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Flamefire/easybuild_test_report_13852_easybuilders_preasybuild-easyconfigs_20212422-UTC-03-24-28.md

Created September 22, 2021 03:24
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EasyBuild test report for easybuilders/easybuild-easyconfigs PR(s) #13852
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easybuild_test_report_13852_easybuilders_preasybuild-easyconfigs_20212422-UTC-03-24-28.md

Test report for PR(s) easybuilders/easybuild-easyconfigs#13852

Test result

Build succeeded for 65 out of 65 (1 easyconfigs in total)

Overview of tested easyconfigs (in order)

  • SUCCESS Biopython-1.78-foss-2020b.eb
  • SUCCESS Pysam-0.16.0.1-GCC-10.2.0.eb
  • SUCCESS BWA-0.7.17-GCC-10.2.0.eb
  • SUCCESS minimap2-2.18-GCCcore-10.2.0.eb
  • SUCCESS SAMtools-1.11-GCC-10.2.0.eb
  • SUCCESS MUSCLE-3.8.31-GCCcore-10.2.0.eb
  • SUCCESS MAFFT-7.475-gompi-2020b-with-extensions.eb
  • SUCCESS libxslt-1.1.34-GCCcore-10.2.0.eb
  • SUCCESS lxml-4.6.2-GCCcore-10.2.0.eb
  • SUCCESS Eigen-3.3.9-GCCcore-10.2.0.eb
  • SUCCESS LSD2-2.2-GCCcore-10.2.0.eb
  • SUCCESS re2c-2.0.3-GCCcore-10.2.0.eb
  • SUCCESS IQ-TREE-2.1.2-gompi-2020b.eb
  • SUCCESS GitPython-3.1.14-GCCcore-10.2.0.eb
  • SUCCESS GLib-2.66.1-GCCcore-10.2.0.eb
  • SUCCESS Rust-1.52.1-GCCcore-10.2.0.eb
  • SUCCESS libyaml-0.2.5-GCCcore-10.2.0.eb
  • SUCCESS PyYAML-5.3.1-GCCcore-10.2.0.eb
  • SUCCESS PCRE2-10.35-GCCcore-10.2.0.eb
  • SUCCESS HTSlib-1.11-GCC-10.2.0.eb
  • SUCCESS PhyML-3.3.20200621-foss-2020b.eb
  • SUCCESS DBus-1.13.18-GCCcore-10.2.0.eb
  • SUCCESS Racon-1.4.21-GCCcore-10.2.0.eb
  • SUCCESS parasail-2.4.3-GCC-10.2.0.eb
  • SUCCESS Z3-4.8.10-GCCcore-10.2.0.eb
  • SUCCESS python-parasail-1.2.4-foss-2020b.eb
  • SUCCESS Clang-11.0.1-GCCcore-10.2.0.eb
  • SUCCESS Longshot-0.4.3-GCCcore-10.2.0.eb
  • SUCCESS spoa-4.0.7-GCC-10.2.0.eb
  • SUCCESS OpenPGM-5.2.122-GCCcore-10.2.0.eb
  • SUCCESS networkx-2.5-foss-2020b.eb
  • SUCCESS libsodium-1.0.18-GCCcore-10.2.0.eb
  • SUCCESS Go-1.14.eb
  • SUCCESS ZeroMQ-4.3.3-GCCcore-10.2.0.eb
  • SUCCESS goalign-0.3.2.eb
  • SUCCESS gotree-0.4.0.eb
  • SUCCESS IPython-7.18.1-GCCcore-10.2.0.eb
  • SUCCESS snakemake-6.1.0-foss-2020b.eb
  • SUCCESS rampart-1.2.0-foss-2020b.eb
  • SUCCESS JasPer-2.0.24-GCCcore-10.2.0.eb
  • SUCCESS edlib-1.3.9-GCC-10.2.0.eb
  • SUCCESS NSPR-4.29-GCCcore-10.2.0.eb
  • SUCCESS Mako-1.1.3-GCCcore-10.2.0.eb
  • SUCCESS NSS-3.57-GCCcore-10.2.0.eb
  • SUCCESS libdeflate-1.7-GCCcore-10.2.0.eb
  • SUCCESS pyspoa-0.0.8-GCC-10.2.0.eb
  • SUCCESS pyfaidx-0.5.9.5-GCCcore-10.2.0.eb
  • SUCCESS libdrm-2.4.102-GCCcore-10.2.0.eb
  • SUCCESS gzip-1.10-GCCcore-10.2.0.eb
  • SUCCESS medaka-1.4.3-foss-2020b.eb
  • SUCCESS seqtk-1.3-GCC-10.2.0.eb
  • SUCCESS libglvnd-1.3.2-GCCcore-10.2.0.eb
  • SUCCESS lz4-1.9.2-GCCcore-10.2.0.eb
  • SUCCESS zstd-1.4.5-GCCcore-10.2.0.eb
  • SUCCESS VBZ-Compression-1.0.1-gompi-2020b.eb
  • SUCCESS nanopolish-0.13.3-foss-2020b.eb
  • SUCCESS LLVM-11.0.0-GCCcore-10.2.0.eb
  • SUCCESS Mesa-20.2.1-GCCcore-10.2.0.eb
  • SUCCESS libGLU-9.0.1-GCCcore-10.2.0.eb
  • SUCCESS Qt5-5.14.2-GCCcore-10.2.0.eb
  • SUCCESS PyQt5-5.15.1-GCCcore-10.2.0.eb
  • SUCCESS ETE-3.1.2-foss-2020b.eb
  • SUCCESS GSL-2.6-GCC-10.2.0.eb
  • SUCCESS BCFtools-1.11-GCC-10.2.0.eb
  • SUCCESS artic-ncov2019-2021.06.24-foss-2020b.eb

