Created
December 21, 2021 18:56
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Logfiles for GitLab pipeline https://bbpgitlab.epfl.ch/hpc/coreneuron/-/pipelines/30188 (:no_entry:) running on GitHub PR BlueBrain/CoreNeuron#699.
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640104984:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640104984:resolve_secrets [0Ksection_start:1640104984:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor685074744, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113210 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113210 | |
| A slurm job will be created with name GL_J113210_PROD_P112_CP16_C23 | |
| Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142017 | |
| job state: R | |
| section_end:1640104986:prepare_executor [0Ksection_start:1640104986:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i6n19 via bbpv1.epfl.ch... | |
| section_end:1640104991:prepare_script [0Ksection_start:1640104991:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640104992:get_sources [0Ksection_start:1640104992:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for coreneuron-nvhpc-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=20273 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1640105224:restore_cache [0Ksection_start:1640105224:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for spack_setup (113204)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=26250 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113204 responseStatus[0;m=200 OK token[0;m=tiEN87np | |
| section_end:1640105225:download_artifacts [0Ksection_start:1640105225:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ SPACK_CONFIG=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_CONFIG}[0;m | |
| [32;1m$ cat > ${SPACK_CONFIG}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113210/_/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113210/_/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113210/_/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Directory in which to run tests and store test results. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Tests will be stored in directories named by date/time and package | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113210/_/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113210/_/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:40 # Locations where different types of modules should be installed. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ if [ "${SPACK_EXPORT_SPECS}" ]; then[0;m | |
| [32;1m$ export XDG_CONFIG_HOME=${PWD}/local_config[0;m | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ REF_OVERRIDE_NAME=SPACK_PACKAGE_REF_${SPACK_PACKAGE}[0;m | |
| [32;1m$ PACKAGE_REF=${!REF_OVERRIDE_NAME:-$SPACK_PACKAGE_REF}[0;m | |
| [32;1m$ SPACK_PACKAGE_FILE="$(spack location -p ${SPACK_PACKAGE})/package.py"[0;m | |
| [32;1m$ if [ "${PACKAGE_REF}" ]; then[0;m | |
| [32;1m$ echo New ref for ${SPACK_PACKAGE} is ${PACKAGE_REF}[0;m | |
| New ref for coreneuron is commit="7295f4a667503ec4677262632bb0636f48812336" | |
| [32;1m$ sed -i -e "/^\s*version\s*(\s*\(['\"]\)develop\1/ { s/,\s*\(commit\|tag\|branch\)=\([\"']\)[^\"']\+\2//g; s#)#, ${PACKAGE_REF})#; }" "${SPACK_PACKAGE_FILE}"[0;m | |
| [32;1m$ (cd $(dirname "${SPACK_PACKAGE_FILE}") && git diff "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/coreneuron/package.py b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| index d2ab4ef..ca44375 100644 | |
| --- a/var/spack/repos/builtin/packages/coreneuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| @@ -18,7 +18,7 @@ class Coreneuron(CMakePackage): | |
| url = "https://github.com/BlueBrain/CoreNeuron" | |
| git = "https://github.com/BlueBrain/CoreNeuron" | |
| - version('develop', branch='master') | |
| + version('develop', commit="7295f4a667503ec4677262632bb0636f48812336") | |
| # 1.0.1 > 1.0.0.20210519 > 1.0 as far as Spack is concerned | |
| version('1.0.0.20211020', commit='e265f9d') | |
| version('1.0.0.20211012', commit='846b3a6') | |
| [32;1m$ fi[0;m | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}@develop${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER}${SPACK_PACKAGE_SPEC}${SPACK_PACKAGE_DEPENDENCIES:+ }${SPACK_PACKAGE_DEPENDENCIES}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install coreneuron@develop%nvhpc+gpu+tests~legacy-unit~report build_type=RelWithDebInfo | |
| [32;1m$ JSON_SPEC=$(spack --config-scope ${SPACK_CONFIG} spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][0][\"${SPACK_PACKAGE}\"][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be 7r3a4d2rmvk5oeb6vt52s4zg2hppmnjp | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113210/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113210/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 17:52:28 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.32 / 0.51 (61.57 %) | |
| Files: 7809 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: '7r3a4d2rmvk5oeb6vt52s4zg2hppmnjp' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - coreneuron@develop%nvhpc+gpu~legacy-unit~report+tests build_type=RelWithDebInfo | |
| Concretized | |
| -------------------------------- | |
| - 7r3a4d2 coreneuron@develop%nvhpc@21.11~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi~nmodl~openmp~profile~report+shared~sympy~sympyopt+tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - ilh3i6h ^bison@3.6.4%nvhpc@21.11 patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| [^] ugnnauj ^boost@1.73.0%nvhpc@21.11+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 patches=246508e052c44b6f4e8c2542a71c06cacaa72cd1447ab8d2a542b987bc35ace9,4dd507e1f5a29e3b87b15321a4d8c74afdc8331433edabf7aeab89b3c405d556,d56f31f2a3956630e5372b987d39cb79b5d2c71760fa150b8eb4a3f1a07e2658 visibility=hidden arch=linux-rhel7-x86_64 | |
| - 3id4xmv ^cmake@3.15.7%nvhpc@21.11~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [^] rtdgzju ^cuda@11.5.1%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| - o7642tm ^flex@2.6.4%nvhpc@21.11+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] rvmqyas ^hpe-mpi@2.25.hmpt%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| - 6yf3e2o ^ninja@1.10.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] boepiq7 ^python@3.8.3%nvhpc@21.11+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} --config-scope ${SPACK_CONFIG} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC}[0;m | |
| ==> bison@3.6.4 : has external module in ['bison/3.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bison-3.6.4-sqrqli (external bison-3.6.4-ilh3i6hsazuqblyjs46wno4wkyhcaycx) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/boost-1.73.0-n5sq7k (external boost-1.73.0-ugnnaujozxx7u35zmkozzxs42p6ujetq) | |
| ==> cmake@3.15.7 : has external module in ['cmake/3.15.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cmake-3.15.7-4373ty (external cmake-3.15.7-3id4xmvyepn3luv5kvzabnojgl4kjbvv) | |
| ==> cuda@11.5.1 : has external module in ['cuda/11.5.1'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cuda-11.5.1-gygt6u (external cuda-11.5.1-rtdgzjuarsbhlad5e2q6z6hb35poq3ba) | |
| ==> flex@2.6.4 : has external module in ['flex/2.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/flex-2.6.4-kpj7of (external flex-2.6.4-o7642tm7j36qtzmyzthrmdbfctyfsdnn) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.25.hmpt-l6dob7 (external hpe-mpi-2.25.hmpt-rvmqyashdppnfjw5xoegvqeeaassuana) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ninja-1.10.2-7mzwmh (external ninja-1.10.2-6yf3e2oymeefngifdautp2wd347lcijn) | |
| ==> python@3.8.3 : has external module in ['python/3.8.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/python-3.8.3-suxrst (external python-3.8.3-boepiq7qwlm3d6e5almdw67q65o5quqn) | |
| ==> Installing coreneuron-develop-7r3a4d2rmvk5oeb6vt52s4zg2hppmnjp | |
| ==> No binary for coreneuron-develop-7r3a4d2rmvk5oeb6vt52s4zg2hppmnjp found: installing from source | |
| ==> coreneuron: Executing phase: 'cmake' | |
| ==> coreneuron: Executing phase: 'build' | |
| ==> coreneuron: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.11/coreneuron-develop-7r3a4d | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113210/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113210/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 18:06:06 2021 | |
| Hits: 114 / 117 (97.44 %) | |
| Direct: 98 / 117 (83.76 %) | |
| Preprocessed: 16 / 19 (84.21 %) | |
| Misses: 3 | |
| Direct: 19 | |
| Preprocessed: 3 | |
| Uncacheable: 18 | |
| Primary storage: | |
| Hits: 227 / 234 (97.01 %) | |
| Misses: 7 | |
| Cache size (GB): 0.32 / 0.51 (61.58 %) | |
| Files: 7815 | |
| Uncacheable: | |
| Called for linking: 15 | |
| No input file: 3 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.1.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ echo "Returning the number of failed builds, ${num_failures}"[0;m | |
| Returning the number of failed builds, 0 | |
| [32;1m$ exit ${num_failures}[0;m | |
| section_end:1640106371:step_script [0Ksection_start:1640106371:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache coreneuron-nvhpc-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=56287 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 8376 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/coreneuron-nvhpc-6[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1640106435:archive_cache [0Ksection_start:1640106435:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=58623 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=113210 responseStatus[0;m=201 Created token[0;m=EsNxt9Y_ | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=58666 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=113210 responseStatus[0;m=201 Created token[0;m=EsNxt9Y_ | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=58698 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=113210 responseStatus[0;m=201 Created token[0;m=EsNxt9Y_ | |
| section_end:1640106437:upload_artifacts_on_success [0Ksection_start:1640106437:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1640106437:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640104984:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640104984:resolve_secrets [0Ksection_start:1640104984:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor264441750, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113208 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113208 | |
| A slurm job will be created with name GL_J113208_PROD_P112_CP15_C22 | |
| Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142016 | |
| job state: R | |
| section_end:1640104985:prepare_executor [0Ksection_start:1640104985:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i6n19 via bbpv1.epfl.ch... | |
| section_end:1640104991:prepare_script [0Ksection_start:1640104991:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640104991:get_sources [0Ksection_start:1640104991:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for coreneuron-intel-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=20242 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1640105158:restore_cache [0Ksection_start:1640105158:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for spack_setup (113204)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=24758 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113204 responseStatus[0;m=200 OK token[0;m=tiEN87np | |
| section_end:1640105159:download_artifacts [0Ksection_start:1640105159:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ SPACK_CONFIG=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_CONFIG}[0;m | |
| [32;1m$ cat > ${SPACK_CONFIG}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113208/_/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113208/_/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113208/_/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Directory in which to run tests and store test results. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Tests will be stored in directories named by date/time and package | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113208/_/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113208/_/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:40 # Locations where different types of modules should be installed. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ if [ "${SPACK_EXPORT_SPECS}" ]; then[0;m | |
| [32;1m$ export XDG_CONFIG_HOME=${PWD}/local_config[0;m | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ REF_OVERRIDE_NAME=SPACK_PACKAGE_REF_${SPACK_PACKAGE}[0;m | |
| [32;1m$ PACKAGE_REF=${!REF_OVERRIDE_NAME:-$SPACK_PACKAGE_REF}[0;m | |
| [32;1m$ SPACK_PACKAGE_FILE="$(spack location -p ${SPACK_PACKAGE})/package.py"[0;m | |
| [32;1m$ if [ "${PACKAGE_REF}" ]; then[0;m | |
| [32;1m$ echo New ref for ${SPACK_PACKAGE} is ${PACKAGE_REF}[0;m | |
| New ref for coreneuron is commit="7295f4a667503ec4677262632bb0636f48812336" | |
| [32;1m$ sed -i -e "/^\s*version\s*(\s*\(['\"]\)develop\1/ { s/,\s*\(commit\|tag\|branch\)=\([\"']\)[^\"']\+\2//g; s#)#, ${PACKAGE_REF})#; }" "${SPACK_PACKAGE_FILE}"[0;m | |
| [32;1m$ (cd $(dirname "${SPACK_PACKAGE_FILE}") && git diff "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/coreneuron/package.py b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| index d2ab4ef..ca44375 100644 | |
| --- a/var/spack/repos/builtin/packages/coreneuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| @@ -18,7 +18,7 @@ class Coreneuron(CMakePackage): | |
| url = "https://github.com/BlueBrain/CoreNeuron" | |
| git = "https://github.com/BlueBrain/CoreNeuron" | |
| - version('develop', branch='master') | |
| + version('develop', commit="7295f4a667503ec4677262632bb0636f48812336") | |
| # 1.0.1 > 1.0.0.20210519 > 1.0 as far as Spack is concerned | |
| version('1.0.0.20211020', commit='e265f9d') | |
| version('1.0.0.20211012', commit='846b3a6') | |
| [32;1m$ fi[0;m | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}@develop${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER}${SPACK_PACKAGE_SPEC}${SPACK_PACKAGE_DEPENDENCIES:+ }${SPACK_PACKAGE_DEPENDENCIES}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install coreneuron@develop%intel+tests~legacy-unit build_type=Debug | |
| [32;1m$ JSON_SPEC=$(spack --config-scope ${SPACK_CONFIG} spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][0][\"${SPACK_PACKAGE}\"][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be aevgkbdozl3htdtjhrd5w65n3c6mb2jh | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113208/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113208/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 17:52:33 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.31 / 0.51 (61.42 %) | |
| Files: 6157 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'aevgkbdozl3htdtjhrd5w65n3c6mb2jh' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - coreneuron@develop%intel~legacy-unit+tests build_type=Debug | |
| Concretized | |
| -------------------------------- | |
| - aevgkbd coreneuron@develop%intel@19.1.2.254~caliper~codegenopt~gpu~ipo~ispc~knl~legacy-unit+mpi~nmodl~openmp~profile+report+shared~sympy~sympyopt+tests build_type=Debug arch=linux-rhel7-x86_64 | |
| - ymcya3l ^bison@3.6.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] pvpzjkl ^boost@1.73.0%intel@19.1.2.254+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 patches=246508e052c44b6f4e8c2542a71c06cacaa72cd1447ab8d2a542b987bc35ace9,4dd507e1f5a29e3b87b15321a4d8c74afdc8331433edabf7aeab89b3c405d556 visibility=hidden arch=linux-rhel7-x86_64 | |
| - mxqypex ^cmake@3.15.7%intel@19.1.2.254~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| - 5mabxtb ^flex@2.6.4%intel@19.1.2.254+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] nnhu6zi ^hpe-mpi@2.25.hmpt%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] 2gn7wjx ^libsonata-report@1.0.0.20211007%intel@19.1.2.254~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] pjaxv63 ^hdf5@1.10.7%intel@19.1.2.254+cxx~debug~fortran+hl~java+mpi+pic+shared~szip~threadsafe api=none arch=linux-rhel7-x86_64 | |
| [^] wjshhip ^zlib@1.2.11%intel@19.1.2.254+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] gwht6mm ^spdlog@1.8.1%intel@19.1.2.254~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - nayogh4 ^ninja@1.10.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] icfhbit ^python@3.8.3%intel@19.1.2.254+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| [^] 7eg3tqe ^reportinglib@2.5.6%intel@19.1.2.254~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} --config-scope ${SPACK_CONFIG} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC}[0;m | |
| ==> bison@3.6.4 : has external module in ['bison/3.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bison-3.6.4-sqrqli (external bison-3.6.4-ymcya3lbfxylkvsbomj2rbzbvecsldu2) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/boost-1.73.0-n5sq7k (external boost-1.73.0-pvpzjklfqyl55rerdxp63j32kpqkfr4z) | |
| ==> cmake@3.15.7 : has external module in ['cmake/3.15.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cmake-3.15.7-4373ty (external cmake-3.15.7-mxqypexiy6wmh4hpnmf4lbwwwqhxzscg) | |
| ==> flex@2.6.4 : has external module in ['flex/2.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/flex-2.6.4-kpj7of (external flex-2.6.4-5mabxtbvp5xw7gfjcac32iffw27sdssk) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.25.hmpt-l6dob7 (external hpe-mpi-2.25.hmpt-nnhu6ziqp6ramcgkmky7i3e2ll5vl5ey) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/zlib-1.2.11-uubmvo (external zlib-1.2.11-wjshhipoj5m66agnke3p2dsjf32qntuf) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ninja-1.10.2-7mzwmh (external ninja-1.10.2-nayogh4gvnag7ybxc2ud5dt4ckxod3cc) | |
| ==> python@3.8.3 : has external module in ['python/3.8.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/python-3.8.3-suxrst (external python-3.8.3-icfhbitmltpoj6w6vghr23ac5erldiic) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/spdlog-1.8.1-gwht6m | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/reportinglib-2.5.6-7eg3tq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/hdf5-1.10.7-pjaxv6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libsonata-report-1.0.0.20211007-2gn7wj | |
| ==> Installing coreneuron-develop-aevgkbdozl3htdtjhrd5w65n3c6mb2jh | |
| ==> No binary for coreneuron-develop-aevgkbdozl3htdtjhrd5w65n3c6mb2jh found: installing from source | |
| ==> coreneuron: Executing phase: 'cmake' | |
| ==> coreneuron: Executing phase: 'build' | |
| ==> coreneuron: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-aevgkb | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113208/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113208/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 18:02:42 2021 | |
| Hits: 108 / 117 (92.31 %) | |
| Direct: 92 / 118 (77.97 %) | |
| Preprocessed: 16 / 26 (61.54 %) | |
| Misses: 9 | |
| Direct: 26 | |
| Preprocessed: 10 | |
| Uncacheable: 20 | |
| Primary storage: | |
| Hits: 215 / 236 (91.10 %) | |
| Misses: 21 | |
| Cache size (GB): 0.31 / 0.51 (61.44 %) | |
| Files: 6175 | |
| Uncacheable: | |
| Called for linking: 16 | |
| Compiler produced no output: 1 | |
| No input file: 3 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.1.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ echo "Returning the number of failed builds, ${num_failures}"[0;m | |
| Returning the number of failed builds, 0 | |
| [32;1m$ exit ${num_failures}[0;m | |
| section_end:1640106170:step_script [0Ksection_start:1640106170:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache coreneuron-intel-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=46133 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 6736 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/coreneuron-intel-6[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1640106207:archive_cache [0Ksection_start:1640106207:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=47491 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=113208 responseStatus[0;m=201 Created token[0;m=AZ6vgB2S | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=47539 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=113208 responseStatus[0;m=201 Created token[0;m=AZ6vgB2S | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=47621 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=113208 responseStatus[0;m=201 Created token[0;m=AZ6vgB2S | |
| section_end:1640106209:upload_artifacts_on_success [0Ksection_start:1640106209:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1640106210:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640107389:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640107389:resolve_secrets [0Ksection_start:1640107389:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor879107078, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113209 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113209 | |
| A slurm job will be created with name GL_J113209_PROD_P112_CP4_C6 | |
| Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142150 | |
| job state: R | |
| section_end:1640107391:prepare_executor [0Ksection_start:1640107391:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i6n19 via bbpv1.epfl.ch... | |
| section_end:1640107393:prepare_script [0Ksection_start:1640107393:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640107393:get_sources [0Ksection_start:1640107393:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for coreneuron-nvhpc-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=72382 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1640107438:restore_cache [0Ksection_start:1640107438:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:nmodl:gpu (113206)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=72835 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113206 responseStatus[0;m=200 OK token[0;m=ddR4yQyT | |
| section_end:1640107439:download_artifacts [0Ksection_start:1640107439:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ SPACK_CONFIG=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_CONFIG}[0;m | |
| [32;1m$ cat > ${SPACK_CONFIG}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Directory in which to run tests and store test results. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Tests will be stored in directories named by date/time and package | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:40 # Locations where different types of modules should be installed. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ if [ "${SPACK_EXPORT_SPECS}" ]; then[0;m | |
| [32;1m$ export XDG_CONFIG_HOME=${PWD}/local_config[0;m | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ REF_OVERRIDE_NAME=SPACK_PACKAGE_REF_${SPACK_PACKAGE}[0;m | |
| [32;1m$ PACKAGE_REF=${!REF_OVERRIDE_NAME:-$SPACK_PACKAGE_REF}[0;m | |
| [32;1m$ SPACK_PACKAGE_FILE="$(spack location -p ${SPACK_PACKAGE})/package.py"[0;m | |
| [32;1m$ if [ "${PACKAGE_REF}" ]; then[0;m | |
| [32;1m$ echo New ref for ${SPACK_PACKAGE} is ${PACKAGE_REF}[0;m | |
| New ref for coreneuron is commit="7295f4a667503ec4677262632bb0636f48812336" | |
| [32;1m$ sed -i -e "/^\s*version\s*(\s*\(['\"]\)develop\1/ { s/,\s*\(commit\|tag\|branch\)=\([\"']\)[^\"']\+\2//g; s#)#, ${PACKAGE_REF})#; }" "${SPACK_PACKAGE_FILE}"[0;m | |
| [32;1m$ (cd $(dirname "${SPACK_PACKAGE_FILE}") && git diff "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/coreneuron/package.py b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| index d2ab4ef..ca44375 100644 | |
| --- a/var/spack/repos/builtin/packages/coreneuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| @@ -18,7 +18,7 @@ class Coreneuron(CMakePackage): | |
| url = "https://github.com/BlueBrain/CoreNeuron" | |
| git = "https://github.com/BlueBrain/CoreNeuron" | |
| - version('develop', branch='master') | |
| + version('develop', commit="7295f4a667503ec4677262632bb0636f48812336") | |
| # 1.0.1 > 1.0.0.20210519 > 1.0 as far as Spack is concerned | |
| version('1.0.0.20211020', commit='e265f9d') | |
| version('1.0.0.20211012', commit='846b3a6') | |
| [32;1m$ fi[0;m | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}@develop${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER}${SPACK_PACKAGE_SPEC}${SPACK_PACKAGE_DEPENDENCIES:+ }${SPACK_PACKAGE_DEPENDENCIES}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install coreneuron@develop%nvhpc+nmodl+gpu+tests~legacy-unit~report build_type=RelWithDebInfo ^/zfakioujxsm45dlnonboqvphrxexao57 | |
| [32;1m$ JSON_SPEC=$(spack --config-scope ${SPACK_CONFIG} spec --json ${SPACK_FULL_SPEC})[0;m | |
| ==> Warning: Missing a source id for nmodl@develop | |
