Created
September 29, 2021 15:58
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Logfiles for GitLab pipeline https://bbpgitlab.epfl.ch/hpc/coreneuron/-/pipelines/18104 (:white_check_mark:) running on GitHub PR BlueBrain/CoreNeuron#640.
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632927559:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632927559:resolve_secrets [0Ksection_start:1632927559: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor865983100, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64138 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64138_PROD_P112_CP3_C3 | |
| 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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2746875 | |
| job state: R | |
| section_end:1632927574:prepare_executor [0Ksection_start:1632927574:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r5i2n31 via bbpv1.epfl.ch... | |
| section_end:1632927580:prepare_script [0Ksection_start:1632927580: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:1632927580:get_sources [0Ksection_start:1632927580:restore_cache [0K[0K[36;1mRestoring cache[0;m | |
| [0;m[32;1mChecking cache for coreneuron-nvhpc-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=171762 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading cache.zip from https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/coreneuron-nvhpc-5[0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1632927586:restore_cache [0Ksection_start:1632927586:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for spack_setup (64132)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=171961 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64132 responseStatus[0;m=200 OK token[0;m=98yyH3EC | |
| section_end:1632927587:download_artifacts [0Ksection_start:1632927587: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/P18104/64138/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64138/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64138/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/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/P18104/64138/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64138/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for coreneuron is commit="27dbbda7c45bd1441407f170826e6c673d23667a" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/coreneuron/package.py b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| index 81958bd..42039ec 100644 | |
| --- a/var/spack/repos/builtin/packages/coreneuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| @@ -18,7 +18,7 @@ class Coreneuron(CMakePackage): | |
| url = "https://github.com/BlueBrain/CoreNeuron" | |
| git = "https://github.com/BlueBrain/CoreNeuron" | |
| - version('develop', branch='master') | |
| + version('develop', commit="27dbbda7c45bd1441407f170826e6c673d23667a") | |
| # 1.0.1 > 1.0.0.20210519 > 1.0 as far as Spack is concerned | |
| version('1.0.0.20210708', commit='d54a3aa') | |
| version('1.0.0.20210610', commit='b4a25b4') | |
| [32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be ekzdtgq26p6y5mzmpphbjqbifw32enfk | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache -z[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache -s[0;m | |
| Summary: | |
| 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): 0.04 / 5.00 (0.75 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git gcc[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: 'ekzdtgq26p6y5mzmpphbjqbifw32enfk' | |
| [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 | |
| -------------------------------- | |
| - ekzdtgq coreneuron@develop%nvhpc@21.2~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 | |
| - 2ifshpf ^bison@3.6.4%nvhpc@21.2 patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| [^] qu3qasv ^boost@1.73.0%nvhpc@21.2+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 | |
| - gluy7kg ^cmake@3.15.7%nvhpc@21.2~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [^] 4phgvnp ^cuda@11.0.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| - prwvb2t ^flex@2.6.4%nvhpc@21.2+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] jop6mvp ^hpe-mpi@2.22.hmpt%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| - mddtpd5 ^ninja@1.10.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] v5gxu5s ^python@3.8.3%nvhpc@21.2+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_JOB_CPUS_PER_NODE} --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-3.6.4-2ifshpf6x23hf7ccztxnrrqdx4mxt3rj) | |
| [+] /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-qu3qasvmolllw4vbcf2maq2dz3hklz2r) | |
| ==> 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-gluy7kgf2wgh5bfrenva7x4mtnzhr6r4) | |
| ==> cuda@11.0.2 : has external module in ['cuda/11.0.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cuda-11.0.2-kb4wci (external cuda-11.0.2-4phgvnpeha2grh36f6f6w7ledwlpbcs3) | |
| ==> 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-prwvb2t3p3bo5eivmcrvx2eyffvcwfqy) | |
| ==> hpe-mpi@2.22.hmpt : has external module in ['hpe-mpi/2.22.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.22.hmpt-r52ypu (external hpe-mpi-2.22.hmpt-jop6mvp4dll4wazl3uc7ycyupteb34ia) | |
| ==> 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-mddtpd5kgds34dklkfm2prewsfy6becf) | |
| ==> 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-v5gxu5slpix24wzbfiyzo52rwso5gsaa) | |
| ==> Installing coreneuron-develop-ekzdtgq26p6y5mzmpphbjqbifw32enfk | |
| ==> No binary for coreneuron-develop-ekzdtgq26p6y5mzmpphbjqbifw32enfk 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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/coreneuron-develop-ekzdtg | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then ccache -s; fi[0;m | |
| Summary: | |
| Hits: 111 / 113 (98.23 %) | |
| Direct: 110 / 113 (97.35 %) | |
| Preprocessed: 1 / 3 (33.33 %) | |
| Misses: 2 | |
| Direct: 3 | |
| Preprocessed: 2 | |
| Uncacheable: 18 | |
| Primary storage: | |
| Hits: 221 / 226 (97.79 %) | |
| Misses: 5 | |
| Cache size (GB): 0.04 / 5.00 (0.75 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ 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=${SPACK_PACKAGE_DEPENDENCIES}^/${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/2.22.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:1632928022:step_script [0Ksection_start:1632928022:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m | |
| [0;m[32;1mCreating cache coreneuron-nvhpc-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=185970 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ccache/: found 5145 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/coreneuron-nvhpc-5[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1632928031:archive_cache [0Ksection_start:1632928031: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=186149 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64138 responseStatus[0;m=201 Created token[0;m=RfVDGiD5 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=186174 revision[0;m=7a6612da version[0;m=13.12.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64138 responseStatus[0;m=201 Created token[0;m=RfVDGiD5 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=186201 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64138 responseStatus[0;m=201 Created token[0;m=RfVDGiD5 | |
| section_end:1632928032:upload_artifacts_on_success [0Ksection_start:1632928032:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632928033:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632927559:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632927559:resolve_secrets [0Ksection_start:1632927559: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor830248250, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64136 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64136_PROD_P112_CP2_C2 | |
| 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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2746872 | |
| job state: R | |
| section_end:1632927574:prepare_executor [0Ksection_start:1632927574:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r5i2n31 via bbpv1.epfl.ch... | |
| section_end:1632927579:prepare_script [0Ksection_start:1632927579: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:1632927580:get_sources [0Ksection_start:1632927580:restore_cache [0K[0K[36;1mRestoring cache[0;m | |
| [0;m[32;1mChecking cache for coreneuron-intel-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=171666 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading cache.zip from https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/coreneuron-intel-5[0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1632927590:restore_cache [0Ksection_start:1632927590:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for spack_setup (64132)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=172895 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64132 responseStatus[0;m=200 OK token[0;m=98yyH3EC | |
| section_end:1632927591:download_artifacts [0Ksection_start:1632927591: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/P18104/64136/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64136/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64136/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/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/P18104/64136/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64136/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for coreneuron is commit="27dbbda7c45bd1441407f170826e6c673d23667a" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/coreneuron/package.py b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| index 81958bd..42039ec 100644 | |