Time info

  • start: Tue, 21 Sep 2021 15:07:16 +0000 (UTC)
  • end: Wed, 22 Sep 2021 03:24:28 +0000 (UTC)

EasyBuild info

  • easybuild-framework version: 4.4.3.dev0-r29d7d258e9afd5b2ad968bc2bfa7d1036b53f17a
  • easybuild-easyblocks version: 4.4.3.dev0-r248c3c6d78bbbc6d5cc418d08d1cdaf50ae52f93
  • command line:
eb --from-pr 13852 --installpath=/tmp --rebuild --upload-test-report -r
  • full configuration (includes defaults):
--accept-eula-for='Intel-oneAPI'
--accept-eula=''
--allow-loaded-modules='EasyBuild,EasyBuild-devel,ccache'
--buildpath='/tmp/s3248973-EasyBuild'
--check-ebroot-env-vars='warn'
--cleanup-builddir
--cleanup-easyconfigs
--cleanup-tmpdir
--color='auto'
--container-type='singularity'
--containerpath='/home/s3248973/.local/easybuild/containers'
--default-opt-level='opt'
--detect-loaded-modules='unload'
--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-eb-deps
--disable-check-github
--disable-check-style
--disable-consider-archived-easyconfigs
--disable-container-build-image
--disable-containerize
--disable-copy-ec
--disable-debug
--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-force
--disable-group-writable-installdir
--disable-hidden
--disable-ignore-checksums
--disable-ignore-index
--disable-ignore-locks
--disable-ignore-osdeps
--disable-ignore-test-failure
--disable-info
--disable-install-github-token
--disable-install-latest-eb-release
--disable-job
--disable-last-log
--disable-list-toolchains
--disable-logtostdout
--disable-minimal-toolchains
--disable-missing-modules
--disable-module-only
--disable-new-branch-github
--disable-new-pr
--disable-package
--disable-pretend
--disable-preview-pr
--disable-quiet
--disable-recursive-module-unload
--disable-regtest
--disable-remove-ghost-install-dirs
--disable-rpath
--disable-sanity-check-only
--disable-sequential
--disable-set-default-module
--disable-set-gid-bit
--disable-show-config
--disable-show-default-configfiles
--disable-show-default-moduleclasses
--disable-show-ec
--disable-show-full-config
--disable-show-system-info
--disable-skip
--disable-skip-extensions
--disable-skip-test-cases
--disable-skip-test-step
--disable-sticky-bit
--disable-terse
--disable-trace
--disable-try-ignore-versionsuffixes
--disable-try-update-deps
--disable-use-existing-modules
--disable-verify-easyconfig-filenames
--env-for-shebang='/usr/bin/env'
--envvars-user-modules='HOME'
--extended-dry-run-ignore-errors
--fixed-installdir-naming-scheme
--from-pr='13852'
--generate-devel-module
--git-working-dirs-path='/home/s3248973/.local/EasyBuildDev'
--github-user='Flamefire'
--hooks='/home/s3248973/.local/EasyBuildDev/hooks.py'
--ignore-dirs='.git,.svn'
--include-easyblocks-from-pr=''
--include-easyblocks=''
--include-module-naming-schemes=''
--include-toolchains=''
--index-max-age='604800'
--installpath='/tmp'
--job-backend='GC3Pie'
--job-cores='4'
--job-max-jobs='0'
--job-max-walltime='24'
--job-output-dir='/home/h3/s3248973'
--job-polling-interval='30.0'
--job-target-resource='local'
--lib-lib64-symlink
--lib64-fallback-sanity-check
--lib64-lib-symlink
--local-var-naming-check='warn'
--logfile-format='easybuild,easybuild-%(name)s-%(version)s-%(date)s.%(time)s.log'
--map-toolchains
--max-fail-ratio-adjust-permissions='0.5'
--minimal-build-env='CC:gcc,CXX:g++'
--module-depends-on
--module-extensions
--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='/home/s3248973/.local/easybuild/packages'
--pr-target-account='easybuilders'
--pr-target-branch='develop'
--pre-create-installdir
--read-only-installdir
--rebuild
--repository='FileRepository'
--repositorypath='/home/s3248973/.local/easybuild/ebfiles_repo'
--robot-paths='/home/s3248973/git/easybuild-easyconfigs/easybuild/easyconfigs'
--robot='/home/s3248973/git/easybuild-easyconfigs/easybuild/easyconfigs'
--show-progress-bar
--sourcepath='/scratch/ws/1/s3248973-EasyBuild/sources:/sw/taurus/sources'
--strict='warn'
--subdir-modules='modules'
--subdir-software='software'
--suffix-modules-path='all'
--tmp-logdir='/tmp/easybuild-tmplog'
--tmpdir='/tmp/easybuild-tmp'
--update-modules-tool-cache
--upload-test-report
--use-ccache='False'
--use-f90cache='False'
--wait-on-lock-interval='60'
--wait-on-lock-limit='3600'