| [32;1m$ SPACK_INSTALLED_HASH=$(echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][0][\"${SPACK_PACKAGE}\"][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113209/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113209/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 18:25:34 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.32 / 0.51 (61.58 %) | |
| Files: 7815 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - coreneuron@develop%nvhpc+gpu~legacy-unit+nmodl~report+tests build_type=RelWithDebInfo | |
| [+] ^nmodl@develop%nvhpc@21.11~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ^py-jinja2@2.10.3%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] ^py-babel@2.7.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] ^py-pytz@2020.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] ^python@3.8.3%nvhpc@21.11+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| [^] ^py-setuptools@50.3.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] ^py-markupsafe@1.1.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] ^py-pytest@5.3.4%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-attrs@20.3.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-more-itertools@8.7.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-packaging@19.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-pyparsing@2.4.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-six@1.16.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-pluggy@0.13.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-py@1.8.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-wcwidth@0.1.7%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] ^py-pyyaml@5.3.1%gcc@9.3.0+libyaml arch=linux-rhel7-x86_64 | |
| [^] ^libyaml@0.2.4%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] ^py-sympy@1.4%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] ^py-mpmath@1.1.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| Concretized | |
| -------------------------------- | |
| - qnf2dk3 coreneuron@develop%nvhpc@21.11~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl~openmp~profile~report+shared~sympy~sympyopt+tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - ilh3i6h ^bison@3.6.4%nvhpc@21.11 patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| [^] ugnnauj ^boost@1.73.0%nvhpc@21.11+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 patches=246508e052c44b6f4e8c2542a71c06cacaa72cd1447ab8d2a542b987bc35ace9,4dd507e1f5a29e3b87b15321a4d8c74afdc8331433edabf7aeab89b3c405d556,d56f31f2a3956630e5372b987d39cb79b5d2c71760fa150b8eb4a3f1a07e2658 visibility=hidden arch=linux-rhel7-x86_64 | |
| - 3id4xmv ^cmake@3.15.7%nvhpc@21.11~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [^] rtdgzju ^cuda@11.5.1%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| - o7642tm ^flex@2.6.4%nvhpc@21.11+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] rvmqyas ^hpe-mpi@2.25.hmpt%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| - 6yf3e2o ^ninja@1.10.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] zfakiou ^nmodl@develop%nvhpc@21.11~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] 56d4qrp ^py-jinja2@2.10.3%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] wmslpld ^py-babel@2.7.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] oy6pnkw ^py-pytz@2020.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] boepiq7 ^python@3.8.3%nvhpc@21.11+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| [^] qtsnebc ^py-setuptools@50.3.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] 7ap4eon ^py-markupsafe@1.1.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] nklcaqd ^py-pytest@5.3.4%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] hv3l6m3 ^py-attrs@20.3.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ric2ffi ^py-more-itertools@8.7.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] tnxvjns ^py-packaging@19.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] nqd6d4a ^py-pyparsing@2.4.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] dt3gjsu ^py-six@1.16.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] rlm5oq3 ^py-pluggy@0.13.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] auxibxx ^py-py@1.8.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] a5khbku ^py-wcwidth@0.1.7%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] 4tb344r ^py-pyyaml@5.3.1%gcc@9.3.0+libyaml arch=linux-rhel7-x86_64 | |
| [^] ggibzjm ^libyaml@0.2.4%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] qqqe57g ^py-sympy@1.4%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] 7efatr5 ^py-mpmath@1.1.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} --config-scope ${SPACK_CONFIG} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC}[0;m | |
| ==> bison@3.6.4 : has external module in ['bison/3.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bison-3.6.4-sqrqli (external bison-3.6.4-ilh3i6hsazuqblyjs46wno4wkyhcaycx) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/boost-1.73.0-n5sq7k (external boost-1.73.0-ugnnaujozxx7u35zmkozzxs42p6ujetq) | |
| ==> cmake@3.15.7 : has external module in ['cmake/3.15.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cmake-3.15.7-4373ty (external cmake-3.15.7-3id4xmvyepn3luv5kvzabnojgl4kjbvv) | |
| ==> cuda@11.5.1 : has external module in ['cuda/11.5.1'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cuda-11.5.1-gygt6u (external cuda-11.5.1-rtdgzjuarsbhlad5e2q6z6hb35poq3ba) | |
| ==> flex@2.6.4 : has external module in ['flex/2.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/flex-2.6.4-kpj7of (external flex-2.6.4-o7642tm7j36qtzmyzthrmdbfctyfsdnn) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.25.hmpt-l6dob7 (external hpe-mpi-2.25.hmpt-rvmqyashdppnfjw5xoegvqeeaassuana) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ninja-1.10.2-7mzwmh (external ninja-1.10.2-6yf3e2oymeefngifdautp2wd347lcijn) | |
| ==> python@3.8.3 : has external module in ['python/3.8.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/python-3.8.3-suxrst (external python-3.8.3-boepiq7qwlm3d6e5almdw67q65o5quqn) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/libyaml-0.2.4-ggibzj | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-pytz-2020.1-oy6pnk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pyparsing-2.4.2-nqd6d4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-attrs-20.3.0-hv3l6m | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pluggy-0.13.0-rlm5oq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-py-1.8.0-auxibx | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-more-itertools-8.7.0-ric2ff | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-wcwidth-0.1.7-a5khbk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-setuptools-50.3.2-qtsneb | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-mpmath-1.1.0-7efatr | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-six-1.16.0-dt3gjs | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-markupsafe-1.1.1-7ap4eo | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-pyyaml-5.3.1-4tb344 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-babel-2.7.0-wmslpl | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-sympy-1.4-qqqe57 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-packaging-19.2-tnxvjn | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-jinja2-2.10.3-56d4qr | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pytest-5.3.4-nklcaq | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.11/nmodl-develop-zfakio | |
| ==> Installing coreneuron-develop-qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo | |
| ==> No binary for coreneuron-develop-qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo found: installing from source | |
| ==> Warning: Missing a source id for nmodl@develop | |
| ==> coreneuron: Executing phase: 'cmake' | |
| ==> coreneuron: Executing phase: 'build' | |
| ==> coreneuron: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.11/coreneuron-develop-qnf2dk | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113209/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113209/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 18:54:35 2021 | |
| Hits: 86 / 95 (90.53 %) | |
| Direct: 1 / 95 (1.05 %) | |
| Preprocessed: 85 / 94 (90.43 %) | |
| Misses: 9 | |
| Direct: 94 | |
| Preprocessed: 9 | |
| Uncacheable: 15 | |
| Primary storage: | |
| Hits: 87 / 190 (45.79 %) | |
| Misses: 103 | |
| Cache size (GB): 0.32 / 0.51 (61.91 %) | |
| Files: 7918 | |
| Uncacheable: | |
| Called for linking: 12 | |
| No input file: 3 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.1.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ echo "Returning the number of failed builds, ${num_failures}"[0;m | |
| Returning the number of failed builds, 0 | |
| [32;1m$ exit ${num_failures}[0;m | |
| section_end:1640109284:step_script [0Ksection_start:1640109284:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache coreneuron-nvhpc-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=110916 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 8479 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/coreneuron-nvhpc-6[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1640109334:archive_cache [0Ksection_start:1640109334:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=112196 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=113209 responseStatus[0;m=201 Created token[0;m=menUS1ag | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=112219 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=113209 responseStatus[0;m=201 Created token[0;m=menUS1ag | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=112242 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=113209 responseStatus[0;m=201 Created token[0;m=menUS1ag | |
| section_end:1640109335:upload_artifacts_on_success [0Ksection_start:1640109335:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1640109336:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640107347:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640107347:resolve_secrets [0Ksection_start:1640107347:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor286126988, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113207 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113207 | |
| A slurm job will be created with name GL_J113207_PROD_P112_CP3_C0 | |
| Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142148 | |
| job state: R | |
| section_end:1640107349:prepare_executor [0Ksection_start:1640107349:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i6n19 via bbpv1.epfl.ch... | |
| section_end:1640107351:prepare_script [0Ksection_start:1640107351:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640107351:get_sources [0Ksection_start:1640107351:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for coreneuron-intel-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=69501 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1640107372:restore_cache [0Ksection_start:1640107372:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:nmodl:intel (113205)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=70787 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113205 responseStatus[0;m=200 OK token[0;m=EeNG8U-1 | |
| section_end:1640107373:download_artifacts [0Ksection_start:1640107373:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ SPACK_CONFIG=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_CONFIG}[0;m | |
| [32;1m$ cat > ${SPACK_CONFIG}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113207/_/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113207/_/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113207/_/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Directory in which to run tests and store test results. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Tests will be stored in directories named by date/time and package | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113207/_/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113207/_/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:40 # Locations where different types of modules should be installed. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ if [ "${SPACK_EXPORT_SPECS}" ]; then[0;m | |
| [32;1m$ export XDG_CONFIG_HOME=${PWD}/local_config[0;m | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ REF_OVERRIDE_NAME=SPACK_PACKAGE_REF_${SPACK_PACKAGE}[0;m | |
| [32;1m$ PACKAGE_REF=${!REF_OVERRIDE_NAME:-$SPACK_PACKAGE_REF}[0;m | |
| [32;1m$ SPACK_PACKAGE_FILE="$(spack location -p ${SPACK_PACKAGE})/package.py"[0;m | |
| [32;1m$ if [ "${PACKAGE_REF}" ]; then[0;m | |
| [32;1m$ echo New ref for ${SPACK_PACKAGE} is ${PACKAGE_REF}[0;m | |
| New ref for coreneuron is commit="7295f4a667503ec4677262632bb0636f48812336" | |
| [32;1m$ sed -i -e "/^\s*version\s*(\s*\(['\"]\)develop\1/ { s/,\s*\(commit\|tag\|branch\)=\([\"']\)[^\"']\+\2//g; s#)#, ${PACKAGE_REF})#; }" "${SPACK_PACKAGE_FILE}"[0;m | |
| [32;1m$ (cd $(dirname "${SPACK_PACKAGE_FILE}") && git diff "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/coreneuron/package.py b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| index d2ab4ef..ca44375 100644 | |
| --- a/var/spack/repos/builtin/packages/coreneuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| @@ -18,7 +18,7 @@ class Coreneuron(CMakePackage): | |
| url = "https://github.com/BlueBrain/CoreNeuron" | |
| git = "https://github.com/BlueBrain/CoreNeuron" | |
| - version('develop', branch='master') | |
| + version('develop', commit="7295f4a667503ec4677262632bb0636f48812336") | |
| # 1.0.1 > 1.0.0.20210519 > 1.0 as far as Spack is concerned | |
| version('1.0.0.20211020', commit='e265f9d') | |
| version('1.0.0.20211012', commit='846b3a6') | |
| [32;1m$ fi[0;m | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}@develop${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER}${SPACK_PACKAGE_SPEC}${SPACK_PACKAGE_DEPENDENCIES:+ }${SPACK_PACKAGE_DEPENDENCIES}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install coreneuron@develop%intel+nmodl+tests~legacy-unit build_type=Debug ^/lqyttqytclxdwwickak7uvjmb6a3au3g | |
| [32;1m$ JSON_SPEC=$(spack --config-scope ${SPACK_CONFIG} spec --json ${SPACK_FULL_SPEC})[0;m | |
| ==> Warning: Missing a source id for nmodl@develop | |
| [32;1m$ SPACK_INSTALLED_HASH=$(echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][0][\"${SPACK_PACKAGE}\"][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be cwjs4t3f4wyl5jax3fb2obxbvjopwgn3 | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113207/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113207/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 18:24:15 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.31 / 0.51 (61.44 %) | |
| Files: 6175 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'cwjs4t3f4wyl5jax3fb2obxbvjopwgn3' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - coreneuron@develop%intel~legacy-unit+nmodl+tests build_type=Debug | |
| [+] ^nmodl@develop%intel@19.1.2.254~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ^py-jinja2@2.10.3%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-babel@2.7.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^py-pytz@2020.1%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^python@3.8.3%intel@19.1.2.254+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| [^] ^py-setuptools@50.3.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-markupsafe@1.1.1%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-pytest@5.3.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^py-attrs@20.3.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-more-itertools@8.7.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-packaging@19.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^py-pyparsing@2.4.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^py-six@1.16.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-pluggy@0.13.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-py@1.8.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-wcwidth@0.1.7%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^py-pyyaml@5.3.1%intel@19.1.2.254+libyaml arch=linux-rhel7-x86_64 | |
| [^] ^libyaml@0.2.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-sympy@1.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-mpmath@1.1.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| Concretized | |
| -------------------------------- | |
| - cwjs4t3 coreneuron@develop%intel@19.1.2.254~caliper~codegenopt~gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl~openmp~profile+report+shared~sympy~sympyopt+tests build_type=Debug arch=linux-rhel7-x86_64 | |
| - ymcya3l ^bison@3.6.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] pvpzjkl ^boost@1.73.0%intel@19.1.2.254+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 patches=246508e052c44b6f4e8c2542a71c06cacaa72cd1447ab8d2a542b987bc35ace9,4dd507e1f5a29e3b87b15321a4d8c74afdc8331433edabf7aeab89b3c405d556 visibility=hidden arch=linux-rhel7-x86_64 | |
| - mxqypex ^cmake@3.15.7%intel@19.1.2.254~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| - 5mabxtb ^flex@2.6.4%intel@19.1.2.254+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] nnhu6zi ^hpe-mpi@2.25.hmpt%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] 2gn7wjx ^libsonata-report@1.0.0.20211007%intel@19.1.2.254~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] pjaxv63 ^hdf5@1.10.7%intel@19.1.2.254+cxx~debug~fortran+hl~java+mpi+pic+shared~szip~threadsafe api=none arch=linux-rhel7-x86_64 | |
| [^] wjshhip ^zlib@1.2.11%intel@19.1.2.254+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] gwht6mm ^spdlog@1.8.1%intel@19.1.2.254~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - nayogh4 ^ninja@1.10.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] lqyttqy ^nmodl@develop%intel@19.1.2.254~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ubiktsv ^py-jinja2@2.10.3%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] yrbfda2 ^py-babel@2.7.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] oe2c27i ^py-pytz@2020.1%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] icfhbit ^python@3.8.3%intel@19.1.2.254+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| [^] xfgkmkd ^py-setuptools@50.3.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] oe2hrft ^py-markupsafe@1.1.1%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] jo63uk3 ^py-pytest@5.3.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] kcyedyh ^py-attrs@20.3.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] mikhjgq ^py-more-itertools@8.7.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] hziuwhj ^py-packaging@19.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] vpsqgcg ^py-pyparsing@2.4.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] xgnwei3 ^py-six@1.16.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] gc3zsis ^py-pluggy@0.13.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] 557icag ^py-py@1.8.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] za7jmvs ^py-wcwidth@0.1.7%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] chpzzlm ^py-pyyaml@5.3.1%intel@19.1.2.254+libyaml arch=linux-rhel7-x86_64 | |
| [^] 4237mpr ^libyaml@0.2.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] runxrmn ^py-sympy@1.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] d6t5uhn ^py-mpmath@1.1.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] 7eg3tqe ^reportinglib@2.5.6%intel@19.1.2.254~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} --config-scope ${SPACK_CONFIG} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC}[0;m | |
| ==> bison@3.6.4 : has external module in ['bison/3.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bison-3.6.4-sqrqli (external bison-3.6.4-ymcya3lbfxylkvsbomj2rbzbvecsldu2) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/boost-1.73.0-n5sq7k (external boost-1.73.0-pvpzjklfqyl55rerdxp63j32kpqkfr4z) | |
| ==> cmake@3.15.7 : has external module in ['cmake/3.15.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cmake-3.15.7-4373ty (external cmake-3.15.7-mxqypexiy6wmh4hpnmf4lbwwwqhxzscg) | |
| ==> flex@2.6.4 : has external module in ['flex/2.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/flex-2.6.4-kpj7of (external flex-2.6.4-5mabxtbvp5xw7gfjcac32iffw27sdssk) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.25.hmpt-l6dob7 (external hpe-mpi-2.25.hmpt-nnhu6ziqp6ramcgkmky7i3e2ll5vl5ey) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/zlib-1.2.11-uubmvo (external zlib-1.2.11-wjshhipoj5m66agnke3p2dsjf32qntuf) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ninja-1.10.2-7mzwmh (external ninja-1.10.2-nayogh4gvnag7ybxc2ud5dt4ckxod3cc) | |
| ==> python@3.8.3 : has external module in ['python/3.8.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/python-3.8.3-suxrst (external python-3.8.3-icfhbitmltpoj6w6vghr23ac5erldiic) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libyaml-0.2.4-4237mp | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/spdlog-1.8.1-gwht6m | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/reportinglib-2.5.6-7eg3tq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/hdf5-1.10.7-pjaxv6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-py-1.8.0-557ica | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pytz-2020.1-oe2c27 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-six-1.16.0-xgnwei | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-mpmath-1.1.0-d6t5uh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-attrs-20.3.0-kcyedy | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-more-itertools-8.7.0-mikhjg | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-markupsafe-1.1.1-oe2hrf | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pyparsing-2.4.2-vpsqgc | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-setuptools-50.3.2-xfgkmk | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-wcwidth-0.1.7-za7jmv | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pyyaml-5.3.1-chpzzl | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libsonata-report-1.0.0.20211007-2gn7wj | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-sympy-1.4-runxrm | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-babel-2.7.0-yrbfda | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-packaging-19.2-hziuwh | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-jinja2-2.10.3-ubikts | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/nmodl-develop-lqyttq | |
| ==> Installing coreneuron-develop-cwjs4t3f4wyl5jax3fb2obxbvjopwgn3 | |
| ==> No binary for coreneuron-develop-cwjs4t3f4wyl5jax3fb2obxbvjopwgn3 found: installing from source | |
| ==> Warning: Missing a source id for nmodl@develop | |
| ==> coreneuron: Executing phase: 'cmake' | |
| ==> coreneuron: Executing phase: 'build' | |
| ==> coreneuron: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-cwjs4t | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113207/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113207/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 18:37:02 2021 | |
| Hits: 81 / 95 (85.26 %) | |
| Direct: 0 / 96 (0.00 %) | |
| Preprocessed: 81 / 96 (84.38 %) | |
| Misses: 14 | |
| Direct: 96 | |
| Preprocessed: 15 | |
| Uncacheable: 17 | |
| Primary storage: | |
| Hits: 81 / 192 (42.19 %) | |
| Misses: 111 | |
| Cache size (GB): 0.32 / 0.51 (61.84 %) | |
| Files: 6284 | |
| Uncacheable: | |
| Called for linking: 13 | |
| Compiler produced no output: 1 | |
| No input file: 3 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.1.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ echo "Returning the number of failed builds, ${num_failures}"[0;m | |
| Returning the number of failed builds, 0 | |
| [32;1m$ exit ${num_failures}[0;m | |
| section_end:1640108232:step_script [0Ksection_start:1640108232:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache coreneuron-intel-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=94072 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 6845 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/coreneuron-intel-6[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1640108272:archive_cache [0Ksection_start:1640108272:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=94782 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=113207 responseStatus[0;m=201 Created token[0;m=bhErH5v- | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=94804 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=113207 responseStatus[0;m=201 Created token[0;m=bhErH5v- | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=94840 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=113207 responseStatus[0;m=201 Created token[0;m=bhErH5v- | |