| --- a/var/spack/repos/builtin/packages/coreneuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| @@ -18,7 +18,7 @@ class Coreneuron(CMakePackage): | |
| url = "https://github.com/BlueBrain/CoreNeuron" | |
| git = "https://github.com/BlueBrain/CoreNeuron" | |
| - version('develop', branch='master') | |
| + version('develop', commit="27dbbda7c45bd1441407f170826e6c673d23667a") | |
| # 1.0.1 > 1.0.0.20210519 > 1.0 as far as Spack is concerned | |
| version('1.0.0.20210708', commit='d54a3aa') | |
| version('1.0.0.20210610', commit='b4a25b4') | |
| [32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be slnpueymehi7yjdqxbf2l4uajdb5navc | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache -z[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache -s[0;m | |
| Summary: | |
| 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): 0.13 / 5.00 (2.68 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git gcc[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: 'slnpueymehi7yjdqxbf2l4uajdb5navc' | |
| [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 | |
| -------------------------------- | |
| - slnpuey 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 | |
| [^] qagbv7u ^hpe-mpi@2.22.hmpt%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] x5el37s ^libsonata-report@1.0.0.20210610%intel@19.1.2.254~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] 2yojmmk ^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 | |
| [^] zas5d2a ^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_JOB_CPUS_PER_NODE} --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@2.22.hmpt : has external module in ['hpe-mpi/2.22.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.22.hmpt-r52ypu (external hpe-mpi-2.22.hmpt-qagbv7uwlmxlmpab4m3ullbu7fxvkkpa) | |
| [+] /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-zas5d2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/hdf5-1.10.7-2yojmm | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libsonata-report-1.0.0.20210610-x5el37 | |
| ==> Installing coreneuron-develop-slnpueymehi7yjdqxbf2l4uajdb5navc | |
| ==> No binary for coreneuron-develop-slnpueymehi7yjdqxbf2l4uajdb5navc 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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-slnpue | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then ccache -s; fi[0;m | |
| Summary: | |
| Hits: 105 / 113 (92.92 %) | |
| Direct: 104 / 114 (91.23 %) | |
| Preprocessed: 1 / 10 (10.00 %) | |
| Misses: 8 | |
| Direct: 10 | |
| Preprocessed: 9 | |
| Uncacheable: 20 | |
| Primary storage: | |
| Hits: 209 / 228 (91.67 %) | |
| Misses: 19 | |
| Cache size (GB): 0.13 / 5.00 (2.68 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ 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=${SPACK_PACKAGE_DEPENDENCIES}^/${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/2.22.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:1632927883:step_script [0Ksection_start:1632927883:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m | |
| [0;m[32;1mCreating cache coreneuron-intel-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=182023 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ccache/: found 7194 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/coreneuron-intel-5[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1632927897:archive_cache [0Ksection_start:1632927897: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=182380 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64136 responseStatus[0;m=201 Created token[0;m=2apcC84C | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=182410 revision[0;m=7a6612da version[0;m=13.12.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64136 responseStatus[0;m=201 Created token[0;m=2apcC84C | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=182438 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64136 responseStatus[0;m=201 Created token[0;m=2apcC84C | |
| section_end:1632927899:upload_artifacts_on_success [0Ksection_start:1632927899:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632927899:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632927981:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632927981:resolve_secrets [0Ksection_start:1632927981: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor080774152, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64137 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64137_PROD_P112_CP1_C1 | |
| 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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2746887 | |
| job state: R | |
| section_end:1632928033:prepare_executor [0Ksection_start:1632928033:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r5i2n31 via bbpv1.epfl.ch... | |
| section_end:1632928035:prepare_script [0Ksection_start:1632928035: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:1632928036:get_sources [0Ksection_start:1632928036:restore_cache [0K[0K[36;1mRestoring cache[0;m | |
| [0;m[32;1mChecking cache for coreneuron-nvhpc-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=186453 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading cache.zip from https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/coreneuron-nvhpc-5[0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1632928041:restore_cache [0Ksection_start:1632928041:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:nmodl:gpu (64134)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=186549 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64134 responseStatus[0;m=200 OK token[0;m=e2yXxzYi | |
| section_end:1632928041:download_artifacts [0Ksection_start:1632928041: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/P18104/64137/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64137/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64137/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/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/P18104/64137/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64137/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for coreneuron is commit="27dbbda7c45bd1441407f170826e6c673d23667a" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/coreneuron/package.py b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| index 81958bd..42039ec 100644 | |
| --- a/var/spack/repos/builtin/packages/coreneuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| @@ -18,7 +18,7 @@ class Coreneuron(CMakePackage): | |
| url = "https://github.com/BlueBrain/CoreNeuron" | |
| git = "https://github.com/BlueBrain/CoreNeuron" | |
| - version('develop', branch='master') | |
| + version('develop', commit="27dbbda7c45bd1441407f170826e6c673d23667a") | |
| # 1.0.1 > 1.0.0.20210519 > 1.0 as far as Spack is concerned | |
| version('1.0.0.20210708', commit='d54a3aa') | |
| version('1.0.0.20210610', commit='b4a25b4') | |
| [32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install coreneuron@develop%nvhpc+nmodl+gpu+tests~legacy-unit~report build_type=RelWithDebInfo ^bison%gcc^flex%gcc^py-jinja2%gcc^py-sympy%gcc^py-pyyaml%gcc^/awi7vrm4eaiuzdafhedebwthgzxznx4j | |
| [32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be aoe2ga6salt5qv6vqlldt23jmmxeb6d5 | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache -z[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache -s[0;m | |
| Summary: | |
| 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): 0.04 / 5.00 (0.75 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git gcc[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: 'aoe2ga6salt5qv6vqlldt23jmmxeb6d5' | |
| [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 | |
| - ^bison%gcc | |
| - ^flex%gcc | |
| [+] ^nmodl@develop%nvhpc@21.2~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@21.2+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@21.2 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@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-attrs@20.3.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-more-itertools@8.7.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-packaging@19.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-pyparsing@2.4.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-six@1.16.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-pluggy@0.13.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-py@1.8.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-wcwidth@0.1.7%nvhpc@21.2 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-jinja2%gcc | |
| - ^py-pyyaml%gcc | |
| - ^py-sympy%gcc | |
| Concretized | |
| -------------------------------- | |
| - aoe2ga6 coreneuron@develop%nvhpc@21.2~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 | |
| - 2ifshpf ^bison@3.6.4%nvhpc@21.2 patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| [^] qu3qasv ^boost@1.73.0%nvhpc@21.2+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 | |
| - gluy7kg ^cmake@3.15.7%nvhpc@21.2~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [^] 4phgvnp ^cuda@11.0.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| - prwvb2t ^flex@2.6.4%nvhpc@21.2+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] jop6mvp ^hpe-mpi@2.22.hmpt%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| - mddtpd5 ^ninja@1.10.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [+] awi7vrm ^nmodl@develop%nvhpc@21.2~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] afnqqnp ^py-jinja2@2.10.3%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] xpep3yw ^py-babel@2.7.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] ujf2qes ^py-pytz@2020.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] v5gxu5s ^python@3.8.3%nvhpc@21.2+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 | |
