Created
August 11, 2020 15:33
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(partial) EasyBuild log for failed build of /dev/shm/edmondac-admin/eb-2l97efxv/files_pr11090/n/NAMD/NAMD-2.14-foss-2019b-mpi.eb (PR #11090)
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| == 2020-08-11 16:33:28,411 toolchain.py:587 DEBUG Loading module for toolchain: foss/2019b | |
| == 2020-08-11 16:33:28,411 modules.py:760 DEBUG Current MODULEPATH: /rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/usr/share/Modules/modulefiles:/etc/modulefiles:/rds/bear-apps/system/modules | |
| == 2020-08-11 16:33:28,412 modules.py:767 DEBUG Changing LD_LIBRARY_PATH from '' to '' in environment for module command | |
| == 2020-08-11 16:33:28,412 modules.py:767 DEBUG Changing LD_PRELOAD from '' to '' in environment for module command | |
| == 2020-08-11 16:33:28,412 modules.py:771 DEBUG Running module command '/bin/modulecmd python --terse list' from /dev/shm/build-edmondac-admin/edmondac-admin-1/NAMD/2.14/foss-2019b-mpi/NAMD_2.14_Source | |
| == 2020-08-11 16:33:28,425 modules.py:778 DEBUG Output of module command '/bin/modulecmd python --terse list': stdout: ; stderr: Currently Loaded Modulefiles: | |
| bb-variables/15 | |
| slurm-moab-wrappers/2 | |
| slurm-helpers/3 | |
| openmpi-env/5 | |
| bear-licences/10 | |
| bb-singularity-conf/1 | |
| bluebear/23 | |
| eb-conf/2020a | |
| == 2020-08-11 16:33:28,426 modules.py:717 DEBUG No checking of module output implemented for Environment Modules v3 | |
| == 2020-08-11 16:33:28,426 modules.py:817 DEBUG Correcting paths in $LD_LIBRARY_PATH from [''] to [] | |
| == 2020-08-11 16:33:28,427 environment.py:97 INFO Environment variable LD_LIBRARY_PATH set to (previous value: '') | |
| == 2020-08-11 16:33:28,427 modules.py:817 DEBUG Correcting paths in $LD_PRELOAD from [''] to [] | |
| == 2020-08-11 16:33:28,427 environment.py:97 INFO Environment variable LD_PRELOAD set to (previous value: '') | |
| == 2020-08-11 16:33:28,427 modules.py:760 DEBUG Current MODULEPATH: /rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/usr/share/Modules/modulefiles:/etc/modulefiles:/rds/bear-apps/system/modules | |
| == 2020-08-11 16:33:28,428 modules.py:767 DEBUG Changing LD_LIBRARY_PATH from '' to '' in environment for module command | |
| == 2020-08-11 16:33:28,429 modules.py:767 DEBUG Changing LD_PRELOAD from '' to '' in environment for module command | |
| == 2020-08-11 16:33:28,429 modules.py:771 DEBUG Running module command '/bin/modulecmd python load foss/2019b' from /dev/shm/build-edmondac-admin/edmondac-admin-1/NAMD/2.14/foss-2019b-mpi/NAMD_2.14_Source | |
| == 2020-08-11 16:33:28,611 modules.py:778 DEBUG Output of module command '/bin/modulecmd python load foss/2019b': stdout: os.environ['ACLOCAL_PATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/share/aclocal' | |
| os.environ['CPATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/include/libxml2:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/include' | |
| os.environ['EBDEVELBINUTILS'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/easybuild/binutils-2.32-GCCcore-8.3.0-easybuild-devel' | |
| os.environ['EBDEVELFFTW'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/easybuild/FFTW-3.3.8-gompi-2019b-easybuild-devel' | |
| os.environ['EBDEVELFOSS'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/foss/2019b/easybuild/foss-2019b-easybuild-devel' | |
| os.environ['EBDEVELGCC'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCC/8.3.0/easybuild/GCC-8.3.0-easybuild-devel' | |
| os.environ['EBDEVELGCCCORE'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/easybuild/GCCcore-8.3.0-easybuild-devel' | |
| os.environ['EBDEVELGOMPI'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/gompi/2019b/easybuild/gompi-2019b-easybuild-devel' | |
| os.environ['EBDEVELHWLOC'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/easybuild/hwloc-1.11.12-GCCcore-8.3.0-easybuild-devel' | |
| os.environ['EBDEVELLIBPCIACCESS'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/easybuild/libpciaccess-0.14-GCCcore-8.3.0-easybuild-devel' | |
| os.environ['EBDEVELLIBXML2'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/easybuild/libxml2-2.9.9-GCCcore-8.3.0-easybuild-devel' | |
| os.environ['EBDEVELNUMACTL'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/easybuild/numactl-2.0.12-GCCcore-8.3.0-easybuild-devel' | |
| os.environ['EBDEVELOPENBLAS'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/easybuild/OpenBLAS-0.3.7-GCC-8.3.0-easybuild-devel' | |
| os.environ['EBDEVELOPENMPI'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/easybuild/OpenMPI-3.1.4-GCC-8.3.0-easybuild-devel' | |
| os.environ['EBDEVELSCALAPACK'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/easybuild/ScaLAPACK-2.0.2-gompi-2019b-easybuild-devel' | |
| os.environ['EBDEVELXZ'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/easybuild/XZ-5.2.4-GCCcore-8.3.0-easybuild-devel' | |
| os.environ['EBDEVELZLIB'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/easybuild/zlib-1.2.11-GCCcore-8.3.0-easybuild-devel' | |
| os.environ['EBROOTBINUTILS'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0' | |
| os.environ['EBROOTFFTW'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b' | |
| os.environ['EBROOTFOSS'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/foss/2019b' | |
| os.environ['EBROOTGCC'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0' | |
| os.environ['EBROOTGCCCORE'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0' | |
| os.environ['EBROOTGOMPI'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/gompi/2019b' | |
| os.environ['EBROOTHWLOC'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0' | |
| os.environ['EBROOTLIBPCIACCESS'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0' | |
| os.environ['EBROOTLIBXML2'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0' | |
| os.environ['EBROOTNUMACTL'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0' | |
| os.environ['EBROOTOPENBLAS'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0' | |
| os.environ['EBROOTOPENMPI'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0' | |
| os.environ['EBROOTSCALAPACK'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b' | |
| os.environ['EBROOTXZ'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0' | |
| os.environ['EBROOTZLIB'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0' | |
| os.environ['EBVERSIONBINUTILS'] = '2.32' | |
| os.environ['EBVERSIONFFTW'] = '3.3.8' | |
| os.environ['EBVERSIONFOSS'] = '2019b' | |
| os.environ['EBVERSIONGCC'] = '8.3.0' | |
| os.environ['EBVERSIONGCCCORE'] = '8.3.0' | |
| os.environ['EBVERSIONGOMPI'] = '2019b' | |
| os.environ['EBVERSIONHWLOC'] = '1.11.12' | |
| os.environ['EBVERSIONLIBPCIACCESS'] = '0.14' | |
| os.environ['EBVERSIONLIBXML2'] = '2.9.9' | |
| os.environ['EBVERSIONNUMACTL'] = '2.0.12' | |
| os.environ['EBVERSIONOPENBLAS'] = '0.3.7' | |
| os.environ['EBVERSIONOPENMPI'] = '3.1.4' | |
| os.environ['EBVERSIONSCALAPACK'] = '2.0.2' | |
| os.environ['EBVERSIONXZ'] = '5.2.4' | |
| os.environ['EBVERSIONZLIB'] = '1.2.11' | |
| os.environ['LD_LIBRARY_PATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib' | |
| os.environ['LIBRARY_PATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib' | |
| os.environ['LOADEDMODULES'] = 'bb-variables/15:slurm-moab-wrappers/2:slurm-helpers/3:openmpi-env/5:bear-licences/10:bb-singularity-conf/1:bluebear/23:eb-conf/2020a:GCCcore/8.3.0:zlib/1.2.11-GCCcore-8.3.0:binutils/2.32-GCCcore-8.3.0:GCC/8.3.0:numactl/2.0.12-GCCcore-8.3.0:XZ/5.2.4-GCCcore-8.3.0:libxml2/2.9.9-GCCcore-8.3.0:libpciaccess/0.14-GCCcore-8.3.0:hwloc/1.11.12-GCCcore-8.3.0:OpenMPI/3.1.4-GCC-8.3.0:OpenBLAS/0.3.7-GCC-8.3.0:gompi/2019b:FFTW/3.3.8-gompi-2019b:ScaLAPACK/2.0.2-gompi-2019b:foss/2019b' | |
| os.environ['MANPATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/share/man:/usr/share/Modules/share/man:/usr/share/man:/usr/local/share/man' | |
| os.environ['PATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/sbin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/bin:/rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/venv-dev-2020a-1/bin:/rds/bear-apps/bin:/rds/bear-apps/system/software/slurm-helpers:/rds/bear-apps/system/software/slurm-moab-wrappers/:/rds/homes/e/edmondac-admin/bin:/rds/homes/e/edmondac-admin/local/bin:/rds/homes/e/edmondac-admin/scripts:/rds/homes/e/edmondac-admin/scripts/bin:/rds/bear-sysadmin/tools/apps-scripts:/rds/bear-sysadmin/tools/apps-scripts/fisbatch:/usr/lpp/mmfs/bin:/rds/homes/e/edmondac-admin/bin:/rds/homes/e/edmondac-admin/local/bin:/rds/homes/e/edmondac-admin/scripts:/rds/homes/e/edmondac-admin/scripts/bin:/rds/bear-sysadmin/tools/apps-scripts:/rds/bear-sysadmin/tools/apps-scripts/fisbatch:/usr/lib64/qt-3.3/bin:/usr/lpp/mmfs/bin:/usr/local/bin:/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/opt/ibutils/bin:/gpfs/sysapps/bham/bin:/gpfs/apps/bham/bin:/rds/homes/e/edmondac-admin/bin:/gpfs/sysapps/bham/scripts/easybuild:/rds/bear-apps/handbuilt/software/thermocalc/v2018b/SDK/TCAPI:/rds/bear-apps/handbuilt/software/thermocalc/v2018b/SDK/TQ:/rds/bear-apps/handbuilt/software/micress/v6.4/Bin:/rds/bear-apps/2019b/EL7-cascadelake/software/Thermo-Calc/2020a-foss-2019b/SDK/TCAPI:/rds/bear-apps/2019b/EL7-cascadelake/software/Thermo-Calc/2020a-foss-2019b/SDK/TQ:/rds/bear-apps/2019b/EL7-haswell/software/Thermo-Calc/2020a-foss-2019b/SDK/TCAPI:/rds/bear-apps/2019b/EL7-haswell/software/Thermo-Calc/2020a-foss-2019b/SDK/TQ:/rds/bear-apps/2019b/EL7-sandybridge/software/Thermo-Calc/2020a-foss-2019b/SDK/TCAPI:/rds/bear-apps/2019b/EL7-sandybridge/software/Thermo-Calc/2020a-foss-2019b/SDK/TQ:/rds/bear-sysadmin/tools/apps-scripts/' | |