| section_end:1640108273:upload_artifacts_on_success [0Ksection_start:1640108273:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1640108274:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640106448:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640106448:resolve_secrets [0Ksection_start:1640106448:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor547685387, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113218 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113218 | |
| A slurm job will be created with name GL_J113218_PROD_P112_CP12_C12 | |
| Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142127 | |
| job state: PD | |
| job state: PD | |
| job state: R | |
| section_end:1640106451:prepare_executor [0Ksection_start:1640106451:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i6n19 via bbpv1.epfl.ch... | |
| section_end:1640106454:prepare_script [0Ksection_start:1640106454:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640106454:get_sources [0Ksection_start:1640106454:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for neuron-nvhpc-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=59833 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1640106821:restore_cache [0Ksection_start:1640106821:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:gpu (113210)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=63176 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113210 responseStatus[0;m=200 OK token[0;m=EsNxt9Y_ | |
| section_end:1640106821:download_artifacts [0Ksection_start:1640106821:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES="${SPACK_PACKAGE_DEPENDENCIES}^py-cython%gcc^py-numpy%gcc"[0;m | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ SPACK_CONFIG=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_CONFIG}[0;m | |
| [32;1m$ cat > ${SPACK_CONFIG}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113218/_/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113218/_/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113218/_/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Directory in which to run tests and store test results. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Tests will be stored in directories named by date/time and package | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113218/_/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113218/_/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:40 # Locations where different types of modules should be installed. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ if [ "${SPACK_EXPORT_SPECS}" ]; then[0;m | |
| [32;1m$ export XDG_CONFIG_HOME=${PWD}/local_config[0;m | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ REF_OVERRIDE_NAME=SPACK_PACKAGE_REF_${SPACK_PACKAGE}[0;m | |
| [32;1m$ PACKAGE_REF=${!REF_OVERRIDE_NAME:-$SPACK_PACKAGE_REF}[0;m | |
| [32;1m$ SPACK_PACKAGE_FILE="$(spack location -p ${SPACK_PACKAGE})/package.py"[0;m | |
| [32;1m$ if [ "${PACKAGE_REF}" ]; then[0;m | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}@develop${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER}${SPACK_PACKAGE_SPEC}${SPACK_PACKAGE_DEPENDENCIES:+ }${SPACK_PACKAGE_DEPENDENCIES}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron@develop%nvhpc+coreneuron+debug+tests~legacy-unit model_tests=channel-benchmark,olfactory ^/7r3a4d2rmvk5oeb6vt52s4zg2hppmnjp^py-cython%gcc^py-numpy%gcc | |
| [32;1m$ JSON_SPEC=$(spack --config-scope ${SPACK_CONFIG} spec --json ${SPACK_FULL_SPEC})[0;m | |
| ==> Warning: Missing a source id for neuron@develop | |
| [32;1m$ SPACK_INSTALLED_HASH=$(echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][0][\"${SPACK_PACKAGE}\"][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be bh5ipdlugcszf7h2tpm3kznvd5y74yr4 | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113218/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113218/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 18:18:16 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.46 / 0.51 (90.76 %) | |
| Files: 31488 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'bh5ipdlugcszf7h2tpm3kznvd5y74yr4' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron@develop%nvhpc+coreneuron+debug~legacy-unit+tests model_tests=channel-benchmark,olfactory | |
| [+] ^coreneuron@develop%nvhpc@21.11~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi~nmodl~openmp~profile~report+shared~sympy~sympyopt+tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] ^boost@1.73.0%nvhpc@21.11+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 patches=246508e052c44b6f4e8c2542a71c06cacaa72cd1447ab8d2a542b987bc35ace9,4dd507e1f5a29e3b87b15321a4d8c74afdc8331433edabf7aeab89b3c405d556,d56f31f2a3956630e5372b987d39cb79b5d2c71760fa150b8eb4a3f1a07e2658 visibility=hidden arch=linux-rhel7-x86_64 | |
| [^] ^cuda@11.5.1%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^hpe-mpi@2.25.hmpt%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| - ^py-cython%gcc | |
| - ^py-numpy%gcc | |
| Concretized | |
| -------------------------------- | |
| - bh5ipdl neuron@develop%nvhpc@21.11+binary+cmake~codechecks+coreneuron~cross-compile+debug~interviews~ipo+legacy-fr~legacy-unit+memacs+mod-compatibility+mpi+multisend~profile+pysetup+python+rx3d+shared+tests build_type=RelWithDebInfo model_tests=channel-benchmark,olfactory patches=708cb04826b394a858069d93e8c08e1e81e914c23e1ef3da0486e8233834ff6c arch=linux-rhel7-x86_64 | |
| - ilh3i6h ^bison@3.6.4%nvhpc@21.11 patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| - 3id4xmv ^cmake@3.15.7%nvhpc@21.11~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [+] 7r3a4d2 ^coreneuron@develop%nvhpc@21.11~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi~nmodl~openmp~profile~report+shared~sympy~sympyopt+tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] ugnnauj ^boost@1.73.0%nvhpc@21.11+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 patches=246508e052c44b6f4e8c2542a71c06cacaa72cd1447ab8d2a542b987bc35ace9,4dd507e1f5a29e3b87b15321a4d8c74afdc8331433edabf7aeab89b3c405d556,d56f31f2a3956630e5372b987d39cb79b5d2c71760fa150b8eb4a3f1a07e2658 visibility=hidden arch=linux-rhel7-x86_64 | |
| [^] rtdgzju ^cuda@11.5.1%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] rvmqyas ^hpe-mpi@2.25.hmpt%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| - o7642tm ^flex@2.6.4%nvhpc@21.11+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] 5hjnqo3 ^gettext@0.21%nvhpc@21.11+bzip2+curses+git~libunistring+libxml2+tar+xz patches=6e530daaae14725d578d6cafbf7d523accc9ed29fd817bd421cf98a5f51e9e1b,bbe9f0539aa504966ac104224d25a9260faa1015ed3adda936467be9c7de4eae,fb27a3fb5e414bdc50ffebbbe2da986473df70a493caa4396226f51a67c55424 arch=linux-rhel7-x86_64 | |
| [^] uipobjs ^bzip2@1.0.8%nvhpc@21.11+shared arch=linux-rhel7-x86_64 | |
| [^] ruu3jsw ^libiconv@1.16%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] bt3jq7e ^libxml2@2.9.10%nvhpc@21.11~python patches=05ff238cf435825ef835c7ae39376b52dc83d8caf19e962f0766c841386a305a,10a88ad47f9797cf7cf2d7d07241f665a3b6d1f31fa026728c8c2ae93e1664e9 arch=linux-rhel7-x86_64 | |
| [^] av5lrep ^pkgconf@1.7.3%nvhpc@21.11 patches=6e94c68d45d4cb8148c8c53699921d10b13784f758f0563ce64c838e0ca48ceb arch=linux-rhel7-x86_64 | |
| [^] l6r3lhl ^xz@5.2.5%nvhpc@21.11~pic arch=linux-rhel7-x86_64 | |
| [^] tx5mit7 ^zlib@1.2.11%nvhpc@21.11+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] zuul7ic ^ncurses@6.2%nvhpc@21.11~symlinks+termlib arch=linux-rhel7-x86_64 | |
| [^] tnkl573 ^tar@1.28%nvhpc@21.11 patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,4e8cdf69294c376c45c39d059f11769c5c996c2d84cdfb56eb69890e0aa4e991,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-x86_64 | |
| - 6yf3e2o ^ninja@1.10.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] arjv2hk ^py-cython@0.29.21%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] qtsnebc ^py-setuptools@50.3.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] boepiq7 ^python@3.8.3%nvhpc@21.11+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| [^] 6upm4ih ^py-mpi4py@3.0.3%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] k3gs7u3 ^py-numpy@1.19.4%gcc@9.3.0+blas+lapack arch=linux-rhel7-x86_64 | |
| [^] syahjjg ^intel-mkl@2018.3.222%gcc@9.3.0~ilp64+shared threads=none arch=linux-rhel7-x86_64 | |
| [^] nklcaqd ^py-pytest@5.3.4%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] hv3l6m3 ^py-attrs@20.3.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ric2ffi ^py-more-itertools@8.7.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] tnxvjns ^py-packaging@19.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] nqd6d4a ^py-pyparsing@2.4.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] dt3gjsu ^py-six@1.16.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] rlm5oq3 ^py-pluggy@0.13.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] qbjsyll ^py-setuptools-scm@4.1.2%nvhpc@21.11+toml arch=linux-rhel7-x86_64 | |
| [^] jtaqy3k ^py-toml@0.10.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] auxibxx ^py-py@1.8.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] a5khbku ^py-wcwidth@0.1.7%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ghwc5fz ^py-pytest-cov@2.8.1%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] vnepfwd ^py-coverage@5.3%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] rx3mekq ^readline@8.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} --config-scope ${SPACK_CONFIG} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC}[0;m | |
| ==> bison@3.6.4 : has external module in ['bison/3.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bison-3.6.4-sqrqli (external bison-3.6.4-ilh3i6hsazuqblyjs46wno4wkyhcaycx) | |
| ==> cmake@3.15.7 : has external module in ['cmake/3.15.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cmake-3.15.7-4373ty (external cmake-3.15.7-3id4xmvyepn3luv5kvzabnojgl4kjbvv) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/boost-1.73.0-n5sq7k (external boost-1.73.0-ugnnaujozxx7u35zmkozzxs42p6ujetq) | |
| ==> cuda@11.5.1 : has external module in ['cuda/11.5.1'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cuda-11.5.1-gygt6u (external cuda-11.5.1-rtdgzjuarsbhlad5e2q6z6hb35poq3ba) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.25.hmpt-l6dob7 (external hpe-mpi-2.25.hmpt-rvmqyashdppnfjw5xoegvqeeaassuana) | |
| ==> flex@2.6.4 : has external module in ['flex/2.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/flex-2.6.4-kpj7of (external flex-2.6.4-o7642tm7j36qtzmyzthrmdbfctyfsdnn) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bzip2-1.0.8-vatuhz (external bzip2-1.0.8-uipobjsrjwxnpkcrag4phvugoj7kn6h7) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/libiconv-1.16-ruu3js | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/pkgconf-1.7.3-av5lre | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/xz-5.2.5-l6r3lh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/zlib-1.2.11-uubmvo (external zlib-1.2.11-tx5mit7opia6t3thbrdiubnz57rttfux) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ncurses-6.2-xvsnay (external ncurses-6.2-zuul7ickymna5aj5244q6ttogpw3o7wr) | |
| [+] /usr (external tar-1.28-tnkl5732tb2dcrmu5z5kndpoiolmqzwh) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ninja-1.10.2-7mzwmh (external ninja-1.10.2-6yf3e2oymeefngifdautp2wd347lcijn) | |
| ==> python@3.8.3 : has external module in ['python/3.8.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/python-3.8.3-suxrst (external python-3.8.3-boepiq7qwlm3d6e5almdw67q65o5quqn) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/intel-mkl-2018.3.222-xjuqsf (external intel-mkl-2018.3.222-syahjjgpawq4c4jicb753yciaowfyr75) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/readline-8.0-f2v4sr (external readline-8.0-rx3mekqaza7t4ajd57wqkzlm2yi7pihm) | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.11/coreneuron-develop-7r3a4d | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/libxml2-2.9.10-bt3jq7 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-six-1.16.0-dt3gjs | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-setuptools-50.3.2-qtsneb | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/gettext-0.21-5hjnqo | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pyparsing-2.4.2-nqd6d4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-toml-0.10.0-jtaqy3 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-more-itertools-8.7.0-ric2ff | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/py-cython-0.29.21-arjv2h | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-attrs-20.3.0-hv3l6m | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-wcwidth-0.1.7-a5khbk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-coverage-5.3-vnepfw | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-mpi4py-3.0.3-6upm4i | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-packaging-19.2-tnxvjn | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-setuptools-scm-4.1.2-qbjsyl | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/py-numpy-1.19.4-k3gs7u | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pluggy-0.13.0-rlm5oq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-py-1.8.0-auxibx | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pytest-5.3.4-nklcaq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pytest-cov-2.8.1-ghwc5f | |
| ==> Installing neuron-develop-bh5ipdlugcszf7h2tpm3kznvd5y74yr4 | |
| ==> No binary for neuron-develop-bh5ipdlugcszf7h2tpm3kznvd5y74yr4 found: installing from source | |
| ==> Warning: Missing a source id for neuron@develop | |
| ==> neuron: Executing phase: 'cmake' | |
| ==> neuron: Executing phase: 'build' | |
| Session terminated, killing shell... ...killed. | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 142127.4 ON r1i6n19 CANCELLED AT 2021-12-21T19:07:36 DUE TO TIME LIMIT *** | |
| srun: error: r1i6n19: task 0: Terminated | |
| section_end:1640110057:step_script [0K[31;1mERROR: Job failed: execution took longer than 1h0m0s seconds | |
| [0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640106217:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640106217:resolve_secrets [0Ksection_start:1640106217:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor161883387, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113216 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113216 | |
| A slurm job will be created with name GL_J113216_PROD_P112_CP2_C4 | |
| Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142123 | |
| job state: PD | |
| job state: PD | |
| job state: R | |
| section_end:1640106220:prepare_executor [0Ksection_start:1640106220:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i7n22 via bbpv1.epfl.ch... | |
| section_end:1640106222:prepare_script [0Ksection_start:1640106222:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640106223:get_sources [0Ksection_start:1640106223:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for neuron-intel-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=28355 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1640106621:restore_cache [0Ksection_start:1640106621:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:intel (113208)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=40578 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113208 responseStatus[0;m=200 OK token[0;m=AZ6vgB2S | |
| section_end:1640106622:download_artifacts [0Ksection_start:1640106622:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ SPACK_CONFIG=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_CONFIG}[0;m | |
| [32;1m$ cat > ${SPACK_CONFIG}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113216/_/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113216/_/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113216/_/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Directory in which to run tests and store test results. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Tests will be stored in directories named by date/time and package | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113216/_/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113216/_/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:40 # Locations where different types of modules should be installed. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ if [ "${SPACK_EXPORT_SPECS}" ]; then[0;m | |
| [32;1m$ export XDG_CONFIG_HOME=${PWD}/local_config[0;m | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ REF_OVERRIDE_NAME=SPACK_PACKAGE_REF_${SPACK_PACKAGE}[0;m | |
| [32;1m$ PACKAGE_REF=${!REF_OVERRIDE_NAME:-$SPACK_PACKAGE_REF}[0;m | |
| [32;1m$ SPACK_PACKAGE_FILE="$(spack location -p ${SPACK_PACKAGE})/package.py"[0;m | |
| [32;1m$ if [ "${PACKAGE_REF}" ]; then[0;m | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}@develop${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER}${SPACK_PACKAGE_SPEC}${SPACK_PACKAGE_DEPENDENCIES:+ }${SPACK_PACKAGE_DEPENDENCIES}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron@develop%intel+coreneuron+debug+tests~legacy-unit model_tests=channel-benchmark,olfactory ^/aevgkbdozl3htdtjhrd5w65n3c6mb2jh | |
| [32;1m$ JSON_SPEC=$(spack --config-scope ${SPACK_CONFIG} spec --json ${SPACK_FULL_SPEC})[0;m | |
| ==> Warning: Missing a source id for neuron@develop | |
| [32;1m$ SPACK_INSTALLED_HASH=$(echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][0][\"${SPACK_PACKAGE}\"][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be mvn7s3za436y6xrhbspwpy7pbewubnvm | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113216/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113216/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 18:15:25 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.44 / 0.51 (85.18 %) | |
| Files: 23743 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'mvn7s3za436y6xrhbspwpy7pbewubnvm' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron@develop%intel+coreneuron+debug~legacy-unit+tests model_tests=channel-benchmark,olfactory | |
| [+] ^coreneuron@develop%intel@19.1.2.254~caliper~codegenopt~gpu~ipo~ispc~knl~legacy-unit+mpi~nmodl~openmp~profile+report+shared~sympy~sympyopt+tests build_type=Debug arch=linux-rhel7-x86_64 | |
| [^] ^boost@1.73.0%intel@19.1.2.254+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 patches=246508e052c44b6f4e8c2542a71c06cacaa72cd1447ab8d2a542b987bc35ace9,4dd507e1f5a29e3b87b15321a4d8c74afdc8331433edabf7aeab89b3c405d556 visibility=hidden arch=linux-rhel7-x86_64 | |
| [^] ^hpe-mpi@2.25.hmpt%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^libsonata-report@1.0.0.20211007%intel@19.1.2.254~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] ^hdf5@1.10.7%intel@19.1.2.254+cxx~debug~fortran+hl~java+mpi+pic+shared~szip~threadsafe api=none arch=linux-rhel7-x86_64 | |
| [^] ^zlib@1.2.11%intel@19.1.2.254+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] ^spdlog@1.8.1%intel@19.1.2.254~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] ^reportinglib@2.5.6%intel@19.1.2.254~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| Concretized | |
| -------------------------------- | |
| - mvn7s3z neuron@develop%intel@19.1.2.254+binary+cmake~codechecks+coreneuron~cross-compile+debug~interviews~ipo+legacy-fr~legacy-unit+memacs+mod-compatibility+mpi+multisend~profile+pysetup+python+rx3d+shared+tests build_type=RelWithDebInfo model_tests=channel-benchmark,olfactory patches=708cb04826b394a858069d93e8c08e1e81e914c23e1ef3da0486e8233834ff6c arch=linux-rhel7-x86_64 | |
| - ymcya3l ^bison@3.6.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - mxqypex ^cmake@3.15.7%intel@19.1.2.254~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [+] aevgkbd ^coreneuron@develop%intel@19.1.2.254~caliper~codegenopt~gpu~ipo~ispc~knl~legacy-unit+mpi~nmodl~openmp~profile+report+shared~sympy~sympyopt+tests build_type=Debug arch=linux-rhel7-x86_64 | |
| [^] pvpzjkl ^boost@1.73.0%intel@19.1.2.254+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 patches=246508e052c44b6f4e8c2542a71c06cacaa72cd1447ab8d2a542b987bc35ace9,4dd507e1f5a29e3b87b15321a4d8c74afdc8331433edabf7aeab89b3c405d556 visibility=hidden arch=linux-rhel7-x86_64 | |
| [^] nnhu6zi ^hpe-mpi@2.25.hmpt%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] 2gn7wjx ^libsonata-report@1.0.0.20211007%intel@19.1.2.254~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] pjaxv63 ^hdf5@1.10.7%intel@19.1.2.254+cxx~debug~fortran+hl~java+mpi+pic+shared~szip~threadsafe api=none arch=linux-rhel7-x86_64 | |
| [^] wjshhip ^zlib@1.2.11%intel@19.1.2.254+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] gwht6mm ^spdlog@1.8.1%intel@19.1.2.254~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] 7eg3tqe ^reportinglib@2.5.6%intel@19.1.2.254~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - 5mabxtb ^flex@2.6.4%intel@19.1.2.254+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] 6vrzcuv ^gettext@0.21%intel@19.1.2.254+bzip2+curses+git~libunistring+libxml2+tar+xz arch=linux-rhel7-x86_64 | |
| [^] 6zbb66a ^bzip2@1.0.8%intel@19.1.2.254+shared arch=linux-rhel7-x86_64 | |
| [^] qlmq4dv ^libiconv@1.16%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] 6lr2umn ^libxml2@2.9.10%intel@19.1.2.254~python arch=linux-rhel7-x86_64 | |
| [^] 2qyzkdl ^pkgconf@1.7.3%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] wzx3yy4 ^xz@5.2.5%intel@19.1.2.254~pic arch=linux-rhel7-x86_64 | |
| [^] nedfnju ^ncurses@6.2%intel@19.1.2.254~symlinks+termlib arch=linux-rhel7-x86_64 | |
| [^] d4pg4b2 ^tar@1.28%intel@19.1.2.254 patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-x86_64 | |
| - nayogh4 ^ninja@1.10.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] i3t5fut ^py-cython@0.29.21%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] xfgkmkd ^py-setuptools@50.3.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] icfhbit ^python@3.8.3%intel@19.1.2.254+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| [^] mr7m2z7 ^py-mpi4py@3.0.3%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] l643i7a ^py-numpy@1.19.4%intel@19.1.2.254+blas+lapack arch=linux-rhel7-x86_64 | |
| [^] nnxc4wm ^intel-mkl@2018.3.222%intel@19.1.2.254~ilp64+shared threads=none arch=linux-rhel7-x86_64 | |
| [+] jo63uk3 ^py-pytest@5.3.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] kcyedyh ^py-attrs@20.3.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] mikhjgq ^py-more-itertools@8.7.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] hziuwhj ^py-packaging@19.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] vpsqgcg ^py-pyparsing@2.4.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] xgnwei3 ^py-six@1.16.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] gc3zsis ^py-pluggy@0.13.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ze65gmo ^py-setuptools-scm@4.1.2%intel@19.1.2.254+toml arch=linux-rhel7-x86_64 | |
| [^] p553wsa ^py-toml@0.10.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] 557icag ^py-py@1.8.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] za7jmvs ^py-wcwidth@0.1.7%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - zniig3b ^py-pytest-cov@2.8.1%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - 2v5wfwa ^py-coverage@5.3%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] kej56sd ^readline@8.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} --config-scope ${SPACK_CONFIG} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC}[0;m | |
| ==> bison@3.6.4 : has external module in ['bison/3.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bison-3.6.4-sqrqli (external bison-3.6.4-ymcya3lbfxylkvsbomj2rbzbvecsldu2) | |
| ==> cmake@3.15.7 : has external module in ['cmake/3.15.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cmake-3.15.7-4373ty (external cmake-3.15.7-mxqypexiy6wmh4hpnmf4lbwwwqhxzscg) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/boost-1.73.0-n5sq7k (external boost-1.73.0-pvpzjklfqyl55rerdxp63j32kpqkfr4z) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.25.hmpt-l6dob7 (external hpe-mpi-2.25.hmpt-nnhu6ziqp6ramcgkmky7i3e2ll5vl5ey) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/zlib-1.2.11-uubmvo (external zlib-1.2.11-wjshhipoj5m66agnke3p2dsjf32qntuf) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/spdlog-1.8.1-gwht6m | |
| ==> flex@2.6.4 : has external module in ['flex/2.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/flex-2.6.4-kpj7of (external flex-2.6.4-5mabxtbvp5xw7gfjcac32iffw27sdssk) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bzip2-1.0.8-vatuhz (external bzip2-1.0.8-6zbb66a3uunskwyljh6sbgo36hbo7lj4) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libiconv-1.16-qlmq4d | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/pkgconf-1.7.3-2qyzkd | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/xz-5.2.5-wzx3yy | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ncurses-6.2-xvsnay (external ncurses-6.2-nedfnju3ptngli3lpj3occtiuoe2x6e3) | |