| [^] rsay7hd ^py-setuptools@50.3.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [+] 5pew2nu ^py-markupsafe@1.1.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] 6leiazm ^py-pytest@5.3.4%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 373m5vr ^py-attrs@20.3.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] hgzmzzz ^py-more-itertools@8.7.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 2p3niph ^py-packaging@19.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 444mrrp ^py-pyparsing@2.4.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ux4mwzh ^py-six@1.16.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] tbbefeg ^py-pluggy@0.13.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] qywkw4y ^py-py@1.8.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] rdab26o ^py-wcwidth@0.1.7%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [+] dszppxf ^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 | |
| [+] lhwntcl ^py-sympy@1.4%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] l3syz4z ^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_JOB_CPUS_PER_NODE} --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-3.6.4-2ifshpf6x23hf7ccztxnrrqdx4mxt3rj) | |
| [+] /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-qu3qasvmolllw4vbcf2maq2dz3hklz2r) | |
| ==> 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-gluy7kgf2wgh5bfrenva7x4mtnzhr6r4) | |
| ==> cuda@11.0.2 : has external module in ['cuda/11.0.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cuda-11.0.2-kb4wci (external cuda-11.0.2-4phgvnpeha2grh36f6f6w7ledwlpbcs3) | |
| ==> 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-prwvb2t3p3bo5eivmcrvx2eyffvcwfqy) | |
| ==> hpe-mpi@2.22.hmpt : has external module in ['hpe-mpi/2.22.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.22.hmpt-r52ypu (external hpe-mpi-2.22.hmpt-jop6mvp4dll4wazl3uc7ycyupteb34ia) | |
| ==> 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-mddtpd5kgds34dklkfm2prewsfy6becf) | |
| ==> 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-v5gxu5slpix24wzbfiyzo52rwso5gsaa) | |
| [+] /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-21.2/py-setuptools-50.3.2-rsay7h | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-more-itertools-8.7.0-hgzmzz | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-six-1.16.0-ux4mwz | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-wcwidth-0.1.7-rdab26 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pluggy-0.13.0-tbbefe | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-pytz-2020.1-ujf2qe | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pyparsing-2.4.2-444mrr | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-attrs-20.3.0-373m5v | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-py-1.8.0-qywkw4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-mpmath-1.1.0-l3syz4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-markupsafe-1.1.1-5pew2n | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-pyyaml-5.3.1-dszppx | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-babel-2.7.0-xpep3y | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-packaging-19.2-2p3nip | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-sympy-1.4-lhwntc | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-jinja2-2.10.3-afnqqn | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pytest-5.3.4-6leiaz | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/nmodl-develop-awi7vr | |
| ==> Installing coreneuron-develop-aoe2ga6salt5qv6vqlldt23jmmxeb6d5 | |
| ==> No binary for coreneuron-develop-aoe2ga6salt5qv6vqlldt23jmmxeb6d5 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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/coreneuron-develop-aoe2ga | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then ccache -s; fi[0;m | |
| Summary: | |
| Hits: 82 / 91 (90.11 %) | |
| Direct: 1 / 91 (1.10 %) | |
| Preprocessed: 81 / 90 (90.00 %) | |
| Misses: 9 | |
| Direct: 90 | |
| Preprocessed: 9 | |
| Uncacheable: 15 | |
| Primary storage: | |
| Hits: 83 / 182 (45.60 %) | |
| Misses: 99 | |
| Cache size (GB): 0.04 / 5.00 (0.75 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ 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=${SPACK_PACKAGE_DEPENDENCIES}^/${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/2.22.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:1632928970:step_script [0Ksection_start:1632928970:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m | |
| [0;m[32;1mCreating cache coreneuron-nvhpc-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=207040 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ccache/: found 5243 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/coreneuron-nvhpc-5[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1632928979:archive_cache [0Ksection_start:1632928979: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=207200 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64137 responseStatus[0;m=201 Created token[0;m=z5McydUR | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=207221 revision[0;m=7a6612da version[0;m=13.12.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64137 responseStatus[0;m=201 Created token[0;m=z5McydUR | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=207246 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64137 responseStatus[0;m=201 Created token[0;m=z5McydUR | |
| section_end:1632928980:upload_artifacts_on_success [0Ksection_start:1632928980:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632928981:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632928155:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632928155:resolve_secrets [0Ksection_start:1632928155: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor045896582, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64135 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64135_PROD_P112_CP0_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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2746904 | |
| job state: R | |
| section_end:1632928217:prepare_executor [0Ksection_start:1632928217:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r5i2n31 via bbpv1.epfl.ch... | |
| section_end:1632928220:prepare_script [0Ksection_start:1632928220: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:1632928220:get_sources [0Ksection_start:1632928220:restore_cache [0K[0K[36;1mRestoring cache[0;m | |
| [0;m[32;1mChecking cache for coreneuron-intel-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=191787 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading cache.zip from https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/coreneuron-intel-5[0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1632928227:restore_cache [0Ksection_start:1632928227:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:nmodl:intel (64133)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=192070 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64133 responseStatus[0;m=200 OK token[0;m=msqpyj_B | |
| section_end:1632928228:download_artifacts [0Ksection_start:1632928228: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/P18104/64135/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64135/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64135/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/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/P18104/64135/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64135/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for coreneuron is commit="27dbbda7c45bd1441407f170826e6c673d23667a" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/coreneuron/package.py b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| index 81958bd..42039ec 100644 | |
| --- a/var/spack/repos/builtin/packages/coreneuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| @@ -18,7 +18,7 @@ class Coreneuron(CMakePackage): | |
| url = "https://github.com/BlueBrain/CoreNeuron" | |
| git = "https://github.com/BlueBrain/CoreNeuron" | |
| - version('develop', branch='master') | |
| + version('develop', commit="27dbbda7c45bd1441407f170826e6c673d23667a") | |
| # 1.0.1 > 1.0.0.20210519 > 1.0 as far as Spack is concerned | |
| version('1.0.0.20210708', commit='d54a3aa') | |
| version('1.0.0.20210610', commit='b4a25b4') | |
| [32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be pafoegig5pmhy5yporc37ixdb4prvice | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache -z[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache -s[0;m | |
| Summary: | |
| 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): 0.13 / 5.00 (2.68 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git gcc[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: 'pafoegig5pmhy5yporc37ixdb4prvice' | |
| [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 | |
| -------------------------------- | |
| - pafoegi 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 | |
| [^] qagbv7u ^hpe-mpi@2.22.hmpt%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] x5el37s ^libsonata-report@1.0.0.20210610%intel@19.1.2.254~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] 2yojmmk ^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 | |
