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smoors/easybuild_test_report_easyconfigs_pr8982_20193624-UTC-13-36-45.md

Created September 24, 2019 13:36
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EasyBuild test report for easyconfigs PR #8982
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easybuild_test_report_easyconfigs_pr8982_20193624-UTC-13-36-45.md

Test report for easybuilders/easybuild-easyconfigs#8982

Test result

Build succeeded for 1 out of 1 (1 easyconfigs in this PR)

Overview of tested easyconfigs (in order)

  • SUCCESS R-bundle-Bioconductor-3.9-foss-2019a-R-3.6.0.eb

Time info

  • start: Tue, 24 Sep 2019 11:56:28 +0000 (UTC)
  • end: Tue, 24 Sep 2019 13:36:45 +0000 (UTC)

EasyBuild info

  • easybuild-framework version: 4.0.1.dev0-r2010d7ebb2923b66c042b300ee91bacfb3c9d499
  • easybuild-easyblocks version: 4.0.1.dev0-rc448773b39df740cb0ebe73e3dba9bdec5d2d435
  • command line:
eb --from-pr=8982 --github-user=smoors -dfr --test-report-env-filter=^SSH|USER|HOSTNAME|UID|.*COOKIE.* --upload-test-report -l --skip --force
  • full configuration (includes defaults):
--allow-loaded-modules='EasyBuild'
--backup-modules
--buildpath='/local/2430037.master01.hydra.brussel.vsc/tmp/smoors/build'
--check-ebroot-env-vars='warn'
--cleanup-builddir
--cleanup-easyconfigs
--cleanup-tmpdir
--color='auto'
--container-type='singularity'
--containerpath='/u/smoors/.local/easybuild/containers'
--debug
--default-opt-level='defaultopt'
--detect-loaded-modules='warn'
--disable-add-dummy-to-minimal-toolchains
--disable-add-system-to-minimal-toolchains
--disable-allow-modules-tool-mismatch
--disable-allow-use-as-root-and-accept-consequences
--disable-avail-cfgfile-constants
--disable-avail-easyconfig-constants
--disable-avail-easyconfig-licenses
--disable-avail-easyconfig-params
--disable-avail-easyconfig-templates
--disable-avail-hooks
--disable-avail-module-naming-schemes
--disable-avail-modules-tools
--disable-avail-repositories
--disable-check-conflicts
--disable-check-contrib
--disable-check-github
--disable-check-style
--disable-consider-archived-easyconfigs
--disable-container-build-image
--disable-containerize
--disable-debug-lmod
--disable-devel
--disable-dry-run
--disable-dry-run-short
--disable-dump-autopep8
--disable-dump-env-script
--disable-enforce-checksums
--disable-experimental
--disable-extended-dry-run
--disable-fetch
--disable-fix-deprecated-easyconfigs
--disable-group-writable-installdir
--disable-hidden
--disable-ignore-checksums
--disable-ignore-osdeps
--disable-info
--disable-install-github-token
--disable-install-latest-eb-release
--disable-job
--disable-last-log
--disable-list-toolchains
--disable-minimal-toolchains
--disable-missing-modules
--disable-module-depends-on
--disable-module-only
--disable-new-pr
--disable-package
--disable-pretend
--disable-preview-pr
--disable-quiet
--disable-read-only-installdir
--disable-rebuild
--disable-recursive-module-unload
--disable-regtest
--disable-rpath
--disable-sequential
--disable-set-default-module
--disable-set-gid-bit
--disable-show-config
--disable-show-default-configfiles
--disable-show-default-moduleclasses
--disable-show-full-config
--disable-show-system-info
--disable-skip-test-cases
--disable-sticky-bit
--disable-terse
--disable-trace
--disable-update-modules-tool-cache
--disable-use-existing-modules
--disable-verify-easyconfig-filenames
--extended-dry-run-ignore-errors
--fixed-installdir-naming-scheme
--force
--from-pr='8982'
--github-user='smoors'
--ignore-dirs='.git,.svn'
--include-easyblocks=''
--include-module-naming-schemes=''
--include-toolchains=''
--installpath='/tmp/smoors/ebinstall/8982'
--job-backend='GC3Pie'
--job-max-jobs='0'
--job-max-walltime='24'
--job-output-dir='/theia/scratch/work/smoors/hpc/easynew/test'
--job-polling-interval='30.0'
--lib64-fallback-sanity-check
--local-var-naming-check='warn'
--logfile-format='easybuild,easybuild-%(name)s-%(version)s-%(date)s.%(time)s.log'
--logtostdout
--map-toolchains
--max-fail-ratio-adjust-permissions='0.5'
--module-naming-scheme='EasyBuildMNS'
--module-syntax='Lua'
--moduleclasses='base,astro,bio,cae,chem,compiler,data,debugger,devel,geo,ide,lang,lib,math,mpi,numlib,perf,quantum,phys,system,toolchain,tools,vis'
--modules-tool-version-check
--modules-tool='Lmod'
--mpi-tests
--output-format='txt'
--package-naming-scheme='EasyBuildPNS'
--package-release='1'
--package-tool-options=''
--package-tool='fpm'
--package-type='rpm'
--packagepath='/u/smoors/.local/easybuild/packages'
--pr-target-account='easybuilders'
--pr-target-branch='develop'
--pr-target-repo='easybuild-easyconfigs'
--pre-create-installdir
--repository='FileRepository'
--repositorypath='/u/smoors/.local/easybuild/ebfiles_repo'
--robot-paths=''
--robot='/work/smoors/hpc/easybuild-dev/easybuild-easyconfigs/easybuild/easyconfigs'
--skip
--sourcepath='/work/smoors/sources:/apps/brussel/sources:/apps/gent/source'
--strict='warn'
--subdir-modules='modules'
--subdir-software='software'
--suffix-modules-path='all'
--test-report-env-filter='^SSH|USER|HOSTNAME|UID|.*COOKIE.*'
--upload-test-report
--use-ccache='False'
--use-f90cache='False'