| os.environ['PKG_CONFIG_PATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib/pkgconfig' | |
| os.environ['_LMFILES_'] = '/rds/bear-apps/system/modules/bb-variables/15:/rds/bear-apps/system/modules/slurm-moab-wrappers/2:/rds/bear-apps/system/modules/slurm-helpers/3:/rds/bear-apps/system/modules/openmpi-env/5:/rds/bear-apps/system/modules/bear-licences/10:/rds/bear-apps/system/modules/bb-singularity-conf/1:/rds/bear-apps/system/modules/bluebear/23:/rds/bear-apps/system/modules/eb-conf/2020a:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/GCCcore/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/zlib/1.2.11-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/binutils/2.32-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/GCC/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/numactl/2.0.12-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/XZ/5.2.4-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/libxml2/2.9.9-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/libpciaccess/0.14-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/hwloc/1.11.12-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/OpenMPI/3.1.4-GCC-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/OpenBLAS/0.3.7-GCC-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/gompi/2019b:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/FFTW/3.3.8-gompi-2019b:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/ScaLAPACK/2.0.2-gompi-2019b:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/foss/2019b' | |
| ; stderr: | |
| == 2020-08-11 16:33:28,612 modules.py:717 DEBUG No checking of module output implemented for Environment Modules v3 | |
| == 2020-08-11 16:33:28,615 modules.py:817 DEBUG Correcting paths in $LD_LIBRARY_PATH from ['/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib'] to ['/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib'] | |
| == 2020-08-11 16:33:28,615 environment.py:97 INFO Environment variable LD_LIBRARY_PATH set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib (previous value: '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib') | |
| == 2020-08-11 16:33:28,615 modules.py:817 DEBUG Correcting paths in $LD_PRELOAD from [''] to [] | |
| == 2020-08-11 16:33:28,616 environment.py:97 INFO Environment variable LD_PRELOAD set to (previous value: '') | |
| == 2020-08-11 16:33:28,616 toolchain.py:617 DEBUG Loading modules for dependencies: ['Tcl/8.6.9-GCCcore-8.3.0', 'FFTW/3.3.8-gompi-2019b'] | |
| == 2020-08-11 16:33:28,616 modules.py:760 DEBUG Current MODULEPATH: /rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/usr/share/Modules/modulefiles:/etc/modulefiles:/rds/bear-apps/system/modules | |
| == 2020-08-11 16:33:28,617 modules.py:767 DEBUG Changing LD_LIBRARY_PATH from '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib' to '' in environment for module command | |
| == 2020-08-11 16:33:28,618 modules.py:767 DEBUG Changing LD_PRELOAD from '' to '' in environment for module command | |
| == 2020-08-11 16:33:28,618 modules.py:771 DEBUG Running module command '/bin/modulecmd python --terse list' from /dev/shm/build-edmondac-admin/edmondac-admin-1/NAMD/2.14/foss-2019b-mpi/NAMD_2.14_Source | |
| == 2020-08-11 16:33:28,638 modules.py:778 DEBUG Output of module command '/bin/modulecmd python --terse list': stdout: ; stderr: Currently Loaded Modulefiles: | |
| bb-variables/15 | |
| slurm-moab-wrappers/2 | |
| slurm-helpers/3 | |
| openmpi-env/5 | |
| bear-licences/10 | |
| bb-singularity-conf/1 | |
| bluebear/23 | |
| eb-conf/2020a | |
| GCCcore/8.3.0 | |
| zlib/1.2.11-GCCcore-8.3.0 | |
| binutils/2.32-GCCcore-8.3.0 | |
| GCC/8.3.0 | |
| numactl/2.0.12-GCCcore-8.3.0 | |
| XZ/5.2.4-GCCcore-8.3.0 | |
| libxml2/2.9.9-GCCcore-8.3.0 | |
| libpciaccess/0.14-GCCcore-8.3.0 | |
| hwloc/1.11.12-GCCcore-8.3.0 | |
| OpenMPI/3.1.4-GCC-8.3.0 | |
| OpenBLAS/0.3.7-GCC-8.3.0 | |
| gompi/2019b | |
| FFTW/3.3.8-gompi-2019b | |
| ScaLAPACK/2.0.2-gompi-2019b | |
| foss/2019b | |
| == 2020-08-11 16:33:28,638 modules.py:717 DEBUG No checking of module output implemented for Environment Modules v3 | |
| == 2020-08-11 16:33:28,639 modules.py:817 DEBUG Correcting paths in $LD_LIBRARY_PATH from ['/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib'] to ['/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib'] | |
| == 2020-08-11 16:33:28,639 environment.py:97 INFO Environment variable LD_LIBRARY_PATH set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib (previous value: '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib') | |
| == 2020-08-11 16:33:28,639 modules.py:817 DEBUG Correcting paths in $LD_PRELOAD from [''] to [] | |
| == 2020-08-11 16:33:28,639 environment.py:97 INFO Environment variable LD_PRELOAD set to (previous value: '') | |
| == 2020-08-11 16:33:28,640 modules.py:760 DEBUG Current MODULEPATH: /rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/usr/share/Modules/modulefiles:/etc/modulefiles:/rds/bear-apps/system/modules | |
| == 2020-08-11 16:33:28,641 modules.py:767 DEBUG Changing LD_LIBRARY_PATH from '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib' to '' in environment for module command | |
| == 2020-08-11 16:33:28,641 modules.py:767 DEBUG Changing LD_PRELOAD from '' to '' in environment for module command | |
| == 2020-08-11 16:33:28,642 modules.py:771 DEBUG Running module command '/bin/modulecmd python load Tcl/8.6.9-GCCcore-8.3.0' from /dev/shm/build-edmondac-admin/edmondac-admin-1/NAMD/2.14/foss-2019b-mpi/NAMD_2.14_Source | |
| == 2020-08-11 16:33:28,680 modules.py:778 DEBUG Output of module command '/bin/modulecmd python load Tcl/8.6.9-GCCcore-8.3.0': stdout: os.environ['CPATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/include/libxml2:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/include:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/include' | |
| os.environ['EBDEVELTCL'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/easybuild/Tcl-8.6.9-GCCcore-8.3.0-easybuild-devel' | |
| os.environ['EBROOTTCL'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0' | |
| os.environ['EBVERSIONTCL'] = '8.6.9' | |
| os.environ['LD_LIBRARY_PATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib' | |
| os.environ['LIBRARY_PATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib' | |
| os.environ['LOADEDMODULES'] = 'bb-variables/15:slurm-moab-wrappers/2:slurm-helpers/3:openmpi-env/5:bear-licences/10:bb-singularity-conf/1:bluebear/23:eb-conf/2020a:GCCcore/8.3.0:zlib/1.2.11-GCCcore-8.3.0:binutils/2.32-GCCcore-8.3.0:GCC/8.3.0:numactl/2.0.12-GCCcore-8.3.0:XZ/5.2.4-GCCcore-8.3.0:libxml2/2.9.9-GCCcore-8.3.0:libpciaccess/0.14-GCCcore-8.3.0:hwloc/1.11.12-GCCcore-8.3.0:OpenMPI/3.1.4-GCC-8.3.0:OpenBLAS/0.3.7-GCC-8.3.0:gompi/2019b:FFTW/3.3.8-gompi-2019b:ScaLAPACK/2.0.2-gompi-2019b:foss/2019b:Tcl/8.6.9-GCCcore-8.3.0' | |
| os.environ['MANPATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/share/man:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/share/man:/usr/share/Modules/share/man:/usr/share/man:/usr/local/share/man' | |
| os.environ['PATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/sbin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/bin:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/bin:/rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/venv-dev-2020a-1/bin:/rds/bear-apps/bin:/rds/bear-apps/system/software/slurm-helpers:/rds/bear-apps/system/software/slurm-moab-wrappers/:/rds/homes/e/edmondac-admin/bin:/rds/homes/e/edmondac-admin/local/bin:/rds/homes/e/edmondac-admin/scripts:/rds/homes/e/edmondac-admin/scripts/bin:/rds/bear-sysadmin/tools/apps-scripts:/rds/bear-sysadmin/tools/apps-scripts/fisbatch:/usr/lpp/mmfs/bin:/rds/homes/e/edmondac-admin/bin:/rds/homes/e/edmondac-admin/local/bin:/rds/homes/e/edmondac-admin/scripts:/rds/homes/e/edmondac-admin/scripts/bin:/rds/bear-sysadmin/tools/apps-scripts:/rds/bear-sysadmin/tools/apps-scripts/fisbatch:/usr/lib64/qt-3.3/bin:/usr/lpp/mmfs/bin:/usr/local/bin:/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/opt/ibutils/bin:/gpfs/sysapps/bham/bin:/gpfs/apps/bham/bin:/rds/homes/e/edmondac-admin/bin:/gpfs/sysapps/bham/scripts/easybuild:/rds/bear-apps/handbuilt/software/thermocalc/v2018b/SDK/TCAPI:/rds/bear-apps/handbuilt/software/thermocalc/v2018b/SDK/TQ:/rds/bear-apps/handbuilt/software/micress/v6.4/Bin:/rds/bear-apps/2019b/EL7-cascadelake/software/Thermo-Calc/2020a-foss-2019b/SDK/TCAPI:/rds/bear-apps/2019b/EL7-cascadelake/software/Thermo-Calc/2020a-foss-2019b/SDK/TQ:/rds/bear-apps/2019b/EL7-haswell/software/Thermo-Calc/2020a-foss-2019b/SDK/TCAPI:/rds/bear-apps/2019b/EL7-haswell/software/Thermo-Calc/2020a-foss-2019b/SDK/TQ:/rds/bear-apps/2019b/EL7-sandybridge/software/Thermo-Calc/2020a-foss-2019b/SDK/TCAPI:/rds/bear-apps/2019b/EL7-sandybridge/software/Thermo-Calc/2020a-foss-2019b/SDK/TQ:/rds/bear-sysadmin/tools/apps-scripts/' | |