| [^] zas5d2a ^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_JOB_CPUS_PER_NODE} --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@2.22.hmpt : has external module in ['hpe-mpi/2.22.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.22.hmpt-r52ypu (external hpe-mpi-2.22.hmpt-qagbv7uwlmxlmpab4m3ullbu7fxvkkpa) | |
| [+] /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-zas5d2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/hdf5-1.10.7-2yojmm | |
| [+] /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/P18104/64132/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/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/P18104/64132/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/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-setuptools-50.3.2-xfgkmk | |
| [+] /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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-wcwidth-0.1.7-za7jmv | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/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/P18104/64132/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-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-1.0.0.20210610-x5el37 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/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/P18104/64132/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/P18104/64132/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/P18104/64132/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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/nmodl-develop-lqyttq | |
| ==> Installing coreneuron-develop-pafoegig5pmhy5yporc37ixdb4prvice | |
| ==> No binary for coreneuron-develop-pafoegig5pmhy5yporc37ixdb4prvice 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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-pafoeg | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then ccache -s; fi[0;m | |
| Summary: | |
| Hits: 77 / 91 (84.62 %) | |
| Direct: 0 / 92 (0.00 %) | |
| Preprocessed: 77 / 92 (83.70 %) | |
| Misses: 14 | |
| Direct: 92 | |
| Preprocessed: 15 | |
| Uncacheable: 17 | |
| Primary storage: | |
| Hits: 77 / 184 (41.85 %) | |
| Misses: 107 | |
| Cache size (GB): 0.13 / 5.00 (2.68 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ 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=${SPACK_PACKAGE_DEPENDENCIES}^/${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/2.22.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:1632928941:step_script [0Ksection_start:1632928941:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m | |
| [0;m[32;1mCreating cache coreneuron-intel-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=206359 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ccache/: found 7297 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/coreneuron-intel-5[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1632928957:archive_cache [0Ksection_start:1632928957: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=206694 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64135 responseStatus[0;m=201 Created token[0;m=WcpCqrnt | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=206724 revision[0;m=7a6612da version[0;m=13.12.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64135 responseStatus[0;m=201 Created token[0;m=WcpCqrnt | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=206754 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64135 responseStatus[0;m=201 Created token[0;m=WcpCqrnt | |
| section_end:1632928958:upload_artifacts_on_success [0Ksection_start:1632928958:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632928959:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632928041:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632928041:resolve_secrets [0Ksection_start:1632928041: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor120773208, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64146 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64146_PROD_P112_CP3_C3 | |
| Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| chown: changing ownership of â/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104/64133/spack-build/spack-stage-nmodl-develop-lqyttqytclxdwwickak7uvjmb6a3au3g/spack-build-lqyttqy/test/unit/CMakeFiles/testvisitor.dir/visitor/local_to_assigned.cpp.o.dâ: No such file or directory | |
| [31;1mERROR: Preparation failed: exit status 2 | |
| [0;m[32;1mWill be retried in 3s ... | |
| [0;m[0KUsing Custom executor with driver BB5 PROD runner v0.0.3... | |
| [0;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor593577802, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64146 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64146_PROD_P112_CP3_C3 | |
| 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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2746899 | |
| job state: PD | |
| job state: R | |
| section_end:1632928127:prepare_executor [0Ksection_start:1632928127:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r4i3n10 via bbpv1.epfl.ch... | |
| section_end:1632928129:prepare_script [0Ksection_start:1632928129: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:1632928129:get_sources [0Ksection_start:1632928129:restore_cache [0K[0K[36;1mRestoring cache[0;m | |
| [0;m[32;1mChecking cache for neuron-nvhpc-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=155978 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading cache.zip from https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/neuron-nvhpc-5[0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1632928170:restore_cache [0Ksection_start:1632928170:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:coreneuron:gpu (64138)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=156184 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64138 responseStatus[0;m=200 OK token[0;m=RfVDGiD5 | |
| section_end:1632928171:download_artifacts [0Ksection_start:1632928171: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/P18104/64146/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64146/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64146/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/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/P18104/64146/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64146/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for neuron is branch="olupton/channel-benchmark" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/neuron/package.py b/var/spack/repos/builtin/packages/neuron/package.py | |
| index 7c6cf75..80a2ff8 100644 | |
| --- a/var/spack/repos/builtin/packages/neuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/neuron/package.py | |
| @@ -31,7 +31,7 @@ class Neuron(CMakePackage): | |
| patch("apply_79a4d2af_load_balance_fix.patch", when="@7.8.0b") | |
| patch("fix_brew_py_18e97a2d.patch", when="@7.8.0c") | |
| - version("develop", branch="master") | |
| + version("develop", branch="olupton/channel-benchmark") | |
| version("8.0.0", tag="8.0.0", preferred=True) | |
| version("8.0b", commit="eb8d038") | |
| version("8.0a", tag="8.0a") | |
| [32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron@develop%nvhpc+coreneuron+debug+tests~legacy-unit ^/ekzdtgq26p6y5mzmpphbjqbifw32enfk^py-cython%gcc^py-numpy%gcc | |
| [32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be qdta367h6ly225azfnup34o2tpbkhbcb | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache -z[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache -s[0;m | |
| Summary: | |
| 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): 0.02 / 5.00 (0.34 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git gcc[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: 'qdta367h6ly225azfnup34o2tpbkhbcb' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron@develop%nvhpc+coreneuron+debug~legacy-unit+tests | |
| [+] ^coreneuron@develop%nvhpc@21.2~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@21.2+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@11.0.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^hpe-mpi@2.22.hmpt%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| - ^py-cython%gcc | |
| - ^py-numpy%gcc | |
| Concretized | |
| -------------------------------- | |
| - qdta367 neuron@develop%nvhpc@21.2+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 patches=708cb04826b394a858069d93e8c08e1e81e914c23e1ef3da0486e8233834ff6c arch=linux-rhel7-x86_64 | |
| - 2ifshpf ^bison@3.6.4%nvhpc@21.2 patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| - gluy7kg ^cmake@3.15.7%nvhpc@21.2~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [+] ekzdtgq ^coreneuron@develop%nvhpc@21.2~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 | |
| [^] qu3qasv ^boost@1.73.0%nvhpc@21.2+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 | |
| [^] 4phgvnp ^cuda@11.0.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] jop6mvp ^hpe-mpi@2.22.hmpt%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| - prwvb2t ^flex@2.6.4%nvhpc@21.2+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] 5lqiecm ^gettext@0.21%nvhpc@21.2+bzip2+curses+git~libunistring+libxml2+tar+xz patches=6e530daaae14725d578d6cafbf7d523accc9ed29fd817bd421cf98a5f51e9e1b,bbe9f0539aa504966ac104224d25a9260faa1015ed3adda936467be9c7de4eae,fb27a3fb5e414bdc50ffebbbe2da986473df70a493caa4396226f51a67c55424 arch=linux-rhel7-x86_64 | |
| [^] id52ywi ^bzip2@1.0.8%nvhpc@21.2+shared arch=linux-rhel7-x86_64 | |
| [^] o2ibs4c ^libiconv@1.16%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] hbvd5d6 ^libxml2@2.9.10%nvhpc@21.2~python patches=05ff238cf435825ef835c7ae39376b52dc83d8caf19e962f0766c841386a305a,10a88ad47f9797cf7cf2d7d07241f665a3b6d1f31fa026728c8c2ae93e1664e9 arch=linux-rhel7-x86_64 | |