System info

  • core count: 4
  • cpu model: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz
  • cpu speed: 2400.0
  • cpu vendor: Intel
  • gcc version: Using built-in specs.; COLLECT_GCC=gcc; COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-redhat-linux/4.8.5/lto-wrapper; Target: x86_64-redhat-linux; Configured with: ../configure --prefix=/usr --mandir=/usr/share/man --infodir=/usr/share/info --with-bugurl=http://bugzilla.redhat.com/bugzilla --enable-bootstrap --enable-shared --enable-threads=posix --enable-checking=release --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-gnu-unique-object --enable-linker-build-id --with-linker-hash-style=gnu --enable-languages=c,c++,objc,obj-c++,java,fortran,ada,go,lto --enable-plugin --enable-initfini-array --disable-libgcj --with-isl=/builddir/build/BUILD/gcc-4.8.5-20150702/obj-x86_64-redhat-linux/isl-install --with-cloog=/builddir/build/BUILD/gcc-4.8.5-20150702/obj-x86_64-redhat-linux/cloog-install --enable-gnu-indirect-function --with-tune=generic --with-arch_32=x86-64 --build=x86_64-redhat-linux; Thread model: posix; gcc version 4.8.5 20150623 (Red Hat 4.8.5-36) (GCC) ;
  • glibc version: 2.17
  • hostname: node373.hydra.os
  • os name: centos linux
  • os type: Linux
  • os version: 7.6.1810
  • platform name: x86_64-unknown-linux
  • python version: 2.7.5 (default, Jun 20 2019, 20:27:34) ; [GCC 4.8.5 20150623 (Red Hat 4.8.5-36)]
  • system gcc path: /usr/bin/gcc
  • system python path: /usr/bin/python
  • total memory: 191706

List of loaded modules

  • (none)

