: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 Dynamic linker: /scratch/app_sequana/openmpi/2.1.1/bin/mpicc -shared -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 Libraries linked against: -lquadmath -lstdc++ -ldl BlasLapack: Intel MKL Version: 202101 Library: -Wl,-rpath,/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -L/scratch/app_sequana/intel-oneapi/2021.1.0-2659/mkl/2021.1.1/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread uses 4 byte integers MPI: Version: 3 Includes: -I/scratch/app_sequana/openmpi/2.1.1/include mpiexec: /scratch/app_sequana/openmpi/2.1.1/bin/mpiexec Implementation: openmpi OMPI_VERSION: 2.1.1 X: Library: -lX11 pthread: cmake: Version: 3.17.3 /scratch/app/cmake/3.17.3/bin/cmake hypre: Version: 2.23.0 Includes: -I/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/include Library: -Wl,-rpath,/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -L/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/lib -lHYPRE regex: sowing: Version: 1.1.26 /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc/linux64GccDPInt64Opt/bin/bfort Language used to compile PETSc: C PETSc: PETSC_ARCH: linux64GccDPInt64Opt PETSC_DIR: /scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc Prefix: Scalar type: real Precision: double Support for __float128 Integer size: 8 bytes Single library: yes Shared libraries: yes Memory alignment from malloc(): 16 bytes Using GNU make: /usr/bin/gmake xxx=========================================================================xxx Configure stage complete. Now build PETSc libraries with: make PETSC_DIR=/scratch/song/juan.salazar/sequana/openfoam/ThirdParty-v2012/petsc PETSC_ARCH=linux64GccDPInt64Opt all xxx=========================================================================xxx ================================================================================ Finishing configure run at Thu, 10 Feb 2022 01:57:34 -0300 ================================================================================