| [^] nfl4mod ^pkgconf@1.7.3%nvhpc@21.2 patches=6e94c68d45d4cb8148c8c53699921d10b13784f758f0563ce64c838e0ca48ceb arch=linux-rhel7-x86_64 | |
| [^] qd22znx ^xz@5.2.5%nvhpc@21.2~pic arch=linux-rhel7-x86_64 | |
| [^] riwuxjc ^zlib@1.2.11%nvhpc@21.2+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] ijdcmaa ^ncurses@6.2%nvhpc@21.2~symlinks+termlib arch=linux-rhel7-x86_64 | |
| [^] tvukhb5 ^tar@1.28%nvhpc@21.2 patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,4e8cdf69294c376c45c39d059f11769c5c996c2d84cdfb56eb69890e0aa4e991,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-x86_64 | |
| - mddtpd5 ^ninja@1.10.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [+] eg6a4hu ^py-cython@0.29.21%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] rsay7hd ^py-setuptools@50.3.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] v5gxu5s ^python@3.8.3%nvhpc@21.2+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 | |
| [^] i4mwhdw ^py-mpi4py@3.0.3%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [+] ottdmb2 ^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 | |
| [^] 6leiazm ^py-pytest@5.3.4%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 373m5vr ^py-attrs@20.3.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] hgzmzzz ^py-more-itertools@8.7.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 2p3niph ^py-packaging@19.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 444mrrp ^py-pyparsing@2.4.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ux4mwzh ^py-six@1.16.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] tbbefeg ^py-pluggy@0.13.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] zbwtznm ^py-setuptools-scm@4.1.2%nvhpc@21.2+toml arch=linux-rhel7-x86_64 | |
| [^] k3yba4y ^py-toml@0.10.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] qywkw4y ^py-py@1.8.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] rdab26o ^py-wcwidth@0.1.7%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] d32wle3 ^py-pytest-cov@2.8.1%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 2j2zh6h ^py-coverage@5.3%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] pmg6zft ^readline@8.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} --config-scope ${SPACK_CONFIG} install -j${SLURM_JOB_CPUS_PER_NODE} --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-3.6.4-2ifshpf6x23hf7ccztxnrrqdx4mxt3rj) | |
| ==> 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-gluy7kgf2wgh5bfrenva7x4mtnzhr6r4) | |
| [+] /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-qu3qasvmolllw4vbcf2maq2dz3hklz2r) | |
| ==> cuda@11.0.2 : has external module in ['cuda/11.0.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cuda-11.0.2-kb4wci (external cuda-11.0.2-4phgvnpeha2grh36f6f6w7ledwlpbcs3) | |
| ==> hpe-mpi@2.22.hmpt : has external module in ['hpe-mpi/2.22.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.22.hmpt-r52ypu (external hpe-mpi-2.22.hmpt-jop6mvp4dll4wazl3uc7ycyupteb34ia) | |
| ==> 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-prwvb2t3p3bo5eivmcrvx2eyffvcwfqy) | |
| [+] /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-id52ywihy7al2fabuv3lgb4rhoz2znfn) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/libiconv-1.16-o2ibs4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/pkgconf-1.7.3-nfl4mo | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/xz-5.2.5-qd22zn | |
| [+] /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-riwuxjcya5j363kxy7tgaac4r5qbijy7) | |
| [+] /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-ijdcmaauxxu3dblhx4qrqxsr5tmagbad) | |
| [+] /usr (external tar-1.28-tvukhb5y7rnjiw2clctp4ds3uyk4stlp) | |
| ==> 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-mddtpd5kgds34dklkfm2prewsfy6becf) | |
| ==> 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-v5gxu5slpix24wzbfiyzo52rwso5gsaa) | |
| [+] /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-pmg6zftwkbtasfhlfscbmkdurshjk773) | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/coreneuron-develop-ekzdtg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/libxml2-2.9.10-hbvd5d | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-six-1.16.0-ux4mwz | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-setuptools-50.3.2-rsay7h | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/gettext-0.21-5lqiec | |
| [+] /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-eg6a4h | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-wcwidth-0.1.7-rdab26 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-mpi4py-3.0.3-i4mwhd | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-more-itertools-8.7.0-hgzmzz | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-attrs-20.3.0-373m5v | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-coverage-5.3-2j2zh6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pyparsing-2.4.2-444mrr | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-toml-0.10.0-k3yba4 | |
| [+] /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-ottdmb | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-packaging-19.2-2p3nip | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-setuptools-scm-4.1.2-zbwtzn | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pluggy-0.13.0-tbbefe | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-py-1.8.0-qywkw4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pytest-5.3.4-6leiaz | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pytest-cov-2.8.1-d32wle | |
| ==> Installing neuron-develop-qdta367h6ly225azfnup34o2tpbkhbcb | |
| ==> No binary for neuron-develop-qdta367h6ly225azfnup34o2tpbkhbcb found: installing from source | |
| ==> Warning: Missing a source id for neuron@develop | |
| ==> neuron: Executing phase: 'cmake' | |
| ==> neuron: Executing phase: 'build' | |
| ==> neuron: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/neuron-develop-qdta36 | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then ccache -s; fi[0;m | |
| Summary: | |
| Hits: 508 / 648 (78.40 %) | |
| Direct: 4 / 657 (0.61 %) | |
| Preprocessed: 504 / 647 (77.90 %) | |
| Misses: 140 | |
| Direct: 653 | |
| Preprocessed: 143 | |
| Uncacheable: 120 | |
| Primary storage: | |
| Hits: 512 / 1308 (39.14 %) | |
| Misses: 796 | |
| Cache size (GB): 0.02 / 5.00 (0.34 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ 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=${SPACK_PACKAGE_DEPENDENCIES}^/${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/2.22.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:1632928686:step_script [0Ksection_start:1632928686:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m | |
| [0;m[32;1mCreating cache neuron-nvhpc-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=181591 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ccache/: found 33799 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/neuron-nvhpc-5[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1632928713:archive_cache [0Ksection_start:1632928713: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=185564 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64146 responseStatus[0;m=201 Created token[0;m=4wmTqz2U | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=185598 revision[0;m=7a6612da version[0;m=13.12.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64146 responseStatus[0;m=201 Created token[0;m=4wmTqz2U | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=185633 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64146 responseStatus[0;m=201 Created token[0;m=4wmTqz2U | |
| section_end:1632928714:upload_artifacts_on_success [0Ksection_start:1632928714:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632928715:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632927904:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632927904:resolve_secrets [0Ksection_start:1632927904: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor099887724, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64144 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64144_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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2746886 | |
| job state: R | |
| section_end:1632927961:prepare_executor [0Ksection_start:1632927961:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r4i3n10 via bbpv1.epfl.ch... | |
| section_end:1632927963:prepare_script [0Ksection_start:1632927963: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:1632927964:get_sources [0Ksection_start:1632927964:restore_cache [0K[0K[36;1mRestoring cache[0;m | |
| [0;m[32;1mChecking cache for neuron-intel-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=151832 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading cache.zip from https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/neuron-intel-5[0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1632928005:restore_cache [0Ksection_start:1632928005:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:coreneuron:intel (64136)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=153960 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64136 responseStatus[0;m=200 OK token[0;m=2apcC84C | |