System info

  • core count: 12
  • cpu arch: x86_64
  • cpu arch name: broadwell
  • cpu model: Intel(R) Xeon(R) CPU E5-2603 v4 @ 1.70GHz
  • cpu speed: 1700.0
  • 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 4.8.5-44) (GCC) ;
  • glibc version: 2.17
  • hostname: taurusa4
  • os name: centos linux
  • os type: Linux
  • os version: 7.7.1908
  • platform name: x86_64-unknown-linux
  • python version: 2.7.5 (default, Aug 7 2019, 00:51:29) ; [GCC 4.8.5 20150623 (Red Hat 4.8.5-39)]
  • system gcc path: /usr/bin/gcc
  • system python path: /usr/bin/python
  • total memory: 96408

List of loaded modules

  • modenv/scs5
  • EasyBuild-develop

Environment

BASH_FUNC_ml() = () {  eval $($LMOD_DIR/ml_cmd "$@")
}
BASH_FUNC_module() = () {  eval $($LMOD_CMD bash "$@") && eval $(${LMOD_SETTARG_CMD:-:} -s sh)
}
CUDA_VISIBLE_DEVICES = 0,1,2
DISPLAY = localhost:14.0
EASYBUILD_BUILDPATH = /tmp/s3248973-EasyBuild
EASYBUILD_INSTALLPATH = /scratch/ws/1/s3248973-EasyBuild/easybuild-haswell
EASYBUILD_ROBOT_PATHS = /home/s3248973/git/easybuild-easyconfigs/easybuild/easyconfigs
EASYBUILD_SOURCEPATH = /scratch/ws/1/s3248973-EasyBuild/sources:/sw/taurus/sources
EASYBUILD_SUBDIR_MODULES = modules
EB_SCRIPT_PATH = /home/s3248973/.local/EasyBuildDev/easybuild-framework/eb
ENVIRONMENT = BATCH
FANCYLOGGER_IGNORE_MPI4PY = 1
FPATH = /usr/share/lmod/lmod/init/ksh_funcs
GPU_DEVICE_ORDINAL = 0,1,2
GUESTFISH_INIT = \e[1;34m
GUESTFISH_OUTPUT = \e[0m
GUESTFISH_PS1 = \[\e[1;32m\]><fs>\[\e[0;31m\] 
GUESTFISH_RESTORE = \e[0m
HISTCONTROL = ignoredups
HISTSIZE = 10000
HOME = /home/s3248973
HOSTNAME = taurusa4
KDEDIRS = /usr
KMP_AFFINITY = granularity=fine,scatter
LANG = de_DE.UTF-8
LC_ALL = C
LESSOPEN = ||/usr/bin/lesspipe.sh %s
LMOD_ANCIENT = 86400
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_SHORTTIME = 86400
LMOD_SHORT_TIME = 2
LMOD_SYSTEM_DEFAULT_MODULES = modenv/scs5
LMOD_VERSION = 8.4.16
LOADEDMODULES = modenv/scs5:EasyBuild-develop
LOGNAME = s3248973
LS_COLORS = rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.axv=01;35:*.anx=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.axa=00;36:*.oga=00;36:*.spx=00;36:*.xspf=00;36:
MAIL = /var/spool/mail/s3248973