| os.environ['PKG_CONFIG_PATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib/pkgconfig:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib/pkgconfig' | |
| os.environ['_LMFILES_'] = '/rds/bear-apps/system/modules/bb-variables/15:/rds/bear-apps/system/modules/slurm-moab-wrappers/2:/rds/bear-apps/system/modules/slurm-helpers/3:/rds/bear-apps/system/modules/openmpi-env/5:/rds/bear-apps/system/modules/bear-licences/10:/rds/bear-apps/system/modules/bb-singularity-conf/1:/rds/bear-apps/system/modules/bluebear/23:/rds/bear-apps/system/modules/eb-conf/2020a:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/GCCcore/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/zlib/1.2.11-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/binutils/2.32-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/GCC/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/numactl/2.0.12-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/XZ/5.2.4-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/libxml2/2.9.9-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/libpciaccess/0.14-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/hwloc/1.11.12-GCCcore-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/OpenMPI/3.1.4-GCC-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/OpenBLAS/0.3.7-GCC-8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/gompi/2019b:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/FFTW/3.3.8-gompi-2019b:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/ScaLAPACK/2.0.2-gompi-2019b:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/foss/2019b:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/Tcl/8.6.9-GCCcore-8.3.0' | |
| ; stderr: | |
| == 2020-08-11 16:33:28,680 modules.py:717 DEBUG No checking of module output implemented for Environment Modules v3 | |
| == 2020-08-11 16:33:28,682 modules.py:817 DEBUG Correcting paths in $LD_LIBRARY_PATH from ['/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib'] to ['/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib'] | |
| == 2020-08-11 16:33:28,682 environment.py:97 INFO Environment variable LD_LIBRARY_PATH set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib (previous value: '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib') | |
| == 2020-08-11 16:33:28,682 modules.py:817 DEBUG Correcting paths in $LD_PRELOAD from [''] to [] | |
| == 2020-08-11 16:33:28,682 environment.py:97 INFO Environment variable LD_PRELOAD set to (previous value: '') | |
| == 2020-08-11 16:33:28,683 modules.py:760 DEBUG Current MODULEPATH: /rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/usr/share/Modules/modulefiles:/etc/modulefiles:/rds/bear-apps/system/modules | |
| == 2020-08-11 16:33:28,684 modules.py:767 DEBUG Changing LD_LIBRARY_PATH from '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib' to '' in environment for module command | |
| == 2020-08-11 16:33:28,684 modules.py:767 DEBUG Changing LD_PRELOAD from '' to '' in environment for module command | |
| == 2020-08-11 16:33:28,684 modules.py:771 DEBUG Running module command '/bin/modulecmd python load FFTW/3.3.8-gompi-2019b' from /dev/shm/build-edmondac-admin/edmondac-admin-1/NAMD/2.14/foss-2019b-mpi/NAMD_2.14_Source | |
| == 2020-08-11 16:33:28,709 modules.py:778 DEBUG Output of module command '/bin/modulecmd python load FFTW/3.3.8-gompi-2019b': stdout: os.environ['LD_LIBRARY_PATH'] = '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib' | |
| ; stderr: | |
| == 2020-08-11 16:33:28,710 modules.py:717 DEBUG No checking of module output implemented for Environment Modules v3 | |
| == 2020-08-11 16:33:28,711 modules.py:817 DEBUG Correcting paths in $LD_LIBRARY_PATH from ['/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib'] to ['/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64', '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib'] | |
| == 2020-08-11 16:33:28,711 environment.py:97 INFO Environment variable LD_LIBRARY_PATH set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/hwloc/1.11.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libpciaccess/0.14-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/libxml2/2.9.9-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/XZ/5.2.4-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/numactl/2.0.12-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/binutils/2.32-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/zlib/1.2.11-GCCcore-8.3.0/lib:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib/gcc/x86_64-pc-linux-gnu/8.3.0:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib (previous value: '/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib') | |
| == 2020-08-11 16:33:28,711 modules.py:817 DEBUG Correcting paths in $LD_PRELOAD from [''] to [] | |
| == 2020-08-11 16:33:28,711 environment.py:97 INFO Environment variable LD_PRELOAD set to (previous value: '') | |
| == 2020-08-11 16:33:28,713 modules.py:665 DEBUG Found cached result for 'module show foss/2019b' with key '('MODULEPATH=/rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/usr/share/Modules/modulefiles:/etc/modulefiles:/rds/bear-apps/system/modules', 'modulecmd', 'foss/2019b')': ------------------------------------------------------------------- | |
| /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/foss/2019b: | |
| module-whatis Description: GNU Compiler Collection (GCC) based compiler toolchain, including | |
| OpenMPI for MPI support, OpenBLAS (BLAS and LAPACK support), FFTW and ScaLAPACK. | |
| module-whatis Homepage: https://easybuild.readthedocs.io/en/master/Common-toolchains.html#foss-toolchain | |
| module-whatis URL: https://easybuild.readthedocs.io/en/master/Common-toolchains.html#foss-toolchain | |
| conflict foss | |
| module load GCC/8.3.0 | |
| module load OpenMPI/3.1.4-GCC-8.3.0 | |
| module load OpenBLAS/0.3.7-GCC-8.3.0 | |
| module load FFTW/3.3.8-gompi-2019b | |
| module load ScaLAPACK/2.0.2-gompi-2019b | |
| setenv EBROOTFOSS /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/foss/2019b | |
| setenv EBVERSIONFOSS 2019b | |
| setenv EBDEVELFOSS /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/foss/2019b/easybuild/foss-2019b-easybuild-devel | |
| ------------------------------------------------------------------- | |
| == 2020-08-11 16:33:28,713 modules.py:603 DEBUG Result for existence check of foss/2019b module: True | |
| == 2020-08-11 16:33:28,714 modules.py:665 DEBUG Found cached result for 'module show foss/2019b' with key '('MODULEPATH=/rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/:/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all:/usr/share/Modules/modulefiles:/etc/modulefiles:/rds/bear-apps/system/modules', 'modulecmd', 'foss/2019b')': ------------------------------------------------------------------- | |
| /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/modules/all/foss/2019b: | |
| module-whatis Description: GNU Compiler Collection (GCC) based compiler toolchain, including | |
| OpenMPI for MPI support, OpenBLAS (BLAS and LAPACK support), FFTW and ScaLAPACK. | |
| module-whatis Homepage: https://easybuild.readthedocs.io/en/master/Common-toolchains.html#foss-toolchain | |
| module-whatis URL: https://easybuild.readthedocs.io/en/master/Common-toolchains.html#foss-toolchain | |
| conflict foss | |
| module load GCC/8.3.0 | |
| module load OpenMPI/3.1.4-GCC-8.3.0 | |
| module load OpenBLAS/0.3.7-GCC-8.3.0 | |
| module load FFTW/3.3.8-gompi-2019b | |
| module load ScaLAPACK/2.0.2-gompi-2019b | |
| setenv EBROOTFOSS /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/foss/2019b | |
| setenv EBVERSIONFOSS 2019b | |
| setenv EBDEVELFOSS /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/foss/2019b/easybuild/foss-2019b-easybuild-devel | |
| ------------------------------------------------------------------- | |
| == 2020-08-11 16:33:28,715 toolchain.py:687 DEBUG List of toolchain dependencies from toolchain module: ['GCC/8.3.0', 'OpenMPI/3.1.4-GCC-8.3.0', 'OpenBLAS/0.3.7-GCC-8.3.0', 'FFTW/3.3.8-gompi-2019b', 'ScaLAPACK/2.0.2-gompi-2019b'] | |
| == 2020-08-11 16:33:28,716 toolchain.py:531 DEBUG Toolchain definition for {'name': 'foss', 'version': '2019b', 'toolchain': {'name': 'system', 'version': ''}, 'versionsuffix': '', 'parsed': True, 'hidden': False, 'full_mod_name': 'foss/2019b', 'short_mod_name': 'foss/2019b', 'system': True}: {'BLACS': ['BLACS'], 'BLAS': ['OpenBLAS'], 'COMPILER': ['GCC'], 'FFT': ['FFTW'], 'LAPACK': ['OpenBLAS'], 'MPI': ['OpenMPI'], 'SCALAPACK': ['ScaLAPACK']} | |
| == 2020-08-11 16:33:28,717 toolchain.py:381 DEBUG get_software_version software version 2.0.2 for ScaLAPACK was found in environment | |