| [+] /usr (external tar-1.28-d4pg4b2ncvxd3p2ptw3j4os6jb5a7yvy) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ninja-1.10.2-7mzwmh (external ninja-1.10.2-nayogh4gvnag7ybxc2ud5dt4ckxod3cc) | |
| ==> python@3.8.3 : has external module in ['python/3.8.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/python-3.8.3-suxrst (external python-3.8.3-icfhbitmltpoj6w6vghr23ac5erldiic) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/intel-mkl-2018.3.222-xjuqsf (external intel-mkl-2018.3.222-nnxc4wmon4s26gfyily3n6tqa43p36rj) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/readline-8.0-f2v4sr (external readline-8.0-kej56sdf2cwo7ximwd5foo34wzwveqxc) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/reportinglib-2.5.6-7eg3tq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/hdf5-1.10.7-pjaxv6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libxml2-2.9.10-6lr2um | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-six-1.16.0-xgnwei | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-setuptools-50.3.2-xfgkmk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libsonata-report-1.0.0.20211007-2gn7wj | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/gettext-0.21-6vrzcu | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-mpi4py-3.0.3-mr7m2z | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-cython-0.29.21-i3t5fu | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-attrs-20.3.0-kcyedy | |
| ==> Installing py-coverage-5.3-2v5wfwapuwn63xqjymkn5jpew7mdm6uk | |
| ==> No binary for py-coverage-5.3-2v5wfwapuwn63xqjymkn5jpew7mdm6uk found: installing from source | |
| ==> Warning: Missing a source id for neuron@develop | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/28/280baa8ec489c4f542f8940f9c4c2181f0306a8ee1a54eceba071a449fb870a0.tar.gz | |
| ==> py-coverage: Executing phase: 'build' | |
| ==> py-coverage: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-coverage-5.3-2v5wfw | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-wcwidth-0.1.7-za7jmv | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-toml-0.10.0-p553ws | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-more-itertools-8.7.0-mikhjg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pyparsing-2.4.2-vpsqgc | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-aevgkb | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-numpy-1.19.4-l643i7 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-setuptools-scm-4.1.2-ze65gm | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-packaging-19.2-hziuwh | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-py-1.8.0-557ica | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk | |
| ==> Installing py-pytest-cov-2.8.1-zniig3b6klz2ibslrfa3digiozwp46fe | |
| ==> No binary for py-pytest-cov-2.8.1-zniig3b6klz2ibslrfa3digiozwp46fe found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/cc/cc6742d8bac45070217169f5f72ceee1e0e55b0221f54bcf24845972d3a47f2b.tar.gz | |
| ==> py-pytest-cov: Executing phase: 'build' | |
| ==> py-pytest-cov: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-cov-2.8.1-zniig3 | |
| ==> Installing neuron-develop-mvn7s3za436y6xrhbspwpy7pbewubnvm | |
| ==> No binary for neuron-develop-mvn7s3za436y6xrhbspwpy7pbewubnvm found: installing from source | |
| ==> neuron: Executing phase: 'cmake' | |
| ==> neuron: Executing phase: 'build' | |
| ==> neuron: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/neuron-develop-mvn7s3 | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113216/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113216/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 18:52:57 2021 | |
| Hits: 451 / 903 (49.94 %) | |
| Direct: 15 / 912 (1.64 %) | |
| Preprocessed: 436 / 891 (48.93 %) | |
| Misses: 452 | |
| Direct: 897 | |
| Preprocessed: 455 | |
| Uncacheable: 144 | |
| Primary storage: | |
| Hits: 504 / 1818 (27.72 %) | |
| Misses: 1314 | |
| Cache size (GB): 0.43 / 0.51 (83.68 %) | |
| Files: 23295 | |
| Cleanups: 4 | |
| Uncacheable: | |
| Autoconf compile/link: 7 | |
| Called for linking: 121 | |
| Called for preprocessing: 1 | |
| Compilation failed: 3 | |
| No input file: 6 | |
| Preprocessing failed: 6 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.1.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ echo "Returning the number of failed builds, ${num_failures}"[0;m | |
| Returning the number of failed builds, 0 | |
| [32;1m$ exit ${num_failures}[0;m | |
| section_end:1640109181:step_script [0Ksection_start:1640109181:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache neuron-intel-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=109694 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 23856 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/neuron-intel-6[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1640109267:archive_cache [0Ksection_start:1640109267:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=111391 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=113216 responseStatus[0;m=201 Created token[0;m=mpbqzuzd | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=111442 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=113216 responseStatus[0;m=201 Created token[0;m=mpbqzuzd | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=111474 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=113216 responseStatus[0;m=201 Created token[0;m=mpbqzuzd | |
| section_end:1640109268:upload_artifacts_on_success [0Ksection_start:1640109268:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1640109269:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640109343:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640109343:resolve_secrets [0Ksection_start:1640109343:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor107204497, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113217 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113217 | |
| A slurm job will be created with name GL_J113217_PROD_P112_CP3_C20 | |
| Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142213 | |
| job state: PD | |
| job state: R | |
| section_end:1640109345:prepare_executor [0Ksection_start:1640109345:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i6n18 via bbpv1.epfl.ch... | |
| section_end:1640109349:prepare_script [0Ksection_start:1640109349:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640109350:get_sources [0Ksection_start:1640109350:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for neuron-nvhpc-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=231436 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1640109674:restore_cache [0Ksection_start:1640109674:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron+nmodl:gpu (113209)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=235401 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113209 responseStatus[0;m=200 OK token[0;m=menUS1ag | |
| section_end:1640109675:download_artifacts [0Ksection_start:1640109675:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES="${SPACK_PACKAGE_DEPENDENCIES}^py-cython%gcc^py-numpy%gcc"[0;m | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ SPACK_CONFIG=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_CONFIG}[0;m | |
| [32;1m$ cat > ${SPACK_CONFIG}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113217/_/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113217/_/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113217/_/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Directory in which to run tests and store test results. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Tests will be stored in directories named by date/time and package | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113217/_/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113217/_/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:40 # Locations where different types of modules should be installed. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ if [ "${SPACK_EXPORT_SPECS}" ]; then[0;m | |
| [32;1m$ export XDG_CONFIG_HOME=${PWD}/local_config[0;m | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ REF_OVERRIDE_NAME=SPACK_PACKAGE_REF_${SPACK_PACKAGE}[0;m | |
| [32;1m$ PACKAGE_REF=${!REF_OVERRIDE_NAME:-$SPACK_PACKAGE_REF}[0;m | |
| [32;1m$ SPACK_PACKAGE_FILE="$(spack location -p ${SPACK_PACKAGE})/package.py"[0;m | |
| [32;1m$ if [ "${PACKAGE_REF}" ]; then[0;m | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}@develop${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER}${SPACK_PACKAGE_SPEC}${SPACK_PACKAGE_DEPENDENCIES:+ }${SPACK_PACKAGE_DEPENDENCIES}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron@develop%nvhpc+coreneuron+debug+tests~legacy-unit model_tests=channel-benchmark,olfactory ^/qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo^py-cython%gcc^py-numpy%gcc | |
| [32;1m$ JSON_SPEC=$(spack --config-scope ${SPACK_CONFIG} spec --json ${SPACK_FULL_SPEC})[0;m | |
| ==> Warning: Missing a source id for neuron@develop | |
| ==> Warning: Missing a source id for nmodl@develop | |
| [32;1m$ SPACK_INSTALLED_HASH=$(echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][0][\"${SPACK_PACKAGE}\"][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be l5xudub2hnpapwg7j7jfpyyfppajgmz5 | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113217/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113217/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 19:03:44 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.46 / 0.51 (90.76 %) | |
| Files: 31488 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'l5xudub2hnpapwg7j7jfpyyfppajgmz5' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron@develop%nvhpc+coreneuron+debug~legacy-unit+tests model_tests=channel-benchmark,olfactory | |
| [+] ^coreneuron@develop%nvhpc@21.11~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl~openmp~profile~report+shared~sympy~sympyopt+tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] ^boost@1.73.0%nvhpc@21.11+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 patches=246508e052c44b6f4e8c2542a71c06cacaa72cd1447ab8d2a542b987bc35ace9,4dd507e1f5a29e3b87b15321a4d8c74afdc8331433edabf7aeab89b3c405d556,d56f31f2a3956630e5372b987d39cb79b5d2c71760fa150b8eb4a3f1a07e2658 visibility=hidden arch=linux-rhel7-x86_64 | |
| [^] ^cuda@11.5.1%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^hpe-mpi@2.25.hmpt%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] ^nmodl@develop%nvhpc@21.11~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ^py-jinja2@2.10.3%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] ^py-babel@2.7.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] ^py-pytz@2020.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] ^python@3.8.3%nvhpc@21.11+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| [^] ^py-setuptools@50.3.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] ^py-markupsafe@1.1.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] ^py-pytest@5.3.4%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-attrs@20.3.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-more-itertools@8.7.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-packaging@19.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-pyparsing@2.4.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-six@1.16.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-pluggy@0.13.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-py@1.8.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ^py-wcwidth@0.1.7%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] ^py-pyyaml@5.3.1%gcc@9.3.0+libyaml arch=linux-rhel7-x86_64 | |
| [^] ^libyaml@0.2.4%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] ^py-sympy@1.4%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] ^py-mpmath@1.1.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| - ^py-cython%gcc | |
| - ^py-numpy%gcc | |
| Concretized | |
| -------------------------------- | |
| - l5xudub neuron@develop%nvhpc@21.11+binary+cmake~codechecks+coreneuron~cross-compile+debug~interviews~ipo+legacy-fr~legacy-unit+memacs+mod-compatibility+mpi+multisend~profile+pysetup+python+rx3d+shared+tests build_type=RelWithDebInfo model_tests=channel-benchmark,olfactory patches=708cb04826b394a858069d93e8c08e1e81e914c23e1ef3da0486e8233834ff6c arch=linux-rhel7-x86_64 | |
| - ilh3i6h ^bison@3.6.4%nvhpc@21.11 patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| - 3id4xmv ^cmake@3.15.7%nvhpc@21.11~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [+] qnf2dk3 ^coreneuron@develop%nvhpc@21.11~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl~openmp~profile~report+shared~sympy~sympyopt+tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] ugnnauj ^boost@1.73.0%nvhpc@21.11+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 patches=246508e052c44b6f4e8c2542a71c06cacaa72cd1447ab8d2a542b987bc35ace9,4dd507e1f5a29e3b87b15321a4d8c74afdc8331433edabf7aeab89b3c405d556,d56f31f2a3956630e5372b987d39cb79b5d2c71760fa150b8eb4a3f1a07e2658 visibility=hidden arch=linux-rhel7-x86_64 | |
| [^] rtdgzju ^cuda@11.5.1%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] rvmqyas ^hpe-mpi@2.25.hmpt%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] zfakiou ^nmodl@develop%nvhpc@21.11~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] 56d4qrp ^py-jinja2@2.10.3%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] wmslpld ^py-babel@2.7.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] oy6pnkw ^py-pytz@2020.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] boepiq7 ^python@3.8.3%nvhpc@21.11+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| [^] qtsnebc ^py-setuptools@50.3.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] 7ap4eon ^py-markupsafe@1.1.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] nklcaqd ^py-pytest@5.3.4%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] hv3l6m3 ^py-attrs@20.3.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ric2ffi ^py-more-itertools@8.7.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] tnxvjns ^py-packaging@19.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] nqd6d4a ^py-pyparsing@2.4.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] dt3gjsu ^py-six@1.16.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] rlm5oq3 ^py-pluggy@0.13.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] auxibxx ^py-py@1.8.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] a5khbku ^py-wcwidth@0.1.7%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] 4tb344r ^py-pyyaml@5.3.1%gcc@9.3.0+libyaml arch=linux-rhel7-x86_64 | |
| [^] ggibzjm ^libyaml@0.2.4%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] qqqe57g ^py-sympy@1.4%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] 7efatr5 ^py-mpmath@1.1.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| - o7642tm ^flex@2.6.4%nvhpc@21.11+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] 5hjnqo3 ^gettext@0.21%nvhpc@21.11+bzip2+curses+git~libunistring+libxml2+tar+xz patches=6e530daaae14725d578d6cafbf7d523accc9ed29fd817bd421cf98a5f51e9e1b,bbe9f0539aa504966ac104224d25a9260faa1015ed3adda936467be9c7de4eae,fb27a3fb5e414bdc50ffebbbe2da986473df70a493caa4396226f51a67c55424 arch=linux-rhel7-x86_64 | |
| [^] uipobjs ^bzip2@1.0.8%nvhpc@21.11+shared arch=linux-rhel7-x86_64 | |
| [^] ruu3jsw ^libiconv@1.16%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] bt3jq7e ^libxml2@2.9.10%nvhpc@21.11~python patches=05ff238cf435825ef835c7ae39376b52dc83d8caf19e962f0766c841386a305a,10a88ad47f9797cf7cf2d7d07241f665a3b6d1f31fa026728c8c2ae93e1664e9 arch=linux-rhel7-x86_64 | |
| [^] av5lrep ^pkgconf@1.7.3%nvhpc@21.11 patches=6e94c68d45d4cb8148c8c53699921d10b13784f758f0563ce64c838e0ca48ceb arch=linux-rhel7-x86_64 | |
| [^] l6r3lhl ^xz@5.2.5%nvhpc@21.11~pic arch=linux-rhel7-x86_64 | |
| [^] tx5mit7 ^zlib@1.2.11%nvhpc@21.11+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] zuul7ic ^ncurses@6.2%nvhpc@21.11~symlinks+termlib arch=linux-rhel7-x86_64 | |
| [^] tnkl573 ^tar@1.28%nvhpc@21.11 patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,4e8cdf69294c376c45c39d059f11769c5c996c2d84cdfb56eb69890e0aa4e991,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-x86_64 | |
| - 6yf3e2o ^ninja@1.10.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] arjv2hk ^py-cython@0.29.21%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] 6upm4ih ^py-mpi4py@3.0.3%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [+] k3gs7u3 ^py-numpy@1.19.4%gcc@9.3.0+blas+lapack arch=linux-rhel7-x86_64 | |
| [^] syahjjg ^intel-mkl@2018.3.222%gcc@9.3.0~ilp64+shared threads=none arch=linux-rhel7-x86_64 | |
| [^] ghwc5fz ^py-pytest-cov@2.8.1%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] vnepfwd ^py-coverage@5.3%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] rx3mekq ^readline@8.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} --config-scope ${SPACK_CONFIG} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC}[0;m | |
| ==> bison@3.6.4 : has external module in ['bison/3.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bison-3.6.4-sqrqli (external bison-3.6.4-ilh3i6hsazuqblyjs46wno4wkyhcaycx) | |
| ==> cmake@3.15.7 : has external module in ['cmake/3.15.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cmake-3.15.7-4373ty (external cmake-3.15.7-3id4xmvyepn3luv5kvzabnojgl4kjbvv) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/boost-1.73.0-n5sq7k (external boost-1.73.0-ugnnaujozxx7u35zmkozzxs42p6ujetq) | |
| ==> cuda@11.5.1 : has external module in ['cuda/11.5.1'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cuda-11.5.1-gygt6u (external cuda-11.5.1-rtdgzjuarsbhlad5e2q6z6hb35poq3ba) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.25.hmpt-l6dob7 (external hpe-mpi-2.25.hmpt-rvmqyashdppnfjw5xoegvqeeaassuana) | |
| ==> python@3.8.3 : has external module in ['python/3.8.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/python-3.8.3-suxrst (external python-3.8.3-boepiq7qwlm3d6e5almdw67q65o5quqn) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/libyaml-0.2.4-ggibzj | |
| ==> flex@2.6.4 : has external module in ['flex/2.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/flex-2.6.4-kpj7of (external flex-2.6.4-o7642tm7j36qtzmyzthrmdbfctyfsdnn) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bzip2-1.0.8-vatuhz (external bzip2-1.0.8-uipobjsrjwxnpkcrag4phvugoj7kn6h7) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/libiconv-1.16-ruu3js | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/pkgconf-1.7.3-av5lre | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/xz-5.2.5-l6r3lh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/zlib-1.2.11-uubmvo (external zlib-1.2.11-tx5mit7opia6t3thbrdiubnz57rttfux) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ncurses-6.2-xvsnay (external ncurses-6.2-zuul7ickymna5aj5244q6ttogpw3o7wr) | |
| [+] /usr (external tar-1.28-tnkl5732tb2dcrmu5z5kndpoiolmqzwh) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/intel-mkl-2018.3.222-xjuqsf (external intel-mkl-2018.3.222-syahjjgpawq4c4jicb753yciaowfyr75) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/readline-8.0-f2v4sr (external readline-8.0-rx3mekqaza7t4ajd57wqkzlm2yi7pihm) | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-mpmath-1.1.0-7efatr | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-wcwidth-0.1.7-a5khbk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-attrs-20.3.0-hv3l6m | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-more-itertools-8.7.0-ric2ff | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-py-1.8.0-auxibx | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ninja-1.10.2-7mzwmh (external ninja-1.10.2-6yf3e2oymeefngifdautp2wd347lcijn) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pyparsing-2.4.2-nqd6d4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-six-1.16.0-dt3gjs | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-pytz-2020.1-oy6pnk | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-markupsafe-1.1.1-7ap4eo | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-setuptools-50.3.2-qtsneb | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pluggy-0.13.0-rlm5oq | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-pyyaml-5.3.1-4tb344 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/libxml2-2.9.10-bt3jq7 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-sympy-1.4-qqqe57 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-coverage-5.3-vnepfw | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/py-cython-0.29.21-arjv2h | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-babel-2.7.0-wmslpl | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-packaging-19.2-tnxvjn | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-mpi4py-3.0.3-6upm4i | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/gettext-0.21-5hjnqo | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/py-numpy-1.19.4-k3gs7u | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-jinja2-2.10.3-56d4qr | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pytest-5.3.4-nklcaq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pytest-cov-2.8.1-ghwc5f | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.11/nmodl-develop-zfakio | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.11/coreneuron-develop-qnf2dk | |
| ==> Installing neuron-develop-l5xudub2hnpapwg7j7jfpyyfppajgmz5 | |
| ==> No binary for neuron-develop-l5xudub2hnpapwg7j7jfpyyfppajgmz5 found: installing from source | |
| ==> Warning: Missing a source id for nmodl@develop | |
| ==> Warning: Missing a source id for neuron@develop | |
| ==> neuron: Executing phase: 'cmake' | |
| ==> neuron: Executing phase: 'build' | |
| Session terminated, killing shell... ...killed. | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 142213.4 ON r1i6n18 CANCELLED AT 2021-12-21T19:56:06 DUE TO TIME LIMIT *** | |
| srun: error: r1i6n18: task 0: Terminated | |
| section_end:1640112967:step_script [0K[31;1mERROR: Job failed: execution took longer than 1h0m0s seconds | |
| [0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640108278:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640108278:resolve_secrets [0Ksection_start:1640108278:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor736114802, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113215 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113215 | |
| A slurm job will be created with name GL_J113215_PROD_P112_CP1_C13 | |
| Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142185 | |
| job state: R | |
| section_end:1640108279:prepare_executor [0Ksection_start:1640108279:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i6n19 via bbpv1.epfl.ch... | |
| section_end:1640108282:prepare_script [0Ksection_start:1640108282:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640108282:get_sources [0Ksection_start:1640108282:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for neuron-intel-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=95634 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1640108484:restore_cache [0Ksection_start:1640108484:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron+nmodl:intel (113207)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=97674 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113207 responseStatus[0;m=200 OK token[0;m=bhErH5v- | |
| section_end:1640108484:download_artifacts [0Ksection_start:1640108484:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ SPACK_CONFIG=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_CONFIG}[0;m | |
| [32;1m$ cat > ${SPACK_CONFIG}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113215/_/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113215/_/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113215/_/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Directory in which to run tests and store test results. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Tests will be stored in directories named by date/time and package | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113215/_/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113215/_/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:40 # Locations where different types of modules should be installed. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ if [ "${SPACK_EXPORT_SPECS}" ]; then[0;m | |
| [32;1m$ export XDG_CONFIG_HOME=${PWD}/local_config[0;m | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ REF_OVERRIDE_NAME=SPACK_PACKAGE_REF_${SPACK_PACKAGE}[0;m | |