| section_end:1632928006:download_artifacts [0Ksection_start:1632928006: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/P18104/64144/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64144/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64144/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/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/P18104/64144/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64144/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for neuron is branch="olupton/channel-benchmark" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/neuron/package.py b/var/spack/repos/builtin/packages/neuron/package.py | |
| index 7c6cf75..80a2ff8 100644 | |
| --- a/var/spack/repos/builtin/packages/neuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/neuron/package.py | |
| @@ -31,7 +31,7 @@ class Neuron(CMakePackage): | |
| patch("apply_79a4d2af_load_balance_fix.patch", when="@7.8.0b") | |
| patch("fix_brew_py_18e97a2d.patch", when="@7.8.0c") | |
| - version("develop", branch="master") | |
| + version("develop", branch="olupton/channel-benchmark") | |
| version("8.0.0", tag="8.0.0", preferred=True) | |
| version("8.0b", commit="eb8d038") | |
| version("8.0a", tag="8.0a") | |
| [32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron@develop%intel+coreneuron+debug+tests~legacy-unit ^/slnpueymehi7yjdqxbf2l4uajdb5navc | |
| [32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be 5kdcka37x3gxke2xyyl4ihllzpls2crx | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache -z[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache -s[0;m | |
| Summary: | |
| 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): 0.01 / 5.00 (0.17 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git gcc[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: '5kdcka37x3gxke2xyyl4ihllzpls2crx' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron@develop%intel+coreneuron+debug~legacy-unit+tests | |
| [+] ^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@2.22.hmpt%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^libsonata-report@1.0.0.20210610%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 | |
| -------------------------------- | |
| - 5kdcka3 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 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 | |
| [+] slnpuey ^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 | |
| [^] qagbv7u ^hpe-mpi@2.22.hmpt%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] x5el37s ^libsonata-report@1.0.0.20210610%intel@19.1.2.254~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] 2yojmmk ^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 | |
| [^] zas5d2a ^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 | |
| [^] yg3vxts ^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_JOB_CPUS_PER_NODE} --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@2.22.hmpt : has external module in ['hpe-mpi/2.22.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.22.hmpt-r52ypu (external hpe-mpi-2.22.hmpt-qagbv7uwlmxlmpab4m3ullbu7fxvkkpa) | |
| [+] /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-zas5d2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/hdf5-1.10.7-2yojmm | |
| [+] /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-1.0.0.20210610-x5el37 | |
| [+] /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/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-mpi4py-3.0.3-yg3vxt | |
| [+] /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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-wcwidth-0.1.7-za7jmv | |
| ==> 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://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/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/P18104/64132/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-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 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-slnpue | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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 | |
| [+] /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/P18104/64132/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/P18104/64132/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/P18104/64132/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://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-cov-2.8.1-zniig3 | |
| ==> Installing neuron-develop-5kdcka37x3gxke2xyyl4ihllzpls2crx | |
| ==> No binary for neuron-develop-5kdcka37x3gxke2xyyl4ihllzpls2crx 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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/neuron-develop-5kdcka | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then ccache -s; fi[0;m | |
| Summary: | |
| Hits: 436 / 653 (66.77 %) | |
| Direct: 7 / 662 (1.06 %) | |
| Preprocessed: 429 / 649 (66.10 %) | |
| Misses: 217 | |
| Direct: 655 | |
| Preprocessed: 220 | |
| Uncacheable: 125 | |
| Primary storage: | |
| Hits: 443 / 1318 (33.61 %) | |
| Misses: 875 | |
| Cache size (GB): 0.01 / 5.00 (0.17 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ 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=${SPACK_PACKAGE_DEPENDENCIES}^/${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/2.22.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:1632928738:step_script [0Ksection_start:1632928738:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m | |
| [0;m[32;1mCreating cache neuron-intel-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=186748 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ccache/: found 33347 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/neuron-intel-5[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1632928763:archive_cache [0Ksection_start:1632928763: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=186831 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64144 responseStatus[0;m=201 Created token[0;m=KBxKSSrg | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=186853 revision[0;m=7a6612da version[0;m=13.12.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64144 responseStatus[0;m=201 Created token[0;m=KBxKSSrg | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=186875 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64144 responseStatus[0;m=201 Created token[0;m=KBxKSSrg | |
| section_end:1632928764:upload_artifacts_on_success [0Ksection_start:1632928764:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632928765:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632929033:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632929033:resolve_secrets [0Ksection_start:1632929033: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor541423796, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64145 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64145_PROD_P112_CP6_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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2747072 | |
| job state: PD | |
| job state: R | |
| section_end:1632929074:prepare_executor [0Ksection_start:1632929074:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r5i2n31 via bbpv1.epfl.ch... | |
| section_end:1632929076:prepare_script [0Ksection_start:1632929076: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:1632929076:get_sources [0Ksection_start:1632929076:restore_cache [0K[0K[36;1mRestoring cache[0;m | |
| [0;m[32;1mChecking cache for neuron-nvhpc-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=209794 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading cache.zip from https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/neuron-nvhpc-5[0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1632929126:restore_cache [0Ksection_start:1632929126:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:coreneuron+nmodl:gpu (64137)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=211931 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64137 responseStatus[0;m=200 OK token[0;m=z5McydUR | |
| section_end:1632929126:download_artifacts [0Ksection_start:1632929126: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/P18104/64145/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64145/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64145/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/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/P18104/64145/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64145/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for neuron is branch="olupton/channel-benchmark" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/neuron/package.py b/var/spack/repos/builtin/packages/neuron/package.py | |
| index 7c6cf75..80a2ff8 100644 | |
| --- a/var/spack/repos/builtin/packages/neuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/neuron/package.py | |
| @@ -31,7 +31,7 @@ class Neuron(CMakePackage): | |
| patch("apply_79a4d2af_load_balance_fix.patch", when="@7.8.0b") | |
| patch("fix_brew_py_18e97a2d.patch", when="@7.8.0c") | |
| - version("develop", branch="master") | |
| + version("develop", branch="olupton/channel-benchmark") | |
| version("8.0.0", tag="8.0.0", preferred=True) | |
| version("8.0b", commit="eb8d038") | |
| version("8.0a", tag="8.0a") | |
| [32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron@develop%nvhpc+coreneuron+debug+tests~legacy-unit ^bison%gcc^flex%gcc^py-jinja2%gcc^py-sympy%gcc^py-pyyaml%gcc^/awi7vrm4eaiuzdafhedebwthgzxznx4j^/aoe2ga6salt5qv6vqlldt23jmmxeb6d5^py-cython%gcc^py-numpy%gcc | |
| [32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be o6xo3erzdudo5r5hse7yyvqm2vvvwzqt | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache -z[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache -s[0;m | |
| Summary: | |