| == 2020-08-11 16:33:28,718 mns.py:169 DEBUG Checking whether 'GCC/8.3.0' is a module name for software with name 'BLACS' via regex ^BLACS(/\S+)?$: False | |
| == 2020-08-11 16:33:28,718 mns.py:169 DEBUG Checking whether 'OpenMPI/3.1.4-GCC-8.3.0' is a module name for software with name 'BLACS' via regex ^BLACS(/\S+)?$: False | |
| == 2020-08-11 16:33:28,718 mns.py:169 DEBUG Checking whether 'OpenBLAS/0.3.7-GCC-8.3.0' is a module name for software with name 'BLACS' via regex ^BLACS(/\S+)?$: False | |
| == 2020-08-11 16:33:28,718 mns.py:169 DEBUG Checking whether 'FFTW/3.3.8-gompi-2019b' is a module name for software with name 'BLACS' via regex ^BLACS(/\S+)?$: False | |
| == 2020-08-11 16:33:28,718 mns.py:169 DEBUG Checking whether 'ScaLAPACK/2.0.2-gompi-2019b' is a module name for software with name 'BLACS' via regex ^BLACS(/\S+)?$: False | |
| == 2020-08-11 16:33:28,718 toolchain.py:697 DEBUG Removing BLACS from list of optional toolchain elements. | |
| == 2020-08-11 16:33:28,719 toolchain.py:700 DEBUG List of toolchain elements from toolchain definition: {'OpenBLAS', 'FFTW', 'GCC', 'ScaLAPACK', 'OpenMPI'} | |
| == 2020-08-11 16:33:28,720 mns.py:169 DEBUG Checking whether 'GCC/8.3.0' is a module name for software with name 'OpenBLAS' via regex ^OpenBLAS(/\S+)?$: False | |
| == 2020-08-11 16:33:28,720 mns.py:169 DEBUG Checking whether 'OpenMPI/3.1.4-GCC-8.3.0' is a module name for software with name 'OpenBLAS' via regex ^OpenBLAS(/\S+)?$: False | |
| == 2020-08-11 16:33:28,720 mns.py:169 DEBUG Checking whether 'OpenBLAS/0.3.7-GCC-8.3.0' is a module name for software with name 'OpenBLAS' via regex ^OpenBLAS(/\S+)?$: True | |
| == 2020-08-11 16:33:28,721 mns.py:169 DEBUG Checking whether 'GCC/8.3.0' is a module name for software with name 'FFTW' via regex ^FFTW(/\S+)?$: False | |
| == 2020-08-11 16:33:28,721 mns.py:169 DEBUG Checking whether 'OpenMPI/3.1.4-GCC-8.3.0' is a module name for software with name 'FFTW' via regex ^FFTW(/\S+)?$: False | |
| == 2020-08-11 16:33:28,721 mns.py:169 DEBUG Checking whether 'OpenBLAS/0.3.7-GCC-8.3.0' is a module name for software with name 'FFTW' via regex ^FFTW(/\S+)?$: False | |
| == 2020-08-11 16:33:28,721 mns.py:169 DEBUG Checking whether 'FFTW/3.3.8-gompi-2019b' is a module name for software with name 'FFTW' via regex ^FFTW(/\S+)?$: True | |
| == 2020-08-11 16:33:28,721 mns.py:169 DEBUG Checking whether 'GCC/8.3.0' is a module name for software with name 'GCC' via regex ^GCC(/\S+)?$: True | |
| == 2020-08-11 16:33:28,722 mns.py:169 DEBUG Checking whether 'GCC/8.3.0' is a module name for software with name 'ScaLAPACK' via regex ^ScaLAPACK(/\S+)?$: False | |
| == 2020-08-11 16:33:28,722 mns.py:169 DEBUG Checking whether 'OpenMPI/3.1.4-GCC-8.3.0' is a module name for software with name 'ScaLAPACK' via regex ^ScaLAPACK(/\S+)?$: False | |
| == 2020-08-11 16:33:28,722 mns.py:169 DEBUG Checking whether 'OpenBLAS/0.3.7-GCC-8.3.0' is a module name for software with name 'ScaLAPACK' via regex ^ScaLAPACK(/\S+)?$: False | |
| == 2020-08-11 16:33:28,722 mns.py:169 DEBUG Checking whether 'FFTW/3.3.8-gompi-2019b' is a module name for software with name 'ScaLAPACK' via regex ^ScaLAPACK(/\S+)?$: False | |
| == 2020-08-11 16:33:28,722 mns.py:169 DEBUG Checking whether 'ScaLAPACK/2.0.2-gompi-2019b' is a module name for software with name 'ScaLAPACK' via regex ^ScaLAPACK(/\S+)?$: True | |
| == 2020-08-11 16:33:28,723 mns.py:169 DEBUG Checking whether 'GCC/8.3.0' is a module name for software with name 'OpenMPI' via regex ^OpenMPI(/\S+)?$: False | |
| == 2020-08-11 16:33:28,723 mns.py:169 DEBUG Checking whether 'OpenMPI/3.1.4-GCC-8.3.0' is a module name for software with name 'OpenMPI' via regex ^OpenMPI(/\S+)?$: True | |
| == 2020-08-11 16:33:28,723 toolchain.py:703 INFO List of toolchain dependency modules and toolchain definition match! | |
| == 2020-08-11 16:33:28,730 compiler.py:347 INFO _set_optimal_architecture: using march=native as optarch for x86_64. | |
| == 2020-08-11 16:33:28,733 toolchain.py:381 DEBUG get_software_version software version 3.1.4 for OpenMPI was found in environment | |
| == 2020-08-11 16:33:28,735 mpi.py:219 DEBUG usempi set: defining CC_SEQ as gcc | |
| == 2020-08-11 16:33:28,735 mpi.py:222 DEBUG usempi set: switching CC value gcc for MPICC value mpicc | |
| == 2020-08-11 16:33:28,736 mpi.py:219 DEBUG usempi set: defining CXX_SEQ as g++ | |
| == 2020-08-11 16:33:28,736 mpi.py:222 DEBUG usempi set: switching CXX value g++ for MPICXX value mpicxx | |
| == 2020-08-11 16:33:28,737 mpi.py:219 DEBUG usempi set: defining F77_SEQ as gfortran | |
| == 2020-08-11 16:33:28,737 mpi.py:222 DEBUG usempi set: switching F77 value gfortran for MPIF77 value mpifort | |
| == 2020-08-11 16:33:28,738 mpi.py:219 DEBUG usempi set: defining F90_SEQ as gfortran | |
| == 2020-08-11 16:33:28,738 mpi.py:222 DEBUG usempi set: switching F90 value gfortran for MPIF90 value mpifort | |
| == 2020-08-11 16:33:28,739 mpi.py:219 DEBUG usempi set: defining FC_SEQ as gfortran | |
| == 2020-08-11 16:33:28,739 mpi.py:222 DEBUG usempi set: switching FC value gfortran for MPIFC value mpifort | |
| == 2020-08-11 16:33:28,739 toolchain.py:372 DEBUG get_software_root software root /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0 for OpenMPI was found in environment | |
| == 2020-08-11 16:33:28,741 toolchain.py:372 DEBUG get_software_root software root /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0 for OpenBLAS was found in environment | |
| == 2020-08-11 16:33:28,741 toolchain.py:372 DEBUG get_software_root software root /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0 for OpenBLAS was found in environment | |
| == 2020-08-11 16:33:28,742 variables.py:201 WARNING flags_for_subdirs: directory /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib64 was not found | |
| == 2020-08-11 16:33:28,758 toolchain.py:372 DEBUG get_software_root software root /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0 for OpenBLAS was found in environment | |
| == 2020-08-11 16:33:28,758 variables.py:201 WARNING flags_for_subdirs: directory /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib64 was not found | |
| == 2020-08-11 16:33:28,758 toolchain.py:381 DEBUG get_software_version software version 2.0.2 for ScaLAPACK was found in environment | |
| == 2020-08-11 16:33:28,760 toolchain.py:372 DEBUG get_software_root software root /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b for ScaLAPACK was found in environment | |
| == 2020-08-11 16:33:28,761 toolchain.py:372 DEBUG get_software_root software root /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b for ScaLAPACK was found in environment | |
| == 2020-08-11 16:33:28,761 variables.py:201 WARNING flags_for_subdirs: directory /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib64 was not found | |
| == 2020-08-11 16:33:28,761 toolchain.py:381 DEBUG get_software_version software version 3.3.8 for FFTW was found in environment | |
| == 2020-08-11 16:33:28,761 toolchain.py:372 DEBUG get_software_root software root /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b for FFTW was found in environment | |
| == 2020-08-11 16:33:28,762 toolchain.py:372 DEBUG get_software_root software root /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b for FFTW was found in environment | |
| == 2020-08-11 16:33:28,762 variables.py:201 WARNING flags_for_subdirs: directory /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib64 was not found | |
| == 2020-08-11 16:33:28,762 toolchain.py:799 DEBUG prepare: set additional variables onlymod=False | |
| == 2020-08-11 16:33:28,763 toolchain.py:372 DEBUG get_software_root software root /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0 for Tcl was found in environment | |
| == 2020-08-11 16:33:28,763 toolchain.py:372 DEBUG get_software_root software root /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b for FFTW was found in environment | |
| == 2020-08-11 16:33:28,763 variables.py:201 WARNING flags_for_subdirs: directory /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib64 was not found | |
| == 2020-08-11 16:33:28,763 variables.py:201 WARNING flags_for_subdirs: directory /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib64 was not found | |
| == 2020-08-11 16:33:28,766 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable BLAS_INC_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include | |
| == 2020-08-11 16:33:28,767 environment.py:97 INFO Environment variable BLAS_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include (previously undefined) | |
| == 2020-08-11 16:33:28,767 environment.py:97 INFO Environment variable EBVARBLAS_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include (previously undefined) | |
| == 2020-08-11 16:33:28,767 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable BLAS_LAPACK_INC_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include | |
| == 2020-08-11 16:33:28,767 environment.py:97 INFO Environment variable BLAS_LAPACK_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include (previously undefined) | |