| [32;1m$ PACKAGE_REF=${!REF_OVERRIDE_NAME:-$SPACK_PACKAGE_REF}[0;m | |
| [32;1m$ SPACK_PACKAGE_FILE="$(spack location -p ${SPACK_PACKAGE})/package.py"[0;m | |
| [32;1m$ if [ "${PACKAGE_REF}" ]; then[0;m | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}@develop${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER}${SPACK_PACKAGE_SPEC}${SPACK_PACKAGE_DEPENDENCIES:+ }${SPACK_PACKAGE_DEPENDENCIES}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron@develop%intel+coreneuron+debug+tests~legacy-unit model_tests=channel-benchmark,olfactory ^/cwjs4t3f4wyl5jax3fb2obxbvjopwgn3 | |
| [32;1m$ JSON_SPEC=$(spack --config-scope ${SPACK_CONFIG} spec --json ${SPACK_FULL_SPEC})[0;m | |
| ==> Warning: Missing a source id for neuron@develop | |
| ==> Warning: Missing a source id for nmodl@develop | |
| [32;1m$ SPACK_INSTALLED_HASH=$(echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][0][\"${SPACK_PACKAGE}\"][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be jhigcl7ephcbe47kbyz2znl76v2kaeev | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113215/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113215/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 18:44:36 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.44 / 0.51 (85.18 %) | |
| Files: 23743 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'jhigcl7ephcbe47kbyz2znl76v2kaeev' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron@develop%intel+coreneuron+debug~legacy-unit+tests model_tests=channel-benchmark,olfactory | |
| [+] ^coreneuron@develop%intel@19.1.2.254~caliper~codegenopt~gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl~openmp~profile+report+shared~sympy~sympyopt+tests build_type=Debug arch=linux-rhel7-x86_64 | |
| [^] ^boost@1.73.0%intel@19.1.2.254+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 patches=246508e052c44b6f4e8c2542a71c06cacaa72cd1447ab8d2a542b987bc35ace9,4dd507e1f5a29e3b87b15321a4d8c74afdc8331433edabf7aeab89b3c405d556 visibility=hidden arch=linux-rhel7-x86_64 | |
| [^] ^hpe-mpi@2.25.hmpt%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^libsonata-report@1.0.0.20211007%intel@19.1.2.254~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] ^hdf5@1.10.7%intel@19.1.2.254+cxx~debug~fortran+hl~java+mpi+pic+shared~szip~threadsafe api=none arch=linux-rhel7-x86_64 | |
| [^] ^zlib@1.2.11%intel@19.1.2.254+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] ^spdlog@1.8.1%intel@19.1.2.254~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ^nmodl@develop%intel@19.1.2.254~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ^py-jinja2@2.10.3%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-babel@2.7.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^py-pytz@2020.1%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^python@3.8.3%intel@19.1.2.254+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| [^] ^py-setuptools@50.3.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-markupsafe@1.1.1%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-pytest@5.3.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^py-attrs@20.3.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-more-itertools@8.7.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-packaging@19.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^py-pyparsing@2.4.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^py-six@1.16.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-pluggy@0.13.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-py@1.8.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-wcwidth@0.1.7%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^py-pyyaml@5.3.1%intel@19.1.2.254+libyaml arch=linux-rhel7-x86_64 | |
| [^] ^libyaml@0.2.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-sympy@1.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] ^py-mpmath@1.1.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^reportinglib@2.5.6%intel@19.1.2.254~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| Concretized | |
| -------------------------------- | |
| - jhigcl7 neuron@develop%intel@19.1.2.254+binary+cmake~codechecks+coreneuron~cross-compile+debug~interviews~ipo+legacy-fr~legacy-unit+memacs+mod-compatibility+mpi+multisend~profile+pysetup+python+rx3d+shared+tests build_type=RelWithDebInfo model_tests=channel-benchmark,olfactory patches=708cb04826b394a858069d93e8c08e1e81e914c23e1ef3da0486e8233834ff6c arch=linux-rhel7-x86_64 | |
| - ymcya3l ^bison@3.6.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - mxqypex ^cmake@3.15.7%intel@19.1.2.254~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [+] cwjs4t3 ^coreneuron@develop%intel@19.1.2.254~caliper~codegenopt~gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl~openmp~profile+report+shared~sympy~sympyopt+tests build_type=Debug arch=linux-rhel7-x86_64 | |
| [^] pvpzjkl ^boost@1.73.0%intel@19.1.2.254+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 patches=246508e052c44b6f4e8c2542a71c06cacaa72cd1447ab8d2a542b987bc35ace9,4dd507e1f5a29e3b87b15321a4d8c74afdc8331433edabf7aeab89b3c405d556 visibility=hidden arch=linux-rhel7-x86_64 | |
| [^] nnhu6zi ^hpe-mpi@2.25.hmpt%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] 2gn7wjx ^libsonata-report@1.0.0.20211007%intel@19.1.2.254~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] pjaxv63 ^hdf5@1.10.7%intel@19.1.2.254+cxx~debug~fortran+hl~java+mpi+pic+shared~szip~threadsafe api=none arch=linux-rhel7-x86_64 | |
| [^] wjshhip ^zlib@1.2.11%intel@19.1.2.254+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] gwht6mm ^spdlog@1.8.1%intel@19.1.2.254~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] lqyttqy ^nmodl@develop%intel@19.1.2.254~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ubiktsv ^py-jinja2@2.10.3%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] yrbfda2 ^py-babel@2.7.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] oe2c27i ^py-pytz@2020.1%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] icfhbit ^python@3.8.3%intel@19.1.2.254+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| [^] xfgkmkd ^py-setuptools@50.3.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] oe2hrft ^py-markupsafe@1.1.1%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] jo63uk3 ^py-pytest@5.3.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] kcyedyh ^py-attrs@20.3.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] mikhjgq ^py-more-itertools@8.7.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] hziuwhj ^py-packaging@19.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] vpsqgcg ^py-pyparsing@2.4.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] xgnwei3 ^py-six@1.16.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] gc3zsis ^py-pluggy@0.13.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] 557icag ^py-py@1.8.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] za7jmvs ^py-wcwidth@0.1.7%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] chpzzlm ^py-pyyaml@5.3.1%intel@19.1.2.254+libyaml arch=linux-rhel7-x86_64 | |
| [^] 4237mpr ^libyaml@0.2.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] runxrmn ^py-sympy@1.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] d6t5uhn ^py-mpmath@1.1.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] 7eg3tqe ^reportinglib@2.5.6%intel@19.1.2.254~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - 5mabxtb ^flex@2.6.4%intel@19.1.2.254+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] 6vrzcuv ^gettext@0.21%intel@19.1.2.254+bzip2+curses+git~libunistring+libxml2+tar+xz arch=linux-rhel7-x86_64 | |
| [^] 6zbb66a ^bzip2@1.0.8%intel@19.1.2.254+shared arch=linux-rhel7-x86_64 | |
| [^] qlmq4dv ^libiconv@1.16%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] 6lr2umn ^libxml2@2.9.10%intel@19.1.2.254~python arch=linux-rhel7-x86_64 | |
| [^] 2qyzkdl ^pkgconf@1.7.3%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] wzx3yy4 ^xz@5.2.5%intel@19.1.2.254~pic arch=linux-rhel7-x86_64 | |
| [^] nedfnju ^ncurses@6.2%intel@19.1.2.254~symlinks+termlib arch=linux-rhel7-x86_64 | |
| [^] d4pg4b2 ^tar@1.28%intel@19.1.2.254 patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-x86_64 | |
| - nayogh4 ^ninja@1.10.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] i3t5fut ^py-cython@0.29.21%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] mr7m2z7 ^py-mpi4py@3.0.3%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] l643i7a ^py-numpy@1.19.4%intel@19.1.2.254+blas+lapack arch=linux-rhel7-x86_64 | |
| [^] nnxc4wm ^intel-mkl@2018.3.222%intel@19.1.2.254~ilp64+shared threads=none arch=linux-rhel7-x86_64 | |
| [+] zniig3b ^py-pytest-cov@2.8.1%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [+] 2v5wfwa ^py-coverage@5.3%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] kej56sd ^readline@8.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} --config-scope ${SPACK_CONFIG} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC}[0;m | |
| ==> bison@3.6.4 : has external module in ['bison/3.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bison-3.6.4-sqrqli (external bison-3.6.4-ymcya3lbfxylkvsbomj2rbzbvecsldu2) | |
| ==> cmake@3.15.7 : has external module in ['cmake/3.15.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cmake-3.15.7-4373ty (external cmake-3.15.7-mxqypexiy6wmh4hpnmf4lbwwwqhxzscg) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/boost-1.73.0-n5sq7k (external boost-1.73.0-pvpzjklfqyl55rerdxp63j32kpqkfr4z) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.25.hmpt-l6dob7 (external hpe-mpi-2.25.hmpt-nnhu6ziqp6ramcgkmky7i3e2ll5vl5ey) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/zlib-1.2.11-uubmvo (external zlib-1.2.11-wjshhipoj5m66agnke3p2dsjf32qntuf) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/spdlog-1.8.1-gwht6m | |
| ==> python@3.8.3 : has external module in ['python/3.8.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/python-3.8.3-suxrst (external python-3.8.3-icfhbitmltpoj6w6vghr23ac5erldiic) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libyaml-0.2.4-4237mp | |
| ==> flex@2.6.4 : has external module in ['flex/2.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/flex-2.6.4-kpj7of (external flex-2.6.4-5mabxtbvp5xw7gfjcac32iffw27sdssk) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bzip2-1.0.8-vatuhz (external bzip2-1.0.8-6zbb66a3uunskwyljh6sbgo36hbo7lj4) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libiconv-1.16-qlmq4d | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/pkgconf-1.7.3-2qyzkd | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/xz-5.2.5-wzx3yy | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ncurses-6.2-xvsnay (external ncurses-6.2-nedfnju3ptngli3lpj3occtiuoe2x6e3) | |
| [+] /usr (external tar-1.28-d4pg4b2ncvxd3p2ptw3j4os6jb5a7yvy) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/intel-mkl-2018.3.222-xjuqsf (external intel-mkl-2018.3.222-nnxc4wmon4s26gfyily3n6tqa43p36rj) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/readline-8.0-f2v4sr (external readline-8.0-kej56sdf2cwo7ximwd5foo34wzwveqxc) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/reportinglib-2.5.6-7eg3tq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/hdf5-1.10.7-pjaxv6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-setuptools-50.3.2-xfgkmk | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-mpmath-1.1.0-d6t5uh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pytz-2020.1-oe2c27 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-markupsafe-1.1.1-oe2hrf | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-py-1.8.0-557ica | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-attrs-20.3.0-kcyedy | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-wcwidth-0.1.7-za7jmv | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pyparsing-2.4.2-vpsqgc | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ninja-1.10.2-7mzwmh (external ninja-1.10.2-nayogh4gvnag7ybxc2ud5dt4ckxod3cc) | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-more-itertools-8.7.0-mikhjg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-six-1.16.0-xgnwei | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pyyaml-5.3.1-chpzzl | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libxml2-2.9.10-6lr2um | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libsonata-report-1.0.0.20211007-2gn7wj | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-cython-0.29.21-i3t5fu | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-mpi4py-3.0.3-mr7m2z | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-coverage-5.3-2v5wfw | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-sympy-1.4-runxrm | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-babel-2.7.0-yrbfda | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-packaging-19.2-hziuwh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/gettext-0.21-6vrzcu | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-numpy-1.19.4-l643i7 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-jinja2-2.10.3-ubikts | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-cov-2.8.1-zniig3 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/nmodl-develop-lqyttq | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-cwjs4t | |
| ==> Installing neuron-develop-jhigcl7ephcbe47kbyz2znl76v2kaeev | |
| ==> No binary for neuron-develop-jhigcl7ephcbe47kbyz2znl76v2kaeev found: installing from source | |
| ==> Warning: Missing a source id for nmodl@develop | |
| ==> Warning: Missing a source id for neuron@develop | |
| ==> neuron: Executing phase: 'cmake' | |
| ==> neuron: Executing phase: 'build' | |
| Session terminated, killing shell... ...killed. | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 142185.4 ON r1i6n19 CANCELLED AT 2021-12-21T19:38:06 DUE TO TIME LIMIT *** | |
| srun: error: r1i6n19: task 0: Terminated | |
| section_end:1640111887:step_script [0K[31;1mERROR: Job failed: execution took longer than 1h0m0s seconds | |
| [0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640104983:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640104983:resolve_secrets [0Ksection_start:1640104983:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor201131972, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113206 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113206 | |
| A slurm job will be created with name GL_J113206_PROD_P112_CP11_C21 | |
| Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142015 | |
| job state: PD | |
| job state: R | |
| section_end:1640104986:prepare_executor [0Ksection_start:1640104986:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i6n19 via bbpv1.epfl.ch... | |
| section_end:1640104991:prepare_script [0Ksection_start:1640104991:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640104991:get_sources [0Ksection_start:1640104991:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for nmodl-nvhpc-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=20240 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1640105038:restore_cache [0Ksection_start:1640105038:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for spack_setup (113204)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=22157 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113204 responseStatus[0;m=200 OK token[0;m=tiEN87np | |
| section_end:1640105040:download_artifacts [0Ksection_start:1640105040:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ SPACK_CONFIG=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_CONFIG}[0;m | |
| [32;1m$ cat > ${SPACK_CONFIG}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113206/_/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113206/_/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113206/_/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Directory in which to run tests and store test results. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Tests will be stored in directories named by date/time and package | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113206/_/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113206/_/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:40 # Locations where different types of modules should be installed. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ if [ "${SPACK_EXPORT_SPECS}" ]; then[0;m | |
| [32;1m$ export XDG_CONFIG_HOME=${PWD}/local_config[0;m | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ REF_OVERRIDE_NAME=SPACK_PACKAGE_REF_${SPACK_PACKAGE}[0;m | |
| [32;1m$ PACKAGE_REF=${!REF_OVERRIDE_NAME:-$SPACK_PACKAGE_REF}[0;m | |
| [32;1m$ SPACK_PACKAGE_FILE="$(spack location -p ${SPACK_PACKAGE})/package.py"[0;m | |
| [32;1m$ if [ "${PACKAGE_REF}" ]; then[0;m | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}@develop${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER}${SPACK_PACKAGE_SPEC}${SPACK_PACKAGE_DEPENDENCIES:+ }${SPACK_PACKAGE_DEPENDENCIES}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install nmodl@develop%nvhpc~legacy-unit ^bison%gcc^flex%gcc^py-jinja2%gcc^py-sympy%gcc^py-pyyaml%gcc | |
| [32;1m$ JSON_SPEC=$(spack --config-scope ${SPACK_CONFIG} spec --json ${SPACK_FULL_SPEC})[0;m | |
| ==> Warning: Missing a source id for nmodl@develop | |
| [32;1m$ SPACK_INSTALLED_HASH=$(echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][0][\"${SPACK_PACKAGE}\"][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be zfakioujxsm45dlnonboqvphrxexao57 | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113206/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113206/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 17:52:22 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.47 / 0.51 (91.61 %) | |
| Files: 1803 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'zfakioujxsm45dlnonboqvphrxexao57' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - nmodl@develop%nvhpc~legacy-unit | |
| - ^bison%gcc | |
| - ^flex%gcc | |
| - ^py-jinja2%gcc | |
| - ^py-pyyaml%gcc | |
| - ^py-sympy%gcc | |
| Concretized | |
| -------------------------------- | |
| - zfakiou nmodl@develop%nvhpc@21.11~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - ilh3i6h ^bison@3.6.4%nvhpc@21.11 patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| - 3id4xmv ^cmake@3.15.7%nvhpc@21.11~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| - o7642tm ^flex@2.6.4%nvhpc@21.11+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| - 6yf3e2o ^ninja@1.10.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| - 56d4qrp ^py-jinja2@2.10.3%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| - wmslpld ^py-babel@2.7.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| - oy6pnkw ^py-pytz@2020.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] qtsnebc ^py-setuptools@50.3.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] boepiq7 ^python@3.8.3%nvhpc@21.11+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| - 7ap4eon ^py-markupsafe@1.1.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] nklcaqd ^py-pytest@5.3.4%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] hv3l6m3 ^py-attrs@20.3.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] ric2ffi ^py-more-itertools@8.7.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] tnxvjns ^py-packaging@19.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] nqd6d4a ^py-pyparsing@2.4.2%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] dt3gjsu ^py-six@1.16.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] rlm5oq3 ^py-pluggy@0.13.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] qbjsyll ^py-setuptools-scm@4.1.2%nvhpc@21.11+toml arch=linux-rhel7-x86_64 | |
| [^] jtaqy3k ^py-toml@0.10.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] auxibxx ^py-py@1.8.0%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| [^] a5khbku ^py-wcwidth@0.1.7%nvhpc@21.11 arch=linux-rhel7-x86_64 | |
| - 4tb344r ^py-pyyaml@5.3.1%gcc@9.3.0+libyaml arch=linux-rhel7-x86_64 | |
| [^] ggibzjm ^libyaml@0.2.4%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| - qqqe57g ^py-sympy@1.4%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| - 7efatr5 ^py-mpmath@1.1.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} --config-scope ${SPACK_CONFIG} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC}[0;m | |
| ==> bison@3.6.4 : has external module in ['bison/3.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bison-3.6.4-sqrqli (external bison-3.6.4-ilh3i6hsazuqblyjs46wno4wkyhcaycx) | |
| ==> cmake@3.15.7 : has external module in ['cmake/3.15.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cmake-3.15.7-4373ty (external cmake-3.15.7-3id4xmvyepn3luv5kvzabnojgl4kjbvv) | |
| ==> flex@2.6.4 : has external module in ['flex/2.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/flex-2.6.4-kpj7of (external flex-2.6.4-o7642tm7j36qtzmyzthrmdbfctyfsdnn) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ninja-1.10.2-7mzwmh (external ninja-1.10.2-6yf3e2oymeefngifdautp2wd347lcijn) | |
| ==> python@3.8.3 : has external module in ['python/3.8.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/python-3.8.3-suxrst (external python-3.8.3-boepiq7qwlm3d6e5almdw67q65o5quqn) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/libyaml-0.2.4-ggibzj | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-six-1.16.0-dt3gjs | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-setuptools-50.3.2-qtsneb | |
| ==> Installing py-mpmath-1.1.0-7efatr5xp6ijytyys53hdbzdcfizj6f7 | |
| ==> No binary for py-mpmath-1.1.0-7efatr5xp6ijytyys53hdbzdcfizj6f7 found: installing from source | |
| ==> Warning: Missing a source id for nmodl@develop | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/fc/fc17abe05fbab3382b61a123c398508183406fa132e0223874578e20946499f6.tar.gz | |
| ==> py-mpmath: Executing phase: 'build' | |
| ==> py-mpmath: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-mpmath-1.1.0-7efatr | |
| ==> Installing py-pyyaml-5.3.1-4tb344rji4vizzqbe7vutaodgeetbxnt | |
| ==> No binary for py-pyyaml-5.3.1-4tb344rji4vizzqbe7vutaodgeetbxnt found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/b8/b8eac752c5e14d3eca0e6dd9199cd627518cb5ec06add0de9d32baeee6fe645d.tar.gz | |
| ==> py-pyyaml: Executing phase: 'build_ext' | |
| ==> py-pyyaml: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-pyyaml-5.3.1-4tb344 | |
| ==> Installing py-markupsafe-1.1.1-7ap4eonjj5kjovymydraam2pebih5ygm | |
| ==> No binary for py-markupsafe-1.1.1-7ap4eonjj5kjovymydraam2pebih5ygm found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/29/29872e92839765e546828bb7754a68c418d927cd064fd4708fab9fe9c8bb116b.tar.gz | |
| ==> py-markupsafe: Executing phase: 'build' | |
| ==> py-markupsafe: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-markupsafe-1.1.1-7ap4eo | |
| ==> Installing py-pytz-2020.1-oy6pnkwkgv6v554uiepxhhrc33tbwxd7 | |
| ==> No binary for py-pytz-2020.1-oy6pnkwkgv6v554uiepxhhrc33tbwxd7 found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/c3/c35965d010ce31b23eeb663ed3cc8c906275d6be1a34393a1d73a41febf4a048.tar.gz | |
| ==> py-pytz: Executing phase: 'build' | |
| ==> py-pytz: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-pytz-2020.1-oy6pnk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-more-itertools-8.7.0-ric2ff | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-wcwidth-0.1.7-a5khbk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-toml-0.10.0-jtaqy3 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-attrs-20.3.0-hv3l6m | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pyparsing-2.4.2-nqd6d4 | |
| ==> Installing py-sympy-1.4-qqqe57g6iljndfgfmziodof6y4csagzm | |
| ==> No binary for py-sympy-1.4-qqqe57g6iljndfgfmziodof6y4csagzm found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/71/71a11e5686ae7ab6cb8feb5bd2651ef4482f8fd43a7c27e645a165e4353b23e1.tar.gz | |
| ==> py-sympy: Executing phase: 'build' | |
| ==> py-sympy: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-sympy-1.4-qqqe57 | |
| ==> Installing py-babel-2.7.0-wmslplddrwaswc2jxsg42t2n6qwxcpxr | |
| ==> No binary for py-babel-2.7.0-wmslplddrwaswc2jxsg42t2n6qwxcpxr found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/e8/e86135ae101e31e2c8ec20a4e0c5220f4eed12487d5cf3f78be7e98d3a57fc28.tar.gz | |
| ==> py-babel: Executing phase: 'build' | |
| ==> py-babel: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-babel-2.7.0-wmslpl | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-setuptools-scm-4.1.2-qbjsyl | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-packaging-19.2-tnxvjn | |
| ==> Installing py-jinja2-2.10.3-56d4qrpcad4eylgllie3r3mhklzapldd | |
| ==> No binary for py-jinja2-2.10.3-56d4qrpcad4eylgllie3r3mhklzapldd found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/9f/9fe95f19286cfefaa917656583d020be14e7859c6b0252588391e47db34527de.tar.gz | |