| 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): 0.02 / 5.00 (0.34 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git gcc[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: 'o6xo3erzdudo5r5hse7yyvqm2vvvwzqt' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron@develop%nvhpc+coreneuron+debug~legacy-unit+tests | |
| - ^bison%gcc | |
| [+] ^coreneuron@develop%nvhpc@21.2~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@21.2+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@11.0.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^hpe-mpi@2.22.hmpt%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [+] ^nmodl@develop%nvhpc@21.2~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@21.2+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@21.2 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@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-attrs@20.3.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-more-itertools@8.7.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-packaging@19.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-pyparsing@2.4.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-six@1.16.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-pluggy@0.13.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-py@1.8.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-wcwidth@0.1.7%nvhpc@21.2 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 | |
| - ^flex%gcc | |
| [+] ^nmodl@develop%nvhpc@21.2~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@21.2+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@21.2 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@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-attrs@20.3.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-more-itertools@8.7.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-packaging@19.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-pyparsing@2.4.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-six@1.16.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-pluggy@0.13.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-py@1.8.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ^py-wcwidth@0.1.7%nvhpc@21.2 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-jinja2%gcc | |
| - ^py-numpy%gcc | |
| - ^py-pyyaml%gcc | |
| - ^py-sympy%gcc | |
| Concretized | |
| -------------------------------- | |
| - o6xo3er neuron@develop%nvhpc@21.2+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 patches=708cb04826b394a858069d93e8c08e1e81e914c23e1ef3da0486e8233834ff6c arch=linux-rhel7-x86_64 | |
| - 2ifshpf ^bison@3.6.4%nvhpc@21.2 patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| - gluy7kg ^cmake@3.15.7%nvhpc@21.2~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [+] aoe2ga6 ^coreneuron@develop%nvhpc@21.2~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 | |
| [^] qu3qasv ^boost@1.73.0%nvhpc@21.2+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 | |
| [^] 4phgvnp ^cuda@11.0.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] jop6mvp ^hpe-mpi@2.22.hmpt%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [+] awi7vrm ^nmodl@develop%nvhpc@21.2~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] afnqqnp ^py-jinja2@2.10.3%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] xpep3yw ^py-babel@2.7.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] ujf2qes ^py-pytz@2020.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] v5gxu5s ^python@3.8.3%nvhpc@21.2+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 | |
| [^] rsay7hd ^py-setuptools@50.3.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [+] 5pew2nu ^py-markupsafe@1.1.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] 6leiazm ^py-pytest@5.3.4%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 373m5vr ^py-attrs@20.3.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] hgzmzzz ^py-more-itertools@8.7.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 2p3niph ^py-packaging@19.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 444mrrp ^py-pyparsing@2.4.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ux4mwzh ^py-six@1.16.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] tbbefeg ^py-pluggy@0.13.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] qywkw4y ^py-py@1.8.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] rdab26o ^py-wcwidth@0.1.7%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [+] dszppxf ^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 | |
| [+] lhwntcl ^py-sympy@1.4%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [+] l3syz4z ^py-mpmath@1.1.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| - prwvb2t ^flex@2.6.4%nvhpc@21.2+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] 5lqiecm ^gettext@0.21%nvhpc@21.2+bzip2+curses+git~libunistring+libxml2+tar+xz patches=6e530daaae14725d578d6cafbf7d523accc9ed29fd817bd421cf98a5f51e9e1b,bbe9f0539aa504966ac104224d25a9260faa1015ed3adda936467be9c7de4eae,fb27a3fb5e414bdc50ffebbbe2da986473df70a493caa4396226f51a67c55424 arch=linux-rhel7-x86_64 | |
| [^] id52ywi ^bzip2@1.0.8%nvhpc@21.2+shared arch=linux-rhel7-x86_64 | |
| [^] o2ibs4c ^libiconv@1.16%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] hbvd5d6 ^libxml2@2.9.10%nvhpc@21.2~python patches=05ff238cf435825ef835c7ae39376b52dc83d8caf19e962f0766c841386a305a,10a88ad47f9797cf7cf2d7d07241f665a3b6d1f31fa026728c8c2ae93e1664e9 arch=linux-rhel7-x86_64 | |
| [^] nfl4mod ^pkgconf@1.7.3%nvhpc@21.2 patches=6e94c68d45d4cb8148c8c53699921d10b13784f758f0563ce64c838e0ca48ceb arch=linux-rhel7-x86_64 | |
| [^] qd22znx ^xz@5.2.5%nvhpc@21.2~pic arch=linux-rhel7-x86_64 | |
| [^] riwuxjc ^zlib@1.2.11%nvhpc@21.2+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] ijdcmaa ^ncurses@6.2%nvhpc@21.2~symlinks+termlib arch=linux-rhel7-x86_64 | |
| [^] tvukhb5 ^tar@1.28%nvhpc@21.2 patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,4e8cdf69294c376c45c39d059f11769c5c996c2d84cdfb56eb69890e0aa4e991,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-x86_64 | |
| - mddtpd5 ^ninja@1.10.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [+] eg6a4hu ^py-cython@0.29.21%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] i4mwhdw ^py-mpi4py@3.0.3%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [+] ottdmb2 ^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 | |
| [^] d32wle3 ^py-pytest-cov@2.8.1%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 2j2zh6h ^py-coverage@5.3%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] pmg6zft ^readline@8.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} --config-scope ${SPACK_CONFIG} install -j${SLURM_JOB_CPUS_PER_NODE} --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-3.6.4-2ifshpf6x23hf7ccztxnrrqdx4mxt3rj) | |
| ==> 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-gluy7kgf2wgh5bfrenva7x4mtnzhr6r4) | |
| [+] /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-qu3qasvmolllw4vbcf2maq2dz3hklz2r) | |
| ==> cuda@11.0.2 : has external module in ['cuda/11.0.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/cuda-11.0.2-kb4wci (external cuda-11.0.2-4phgvnpeha2grh36f6f6w7ledwlpbcs3) | |
| ==> hpe-mpi@2.22.hmpt : has external module in ['hpe-mpi/2.22.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.22.hmpt-r52ypu (external hpe-mpi-2.22.hmpt-jop6mvp4dll4wazl3uc7ycyupteb34ia) | |
| ==> 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-v5gxu5slpix24wzbfiyzo52rwso5gsaa) | |
| [+] /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-prwvb2t3p3bo5eivmcrvx2eyffvcwfqy) | |
| [+] /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-id52ywihy7al2fabuv3lgb4rhoz2znfn) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/libiconv-1.16-o2ibs4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/pkgconf-1.7.3-nfl4mo | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/xz-5.2.5-qd22zn | |
| [+] /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-riwuxjcya5j363kxy7tgaac4r5qbijy7) | |
| [+] /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-ijdcmaauxxu3dblhx4qrqxsr5tmagbad) | |
| [+] /usr (external tar-1.28-tvukhb5y7rnjiw2clctp4ds3uyk4stlp) | |
| [+] /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-pmg6zftwkbtasfhlfscbmkdurshjk773) | |
| ==> 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-mddtpd5kgds34dklkfm2prewsfy6becf) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-setuptools-50.3.2-rsay7h | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pluggy-0.13.0-tbbefe | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-six-1.16.0-ux4mwz | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-more-itertools-8.7.0-hgzmzz | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pyparsing-2.4.2-444mrr | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-pytz-2020.1-ujf2qe | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-py-1.8.0-qywkw4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-markupsafe-1.1.1-5pew2n | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-mpmath-1.1.0-l3syz4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-attrs-20.3.0-373m5v | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-wcwidth-0.1.7-rdab26 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-pyyaml-5.3.1-dszppx | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/libxml2-2.9.10-hbvd5d | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-mpi4py-3.0.3-i4mwhd | |
| [+] /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-eg6a4h | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-coverage-5.3-2j2zh6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-packaging-19.2-2p3nip | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-babel-2.7.0-xpep3y | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-sympy-1.4-lhwntc | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/gettext-0.21-5lqiec | |