| == 2020-08-11 16:33:28,767 environment.py:97 INFO Environment variable EBVARBLAS_LAPACK_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include (previously undefined) | |
| == 2020-08-11 16:33:28,767 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable BLAS_LAPACK_LIB_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib | |
| == 2020-08-11 16:33:28,767 environment.py:97 INFO Environment variable BLAS_LAPACK_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib (previously undefined) | |
| == 2020-08-11 16:33:28,767 environment.py:97 INFO Environment variable EBVARBLAS_LAPACK_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib (previously undefined) | |
| == 2020-08-11 16:33:28,767 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable BLAS_LAPACK_MT_STATIC_LIBS to libopenblas.a,libgfortran.a | |
| == 2020-08-11 16:33:28,767 environment.py:97 INFO Environment variable BLAS_LAPACK_MT_STATIC_LIBS set to libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,767 environment.py:97 INFO Environment variable EBVARBLAS_LAPACK_MT_STATIC_LIBS set to libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,767 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable BLAS_LAPACK_STATIC_LIBS to libopenblas.a,libgfortran.a | |
| == 2020-08-11 16:33:28,767 environment.py:97 INFO Environment variable BLAS_LAPACK_STATIC_LIBS set to libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,767 environment.py:97 INFO Environment variable EBVARBLAS_LAPACK_STATIC_LIBS set to libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,767 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable BLAS_LIB_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib | |
| == 2020-08-11 16:33:28,767 environment.py:97 INFO Environment variable BLAS_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib (previously undefined) | |
| == 2020-08-11 16:33:28,768 environment.py:97 INFO Environment variable EBVARBLAS_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib (previously undefined) | |
| == 2020-08-11 16:33:28,768 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable BLAS_MT_STATIC_LIBS to libopenblas.a,libgfortran.a | |
| == 2020-08-11 16:33:28,768 environment.py:97 INFO Environment variable BLAS_MT_STATIC_LIBS set to libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,768 environment.py:97 INFO Environment variable EBVARBLAS_MT_STATIC_LIBS set to libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,768 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable BLAS_STATIC_LIBS to libopenblas.a,libgfortran.a | |
| == 2020-08-11 16:33:28,768 environment.py:97 INFO Environment variable BLAS_STATIC_LIBS set to libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,768 environment.py:97 INFO Environment variable EBVARBLAS_STATIC_LIBS set to libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,768 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable CC to mpicc | |
| == 2020-08-11 16:33:28,768 environment.py:97 INFO Environment variable CC set to mpicc (previously undefined) | |
| == 2020-08-11 16:33:28,768 environment.py:97 INFO Environment variable EBVARCC set to mpicc (previously undefined) | |
| == 2020-08-11 16:33:28,768 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable CC_SEQ to gcc | |
| == 2020-08-11 16:33:28,768 environment.py:97 INFO Environment variable CC_SEQ set to gcc (previously undefined) | |
| == 2020-08-11 16:33:28,768 environment.py:97 INFO Environment variable EBVARCC_SEQ set to gcc (previously undefined) | |
| == 2020-08-11 16:33:28,768 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable CFLAGS to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC | |
| == 2020-08-11 16:33:28,768 environment.py:97 INFO Environment variable CFLAGS set to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC (previously undefined) | |
| == 2020-08-11 16:33:28,768 environment.py:97 INFO Environment variable EBVARCFLAGS set to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC (previously undefined) | |
| == 2020-08-11 16:33:28,768 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable CPPFLAGS to -I/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/include -I/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/include -I/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/include -I/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include | |
| == 2020-08-11 16:33:28,769 environment.py:97 INFO Environment variable CPPFLAGS set to -I/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/include -I/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/include -I/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/include -I/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include (previously undefined) | |
| == 2020-08-11 16:33:28,769 environment.py:97 INFO Environment variable EBVARCPPFLAGS set to -I/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/include -I/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/include -I/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/include -I/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include (previously undefined) | |
| == 2020-08-11 16:33:28,769 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable CXX to mpicxx | |
| == 2020-08-11 16:33:28,769 environment.py:97 INFO Environment variable CXX set to mpicxx (previously undefined) | |
| == 2020-08-11 16:33:28,769 environment.py:97 INFO Environment variable EBVARCXX set to mpicxx (previously undefined) | |
| == 2020-08-11 16:33:28,769 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable CXXFLAGS to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC | |
| == 2020-08-11 16:33:28,769 environment.py:97 INFO Environment variable CXXFLAGS set to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC (previously undefined) | |
| == 2020-08-11 16:33:28,769 environment.py:97 INFO Environment variable EBVARCXXFLAGS set to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC (previously undefined) | |
| == 2020-08-11 16:33:28,769 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable CXX_SEQ to g++ | |
| == 2020-08-11 16:33:28,769 environment.py:97 INFO Environment variable CXX_SEQ set to g++ (previously undefined) | |
| == 2020-08-11 16:33:28,769 environment.py:97 INFO Environment variable EBVARCXX_SEQ set to g++ (previously undefined) | |
| == 2020-08-11 16:33:28,769 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable F77 to mpifort | |
| == 2020-08-11 16:33:28,769 environment.py:97 INFO Environment variable F77 set to mpifort (previously undefined) | |
| == 2020-08-11 16:33:28,769 environment.py:97 INFO Environment variable EBVARF77 set to mpifort (previously undefined) | |
| == 2020-08-11 16:33:28,769 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable F77_SEQ to gfortran | |
| == 2020-08-11 16:33:28,769 environment.py:97 INFO Environment variable F77_SEQ set to gfortran (previously undefined) | |
| == 2020-08-11 16:33:28,769 environment.py:97 INFO Environment variable EBVARF77_SEQ set to gfortran (previously undefined) | |
| == 2020-08-11 16:33:28,770 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable F90 to mpifort | |
| == 2020-08-11 16:33:28,770 environment.py:97 INFO Environment variable F90 set to mpifort (previously undefined) | |
| == 2020-08-11 16:33:28,770 environment.py:97 INFO Environment variable EBVARF90 set to mpifort (previously undefined) | |
| == 2020-08-11 16:33:28,770 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable F90FLAGS to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC | |
| == 2020-08-11 16:33:28,770 environment.py:97 INFO Environment variable F90FLAGS set to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC (previously undefined) | |
| == 2020-08-11 16:33:28,770 environment.py:97 INFO Environment variable EBVARF90FLAGS set to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC (previously undefined) | |
| == 2020-08-11 16:33:28,770 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable F90_SEQ to gfortran | |
| == 2020-08-11 16:33:28,770 environment.py:97 INFO Environment variable F90_SEQ set to gfortran (previously undefined) | |
| == 2020-08-11 16:33:28,770 environment.py:97 INFO Environment variable EBVARF90_SEQ set to gfortran (previously undefined) | |
| == 2020-08-11 16:33:28,770 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable FC to mpifort | |
| == 2020-08-11 16:33:28,770 environment.py:97 INFO Environment variable FC set to mpifort (previously undefined) | |
| == 2020-08-11 16:33:28,770 environment.py:97 INFO Environment variable EBVARFC set to mpifort (previously undefined) | |
| == 2020-08-11 16:33:28,770 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable FCFLAGS to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC | |
| == 2020-08-11 16:33:28,770 environment.py:97 INFO Environment variable FCFLAGS set to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC (previously undefined) | |
| == 2020-08-11 16:33:28,770 environment.py:97 INFO Environment variable EBVARFCFLAGS set to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC (previously undefined) | |