| ==> py-jinja2: Executing phase: 'build' | |
| ==> py-jinja2: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-jinja2-2.10.3-56d4qr | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pluggy-0.13.0-rlm5oq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-py-1.8.0-auxibx | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.11/py-pytest-5.3.4-nklcaq | |
| ==> Installing nmodl-develop-zfakioujxsm45dlnonboqvphrxexao57 | |
| ==> No binary for nmodl-develop-zfakioujxsm45dlnonboqvphrxexao57 found: installing from source | |
| ==> nmodl: Executing phase: 'cmake' | |
| ==> nmodl: Executing phase: 'build' | |
| ==> nmodl: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.11/nmodl-develop-zfakio | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113206/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113206/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 18:22:35 2021 | |
| Hits: 49 / 137 (35.77 %) | |
| Direct: 33 / 137 (24.09 %) | |
| Preprocessed: 16 / 104 (15.38 %) | |
| Misses: 88 | |
| Direct: 104 | |
| Preprocessed: 88 | |
| Uncacheable: 26 | |
| Primary storage: | |
| Hits: 82 / 274 (29.93 %) | |
| Misses: 192 | |
| Cache size (GB): 0.46 / 0.51 (90.30 %) | |
| Files: 1791 | |
| Cleanups: 9 | |
| Uncacheable: | |
| Called for linking: 26 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.1.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ echo "Returning the number of failed builds, ${num_failures}"[0;m | |
| Returning the number of failed builds, 0 | |
| [32;1m$ exit ${num_failures}[0;m | |
| section_end:1640107359:step_script [0Ksection_start:1640107359:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache nmodl-nvhpc-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=69967 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 2352 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/nmodl-nvhpc-6[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1640107384:archive_cache [0Ksection_start:1640107384:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=71798 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=113206 responseStatus[0;m=201 Created token[0;m=ddR4yQyT | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=71845 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=113206 responseStatus[0;m=201 Created token[0;m=ddR4yQyT | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=71882 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=113206 responseStatus[0;m=201 Created token[0;m=ddR4yQyT | |
| section_end:1640107385:upload_artifacts_on_success [0Ksection_start:1640107385:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1640107386:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640104983:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640104983:resolve_secrets [0Ksection_start:1640104983:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor325954882, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113205 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113205 | |
| A slurm job will be created with name GL_J113205_PROD_P112_CP6_C19 | |
| Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142014 | |
| job state: PD | |
| job state: R | |
| section_end:1640104985:prepare_executor [0Ksection_start:1640104985:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i6n19 via bbpv1.epfl.ch... | |
| section_end:1640104991:prepare_script [0Ksection_start:1640104991:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640104991:get_sources [0Ksection_start:1640104991:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for nmodl-intel-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=20169 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1640105013:restore_cache [0Ksection_start:1640105013:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for spack_setup (113204)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=21047 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113204 responseStatus[0;m=200 OK token[0;m=tiEN87np | |
| section_end:1640105014:download_artifacts [0Ksection_start:1640105014:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ SPACK_CONFIG=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_CONFIG}[0;m | |
| [32;1m$ cat > ${SPACK_CONFIG}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113205/_/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113205/_/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113205/_/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Directory in which to run tests and store test results. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:70 # Tests will be stored in directories named by date/time and package | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113205/_/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113205/_/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:40 # Locations where different types of modules should be installed. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ if [ "${SPACK_EXPORT_SPECS}" ]; then[0;m | |
| [32;1m$ export XDG_CONFIG_HOME=${PWD}/local_config[0;m | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ REF_OVERRIDE_NAME=SPACK_PACKAGE_REF_${SPACK_PACKAGE}[0;m | |
| [32;1m$ PACKAGE_REF=${!REF_OVERRIDE_NAME:-$SPACK_PACKAGE_REF}[0;m | |
| [32;1m$ SPACK_PACKAGE_FILE="$(spack location -p ${SPACK_PACKAGE})/package.py"[0;m | |
| [32;1m$ if [ "${PACKAGE_REF}" ]; then[0;m | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}@develop${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER}${SPACK_PACKAGE_SPEC}${SPACK_PACKAGE_DEPENDENCIES:+ }${SPACK_PACKAGE_DEPENDENCIES}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install nmodl@develop%intel~legacy-unit | |
| [32;1m$ JSON_SPEC=$(spack --config-scope ${SPACK_CONFIG} spec --json ${SPACK_FULL_SPEC})[0;m | |
| ==> Warning: Missing a source id for nmodl@develop | |
| [32;1m$ SPACK_INSTALLED_HASH=$(echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][0][\"${SPACK_PACKAGE}\"][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be lqyttqytclxdwwickak7uvjmb6a3au3g | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113205/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113205/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 17:52:21 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.48 / 0.51 (93.04 %) | |
| Files: 560 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'lqyttqytclxdwwickak7uvjmb6a3au3g' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - nmodl@develop%intel~legacy-unit | |
| Concretized | |
| -------------------------------- | |
| - lqyttqy nmodl@develop%intel@19.1.2.254~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - ymcya3l ^bison@3.6.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - mxqypex ^cmake@3.15.7%intel@19.1.2.254~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| - 5mabxtb ^flex@2.6.4%intel@19.1.2.254+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| - nayogh4 ^ninja@1.10.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - ubiktsv ^py-jinja2@2.10.3%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - yrbfda2 ^py-babel@2.7.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] oe2c27i ^py-pytz@2020.1%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] xfgkmkd ^py-setuptools@50.3.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] icfhbit ^python@3.8.3%intel@19.1.2.254+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87 arch=linux-rhel7-x86_64 | |
| - oe2hrft ^py-markupsafe@1.1.1%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - jo63uk3 ^py-pytest@5.3.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] kcyedyh ^py-attrs@20.3.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - mikhjgq ^py-more-itertools@8.7.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - hziuwhj ^py-packaging@19.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] vpsqgcg ^py-pyparsing@2.4.2%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] xgnwei3 ^py-six@1.16.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - gc3zsis ^py-pluggy@0.13.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ze65gmo ^py-setuptools-scm@4.1.2%intel@19.1.2.254+toml arch=linux-rhel7-x86_64 | |
| [^] p553wsa ^py-toml@0.10.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - 557icag ^py-py@1.8.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - za7jmvs ^py-wcwidth@0.1.7%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] chpzzlm ^py-pyyaml@5.3.1%intel@19.1.2.254+libyaml arch=linux-rhel7-x86_64 | |
| [^] 4237mpr ^libyaml@0.2.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - runxrmn ^py-sympy@1.4%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| - d6t5uhn ^py-mpmath@1.1.0%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} --config-scope ${SPACK_CONFIG} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC}[0;m | |
| ==> bison@3.6.4 : has external module in ['bison/3.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/bison-3.6.4-sqrqli (external bison-3.6.4-ymcya3lbfxylkvsbomj2rbzbvecsldu2) | |
| ==> cmake@3.15.7 : has external module in ['cmake/3.15.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cmake-3.15.7-4373ty (external cmake-3.15.7-mxqypexiy6wmh4hpnmf4lbwwwqhxzscg) | |
| ==> flex@2.6.4 : has external module in ['flex/2.6.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/flex-2.6.4-kpj7of (external flex-2.6.4-5mabxtbvp5xw7gfjcac32iffw27sdssk) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ninja-1.10.2-7mzwmh (external ninja-1.10.2-nayogh4gvnag7ybxc2ud5dt4ckxod3cc) | |
| ==> python@3.8.3 : has external module in ['python/3.8.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/python-3.8.3-suxrst (external python-3.8.3-icfhbitmltpoj6w6vghr23ac5erldiic) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libyaml-0.2.4-4237mp | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-setuptools-50.3.2-xfgkmk | |
| ==> Installing py-mpmath-1.1.0-d6t5uhnfv6vz76zvbq6dxzezju47q4b2 | |
| ==> No binary for py-mpmath-1.1.0-d6t5uhnfv6vz76zvbq6dxzezju47q4b2 found: installing from source | |
| ==> Warning: Missing a source id for nmodl@develop | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/fc/fc17abe05fbab3382b61a123c398508183406fa132e0223874578e20946499f6.tar.gz | |
| ==> py-mpmath: Executing phase: 'build' | |
| ==> py-mpmath: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-mpmath-1.1.0-d6t5uh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-six-1.16.0-xgnwei | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pyyaml-5.3.1-chpzzl | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pytz-2020.1-oe2c27 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pyparsing-2.4.2-vpsqgc | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-attrs-20.3.0-kcyedy | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-toml-0.10.0-p553ws | |
| ==> Installing py-more-itertools-8.7.0-mikhjgqoad5w4yqy27gs5e6resjbaofw | |
| ==> No binary for py-more-itertools-8.7.0-mikhjgqoad5w4yqy27gs5e6resjbaofw found: installing from source | |
| ==> Fetching https://pypi.io/packages/source/m/more-itertools/more-itertools-8.7.0.tar.gz | |
| ==> py-more-itertools: Executing phase: 'build' | |
| ==> py-more-itertools: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-more-itertools-8.7.0-mikhjg | |
| ==> Installing py-wcwidth-0.1.7-za7jmvshfdsnmghmumjvxfinateuen3k | |
| ==> No binary for py-wcwidth-0.1.7-za7jmvshfdsnmghmumjvxfinateuen3k found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/3d/3df37372226d6e63e1b1e1eda15c594bca98a22d33a23832a90998faa96bc65e.tar.gz | |
| ==> py-wcwidth: Executing phase: 'build' | |
| ==> py-wcwidth: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-wcwidth-0.1.7-za7jmv | |
| ==> Installing py-markupsafe-1.1.1-oe2hrfthehpamljikolcjblr7mt52724 | |
| ==> No binary for py-markupsafe-1.1.1-oe2hrfthehpamljikolcjblr7mt52724 found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/29/29872e92839765e546828bb7754a68c418d927cd064fd4708fab9fe9c8bb116b.tar.gz | |
| ==> py-markupsafe: Executing phase: 'build' | |
| ==> py-markupsafe: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-markupsafe-1.1.1-oe2hrf | |
| ==> Installing py-sympy-1.4-runxrmnc6ccdqey2sq7njyz4u4i2x7xw | |
| ==> No binary for py-sympy-1.4-runxrmnc6ccdqey2sq7njyz4u4i2x7xw found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/71/71a11e5686ae7ab6cb8feb5bd2651ef4482f8fd43a7c27e645a165e4353b23e1.tar.gz | |
| ==> py-sympy: Executing phase: 'build' | |
| ==> py-sympy: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-sympy-1.4-runxrm | |
| ==> Installing py-babel-2.7.0-yrbfda2telivet3ruvwscmtafc7zoys7 | |
| ==> No binary for py-babel-2.7.0-yrbfda2telivet3ruvwscmtafc7zoys7 found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/e8/e86135ae101e31e2c8ec20a4e0c5220f4eed12487d5cf3f78be7e98d3a57fc28.tar.gz | |
| ==> py-babel: Executing phase: 'build' | |
| ==> py-babel: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-babel-2.7.0-yrbfda | |
| ==> Installing py-packaging-19.2-hziuwhjrhckeozwekkhwxabvm4onfilt | |
| ==> No binary for py-packaging-19.2-hziuwhjrhckeozwekkhwxabvm4onfilt found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/28/28b924174df7a2fa32c1953825ff29c61e2f5e082343165438812f00d3a7fc47.tar.gz | |
| ==> py-packaging: Executing phase: 'build' | |
| ==> py-packaging: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-packaging-19.2-hziuwh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-setuptools-scm-4.1.2-ze65gm | |
| ==> Installing py-jinja2-2.10.3-ubiktsvw22gxnvhwzsoloqliz7czyhab | |
| ==> No binary for py-jinja2-2.10.3-ubiktsvw22gxnvhwzsoloqliz7czyhab found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/9f/9fe95f19286cfefaa917656583d020be14e7859c6b0252588391e47db34527de.tar.gz | |
| ==> py-jinja2: Executing phase: 'build' | |
| ==> py-jinja2: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-jinja2-2.10.3-ubikts | |
| ==> Installing py-pluggy-0.13.0-gc3zsisoxxbiopoa44i536m232c65zb4 | |
| ==> No binary for py-pluggy-0.13.0-gc3zsisoxxbiopoa44i536m232c65zb4 found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/fa/fa5fa1622fa6dd5c030e9cad086fa19ef6a0cf6d7a2d12318e10cb49d6d68f34.tar.gz | |
| ==> py-pluggy: Executing phase: 'build' | |
| ==> py-pluggy: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi | |
| ==> Installing py-py-1.8.0-557icag4kia4rysswd2uxdettfkewclq | |
| ==> No binary for py-py-1.8.0-557icag4kia4rysswd2uxdettfkewclq found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/dc/dc639b046a6e2cff5bbe40194ad65936d6ba360b52b3c3fe1d08a82dd50b5e53.tar.gz | |
| ==> py-py: Executing phase: 'build' | |
| ==> py-py: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-py-1.8.0-557ica | |
| ==> Installing py-pytest-5.3.4-jo63uk3qcowoxe2ogccodpfmsdr2r557 | |
| ==> No binary for py-pytest-5.3.4-jo63uk3qcowoxe2ogccodpfmsdr2r557 found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/1d/1d122e8be54d1a709e56f82e2d85dcba3018313d64647f38a91aec88c239b600.tar.gz | |
| ==> py-pytest: Executing phase: 'build' | |
| ==> py-pytest: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk | |
| ==> Installing nmodl-develop-lqyttqytclxdwwickak7uvjmb6a3au3g | |
| ==> No binary for nmodl-develop-lqyttqytclxdwwickak7uvjmb6a3au3g found: installing from source | |
| ==> nmodl: Executing phase: 'cmake' | |
| ==> nmodl: Executing phase: 'build' | |
| ==> nmodl: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/nmodl-develop-lqyttq | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113205/_/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113205/_/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Tue Dec 21 18:21:54 2021 | |
| Hits: 42 / 137 (30.66 %) | |
| Direct: 26 / 137 (18.98 %) | |
| Preprocessed: 16 / 111 (14.41 %) | |
| Misses: 95 | |
| Direct: 111 | |
| Preprocessed: 95 | |
| Uncacheable: 28 | |
| Primary storage: | |
| Hits: 68 / 274 (24.82 %) | |
| Misses: 206 | |
| Cache size (GB): 0.50 / 0.51 (97.10 %) | |
| Files: 563 | |
| Cleanups: 14 | |
| Uncacheable: | |
| Called for linking: 28 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.1.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ echo "Returning the number of failed builds, ${num_failures}"[0;m | |
| Returning the number of failed builds, 0 | |
| [32;1m$ exit ${num_failures}[0;m | |
| section_end:1640107319:step_script [0Ksection_start:1640107319:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache nmodl-intel-6...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=68706 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 1124 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/nmodl-intel-6[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1640107342:archive_cache [0Ksection_start:1640107342:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=69056 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=113205 responseStatus[0;m=201 Created token[0;m=EeNG8U-1 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=69082 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=113205 responseStatus[0;m=201 Created token[0;m=EeNG8U-1 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=69114 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=113205 responseStatus[0;m=201 Created token[0;m=EeNG8U-1 | |
| section_end:1640107343:upload_artifacts_on_success [0Ksection_start:1640107343:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1640107344:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| ! |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640104812:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640104812:resolve_secrets [0Ksection_start:1640104812:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor402261725, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113204 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113204 | |
| A slurm job will be created with name GL_J113204_PROD_P112_CP6_C23 | |
| Job parameters: memory=512M, cpus_per_task=1, duration=10:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142006 | |
| job state: R | |
| section_end:1640104813:prepare_executor [0Ksection_start:1640104813:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i6n19 via bbpv1.epfl.ch... | |
| section_end:1640104816:prepare_script [0Ksection_start:1640104816:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640104817:get_sources [0Ksection_start:1640104817:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ touch spack_clone_variables.env[0;m | |
| [32;1m$ if [[ "${PARSE_GITHUB_PR_DESCRIPTIONS}" == "true" && "${CI_PIPELINE_SOURCE}" == "external_pull_request_event" ]]; then[0;m | |
| [32;1m$ cat > parse_description.py << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ cat parse_description.py[0;m | |
| from __future__ import print_function | |
| import os | |
| import re | |
| import requests | |
| pr_info = requests.get("https://api.github.com/repos/{}/pulls/{}".format( | |
| os.environ['CI_EXTERNAL_PULL_REQUEST_TARGET_REPOSITORY'], | |
| os.environ['CI_EXTERNAL_PULL_REQUEST_IID']), | |
| headers={'Accept': 'application/vnd.github.v3+json'}) | |
| pr_body = pr_info.json()["body"] | |
| # match something like NEURON_BRANCH=foo/bar | |
| pat = re.compile('^([A-Z0-9_]+)_([A-Z]+)=([A-Z0-9\-\_\/]+)$', re.IGNORECASE) | |
| def parse_term(m): | |
| ref_type = m.group(2).lower() | |
| if ref_type not in {'branch', 'tag', 'ref'}: return | |
| print('SPACK_PACKAGE_REF_' + m.group(1).lower() + '=' + ref_type + '="' + m.group(3) + '"') | |
| if pr_body is not None: | |
| for pr_body_line in pr_body.splitlines(): | |
| if not pr_body_line.startswith('CI_BRANCHES:'): continue | |
| for config_term in pr_body_line[12:].split(','): | |
| pat.sub(parse_term, config_term) | |
| [32;1m$ python parse_description.py > spack_clone_variables.env[0;m | |
| [32;1m$ cat spack_clone_variables.env[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ echo Using ${PWD} as a working directory common to the whole pipeline...[0;m | |
| Using /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113204/_ as a working directory common to the whole pipeline... | |
| [32;1m$ SPACK_BRANCH_PARSED=$(sed -n -e "s/^SPACK_PACKAGE_REF_spack=branch=\(['\"]\)\([^\1]\+\)\1/\2/p" spack_clone_variables.env)[0;m | |
| [32;1m$ SPACK_BRANCH=${SPACK_BRANCH_PARSED:-$SPACK_BRANCH}[0;m | |
| [32;1m$ echo Checking out the ${SPACK_BRANCH} of Spack...[0;m | |
| Checking out the develop of Spack... | |
| [32;1m$ git clone --depth 1 --single-branch --branch ${SPACK_BRANCH} ${SPACK_URL} spack[0;m | |
| Cloning into 'spack'... | |
| Checking out files: 0% (44/7697) Checking out files: 1% (77/7697) Checking out files: 1% (146/7697) Checking out files: 2% (154/7697) Checking out files: 2% (229/7697) Checking out files: 3% (231/7697) Checking out files: 3% (292/7697) Checking out files: 4% (308/7697) Checking out files: 4% (356/7697) Checking out files: 5% (385/7697) Checking out files: 5% (423/7697) Checking out files: 6% (462/7697) Checking out files: 7% (539/7697) Checking out files: 7% (550/7697) Checking out files: 8% (616/7697) Checking out files: 8% (634/7697) Checking out files: 9% (693/7697) Checking out files: 9% (729/7697) Checking out files: 9% (756/7697) Checking out files: 10% (770/7697) Checking out files: 10% (812/7697) Checking out files: 10% (845/7697) Checking out files: 11% (847/7697) Checking out files: 11% (889/7697) Checking out files: 11% (906/7697) Checking out files: 12% (924/7697) Checking out files: 12% (936/7697) Checking out files: 13% (1001/7697) Checking out files: 14% (1078/7697) 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| [32;1m$ cp /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/config/*.yaml spack/etc/spack[0;m | |
| [32;1m$ SPACK_ROOT=${PWD}/spack[0;m | |
| [32;1m$ echo "SPACK_ROOT=${SPACK_ROOT}" >> spack_clone_variables.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ spack config --scope site add "config:ccache:true"[0;m | |
| [32;1m$ spack config get config[0;m | |
| config: | |
| install_tree: | |
| projections: | |
| all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| root: $spack/opt/spack | |
| build_jobs: 36 | |
| ccache: true | |
| template_dirs: | |
| - $spack/share/spack/templates | |
| # Locations where different types of modules should be installed. | |
| module_roots: | |
| tcl: $spack/share/spack/modules | |
| lmod: $spack/share/spack/lmod | |
| build_stage: | |
| - $tempdir/$user/spack-stage | |
| - ~/.spack/stage | |
| # - $spack/var/spack/stage | |
| # Directory in which to run tests and store test results. | |
| # Tests will be stored in directories named by date/time and package | |
| # name/hash. | |
| test_stage: ~/.spack/test | |
| source_cache: $spack/var/spack/cache | |
| misc_cache: ~/.spack/cache | |
| connect_timeout: 10 | |
| verify_ssl: true | |
| suppress_gpg_warnings: false | |
| install_missing_compilers: false | |
| checksum: true | |
| dirty: false | |
| build_language: C | |
| locks: true | |
| concretizer: original | |
| db_lock_timeout: 300 | |
| package_lock_timeout: | |
| shared_linking: rpath | |
| allow_sgid: true | |
| debug: false | |
| [32;1m$ echo "SPACK_USE_CCACHE=true" >> spack_clone_variables.env[0;m | |
| [32;1m$ if [[ "${CI_PIPELINE_SOURCE}" == "pipeline" ]]; then[0;m | |
| section_end:1640104975:step_script [0Ksection_start:1640104975:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=18690 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=113204 responseStatus[0;m=201 Created token[0;m=tiEN87np | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=18712 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=113204 responseStatus[0;m=201 Created token[0;m=tiEN87np | |
| section_end:1640104977:upload_artifacts_on_success [0Ksection_start:1640104977:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1640104978:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640106447:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640106447:resolve_secrets [0Ksection_start:1640106447:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor121360561, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113214 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113214 | |
| A slurm job will be created with name GL_J113214_PROD_P112_CP7_C5 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| Submitted batch job 142126 | |
| job state: R | |
| section_end:1640106449:prepare_executor [0Ksection_start:1640106449:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on ldir01u13.bbp.epfl.ch via bbpv1.epfl.ch... | |
| section_end:1640106449:prepare_script [0Ksection_start:1640106449:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640106450:get_sources [0Ksection_start:1640106450:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:gpu (113210)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=19740 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113210 responseStatus[0;m=200 OK token[0;m=EsNxt9Y_ | |