Environment

BACKUP_MODULEPATH = /apps/brussel/CO7/skylake/modules/2019b/all:/apps/brussel/CO7/skylake/modules/2019a/all:/apps/brussel/CO7/skylake/modules/2018b/all:/apps/brussel/CO7/skylake/modules/2018a/all:/apps/brussel/CO7/skylake/modules/2017b/all:/apps/brussel/CO7/skylake/modules/2017a/all:/apps/brussel/CO7/skylake/modules/2016b/all:/apps/brussel/CO7/skylake/modules/2016a/all:/apps/brussel/CO7/skylake/modules/2015b/all::/apps/brussel/commercial/vasp/module/:/apps/brussel/commercial/orca/modules/all/:/apps/brussel/commercial/adf/module/
BASH_FUNC_ml() = () {  eval $($LMOD_DIR/ml_cmd "$@")
}
BASH_FUNC_mlusedir() = () {  if [ $# -eq 0 ]; then
 echo "specify 1 or more directories in $VSC_SCRATCH/ebtest/ to be added to MODULEPATH";
 else
 if [ "$1" == "reset" ]; then
 export MODULEPATH=$BACKUP_MODULEPATH;
 else
 for i in $@;
 do
 extrapath=$VSC_SCRATCH/ebtest/$i/modules/all;
 if [ ! -d "$extrapath" ]; then
 echo "warning: $extrapath not present";
 fi;
 MODULEPATH=$extrapath:$MODULEPATH;
 done;
 export MODULEPATH;
 fi;
 fi;
 echo $MODULEPATH | tr ":" "\n"
}
BASH_FUNC_module() = () {  eval $($LMOD_CMD bash "$@") && eval $(${LMOD_SETTARG_CMD:-:} -s sh)
}
EASYBUILD_BUILDPATH = /local/2430037.master01.hydra.brussel.vsc/tmp/smoors/build
EASYBUILD_INSTALLPATH = /tmp/smoors/ebinstall/8982
EASYBUILD_SOURCEPATH = /work/smoors/sources:/apps/brussel/sources:/apps/gent/source
ENVIRONMENT = BATCH
FANCYLOGGER_IGNORE_MPI4PY = 1
GIT_PS1_SHOWDIRTYSTATE = 1
GREP_OPTIONS = --color=auto
HISTCONTROL = ignoredups
HISTFILESIZE = 100000
HISTSIZE = 100000
HOME = /u/smoors
LANG = C
LC_MONETARY = nl_BE.UTF-8
LC_NUMERIC = nl_BE.UTF-8
LC_TIME = nl_BE.UTF-8
LESSOPEN = ||/usr/bin/lesspipe.sh %s
LMOD_CMD = /usr/share/lmod/lmod/libexec/lmod
LMOD_DIR = /usr/share/lmod/lmod/libexec
LMOD_PKG = /usr/share/lmod/lmod
LMOD_ROOT = /usr/share/lmod
LMOD_SETTARG_FULL_SUPPORT = no
LMOD_SYSTEM_NAME = hydra-skylake
LMOD_VERSION = 8.1.14
LOGNAME = smoors
MAIL = /var/spool/mail/smoors
MODULEPATH = /apps/brussel/CO7/skylake/modules/2019b/all:/apps/brussel/CO7/skylake/modules/2019a/all:/apps/brussel/CO7/skylake/modules/2018b/all:/apps/brussel/CO7/skylake/modules/2018a/all:/apps/brussel/CO7/skylake/modules/2017b/all:/apps/brussel/CO7/skylake/modules/2017a/all:/apps/brussel/CO7/skylake/modules/2016b/all:/apps/brussel/CO7/skylake/modules/2016a/all:/apps/brussel/CO7/skylake/modules/2015b/all::/apps/brussel/commercial/vasp/module/:/apps/brussel/commercial/orca/modules/all/:/apps/brussel/commercial/adf/module/
MODULESHOME = /usr/share/lmod/lmod
NCIPLOT_HOME = /u/smoors/progs/NCIPLOT