| == 2020-08-11 16:33:28,770 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable FC_SEQ to gfortran | |
| == 2020-08-11 16:33:28,770 environment.py:97 INFO Environment variable FC_SEQ set to gfortran (previously undefined) | |
| == 2020-08-11 16:33:28,771 environment.py:97 INFO Environment variable EBVARFC_SEQ set to gfortran (previously undefined) | |
| == 2020-08-11 16:33:28,771 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable FFLAGS to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC | |
| == 2020-08-11 16:33:28,771 environment.py:97 INFO Environment variable FFLAGS set to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC (previously undefined) | |
| == 2020-08-11 16:33:28,771 environment.py:97 INFO Environment variable EBVARFFLAGS set to -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC (previously undefined) | |
| == 2020-08-11 16:33:28,771 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable FFTW_INC_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/include | |
| == 2020-08-11 16:33:28,771 environment.py:97 INFO Environment variable FFTW_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/include (previously undefined) | |
| == 2020-08-11 16:33:28,771 environment.py:97 INFO Environment variable EBVARFFTW_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/include (previously undefined) | |
| == 2020-08-11 16:33:28,771 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable FFTW_LIB_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib | |
| == 2020-08-11 16:33:28,771 environment.py:97 INFO Environment variable FFTW_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib (previously undefined) | |
| == 2020-08-11 16:33:28,771 environment.py:97 INFO Environment variable EBVARFFTW_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib (previously undefined) | |
| == 2020-08-11 16:33:28,771 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable FFTW_STATIC_LIBS to libfftw3_mpi.a,libfftw3.a | |
| == 2020-08-11 16:33:28,771 environment.py:97 INFO Environment variable FFTW_STATIC_LIBS set to libfftw3_mpi.a,libfftw3.a (previously undefined) | |
| == 2020-08-11 16:33:28,771 environment.py:97 INFO Environment variable EBVARFFTW_STATIC_LIBS set to libfftw3_mpi.a,libfftw3.a (previously undefined) | |
| == 2020-08-11 16:33:28,771 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable FFTW_STATIC_LIBS_MT to libfftw3.a,libpthread.a | |
| == 2020-08-11 16:33:28,771 environment.py:97 INFO Environment variable FFTW_STATIC_LIBS_MT set to libfftw3.a,libpthread.a (previously undefined) | |
| == 2020-08-11 16:33:28,771 environment.py:97 INFO Environment variable EBVARFFTW_STATIC_LIBS_MT set to libfftw3.a,libpthread.a (previously undefined) | |
| == 2020-08-11 16:33:28,771 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable FFT_INC_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/include | |
| == 2020-08-11 16:33:28,771 environment.py:97 INFO Environment variable FFT_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/include (previously undefined) | |
| == 2020-08-11 16:33:28,772 environment.py:97 INFO Environment variable EBVARFFT_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/include (previously undefined) | |
| == 2020-08-11 16:33:28,772 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable FFT_LIB_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib | |
| == 2020-08-11 16:33:28,772 environment.py:97 INFO Environment variable FFT_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib (previously undefined) | |
| == 2020-08-11 16:33:28,772 environment.py:97 INFO Environment variable EBVARFFT_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib (previously undefined) | |
| == 2020-08-11 16:33:28,772 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable FFT_STATIC_LIBS to libfftw3_mpi.a,libfftw3.a | |
| == 2020-08-11 16:33:28,772 environment.py:97 INFO Environment variable FFT_STATIC_LIBS set to libfftw3_mpi.a,libfftw3.a (previously undefined) | |
| == 2020-08-11 16:33:28,772 environment.py:97 INFO Environment variable EBVARFFT_STATIC_LIBS set to libfftw3_mpi.a,libfftw3.a (previously undefined) | |
| == 2020-08-11 16:33:28,772 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable FFT_STATIC_LIBS_MT to libfftw3.a,libpthread.a | |
| == 2020-08-11 16:33:28,772 environment.py:97 INFO Environment variable FFT_STATIC_LIBS_MT set to libfftw3.a,libpthread.a (previously undefined) | |
| == 2020-08-11 16:33:28,772 environment.py:97 INFO Environment variable EBVARFFT_STATIC_LIBS_MT set to libfftw3.a,libpthread.a (previously undefined) | |
| == 2020-08-11 16:33:28,772 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable FLIBS to -lgfortran | |
| == 2020-08-11 16:33:28,772 environment.py:97 INFO Environment variable FLIBS set to -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,772 environment.py:97 INFO Environment variable EBVARFLIBS set to -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,772 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LAPACK_INC_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include | |
| == 2020-08-11 16:33:28,772 environment.py:97 INFO Environment variable LAPACK_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include (previously undefined) | |
| == 2020-08-11 16:33:28,772 environment.py:97 INFO Environment variable EBVARLAPACK_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/include (previously undefined) | |
| == 2020-08-11 16:33:28,772 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LAPACK_LIB_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib | |
| == 2020-08-11 16:33:28,773 environment.py:97 INFO Environment variable LAPACK_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib (previously undefined) | |
| == 2020-08-11 16:33:28,773 environment.py:97 INFO Environment variable EBVARLAPACK_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib (previously undefined) | |
| == 2020-08-11 16:33:28,773 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LAPACK_MT_STATIC_LIBS to libopenblas.a,libgfortran.a | |
| == 2020-08-11 16:33:28,773 environment.py:97 INFO Environment variable LAPACK_MT_STATIC_LIBS set to libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,773 environment.py:97 INFO Environment variable EBVARLAPACK_MT_STATIC_LIBS set to libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,773 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LAPACK_STATIC_LIBS to libopenblas.a,libgfortran.a | |
| == 2020-08-11 16:33:28,773 environment.py:97 INFO Environment variable LAPACK_STATIC_LIBS set to libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,773 environment.py:97 INFO Environment variable EBVARLAPACK_STATIC_LIBS set to libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,773 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LDFLAGS to -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64 -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib | |
| == 2020-08-11 16:33:28,773 environment.py:97 INFO Environment variable LDFLAGS set to -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64 -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib (previously undefined) | |
| == 2020-08-11 16:33:28,773 environment.py:97 INFO Environment variable EBVARLDFLAGS set to -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/FFTW/3.3.8-gompi-2019b/lib -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/Tcl/8.6.9-GCCcore-8.3.0/lib -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenBLAS/0.3.7-GCC-8.3.0/lib -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib64 -L/rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/GCCcore/8.3.0/lib (previously undefined) | |
| == 2020-08-11 16:33:28,773 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LIBBLAS to -lopenblas -lgfortran | |
| == 2020-08-11 16:33:28,773 environment.py:97 INFO Environment variable LIBBLAS set to -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,773 environment.py:97 INFO Environment variable EBVARLIBBLAS set to -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,773 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LIBBLAS_MT to -lopenblas -lgfortran | |
| == 2020-08-11 16:33:28,773 environment.py:97 INFO Environment variable LIBBLAS_MT set to -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,773 environment.py:97 INFO Environment variable EBVARLIBBLAS_MT set to -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,774 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LIBFFT to -lfftw3_mpi -lfftw3 | |
| == 2020-08-11 16:33:28,774 environment.py:97 INFO Environment variable LIBFFT set to -lfftw3_mpi -lfftw3 (previously undefined) | |
| == 2020-08-11 16:33:28,774 environment.py:97 INFO Environment variable EBVARLIBFFT set to -lfftw3_mpi -lfftw3 (previously undefined) | |
| == 2020-08-11 16:33:28,774 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LIBFFT_MT to -lfftw3 -lpthread | |
| == 2020-08-11 16:33:28,774 environment.py:97 INFO Environment variable LIBFFT_MT set to -lfftw3 -lpthread (previously undefined) | |