| section_end:1640106451:download_artifacts [0Ksection_start:1640106451:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ export CTEST_PARALLEL_LEVEL=${SLURM_TASKS_PER_NODE}[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ cd ${SPACK_BUILD_DIR}[0;m | |
| [32;1m$ export BOOST_TEST_COLOR_OUTPUT=no[0;m | |
| [32;1m$ i_am_a_failure=0[0;m | |
| [32;1m$ spack build-env ${SPACK_FULL_SPEC} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r1i6n19 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20211221-1708 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113210/_/spack-build/spack-stage-coreneuron-develop-7r3a4d2rmvk5oeb6vt52s4zg2hppmnjp/spack-build-7r3a4d2 | |
| Start 1: cmd_interface_test | |
| Start 2: interleave_info_constructor_test | |
| Start 3: alignment_test | |
| Start 4: queuing_test | |
| Start 5: lfp_test | |
| Start 6: ring_TEST | |
| 1/18 Test #1: cmd_interface_test ..................... Passed 2.17 sec | |
| Start 7: ring_binqueue_TEST | |
| 2/18 Test #3: alignment_test ......................... Passed 2.78 sec | |
| 3/18 Test #4: queuing_test ........................... Passed 3.45 sec | |
| Start 8: ring_multisend_TEST | |
| 4/18 Test #2: interleave_info_constructor_test ....... Passed 3.51 sec | |
| 5/18 Test #5: lfp_test ............................... Passed 3.57 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 6/18 Test #9: ring_spike_buffer_TEST ................. Passed 29.26 sec | |
| Start 10: ring_permute1_TEST | |
| 7/18 Test #6: ring_TEST .............................. Passed 37.79 sec | |
| Start 11: ring_permute2_TEST | |
| 8/18 Test #7: ring_binqueue_TEST ..................... Passed 36.14 sec | |
| Start 12: ring_gap_TEST | |
| 9/18 Test #8: ring_multisend_TEST .................... Passed 35.05 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 10/18 Test #10: ring_permute1_TEST ..................... Passed 16.51 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 11/18 Test #11: ring_permute2_TEST ..................... Passed 14.54 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 12/18 Test #12: ring_gap_TEST .......................... Passed 1224.03 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 13/18 Test #13: ring_gap_binqueue_TEST ................. Passed 1409.26 sec | |
| Start 17: ring_permute2_cudaInterface_TEST | |
| 14/18 Test #17: ring_permute2_cudaInterface_TEST ....... Passed 62.44 sec | |
| Start 18: ring_gap_permute2_cudaInterface_TEST | |
| 15/18 Test #14: ring_gap_multisend_TEST ................ Passed 1476.12 sec | |
| 16/18 Test #15: ring_gap_permute1_TEST ................. Passed 1473.55 sec | |
| 17/18 Test #16: ring_gap_permute2_TEST ................. Passed 263.60 sec | |
| 18/18 Test #18: ring_gap_permute2_cudaInterface_TEST ... Passed 18.50 sec | |
| 100% tests passed, 0 tests failed out of 18 | |
| Total Test time (real) = 1528.75 sec | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.8.3 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| section_end:1640108023:step_script [0Ksection_start:1640108023:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=29377 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| Testing/: found 7 matching files and directories [0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=113214 responseStatus[0;m=201 Created token[0;m=RHPszFke | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=29410 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=113214 responseStatus[0;m=201 Created token[0;m=RHPszFke | |
| section_end:1640108024:upload_artifacts_on_success [0Ksection_start:1640108024:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1640108024:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640106216:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640106216:resolve_secrets [0Ksection_start:1640106216:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor394568737, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113212 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113212 | |
| A slurm job will be created with name GL_J113212_PROD_P112_CP1_C3 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=cpu ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142122 | |
| job state: R | |
| section_end:1640106218:prepare_executor [0Ksection_start:1640106218:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i6n19 via bbpv1.epfl.ch... | |
| section_end:1640106220:prepare_script [0Ksection_start:1640106220:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640106221:get_sources [0Ksection_start:1640106221:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:intel (113208)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=49310 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113208 responseStatus[0;m=200 OK token[0;m=AZ6vgB2S | |
| section_end:1640106222:download_artifacts [0Ksection_start:1640106222:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ export CTEST_PARALLEL_LEVEL=${SLURM_TASKS_PER_NODE}[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ cd ${SPACK_BUILD_DIR}[0;m | |
| [32;1m$ export BOOST_TEST_COLOR_OUTPUT=no[0;m | |
| [32;1m$ i_am_a_failure=0[0;m | |
| [32;1m$ spack build-env ${SPACK_FULL_SPEC} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r1i6n19 | |
| Build name: Linux-icpc | |
| Create new tag: 20211221-1706 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113208/_/spack-build/spack-stage-coreneuron-develop-aevgkbdozl3htdtjhrd5w65n3c6mb2jh/spack-build-aevgkbd | |
| Start 1: cmd_interface_test | |
| Start 2: interleave_info_constructor_test | |
| Start 3: alignment_test | |
| Start 4: queuing_test | |
| Start 5: lfp_test | |
| Start 6: ring_TEST | |
| Start 17: reporting_1 | |
| 1/17 Test #2: interleave_info_constructor_test ... Passed 2.92 sec | |
| 2/17 Test #4: queuing_test ....................... Passed 3.21 sec | |
| Start 7: ring_binqueue_TEST | |
| 3/17 Test #1: cmd_interface_test ................. Passed 3.82 sec | |
| 4/17 Test #3: alignment_test ..................... Passed 3.81 sec | |
| Start 8: ring_multisend_TEST | |
| 5/17 Test #5: lfp_test ........................... Passed 4.14 sec | |
| 6/17 Test #17: reporting_1 ........................ Passed 6.21 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 7/17 Test #6: ring_TEST .......................... Passed 6.46 sec | |
| Start 10: ring_permute1_TEST | |
| 8/17 Test #8: ring_multisend_TEST ................ Passed 8.28 sec | |
| Start 11: ring_permute2_TEST | |
| 9/17 Test #7: ring_binqueue_TEST ................. Passed 8.87 sec | |
| Start 12: ring_gap_TEST | |
| 10/17 Test #9: ring_spike_buffer_TEST ............. Passed 6.77 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 11/17 Test #10: ring_permute1_TEST ................. Passed 6.96 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 12/17 Test #11: ring_permute2_TEST ................. Passed 25.85 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 13/17 Test #13: ring_gap_binqueue_TEST ............. Passed 1197.04 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 14/17 Test #12: ring_gap_TEST ...................... Passed 1251.78 sec | |
| 15/17 Test #15: ring_gap_permute1_TEST ............. Passed 1234.31 sec | |
| 16/17 Test #14: ring_gap_multisend_TEST ............ Passed 1260.68 sec | |
| 17/17 Test #16: ring_gap_permute2_TEST ............. Passed 63.99 sec | |
| 100% tests passed, 0 tests failed out of 17 | |
| Total Test time (real) = 1274.36 sec | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.8.3 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| section_end:1640107648:step_script [0Ksection_start:1640107648:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=80821 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| Testing/: found 7 matching files and directories [0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=113212 responseStatus[0;m=201 Created token[0;m=qGq3pV-A | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=80856 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=113212 responseStatus[0;m=201 Created token[0;m=qGq3pV-A | |
| section_end:1640107649:upload_artifacts_on_success [0Ksection_start:1640107649:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1640107650:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640109343:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640109343:resolve_secrets [0Ksection_start:1640109343:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor836008903, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113213 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113213 | |
| A slurm job will be created with name GL_J113213_PROD_P112_CP2_C6 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| Submitted batch job 142212 | |
| job state: R | |
| section_end:1640109344:prepare_executor [0Ksection_start:1640109344:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on ldir01u13.bbp.epfl.ch via bbpv1.epfl.ch... | |
| section_end:1640109345:prepare_script [0Ksection_start:1640109345:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640109345:get_sources [0Ksection_start:1640109345:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron+nmodl:gpu (113209)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=35225 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113209 responseStatus[0;m=200 OK token[0;m=menUS1ag | |
| section_end:1640109346:download_artifacts [0Ksection_start:1640109346:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ export CTEST_PARALLEL_LEVEL=${SLURM_TASKS_PER_NODE}[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ cd ${SPACK_BUILD_DIR}[0;m | |
| [32;1m$ export BOOST_TEST_COLOR_OUTPUT=no[0;m | |
| [32;1m$ i_am_a_failure=0[0;m | |
| [32;1m$ spack build-env ${SPACK_FULL_SPEC} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r1i6n19 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20211221-1756 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-build/spack-stage-coreneuron-develop-qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo/spack-build-qnf2dk3 | |
| Start 1: cmd_interface_test | |
| Start 2: interleave_info_constructor_test | |
| Start 3: alignment_test | |
| Start 4: queuing_test | |
| Start 5: lfp_test | |
| Start 6: ring_TEST | |
| 1/18 Test #3: alignment_test ......................... Passed 1.64 sec | |
| Start 7: ring_binqueue_TEST | |
| 2/18 Test #1: cmd_interface_test ..................... Passed 2.63 sec | |
| 3/18 Test #2: interleave_info_constructor_test ....... Passed 3.28 sec | |
| Start 8: ring_multisend_TEST | |
| 4/18 Test #4: queuing_test ........................... Passed 3.29 sec | |
| 5/18 Test #5: lfp_test ............................... Passed 3.93 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 6/18 Test #7: ring_binqueue_TEST ..................... Passed 41.69 sec | |
| Start 10: ring_permute1_TEST | |
| 7/18 Test #9: ring_spike_buffer_TEST ................. Passed 40.94 sec | |
| Start 11: ring_permute2_TEST | |
| 8/18 Test #6: ring_TEST .............................. Passed 45.03 sec | |
| Start 12: ring_gap_TEST | |
| 9/18 Test #8: ring_multisend_TEST .................... Passed 41.90 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 10/18 Test #11: ring_permute2_TEST ..................... Passed 44.98 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 11/18 Test #10: ring_permute1_TEST ..................... Passed 48.62 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 12/18 Test #12: ring_gap_TEST ..........................***Timeout 1500.06 sec | |
| num_mpi=8 | |
| Info : 4 GPUs shared by 8 ranks per node | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 1.0 7295f4a6 (2021-12-21 14:06:59 +0100) | |
| Additional mechanisms from files | |
| exp2syn.mod expsyn.mod halfgap.mod hh.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod | |
| Memory (MBs) : After mk_mech : Max 217.0273, Min 216.6016, Avg 216.8379 | |
| GPU Memory (MBs) : Used = 1571.500000, Free = 30939.000000, Total = 32510.500000 | |
| Memory (MBs) : After MPI_Init : Max 217.0391, Min 216.7852, Avg 217.0005 | |
| GPU Memory (MBs) : Used = 1573.500000, Free = 30937.000000, Total = 32510.500000 | |
| Memory (MBs) : Before nrn_setup : Max 217.2422, Min 217.1094, Avg 217.1260 | |
| GPU Memory (MBs) : Used = 1573.500000, Free = 30937.000000, Total = 32510.500000 | |
| WARNING : GPU execution requires --cell-permute type 1 or 2. Setting it to 1. | |
| Model uses gap junctions | |
| Info : The number of input datasets are less than ranks, some ranks will be idle! | |
| Setup Done : 0.62 seconds | |
| Model size : 93.06 kB | |
| Memory (MBs) : After nrn_setup : Max 217.2617, Min 217.1289, Avg 217.1455 | |
| GPU Memory (MBs) : Used = 2083.500000, Free = 30427.000000, Total = 32510.500000 | |
| GENERAL PARAMETERS | |
| --mpi=true | |
| --mpi-lib= | |
| --gpu=true | |
| --dt=0.025 | |
| --tstop=100 | |
| GPU | |
| --nwarp=0 | |
| --cell-permute=0 | |
| --cuda-interface=false | |
| INPUT PARAMETERS | |
| --voltage=-65 | |
| --seed=-1 | |
| --datpath=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-build/spack-stage-coreneuron-develop-qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo/spack-src/tests/integration/ring_gap | |
| --filesdat=files.dat | |
| --pattern= | |
| --report-conf= | |
| --restore= | |
| PARALLEL COMPUTATION PARAMETERS | |
| --threading=false | |
| --skip_mpi_finalize=false | |
| SPIKE EXCHANGE | |
| --ms_phases=2 | |
| --ms_subintervals=2 | |
| --multisend=false | |
| --spk_compress=0 | |
| --binqueue=false | |
| CONFIGURATION | |
| --spikebuf=100000 | |
| --prcellgid=-1 | |
| --forwardskip=0 | |
| --celsius=6.3 | |
| --mindelay=10 | |
| --report-buffer-size=4 | |
| OUTPUT PARAMETERS | |
| --dt_io=0.1 | |
| --outpath=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-build/spack-stage-coreneuron-develop-qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo/spack-build-qnf2dk3/tests/integration/ring_gap | |
| --checkpoint= | |
| Start time (t) = 0 | |
| Memory (MBs) : After mk_spikevec_buffer : Max 217.4453, Min 217.1289, Avg 217.1914 | |
| GPU Memory (MBs) : Used = 2083.500000, Free = 30427.000000, Total = 32510.500000 | |
| Memory (MBs) : After nrn_finitialize : Max 281.8008, Min 217.2969, Avg 233.4072 | |
| GPU Memory (MBs) : Used = 2595.500000, Free = 29915.000000, Total = 32510.500000 | |
| Start 16: ring_gap_permute2_TEST | |
| 13/18 Test #13: ring_gap_binqueue_TEST .................***Timeout 1500.08 sec | |
| num_mpi=8 | |
| Info : 4 GPUs shared by 8 ranks per node | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 1.0 7295f4a6 (2021-12-21 14:06:59 +0100) | |
| Additional mechanisms from files | |
| exp2syn.mod expsyn.mod halfgap.mod hh.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod | |
| Memory (MBs) : After mk_mech : Max 217.0273, Min 216.6016, Avg 216.8379 | |
| GPU Memory (MBs) : Used = 2593.500000, Free = 29917.000000, Total = 32510.500000 | |
| Memory (MBs) : After MPI_Init : Max 217.0391, Min 216.7852, Avg 217.0005 | |
| GPU Memory (MBs) : Used = 2595.500000, Free = 29915.000000, Total = 32510.500000 | |
| Memory (MBs) : Before nrn_setup : Max 217.2383, Min 217.1055, Avg 217.1221 | |
| GPU Memory (MBs) : Used = 2595.500000, Free = 29915.000000, Total = 32510.500000 | |
| WARNING : GPU execution requires --cell-permute type 1 or 2. Setting it to 1. | |
| Model uses gap junctions | |
| Info : The number of input datasets are less than ranks, some ranks will be idle! | |
| Setup Done : 1.62 seconds | |
| Model size : 93.06 kB | |
| Memory (MBs) : After nrn_setup : Max 217.2578, Min 217.1250, Avg 217.1416 | |
| GPU Memory (MBs) : Used = 2597.500000, Free = 29913.000000, Total = 32510.500000 | |
| GENERAL PARAMETERS | |
| --mpi=true | |
| --mpi-lib= | |
| --gpu=true | |
| --dt=0.025 | |
| --tstop=100 | |
| GPU | |
| --nwarp=0 | |
| --cell-permute=0 | |
| --cuda-interface=false | |
| INPUT PARAMETERS | |
| --voltage=-65 | |
| --seed=-1 | |
| --datpath=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-build/spack-stage-coreneuron-develop-qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo/spack-src/tests/integration/ring_gap | |
| --filesdat=files.dat | |
| --pattern= | |
| --report-conf= | |
| --restore= | |
| PARALLEL COMPUTATION PARAMETERS | |
| --threading=false | |
| --skip_mpi_finalize=false | |
| SPIKE EXCHANGE | |
| --ms_phases=2 | |
| --ms_subintervals=2 | |
| --multisend=false | |
| --spk_compress=0 | |
| --binqueue=true | |
| CONFIGURATION | |
| --spikebuf=100000 | |
| --prcellgid=-1 | |
| --forwardskip=0 | |
| --celsius=6.3 | |
| --mindelay=10 | |
| --report-buffer-size=4 | |
| OUTPUT PARAMETERS | |
| --dt_io=0.1 | |
| --outpath=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-build/spack-stage-coreneuron-develop-qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo/spack-build-qnf2dk3/tests/integration/ring_gap_binqueue | |
| --checkpoint= | |
| Start time (t) = 0 | |
| Memory (MBs) : After mk_spikevec_buffer : Max 217.4453, Min 217.1250, Avg 217.1880 | |
| GPU Memory (MBs) : Used = 2597.500000, Free = 29913.000000, Total = 32510.500000 | |
| Memory (MBs) : After nrn_finitialize : Max 281.7969, Min 217.2930, Avg 233.4033 | |
| GPU Memory (MBs) : Used = 2599.500000, Free = 29911.000000, Total = 32510.500000 | |
| Start 17: ring_permute2_cudaInterface_TEST | |
| 14/18 Test #14: ring_gap_multisend_TEST ................***Timeout 1500.04 sec | |
| num_mpi=8 | |
| Info : 4 GPUs shared by 8 ranks per node | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 1.0 7295f4a6 (2021-12-21 14:06:59 +0100) | |
| Additional mechanisms from files | |
| exp2syn.mod expsyn.mod halfgap.mod hh.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod | |
| Memory (MBs) : After mk_mech : Max 217.0273, Min 216.6016, Avg 216.8374 | |
| GPU Memory (MBs) : Used = 2587.500000, Free = 29923.000000, Total = 32510.500000 | |
| Memory (MBs) : After MPI_Init : Max 217.0352, Min 216.7852, Avg 217.0000 | |
| GPU Memory (MBs) : Used = 2587.500000, Free = 29923.000000, Total = 32510.500000 | |
| Memory (MBs) : Before nrn_setup : Max 217.2383, Min 217.1055, Avg 217.1221 | |
| GPU Memory (MBs) : Used = 2587.500000, Free = 29923.000000, Total = 32510.500000 | |
| WARNING : GPU execution requires --cell-permute type 1 or 2. Setting it to 1. | |
| Model uses gap junctions | |
| Info : The number of input datasets are less than ranks, some ranks will be idle! | |
| Setup Done : 2.79 seconds | |
| Model size : 93.34 kB | |
| Memory (MBs) : After nrn_setup : Max 217.4336, Min 217.1250, Avg 217.1855 | |
| GPU Memory (MBs) : Used = 2589.500000, Free = 29921.000000, Total = 32510.500000 | |
| GENERAL PARAMETERS | |
| --mpi=true | |
| --mpi-lib= | |
| --gpu=true | |
| --dt=0.025 | |
| --tstop=100 | |
| GPU | |
| --nwarp=0 | |
| --cell-permute=0 | |
| --cuda-interface=false | |
| INPUT PARAMETERS | |
| --voltage=-65 | |
| --seed=-1 | |
| --datpath=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-build/spack-stage-coreneuron-develop-qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo/spack-src/tests/integration/ring_gap | |
| --filesdat=files.dat | |
| --pattern= | |
| --report-conf= | |
| --restore= | |
| PARALLEL COMPUTATION PARAMETERS | |
| --threading=false | |
| --skip_mpi_finalize=false | |
| SPIKE EXCHANGE | |
| --ms_phases=2 | |
| --ms_subintervals=2 | |
| --multisend=true | |
| --spk_compress=0 | |
| --binqueue=false | |
| CONFIGURATION | |
| --spikebuf=100000 | |
| --prcellgid=-1 | |
| --forwardskip=0 | |
| --celsius=6.3 | |
| --mindelay=10 | |
| --report-buffer-size=4 | |
| OUTPUT PARAMETERS | |
| --dt_io=0.1 | |
| --outpath=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-build/spack-stage-coreneuron-develop-qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo/spack-build-qnf2dk3/tests/integration/ring_gap_multisend | |
| --checkpoint= | |
| Start time (t) = 0 | |
| Memory (MBs) : After mk_spikevec_buffer : Max 217.4336, Min 217.1250, Avg 217.1855 | |
| GPU Memory (MBs) : Used = 2589.500000, Free = 29921.000000, Total = 32510.500000 | |
| Memory (MBs) : After nrn_finitialize : Max 281.9922, Min 217.2891, Avg 233.4238 | |
| GPU Memory (MBs) : Used = 2591.500000, Free = 29919.000000, Total = 32510.500000 | |
| Start 18: ring_gap_permute2_cudaInterface_TEST | |
| 15/18 Test #15: ring_gap_permute1_TEST .................***Timeout 1500.05 sec | |
| num_mpi=8 | |
| Info : 4 GPUs shared by 8 ranks per node | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 1.0 7295f4a6 (2021-12-21 14:06:59 +0100) | |
| Additional mechanisms from files | |
| exp2syn.mod expsyn.mod halfgap.mod hh.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod | |
| Memory (MBs) : After mk_mech : Max 217.0273, Min 216.6016, Avg 216.8379 | |
| GPU Memory (MBs) : Used = 2587.500000, Free = 29923.000000, Total = 32510.500000 | |
| Memory (MBs) : After MPI_Init : Max 217.0391, Min 216.7852, Avg 217.0005 | |
| GPU Memory (MBs) : Used = 2587.500000, Free = 29923.000000, Total = 32510.500000 | |
| Memory (MBs) : Before nrn_setup : Max 217.2383, Min 217.1055, Avg 217.1221 | |
| GPU Memory (MBs) : Used = 2587.500000, Free = 29923.000000, Total = 32510.500000 | |
| Model uses gap junctions | |
| Info : The number of input datasets are less than ranks, some ranks will be idle! | |
| Setup Done : 1.41 seconds | |
| Model size : 93.06 kB | |
| Memory (MBs) : After nrn_setup : Max 217.2578, Min 217.1250, Avg 217.1416 | |
| GPU Memory (MBs) : Used = 2587.500000, Free = 29923.000000, Total = 32510.500000 | |
| GENERAL PARAMETERS | |
| --mpi=true | |
| --mpi-lib= | |
| --gpu=true | |
| --dt=0.025 | |
| --tstop=100 | |
| GPU | |
| --nwarp=0 | |
| --cell-permute=1 | |
| --cuda-interface=false | |
| INPUT PARAMETERS | |
| --voltage=-65 | |
| --seed=-1 | |
| --datpath=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-build/spack-stage-coreneuron-develop-qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo/spack-src/tests/integration/ring_gap | |
| --filesdat=files.dat | |
| --pattern= | |
| --report-conf= | |
| --restore= | |
| PARALLEL COMPUTATION PARAMETERS | |
| --threading=false | |
| --skip_mpi_finalize=false | |
| SPIKE EXCHANGE | |
| --ms_phases=2 | |
| --ms_subintervals=2 | |
| --multisend=false | |
| --spk_compress=0 | |
| --binqueue=false | |
| CONFIGURATION | |
| --spikebuf=100000 | |
| --prcellgid=-1 | |
| --forwardskip=0 | |
| --celsius=6.3 | |
| --mindelay=10 | |
| --report-buffer-size=4 | |
| OUTPUT PARAMETERS | |
| --dt_io=0.1 | |
| --outpath=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113209/_/spack-build/spack-stage-coreneuron-develop-qnf2dk3mbbkroyf5ykaxhu5ihwd75gxo/spack-build-qnf2dk3/tests/integration/ring_gap_permute1 | |
| --checkpoint= | |
| Start time (t) = 0 | |
| Memory (MBs) : After mk_spikevec_buffer : Max 217.4453, Min 217.1250, Avg 217.1880 | |
| GPU Memory (MBs) : Used = 2587.500000, Free = 29923.000000, Total = 32510.500000 | |
| Memory (MBs) : After nrn_finitialize : Max 281.7969, Min 217.2930, Avg 233.4033 | |
| GPU Memory (MBs) : Used = 2589.500000, Free = 29921.000000, Total = 32510.500000 | |
| 16/18 Test #17: ring_permute2_cudaInterface_TEST ....... Passed 88.04 sec | |
| 17/18 Test #16: ring_gap_permute2_TEST ................. Passed 88.82 sec | |
| 18/18 Test #18: ring_gap_permute2_cudaInterface_TEST ... Passed 46.85 sec | |
| 78% tests passed, 4 tests failed out of 18 | |
| Total Test time (real) = 1636.78 sec | |
| The following tests FAILED: | |
| 12 - ring_gap_TEST (Timeout) | |
| 13 - ring_gap_binqueue_TEST (Timeout) | |
| 14 - ring_gap_multisend_TEST (Timeout) | |
| 15 - ring_gap_permute1_TEST (Timeout) | |
| Errors while running CTest | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.8.3 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| srun: error: ldir01u13: task 0: Exited with exit code 1 | |
| section_end:1640111017:step_script [0Ksection_start:1640111017:upload_artifacts_on_failure [0K[0K[36;1mUploading artifacts for failed job[0;m[0;m | |
| srun: Job 142212 step creation temporarily disabled, retrying (Requested nodes are busy) | |
| srun: Job 142212 step creation still disabled, retrying (Requested nodes are busy) | |
| srun: Step created for job 142212 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=41289 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| Testing/: found 8 matching files and directories [0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=113213 responseStatus[0;m=201 Created token[0;m=urWr_qdH | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=41323 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=113213 responseStatus[0;m=201 Created token[0;m=urWr_qdH | |