PATH = /u/smoors/software/pax-utils/bin:/work/smoors/hpc/easybuild-dev/easybuild-framework:/usr/bin:/usr/sbin:/u/smoors/software/pax-utils/bin:/work/smoors/hpc/easybuild-dev/easybuild-framework:/usr/bin:/usr/sbin:/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/opt/ibutils/bin:/u/smoors/progs:/u/smoors/.local/bin:/u/smoors/software/openbabel-2.4.1/bin:/u/smoors/progs:/u/smoors/.local/bin:/u/smoors/software/openbabel-2.4.1/bin
PBS_ENVIRONMENT = PBS_BATCH
PBS_GPUFILE = /var/spool/torque/aux//2430037.master01.hydra.brussel.vscgpu
PBS_JOBID = 2430037.master01.hydra.brussel.vsc
PBS_JOBNAME = 8982
PBS_MICFILE = /var/spool/torque/aux//2430037.master01.hydra.brussel.vscmic
PBS_MOMPORT = 15003
PBS_NODEFILE = /var/spool/torque/aux//2430037.master01.hydra.brussel.vsc
PBS_NODENUM = 0
PBS_NP = 4
PBS_NUM_NODES = 1
PBS_NUM_PPN = 4
PBS_O_HOME = /u/smoors
PBS_O_HOST = login2.cerberus.brussel.vsc
PBS_O_LANG = en_US.UTF-8
PBS_O_LOGNAME = smoors
PBS_O_MAIL = /var/spool/mail/smoors
PBS_O_PATH = /u/smoors/software/pax-utils/bin:/work/smoors/hpc/easybuild-dev/easybuild-framework:/usr/bin:/usr/sbin:/u/smoors/software/pax-utils/bin:/work/smoors/hpc/easybuild-dev/easybuild-framework:/usr/bin:/usr/sbin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/opt/ibutils/bin:/u/smoors/progs:/u/smoors/.local/bin:/u/smoors/software/openbabel-2.4.1/bin:/u/smoors/progs:/u/smoors/.local/bin:/u/smoors/software/openbabel-2.4.1/bin
PBS_O_QUEUE = submission
PBS_O_SERVER = master01.hydra.brussel.vsc
PBS_O_SHELL = /bin/bash
PBS_O_SUBMIT_FILTER = /usr/bin/submitfilter_brussel
PBS_O_WORKDIR = /theia/scratch/work/smoors/hpc/easynew/test
PBS_QUEUE = smp
PBS_TASKNUM = 1
PBS_VERSION = TORQUE-6.1.3
PBS_VNODENUM = 0
PBS_WALLTIME = 86400
PWD = /theia/scratch/work/smoors/hpc/easynew/test
PYTHONOPTIMIZE = 1
PYTHONPATH = /work/smoors/hpc/easybuild-dev/easybuild-framework:/work/smoors/hpc/easybuild-dev/easybuild-easyblocks:/work/smoors/hpc/easybuild-dev/easybuild-easyconfigs:/u/smoors/lib/python:/work/smoors/hpc/sisc-scripts:/work/smoors/hpc/easybuild-dev/easybuild-framework:/work/smoors/hpc/easybuild-dev/easybuild-easyblocks:/work/smoors/hpc/easybuild-dev/easybuild-easyconfigs:/u/smoors/lib/python:/work/smoors/hpc/sisc-scripts::/u/smoors/lib/python2.7/site-packages:/u/smoors/lib/python2.7/site-packages
QT_GRAPHICSSYSTEM_CHECKED = 1
SHELL = /bin/bash
SHLVL = 3
TMPDIR = /local/2430037.master01.hydra.brussel.vsc
VSC_ARCH_LOCAL = skylake
VSC_ARCH_SUFFIX = 
VSC_HOME = /u/smoors
VSC_INSTITUTE_CLUSTER = hydra
VSC_OS_LOCAL = CO7
VSC_SCRATCH = /work/smoors
WORKDIR = /work/smoors
_ = /usr/bin/python
myvar = qsdf
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