| == 2020-08-11 16:33:28,774 environment.py:97 INFO Environment variable EBVARLIBFFT_MT set to -lfftw3 -lpthread (previously undefined) | |
| == 2020-08-11 16:33:28,774 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LIBLAPACK to -lopenblas -lgfortran | |
| == 2020-08-11 16:33:28,774 environment.py:97 INFO Environment variable LIBLAPACK set to -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,774 environment.py:97 INFO Environment variable EBVARLIBLAPACK set to -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,774 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LIBLAPACK_MT to -lopenblas -lgfortran | |
| == 2020-08-11 16:33:28,774 environment.py:97 INFO Environment variable LIBLAPACK_MT set to -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,774 environment.py:97 INFO Environment variable EBVARLIBLAPACK_MT set to -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,774 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LIBLAPACK_MT_ONLY to -lopenblas -lgfortran | |
| == 2020-08-11 16:33:28,774 environment.py:97 INFO Environment variable LIBLAPACK_MT_ONLY set to -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,774 environment.py:97 INFO Environment variable EBVARLIBLAPACK_MT_ONLY set to -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,774 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LIBLAPACK_ONLY to -lopenblas -lgfortran | |
| == 2020-08-11 16:33:28,774 environment.py:97 INFO Environment variable LIBLAPACK_ONLY set to -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,775 environment.py:97 INFO Environment variable EBVARLIBLAPACK_ONLY set to -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,775 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LIBS to -lm -lpthread | |
| == 2020-08-11 16:33:28,775 environment.py:97 INFO Environment variable LIBS set to -lm -lpthread (previously undefined) | |
| == 2020-08-11 16:33:28,775 environment.py:97 INFO Environment variable EBVARLIBS set to -lm -lpthread (previously undefined) | |
| == 2020-08-11 16:33:28,775 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LIBSCALAPACK to -lscalapack -lopenblas -lgfortran | |
| == 2020-08-11 16:33:28,775 environment.py:97 INFO Environment variable LIBSCALAPACK set to -lscalapack -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,775 environment.py:97 INFO Environment variable EBVARLIBSCALAPACK set to -lscalapack -lopenblas -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,775 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LIBSCALAPACK_MT to -lscalapack -lopenblas -lpthread -lgfortran | |
| == 2020-08-11 16:33:28,775 environment.py:97 INFO Environment variable LIBSCALAPACK_MT set to -lscalapack -lopenblas -lpthread -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,775 environment.py:97 INFO Environment variable EBVARLIBSCALAPACK_MT set to -lscalapack -lopenblas -lpthread -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,775 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LIBSCALAPACK_MT_ONLY to -lscalapack -lgfortran | |
| == 2020-08-11 16:33:28,775 environment.py:97 INFO Environment variable LIBSCALAPACK_MT_ONLY set to -lscalapack -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,775 environment.py:97 INFO Environment variable EBVARLIBSCALAPACK_MT_ONLY set to -lscalapack -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,775 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable LIBSCALAPACK_ONLY to -lscalapack -lgfortran | |
| == 2020-08-11 16:33:28,775 environment.py:97 INFO Environment variable LIBSCALAPACK_ONLY set to -lscalapack -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,775 environment.py:97 INFO Environment variable EBVARLIBSCALAPACK_ONLY set to -lscalapack -lgfortran (previously undefined) | |
| == 2020-08-11 16:33:28,775 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable MPICC to mpicc | |
| == 2020-08-11 16:33:28,776 environment.py:97 INFO Environment variable MPICC set to mpicc (previously undefined) | |
| == 2020-08-11 16:33:28,776 environment.py:97 INFO Environment variable EBVARMPICC set to mpicc (previously undefined) | |
| == 2020-08-11 16:33:28,776 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable MPICXX to mpicxx | |
| == 2020-08-11 16:33:28,776 environment.py:97 INFO Environment variable MPICXX set to mpicxx (previously undefined) | |
| == 2020-08-11 16:33:28,776 environment.py:97 INFO Environment variable EBVARMPICXX set to mpicxx (previously undefined) | |
| == 2020-08-11 16:33:28,776 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable MPIF77 to mpifort | |
| == 2020-08-11 16:33:28,776 environment.py:97 INFO Environment variable MPIF77 set to mpifort (previously undefined) | |
| == 2020-08-11 16:33:28,776 environment.py:97 INFO Environment variable EBVARMPIF77 set to mpifort (previously undefined) | |
| == 2020-08-11 16:33:28,776 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable MPIF90 to mpifort | |
| == 2020-08-11 16:33:28,776 environment.py:97 INFO Environment variable MPIF90 set to mpifort (previously undefined) | |
| == 2020-08-11 16:33:28,776 environment.py:97 INFO Environment variable EBVARMPIF90 set to mpifort (previously undefined) | |
| == 2020-08-11 16:33:28,776 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable MPIFC to mpifort | |
| == 2020-08-11 16:33:28,776 environment.py:97 INFO Environment variable MPIFC set to mpifort (previously undefined) | |
| == 2020-08-11 16:33:28,776 environment.py:97 INFO Environment variable EBVARMPIFC set to mpifort (previously undefined) | |
| == 2020-08-11 16:33:28,776 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable MPI_INC_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/include | |
| == 2020-08-11 16:33:28,776 environment.py:97 INFO Environment variable MPI_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/include (previously undefined) | |
| == 2020-08-11 16:33:28,776 environment.py:97 INFO Environment variable EBVARMPI_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/include (previously undefined) | |
| == 2020-08-11 16:33:28,777 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable MPI_LIB_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib | |
| == 2020-08-11 16:33:28,777 environment.py:97 INFO Environment variable MPI_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib (previously undefined) | |
| == 2020-08-11 16:33:28,777 environment.py:97 INFO Environment variable EBVARMPI_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib (previously undefined) | |
| == 2020-08-11 16:33:28,777 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable MPI_LIB_SHARED to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib/libmpi.so | |
| == 2020-08-11 16:33:28,777 environment.py:97 INFO Environment variable MPI_LIB_SHARED set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib/libmpi.so (previously undefined) | |
| == 2020-08-11 16:33:28,777 environment.py:97 INFO Environment variable EBVARMPI_LIB_SHARED set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/OpenMPI/3.1.4-GCC-8.3.0/lib/libmpi.so (previously undefined) | |
| == 2020-08-11 16:33:28,777 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable MPI_LIB_STATIC to | |
| == 2020-08-11 16:33:28,777 environment.py:97 INFO Environment variable MPI_LIB_STATIC set to (previously undefined) | |
| == 2020-08-11 16:33:28,777 environment.py:97 INFO Environment variable EBVARMPI_LIB_STATIC set to (previously undefined) | |
| == 2020-08-11 16:33:28,777 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable OMPI_CC to gcc | |
| == 2020-08-11 16:33:28,777 environment.py:97 INFO Environment variable OMPI_CC set to gcc (previously undefined) | |
| == 2020-08-11 16:33:28,777 environment.py:97 INFO Environment variable EBVAROMPI_CC set to gcc (previously undefined) | |
| == 2020-08-11 16:33:28,777 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable OMPI_CXX to g++ | |
| == 2020-08-11 16:33:28,777 environment.py:97 INFO Environment variable OMPI_CXX set to g++ (previously undefined) | |
| == 2020-08-11 16:33:28,777 environment.py:97 INFO Environment variable EBVAROMPI_CXX set to g++ (previously undefined) | |
| == 2020-08-11 16:33:28,777 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable OMPI_F77 to gfortran | |
| == 2020-08-11 16:33:28,777 environment.py:97 INFO Environment variable OMPI_F77 set to gfortran (previously undefined) | |
| == 2020-08-11 16:33:28,778 environment.py:97 INFO Environment variable EBVAROMPI_F77 set to gfortran (previously undefined) | |
| == 2020-08-11 16:33:28,778 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable OMPI_F90 to gfortran | |
| == 2020-08-11 16:33:28,778 environment.py:97 INFO Environment variable OMPI_F90 set to gfortran (previously undefined) | |
| == 2020-08-11 16:33:28,778 environment.py:97 INFO Environment variable EBVAROMPI_F90 set to gfortran (previously undefined) | |
| == 2020-08-11 16:33:28,778 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable OMPI_FC to gfortran | |