| section_end:1640111020:upload_artifacts_on_failure [0Ksection_start:1640111020:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1640111020:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1 | |
| [0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640108278:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640108278:resolve_secrets [0Ksection_start:1640108278:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor686363456, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113211 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113211 | |
| A slurm job will be created with name GL_J113211_PROD_P112_CP0_C0 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=cpu ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142184 | |
| job state: R | |
| section_end:1640108279:prepare_executor [0Ksection_start:1640108279:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i6n18 via bbpv1.epfl.ch... | |
| section_end:1640108281:prepare_script [0Ksection_start:1640108281:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640108282:get_sources [0Ksection_start:1640108282:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron+nmodl:intel (113207)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=205549 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113207 responseStatus[0;m=200 OK token[0;m=bhErH5v- | |
| section_end:1640108284:download_artifacts [0Ksection_start:1640108284:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ export CTEST_PARALLEL_LEVEL=${SLURM_TASKS_PER_NODE}[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ cd ${SPACK_BUILD_DIR}[0;m | |
| [32;1m$ export BOOST_TEST_COLOR_OUTPUT=no[0;m | |
| [32;1m$ i_am_a_failure=0[0;m | |
| [32;1m$ spack build-env ${SPACK_FULL_SPEC} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r1i6n19 | |
| Build name: Linux-icpc | |
| Create new tag: 20211221-1744 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113207/_/spack-build/spack-stage-coreneuron-develop-cwjs4t3f4wyl5jax3fb2obxbvjopwgn3/spack-build-cwjs4t3 | |
| Start 1: cmd_interface_test | |
| Start 2: interleave_info_constructor_test | |
| Start 3: alignment_test | |
| Start 4: queuing_test | |
| Start 5: lfp_test | |
| Start 6: ring_TEST | |
| Start 17: reporting_1 | |
| 1/17 Test #3: alignment_test ..................... Passed 4.07 sec | |
| 2/17 Test #1: cmd_interface_test ................. Passed 4.39 sec | |
| Start 7: ring_binqueue_TEST | |
| 3/17 Test #2: interleave_info_constructor_test ... Passed 4.59 sec | |
| 4/17 Test #4: queuing_test ....................... Passed 4.71 sec | |
| Start 8: ring_multisend_TEST | |
| 5/17 Test #5: lfp_test ........................... Passed 5.22 sec | |
| 6/17 Test #17: reporting_1 ........................ Passed 12.65 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 7/17 Test #6: ring_TEST .......................... Passed 13.04 sec | |
| Start 10: ring_permute1_TEST | |
| 8/17 Test #7: ring_binqueue_TEST ................. Passed 10.43 sec | |
| Start 11: ring_permute2_TEST | |
| 9/17 Test #8: ring_multisend_TEST ................ Passed 10.30 sec | |
| Start 12: ring_gap_TEST | |
| 10/17 Test #9: ring_spike_buffer_TEST ............. Passed 14.27 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 11/17 Test #10: ring_permute1_TEST ................. Passed 14.69 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 12/17 Test #11: ring_permute2_TEST ................. Passed 13.38 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 13/17 Test #12: ring_gap_TEST ...................... Passed 13.10 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 14/17 Test #13: ring_gap_binqueue_TEST ............. Passed 23.19 sec | |
| 15/17 Test #15: ring_gap_permute1_TEST ............. Passed 508.27 sec | |
| 16/17 Test #14: ring_gap_multisend_TEST ............ Passed 512.47 sec | |
| 17/17 Test #16: ring_gap_permute2_TEST ............. Passed 512.35 sec | |
| 100% tests passed, 0 tests failed out of 17 | |
| Total Test time (real) = 540.99 sec | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.8.3 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| section_end:1640109234:step_script [0Ksection_start:1640109234:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=228058 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| Testing/: found 7 matching files and directories [0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=113211 responseStatus[0;m=201 Created token[0;m=Gaa6EccM | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=228101 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=113211 responseStatus[0;m=201 Created token[0;m=Gaa6EccM | |
| section_end:1640109235:upload_artifacts_on_success [0Ksection_start:1640109235:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1640109237:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| Log was not fetched because job had status: skipped |
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Learn more about bidirectional Unicode characters
| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1640109274:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1640109274:resolve_secrets [0Ksection_start:1640109274:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor965137424, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 30188, build ref 7295f4a667503ec4677262632bb0636f48812336, job ID 113220 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P30188/J113220 | |
| A slurm job will be created with name GL_J113220_PROD_P112_CP0_C4 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=cpu ntasks=16 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 142209 | |
| job state: R | |
| section_end:1640109275:prepare_executor [0Ksection_start:1640109275:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i7n21 via bbpv1.epfl.ch... | |
| section_end:1640109278:prepare_script [0Ksection_start:1640109278:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1640109279:get_sources [0Ksection_start:1640109279:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:neuron:intel (113216)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=211843 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=113216 responseStatus[0;m=200 OK token[0;m=mpbqzuzd | |
| section_end:1640109280:download_artifacts [0Ksection_start:1640109280:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ export CTEST_PARALLEL_LEVEL=${SLURM_TASKS_PER_NODE}[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ cd ${SPACK_BUILD_DIR}[0;m | |
| [32;1m$ export BOOST_TEST_COLOR_OUTPUT=no[0;m | |
| [32;1m$ i_am_a_failure=0[0;m | |
| [32;1m$ spack build-env ${SPACK_FULL_SPEC} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r1i7n22 | |
| Build name: Linux-icpc | |
| Create new tag: 20211221-1755 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P30188/J113216/_/spack-build/spack-stage-neuron-develop-mvn7s3za436y6xrhbspwpy7pbewubnvm/spack-build-mvn7s3z | |
| Start 33: external_ringtest::coreneuron_cpu_mpi_offline::preparation | |
| Start 40: testcorenrn_bbcore::coreneuron_cpu_offline::preparation | |
| Start 46: testcorenrn_deriv::coreneuron_cpu_offline::preparation | |
| Start 52: testcorenrn_gf::coreneuron_cpu_offline::preparation | |
| Start 56: testcorenrn_patstim::coreneuron_cpu_offline::preparation | |
| Start 62: testcorenrn_vecplay::coreneuron_cpu_offline::preparation | |
| Start 68: testcorenrn_vecevent::coreneuron_cpu_offline::preparation | |
| Start 74: testcorenrn_watch::coreneuron_cpu_offline::preparation | |
| 1/103 Test #46: testcorenrn_deriv::coreneuron_cpu_offline::preparation ............. Passed 2.44 sec | |
| Start 80: testcorenrn_conc::coreneuron_cpu_offline::preparation | |
| 2/103 Test #40: testcorenrn_bbcore::coreneuron_cpu_offline::preparation ............ Passed 2.49 sec | |
| Start 86: testcorenrn_kin::coreneuron_cpu_offline::preparation | |
| 3/103 Test #56: testcorenrn_patstim::coreneuron_cpu_offline::preparation ........... Passed 3.46 sec | |
| Start 29: external_ringtest::neuron | |
| Start 36: testcorenrn_bbcore::neuron | |
| 4/103 Test #52: testcorenrn_gf::coreneuron_cpu_offline::preparation ................ Passed 7.09 sec | |
| Start 30: external_ringtest::neuron_mpi | |
| 5/103 Test #62: testcorenrn_vecplay::coreneuron_cpu_offline::preparation ........... Passed 7.36 sec | |
| Start 31: external_ringtest::coreneuron_cpu_mpi | |
| 6/103 Test #33: external_ringtest::coreneuron_cpu_mpi_offline::preparation ......... Passed 7.80 sec | |
| Start 32: external_ringtest::coreneuron_cpu_mpi_offline | |
| 7/103 Test #74: testcorenrn_watch::coreneuron_cpu_offline::preparation ............. Passed 7.86 sec | |
| Start 37: testcorenrn_bbcore::coreneuron_cpu_online | |
| Start 38: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate | |
| 8/103 Test #80: testcorenrn_conc::coreneuron_cpu_offline::preparation .............. Passed 5.67 sec | |
| Start 39: testcorenrn_bbcore::coreneuron_cpu_offline | |
| 9/103 Test #68: testcorenrn_vecevent::coreneuron_cpu_offline::preparation .......... Passed 8.22 sec | |
| Start 100: olfactory-bulb-3d::neuron::preparation | |
| 10/103 Test #86: testcorenrn_kin::coreneuron_cpu_offline::preparation ............... Passed 5.81 sec | |
| Start 42: testcorenrn_deriv::neuron | |
| 11/103 Test #36: testcorenrn_bbcore::neuron ......................................... Passed 4.78 sec | |
| Start 43: testcorenrn_deriv::coreneuron_cpu_online | |
| 12/103 Test #100: olfactory-bulb-3d::neuron::preparation ............................. Passed 0.79 sec | |
| Start 102: olfactory-bulb-3d::coreneuron_cpu_online::preparation | |
| 13/103 Test #29: external_ringtest::neuron .......................................... Passed 5.66 sec | |
| Start 44: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate | |
| 14/103 Test #102: olfactory-bulb-3d::coreneuron_cpu_online::preparation .............. Passed 1.41 sec | |
| Start 26: reduced_dentate::neuron | |
| 15/103 Test #32: external_ringtest::coreneuron_cpu_mpi_offline ...................... Passed 4.71 sec | |
| Start 45: testcorenrn_deriv::coreneuron_cpu_offline | |
| Start 76: testcorenrn_conc::neuron | |
| 16/103 Test #30: external_ringtest::neuron_mpi ...................................... Passed 5.48 sec | |
| Start 48: testcorenrn_gf::neuron | |
| 17/103 Test #39: testcorenrn_bbcore::coreneuron_cpu_offline ......................... Passed 5.64 sec | |
| Start 77: testcorenrn_conc::coreneuron_cpu_online | |
| 18/103 Test #45: testcorenrn_deriv::coreneuron_cpu_offline .......................... Passed 4.09 sec | |
| Start 78: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate | |
| 19/103 Test #31: external_ringtest::coreneuron_cpu_mpi .............................. Passed 10.25 sec | |
| Start 49: testcorenrn_gf::coreneuron_cpu_online | |
| 20/103 Test #42: testcorenrn_deriv::neuron .......................................... Passed 9.35 sec | |
| Start 79: testcorenrn_conc::coreneuron_cpu_offline | |
| 21/103 Test #76: testcorenrn_conc::neuron ........................................... Passed 7.17 sec | |
| Start 82: testcorenrn_kin::neuron | |
| 22/103 Test #43: testcorenrn_deriv::coreneuron_cpu_online ........................... Passed 11.42 sec | |
| Start 83: testcorenrn_kin::coreneuron_cpu_online | |
| 23/103 Test #37: testcorenrn_bbcore::coreneuron_cpu_online .......................... Passed 11.95 sec | |
| Start 84: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate | |
| 24/103 Test #79: testcorenrn_conc::coreneuron_cpu_offline ........................... Passed 2.23 sec | |
| Start 85: testcorenrn_kin::coreneuron_cpu_offline | |
| 25/103 Test #77: testcorenrn_conc::coreneuron_cpu_online ............................ Passed 7.88 sec | |
| Start 91: channel_benchmark_hippo::neuron | |
| 26/103 Test #38: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate ......... Passed 14.02 sec | |
| Start 92: channel_benchmark_hippo::coreneuron_cpu_online | |
| 27/103 Test #44: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate .......... Passed 12.69 sec | |
| Start 93: channel_benchmark_hippo::coreneuron_cpu_filemode | |
| 28/103 Test #85: testcorenrn_kin::coreneuron_cpu_offline ............................ Passed 2.57 sec | |
| Start 95: channel_benchmark_sscx::neuron | |
| 29/103 Test #82: testcorenrn_kin::neuron ............................................ Passed 2.89 sec | |
| Start 96: channel_benchmark_sscx::coreneuron_cpu_online | |
| 30/103 Test #78: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate ........... Passed 8.25 sec | |
| Start 97: channel_benchmark_sscx::coreneuron_cpu_filemode | |
| 31/103 Test #84: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate ............ Passed 6.33 sec | |
| Start 1: testneuron | |
| 32/103 Test #1: testneuron ......................................................... Passed 0.11 sec | |
| Start 2: ringtest | |
| 33/103 Test #2: ringtest ........................................................... Passed 0.33 sec | |
| Start 3: connect_dend | |
| 34/103 Test #3: connect_dend ....................................................... Passed 31.01 sec | |
| Start 4: pynrn_tests::basic_tests | |
| 35/103 Test #49: testcorenrn_gf::coreneuron_cpu_online .............................. Passed 40.68 sec | |
| Start 50: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate | |
| 36/103 Test #83: testcorenrn_kin::coreneuron_cpu_online ............................. Passed 48.54 sec | |
| Start 5: rxdmod_tests::rxd_tests | |
| 37/103 Test #26: reduced_dentate::neuron ............................................ Passed 115.03 sec | |
| Start 27: reduced_dentate::coreneuron_cpu | |
| 38/103 Test #50: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate ............. Passed 70.92 sec | |
| Start 51: testcorenrn_gf::coreneuron_cpu_offline | |
| 39/103 Test #95: channel_benchmark_sscx::neuron ..................................... Passed 110.98 sec | |
| Start 6: rxdmod_tests::rxd_mpi_tests | |
| 40/103 Test #92: channel_benchmark_hippo::coreneuron_cpu_online ..................... Passed 118.31 sec | |
| Start 7: parallel_tests | |
| 41/103 Test #51: testcorenrn_gf::coreneuron_cpu_offline ............................. Passed 20.39 sec | |
| Start 54: testcorenrn_patstim::neuron | |
| 42/103 Test #4: pynrn_tests::basic_tests ........................................... Passed 92.84 sec | |
| Start 8: parallel_partrans | |
| 43/103 Test #48: testcorenrn_gf::neuron ............................................. Passed 140.26 sec | |
| Start 55: testcorenrn_patstim::coreneuron_cpu_offline | |
| 44/103 Test #55: testcorenrn_patstim::coreneuron_cpu_offline ........................ Passed 5.39 sec | |
| Start 58: testcorenrn_vecplay::neuron | |
| 45/103 Test #8: parallel_partrans .................................................. Passed 8.14 sec | |
| Start 9: parallel_bas | |
| 46/103 Test #54: testcorenrn_patstim::neuron ........................................ Passed 12.94 sec | |
| Start 59: testcorenrn_vecplay::coreneuron_cpu_online | |
| 47/103 Test #58: testcorenrn_vecplay::neuron ........................................ Passed 4.37 sec | |
| Start 60: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate | |
| 48/103 Test #7: parallel_tests ..................................................... Passed 25.26 sec | |
| Start 10: coreneuron_modtests::fornetcon_py_cpu | |
| 49/103 Test #59: testcorenrn_vecplay::coreneuron_cpu_online ......................... Passed 9.31 sec | |
| Start 61: testcorenrn_vecplay::coreneuron_cpu_offline | |
| 50/103 Test #61: testcorenrn_vecplay::coreneuron_cpu_offline ........................ Passed 5.25 sec | |
| Start 70: testcorenrn_watch::neuron | |
| 51/103 Test #70: testcorenrn_watch::neuron .......................................... Passed 5.15 sec | |
| Start 71: testcorenrn_watch::coreneuron_cpu_online | |
| 52/103 Test #91: channel_benchmark_hippo::neuron .................................... Passed 164.27 sec | |
| Start 11: coreneuron_modtests::direct_py_cpu | |
| 53/103 Test #71: testcorenrn_watch::coreneuron_cpu_online ........................... Passed 9.91 sec | |
| Start 72: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate | |
| 54/103 Test #60: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate ........ Passed 30.09 sec | |
| Start 73: testcorenrn_watch::coreneuron_cpu_offline | |
| 55/103 Test #9: parallel_bas ....................................................... Passed 34.20 sec | |
| Start 12: coreneuron_modtests::direct_hoc_cpu | |
| 56/103 Test #73: testcorenrn_watch::coreneuron_cpu_offline .......................... Passed 3.09 sec | |
| Start 88: testcorenrn_netstimdirect::direct_netstimdirect | |
| 57/103 Test #10: coreneuron_modtests::fornetcon_py_cpu .............................. Passed 33.22 sec | |
| Start 13: coreneuron_modtests::spikes_py_cpu | |
| 58/103 Test #12: coreneuron_modtests::direct_hoc_cpu ................................ Passed 10.63 sec | |
| Start 14: coreneuron_modtests::spikes_file_mode_py_cpu | |
| 59/103 Test #88: testcorenrn_netstimdirect::direct_netstimdirect .................... Passed 8.49 sec | |
| Start 89: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate | |
| 60/103 Test #72: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate .......... Passed 16.39 sec | |
| Start 15: coreneuron_modtests::fast_imem_py_cpu | |
| Start 16: coreneuron_modtests::datareturn_py_cpu | |
| 61/103 Test #96: channel_benchmark_sscx::coreneuron_cpu_online ...................... Passed 188.22 sec | |
| Start 17: coreneuron_modtests::test_units_py_cpu | |
| 62/103 Test #93: channel_benchmark_hippo::coreneuron_cpu_filemode ................... Passed 193.99 sec | |
| Start 18: coreneuron_modtests::test_netmove_py_cpu | |
| 63/103 Test #11: coreneuron_modtests::direct_py_cpu ................................. Passed 31.81 sec | |
| Start 19: coreneuron_modtests::test_watchrange_py_cpu | |
| 64/103 Test #97: channel_benchmark_sscx::coreneuron_cpu_filemode .................... Passed 194.93 sec | |
| Start 20: coreneuron_modtests::test_psolve_py_cpu | |
| 65/103 Test #89: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate ... Passed 16.11 sec | |
| Start 21: coreneuron_modtests::test_natrans_py_cpu | |
| Start 25: external_nrntest | |
| 66/103 Test #13: coreneuron_modtests::spikes_py_cpu ................................. Passed 23.09 sec | |
| Start 41: testcorenrn_bbcore::compare_results | |
| 67/103 Test #41: testcorenrn_bbcore::compare_results ................................ Passed 0.80 sec | |
| Start 47: testcorenrn_deriv::compare_results | |
| 68/103 Test #14: coreneuron_modtests::spikes_file_mode_py_cpu ....................... Passed 22.36 sec | |
| Start 53: testcorenrn_gf::compare_results | |
| 69/103 Test #47: testcorenrn_deriv::compare_results ................................. Passed 3.13 sec | |
| Start 57: testcorenrn_patstim::compare_results | |
| 70/103 Test #27: reduced_dentate::coreneuron_cpu .................................... Passed 101.53 sec | |
| Start 64: testcorenrn_vecevent::neuron | |
| 71/103 Test #57: testcorenrn_patstim::compare_results ............................... Passed 1.62 sec | |
| Start 28: reduced_dentate::compare_results | |
| 72/103 Test #53: testcorenrn_gf::compare_results .................................... Passed 2.30 sec | |
| Start 63: testcorenrn_vecplay::compare_results | |
| 73/103 Test #28: reduced_dentate::compare_results ................................... Passed 1.33 sec | |
| Start 75: testcorenrn_watch::compare_results | |
| 74/103 Test #16: coreneuron_modtests::datareturn_py_cpu ............................. Passed 20.32 sec | |
| Start 81: testcorenrn_conc::compare_results | |
| 75/103 Test #15: coreneuron_modtests::fast_imem_py_cpu .............................. Passed 20.33 sec | |
| Start 87: testcorenrn_kin::compare_results | |
| 76/103 Test #63: testcorenrn_vecplay::compare_results ............................... Passed 1.64 sec | |
| Start 90: testcorenrn_netstimdirect::compare_results | |
| 77/103 Test #75: testcorenrn_watch::compare_results ................................. Passed 1.69 sec | |
| Start 94: channel_benchmark_hippo::compare_results | |
| 78/103 Test #87: testcorenrn_kin::compare_results ................................... Passed 1.78 sec | |
| Start 98: channel_benchmark_sscx::compare_results | |
| 79/103 Test #90: testcorenrn_netstimdirect::compare_results ......................... Passed 1.15 sec | |
| 80/103 Test #81: testcorenrn_conc::compare_results .................................. Passed 2.06 sec | |
| Start 22: coreneuron_modtests::spikes_mpi_py_cpu | |
| 81/103 Test #94: channel_benchmark_hippo::compare_results ........................... Passed 1.29 sec | |
| 82/103 Test #98: channel_benchmark_sscx::compare_results ............................ Passed 1.40 sec | |
| Start 23: coreneuron_modtests::spikes_mpi_file_mode_py_cpu | |
| 83/103 Test #17: coreneuron_modtests::test_units_py_cpu ............................. Passed 21.83 sec | |
| 84/103 Test #64: testcorenrn_vecevent::neuron ....................................... Passed 9.71 sec | |
| Start 65: testcorenrn_vecevent::coreneuron_cpu_online | |
| 85/103 Test #18: coreneuron_modtests::test_netmove_py_cpu ........................... Passed 28.56 sec | |
| Start 24: coreneuron_modtests::inputpresyn_py_cpu | |
| 86/103 Test #22: coreneuron_modtests::spikes_mpi_py_cpu ............................. Passed 14.83 sec | |
| 87/103 Test #23: coreneuron_modtests::spikes_mpi_file_mode_py_cpu ................... Passed 13.90 sec | |
| Start 66: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate | |
| 88/103 Test #19: coreneuron_modtests::test_watchrange_py_cpu ........................ Passed 29.22 sec | |
| 89/103 Test #20: coreneuron_modtests::test_psolve_py_cpu ............................ Passed 27.69 sec | |
| 90/103 Test #21: coreneuron_modtests::test_natrans_py_cpu ........................... Passed 27.19 sec | |
| 91/103 Test #65: testcorenrn_vecevent::coreneuron_cpu_online ........................ Passed 15.71 sec | |
| Start 34: external_ringtest::coreneuron_cpu_mpi_threads | |
| 92/103 Test #24: coreneuron_modtests::inputpresyn_py_cpu ............................ Passed 11.24 sec | |
| 93/103 Test #66: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate ....... Passed 12.57 sec | |
| Start 67: testcorenrn_vecevent::coreneuron_cpu_offline | |
| 94/103 Test #34: external_ringtest::coreneuron_cpu_mpi_threads ...................... Passed 8.08 sec | |
| Start 99: olfactory-bulb-3d::neuron | |
| Start 101: olfactory-bulb-3d::coreneuron_cpu_online | |
| Start 35: external_ringtest::compare_results | |
| 95/103 Test #35: external_ringtest::compare_results ................................. Passed 0.15 sec | |
| 96/103 Test #67: testcorenrn_vecevent::coreneuron_cpu_offline ....................... Passed 2.27 sec | |
| Start 69: testcorenrn_vecevent::compare_results | |
| 97/103 Test #69: testcorenrn_vecevent::compare_results .............................. Passed 0.08 sec | |
| 98/103 Test #5: rxdmod_tests::rxd_tests ............................................ Passed 197.43 sec | |
| 99/103 Test #6: rxdmod_tests::rxd_mpi_tests ........................................ Passed 274.35 sec | |
| 100/103 Test #25: external_nrntest ................................................... Passed 212.92 sec | |
| 101/103 Test #101: olfactory-bulb-3d::coreneuron_cpu_online ........................... Passed 175.33 sec | |
| 102/103 Test #99: olfactory-bulb-3d::neuron .......................................... Passed 176.87 sec | |
| Start 103: olfactory-bulb-3d::compare_results | |
| 103/103 Test #103: olfactory-bulb-3d::compare_results ................................. Passed 0.20 sec | |
| 100% tests passed, 0 tests failed out of 103 | |
| Total Test time (real) = 437.76 sec | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.8.3 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| section_end:1640109764:step_script [0Ksection_start:1640109764:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=222096 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| Testing/: found 7 matching files and directories [0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=113220 responseStatus[0;m=201 Created token[0;m=TrmAHtt8 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=222148 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=113220 responseStatus[0;m=201 Created token[0;m=TrmAHtt8 | |
| section_end:1640109765:upload_artifacts_on_success [0Ksection_start:1640109765:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1640109766:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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