MANPATH = /usr/share/man:/opt/slurm/current/share/man:/opt/puppetlabs/puppet/share/man
MODULEPATH = /home/s3248973/.local/EasyBuildDev/modules:/scratch/ws/1/s3248973-EasyBuild/easybuild-haswell/modules/all:/sw/modules/scs5/classic:/sw/modules/scs5/vis:/sw/modules/scs5/tools:/sw/modules/scs5/toolchain:/sw/modules/scs5/system:/sw/modules/scs5/phys:/sw/modules/scs5/perf:/sw/modules/scs5/numlib:/sw/modules/scs5/mpi:/sw/modules/scs5/math:/sw/modules/scs5/lib:/sw/modules/scs5/lang:/sw/modules/scs5/geo:/sw/modules/scs5/devel:/sw/modules/scs5/debugger:/sw/modules/scs5/data:/sw/modules/scs5/compiler:/sw/modules/scs5/chem:/sw/modules/scs5/cae:/sw/modules/scs5/bio:/sw/modules/scs5/base:/sw/modules/taurus/environment
MODULESHOME = /usr/share/lmod/lmod
PATH = /home/s3248973/.local/EasyBuildDev/easybuild-framework:/home/s3248973/.local/bin:/sw/taurus/tools/slurmtools/default/bin:/usr/lib64/qt-3.3/bin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/opt/ibutils/bin:/opt/puppetlabs/bin
PROFILEREAD = true
PWD = /home/s3248973
PYTHONOPTIMIZE = 1
PYTHONPATH = /home/s3248973/.local/EasyBuildDev/easybuild-easyconfigs:/home/s3248973/.local/EasyBuildDev/easybuild-easyblocks:/home/s3248973/.local/EasyBuildDev/easybuild-framework
PYTHONUNBUFFERED = 1
QTDIR = /usr/lib64/qt-3.3
QTINC = /usr/lib64/qt-3.3/include
QTLIB = /usr/lib64/qt-3.3/lib
QT_GRAPHICSSYSTEM_CHECKED = 1
QT_PLUGIN_PATH = /usr/lib64/kde4/plugins:/usr/lib/kde4/plugins
ROCR_VISIBLE_DEVICES = 0,1,2
SALLOC_ACCOUNT = zihforschung
SCRATCH = /scratch/s3248973
SHELL = /bin/bash
SHLVL = 5
SLURMD_NODENAME = taurusa4
SSH_CLIENT = 141.30.56.199 35828 2222
SSH_CONNECTION = 141.30.56.199 35828 141.30.73.103 2222
SSH_TTY = /dev/pts/19
TERM = xterm-256color
TF_CPP_MIN_LOG_LEVEL = 2
TMPDIR = /tmp
TZ = Europe/Berlin
USER = s3248973
XDG_DATA_DIRS = /home/s3248973/.local/share/flatpak/exports/share:/var/lib/flatpak/exports/share:/usr/local/share:/usr/share
XDG_RUNTIME_DIR = /run/user/1003983
XDG_SESSION_ID = c32594
_ = /usr/bin/python
_LMFILES_ = /sw/modules/taurus/environment/modenv/scs5.lua:/home/s3248973/.local/EasyBuildDev/modules/EasyBuild-develop
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