| == 2020-08-11 16:33:28,778 environment.py:97 INFO Environment variable OMPI_FC set to gfortran (previously undefined) | |
| == 2020-08-11 16:33:28,778 environment.py:97 INFO Environment variable EBVAROMPI_FC set to gfortran (previously undefined) | |
| == 2020-08-11 16:33:28,778 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable OPTFLAGS to -O2 -ftree-vectorize -march=native | |
| == 2020-08-11 16:33:28,778 environment.py:97 INFO Environment variable OPTFLAGS set to -O2 -ftree-vectorize -march=native (previously undefined) | |
| == 2020-08-11 16:33:28,778 environment.py:97 INFO Environment variable EBVAROPTFLAGS set to -O2 -ftree-vectorize -march=native (previously undefined) | |
| == 2020-08-11 16:33:28,778 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable PRECFLAGS to -fno-math-errno | |
| == 2020-08-11 16:33:28,778 environment.py:97 INFO Environment variable PRECFLAGS set to -fno-math-errno (previously undefined) | |
| == 2020-08-11 16:33:28,778 environment.py:97 INFO Environment variable EBVARPRECFLAGS set to -fno-math-errno (previously undefined) | |
| == 2020-08-11 16:33:28,778 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable SCALAPACK_INC_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/include | |
| == 2020-08-11 16:33:28,778 environment.py:97 INFO Environment variable SCALAPACK_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/include (previously undefined) | |
| == 2020-08-11 16:33:28,778 environment.py:97 INFO Environment variable EBVARSCALAPACK_INC_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/include (previously undefined) | |
| == 2020-08-11 16:33:28,778 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable SCALAPACK_LIB_DIR to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib | |
| == 2020-08-11 16:33:28,779 environment.py:97 INFO Environment variable SCALAPACK_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib (previously undefined) | |
| == 2020-08-11 16:33:28,779 environment.py:97 INFO Environment variable EBVARSCALAPACK_LIB_DIR set to /rds/bear-apps/devel/2019b/edmondac-eb-1/EL7/EL7-cascadelake/software/ScaLAPACK/2.0.2-gompi-2019b/lib (previously undefined) | |
| == 2020-08-11 16:33:28,779 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable SCALAPACK_MT_STATIC_LIBS to libscalapack.a,libopenblas.a,libgfortran.a,libpthread.a | |
| == 2020-08-11 16:33:28,779 environment.py:97 INFO Environment variable SCALAPACK_MT_STATIC_LIBS set to libscalapack.a,libopenblas.a,libgfortran.a,libpthread.a (previously undefined) | |
| == 2020-08-11 16:33:28,779 environment.py:97 INFO Environment variable EBVARSCALAPACK_MT_STATIC_LIBS set to libscalapack.a,libopenblas.a,libgfortran.a,libpthread.a (previously undefined) | |
| == 2020-08-11 16:33:28,779 toolchain.py:1019 DEBUG _setenv_variables: setting environment variable SCALAPACK_STATIC_LIBS to libscalapack.a,libopenblas.a,libgfortran.a | |
| == 2020-08-11 16:33:28,779 environment.py:97 INFO Environment variable SCALAPACK_STATIC_LIBS set to libscalapack.a,libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,779 environment.py:97 INFO Environment variable EBVARSCALAPACK_STATIC_LIBS set to libscalapack.a,libopenblas.a,libgfortran.a (previously undefined) | |
| == 2020-08-11 16:33:28,779 toolchain.py:381 DEBUG get_software_version software version 3.1.4 for OpenMPI was found in environment | |
| == 2020-08-11 16:33:28,779 easyblock.py:1554 INFO Using /dev/shm/build-edmondac-admin/edmondac-admin-1/NAMD/2.14/foss-2019b-mpi/NAMD_2.14_Source/ as start dir | |
| == 2020-08-11 16:33:28,779 easyblock.py:1557 DEBUG Changed to real build directory /dev/shm/build-edmondac-admin/edmondac-admin-1/NAMD/2.14/foss-2019b-mpi/NAMD_2.14_Source/ (start_dir) | |
| == 2020-08-11 16:33:28,779 easyblock.py:2960 DEBUG Not skipping configure step (skippable: True, skip: None, skipsteps: [], module_only: False, force: True | |
| == 2020-08-11 16:33:28,779 build_log.py:265 INFO configuring... | |
| == 2020-08-11 16:33:28,779 easyblock.py:2968 INFO Starting configure step | |
| == 2020-08-11 16:33:28,780 templates.py:163 DEBUG config: <easybuild.framework.easyconfig.easyconfig.EasyConfig object at 0x2b0b54daac88> | |
| == 2020-08-11 16:33:28,780 templates.py:190 DEBUG version found in easyconfig is 2.14 | |
| == 2020-08-11 16:33:28,780 templates.py:257 DEBUG name: bitbucket_account, config: %(namelower)s | |
| == 2020-08-11 16:33:28,780 templates.py:257 DEBUG name: github_account, config: %(namelower)s | |
| == 2020-08-11 16:33:28,780 templates.py:257 DEBUG name: name, config: NAMD | |
| == 2020-08-11 16:33:28,780 templates.py:257 DEBUG name: parallel, config: 8 | |
| == 2020-08-11 16:33:28,780 templates.py:257 DEBUG name: version, config: 2.14 | |
| == 2020-08-11 16:33:28,780 templates.py:257 DEBUG name: versionsuffix, config: -mpi | |
| == 2020-08-11 16:33:28,780 templates.py:257 DEBUG name: versionprefix, config: | |
| == 2020-08-11 16:33:28,780 mpi.py:119 INFO Using template MPI command 'mpirun -n %(nr_ranks)s %(cmd)s' for MPI family 'OpenMPI' | |
| == 2020-08-11 16:33:28,780 mpi.py:291 INFO Using MPI command template 'mpirun -n %(nr_ranks)s %(cmd)s' (params: {'nr_ranks': 1, 'cmd': 'xxx_command_xxx'}) | |
| == 2020-08-11 16:33:28,780 hooks.py:167 INFO Found pre_configure_hook hook | |
| == 2020-08-11 16:33:28,780 hooks.py:199 INFO Running 'pre_configure_hook' hook function (arguments: [<easybuild.easyblocks.namd.EB_NAMD object at 0x2b0b54daacc0>])... | |
| == 2020-08-11 16:33:28,780 easyblock.py:2974 INFO Running method configure_step part of step configure | |
| == 2020-08-11 16:33:28,781 namd.py:110 INFO Updated 'charm_arch': mpi-linux-x64_64 mpicxx | |
| == 2020-08-11 16:33:28,781 namd.py:112 INFO Completed NAMD target architecture: Linux-x86_64-g++ | |
| == 2020-08-11 16:33:28,781 namd.py:117 DEBUG Building Charm++ using cmd './build charm++ mpi-linux-x64_64 mpicxx --with-production --with-numa -j8 -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC -DMPICH_IGNORE_CXX_SEEK' in 'charm-6.10.2' | |
| == 2020-08-11 16:33:28,781 run.py:162 DEBUG run_cmd: Output of "./build charm++ mpi-linux-x64_64 mpicxx --with-production --with-numa -j8 -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC -DMPICH_IGNORE_CXX_SEEK" will be logged to /dev/shm/edmondac-admin/eb-2l97efxv/easybuild-run_cmd-sscbuzpc.log | |
| == 2020-08-11 16:33:28,781 run.py:203 DEBUG run_cmd: running cmd ./build charm++ mpi-linux-x64_64 mpicxx --with-production --with-numa -j8 -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC -DMPICH_IGNORE_CXX_SEEK (in /dev/shm/build-edmondac-admin/edmondac-admin-1/NAMD/2.14/foss-2019b-mpi/NAMD_2.14_Source/charm-6.10.2) | |
| == 2020-08-11 16:33:28,781 run.py:222 INFO running cmd: ./build charm++ mpi-linux-x64_64 mpicxx --with-production --with-numa -j8 -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC -DMPICH_IGNORE_CXX_SEEK | |
| == 2020-08-11 16:33:28,972 build_log.py:169 ERROR EasyBuild crashed with an error (at easybuild/base/exceptions.py:124 in __init__): cmd "./build charm++ mpi-linux-x64_64 mpicxx --with-production --with-numa -j8 -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC -DMPICH_IGNORE_CXX_SEEK" exited with exit code 1 and output: | |
| Error> option: x64_64 is not supported in this version! | |
| Supported compilers: clang craycc gcc icc iccstatic msvc pgcc xlc xlc64 | |
| Supported options: bigemulator bigsim common cuda flang gfortran gm gm2 ifort lam mpt nolb omp ooc papi pedantic perftools persistent pgf90 pthreads scyld smp syncft tsan | |
| (at easybuild/tools/run.py:533 in parse_cmd_output) | |
| == 2020-08-11 16:33:28,972 config.py:569 DEBUG software install path as specified by 'installpath' and 'subdir_software': /rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/software | |
| == 2020-08-11 16:33:28,972 filetools.py:1605 INFO Removing lock /rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/software/.locks/_rds_bear-apps_devel_2020a_edmondac-eb-1_EL7_EL7-cascadelake_software_NAMD_2.14-foss-2019b-mpi.lock... | |
| == 2020-08-11 16:33:28,973 filetools.py:330 INFO Path /rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/software/.locks/_rds_bear-apps_devel_2020a_edmondac-eb-1_EL7_EL7-cascadelake_software_NAMD_2.14-foss-2019b-mpi.lock successfully removed. | |
| == 2020-08-11 16:33:28,973 filetools.py:1609 INFO Lock removed: /rds/bear-apps/devel/2020a/edmondac-eb-1/EL7/EL7-cascadelake/software/.locks/_rds_bear-apps_devel_2020a_edmondac-eb-1_EL7_EL7-cascadelake_software_NAMD_2.14-foss-2019b-mpi.lock | |
| == 2020-08-11 16:33:28,973 easyblock.py:3238 WARNING build failed (first 300 chars): cmd "./build charm++ mpi-linux-x64_64 mpicxx --with-production --with-numa -j8 -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC -DMPICH_IGNORE_CXX_SEEK" exited with exit code 1 and output: | |
| Error> option: x64_64 is not supported in this version! | |
| Supported compilers: clang craycc gcc icc iccs | |
| == 2020-08-11 16:33:28,973 easyblock.py:295 INFO Closing log for application name NAMD version 2.14 |
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