| [+] /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-ottdmb | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pytest-5.3.4-6leiaz | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-jinja2-2.10.3-afnqqn | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pytest-cov-2.8.1-d32wle | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/nmodl-develop-awi7vr | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/coreneuron-develop-aoe2ga | |
| ==> Installing neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt | |
| ==> No binary for neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt 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' | |
| ==> neuron: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/neuron-develop-o6xo3e | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then ccache -s; fi[0;m | |
| Summary: | |
| Hits: 508 / 646 (78.64 %) | |
| Direct: 4 / 655 (0.61 %) | |
| Preprocessed: 504 / 645 (78.14 %) | |
| Misses: 138 | |
| Direct: 651 | |
| Preprocessed: 141 | |
| Uncacheable: 120 | |
| Primary storage: | |
| Hits: 512 / 1304 (39.26 %) | |
| Misses: 792 | |
| Cache size (GB): 0.02 / 5.00 (0.34 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ 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=${SPACK_PACKAGE_DEPENDENCIES}^/${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/2.22.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:1632930280:step_script [0Ksection_start:1632930280:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m | |
| [0;m[32;1mCreating cache neuron-nvhpc-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=257383 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ccache/: found 34571 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/neuron-nvhpc-5[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1632930307:archive_cache [0Ksection_start:1632930307: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=257788 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64145 responseStatus[0;m=201 Created token[0;m=yEp164ki | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=257812 revision[0;m=7a6612da version[0;m=13.12.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64145 responseStatus[0;m=201 Created token[0;m=yEp164ki | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=257840 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64145 responseStatus[0;m=201 Created token[0;m=yEp164ki | |
| section_end:1632930308:upload_artifacts_on_success [0Ksection_start:1632930308:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632930309:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632929022:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632929022:resolve_secrets [0Ksection_start:1632929022: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor385876864, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64143 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64143_PROD_P112_CP5_C8 | |
| 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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2747073 | |
| job state: PD | |
| job state: R | |
| section_end:1632929074:prepare_executor [0Ksection_start:1632929074:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r4i3n11 via bbpv1.epfl.ch... | |
| section_end:1632929076:prepare_script [0Ksection_start:1632929076: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:1632929077:get_sources [0Ksection_start:1632929077:restore_cache [0K[0K[36;1mRestoring cache[0;m | |
| [0;m[32;1mChecking cache for neuron-intel-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=30220 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading cache.zip from https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/neuron-intel-5[0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1632929126:restore_cache [0Ksection_start:1632929126:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:coreneuron+nmodl:intel (64135)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=32642 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64135 responseStatus[0;m=200 OK token[0;m=WcpCqrnt | |
| section_end:1632929127:download_artifacts [0Ksection_start:1632929127: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/P18104/64143/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64143/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64143/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/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/P18104/64143/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64143/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for neuron is branch="olupton/channel-benchmark" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/neuron/package.py b/var/spack/repos/builtin/packages/neuron/package.py | |
| index 7c6cf75..80a2ff8 100644 | |
| --- a/var/spack/repos/builtin/packages/neuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/neuron/package.py | |
| @@ -31,7 +31,7 @@ class Neuron(CMakePackage): | |
| patch("apply_79a4d2af_load_balance_fix.patch", when="@7.8.0b") | |
| patch("fix_brew_py_18e97a2d.patch", when="@7.8.0c") | |
| - version("develop", branch="master") | |
| + version("develop", branch="olupton/channel-benchmark") | |
| version("8.0.0", tag="8.0.0", preferred=True) | |
| version("8.0b", commit="eb8d038") | |
| version("8.0a", tag="8.0a") | |
| [32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron@develop%intel+coreneuron+debug+tests~legacy-unit ^/lqyttqytclxdwwickak7uvjmb6a3au3g^/pafoegig5pmhy5yporc37ixdb4prvice | |
| [32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be 33owxfayp5jnlxsuih5kg6pwz2kmmyuq | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache -z[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache -s[0;m | |
| Summary: | |
| 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): 0.01 / 5.00 (0.17 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git gcc[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: '33owxfayp5jnlxsuih5kg6pwz2kmmyuq' | |
| [32;1m$ spack --config-scope ${SPACK_CONFIG} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron@develop%intel+coreneuron+debug~legacy-unit+tests | |
| [+] ^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@2.22.hmpt%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] ^libsonata-report@1.0.0.20210610%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 | |
| [+] ^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 | |
| -------------------------------- | |
| - 33owxfa 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 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 | |
| [+] pafoegi ^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 | |
| [^] qagbv7u ^hpe-mpi@2.22.hmpt%intel@19.1.2.254 arch=linux-rhel7-x86_64 | |
| [^] x5el37s ^libsonata-report@1.0.0.20210610%intel@19.1.2.254~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] 2yojmmk ^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 | |
| [^] zas5d2a ^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 | |
| [^] yg3vxts ^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_JOB_CPUS_PER_NODE} --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@2.22.hmpt : has external module in ['hpe-mpi/2.22.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/hpe-mpi-2.22.hmpt-r52ypu (external hpe-mpi-2.22.hmpt-qagbv7uwlmxlmpab4m3ullbu7fxvkkpa) | |
| [+] /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-zas5d2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/hdf5-1.10.7-2yojmm | |
| [+] /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/P18104/64132/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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-mpmath-1.1.0-d6t5uh | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pytz-2020.1-oe2c27 | |
| ==> 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/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/P18104/64132/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-setuptools-50.3.2-xfgkmk | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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-attrs-20.3.0-kcyedy | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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-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-1.0.0.20210610-x5el37 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-sympy-1.4-runxrm | |
| [+] /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/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-coverage-5.3-2v5wfw | |
| [+] /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-yg3vxt | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-babel-2.7.0-yrbfda | |
| [+] /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/P18104/64132/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/P18104/64132/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/P18104/64132/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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/nmodl-develop-lqyttq | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-pafoeg | |
| ==> Installing neuron-develop-33owxfayp5jnlxsuih5kg6pwz2kmmyuq | |
| ==> No binary for neuron-develop-33owxfayp5jnlxsuih5kg6pwz2kmmyuq 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' | |
| ==> neuron: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/neuron-develop-33owxf | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then ccache -s; fi[0;m | |
| Summary: | |
| Hits: 432 / 649 (66.56 %) | |
| Direct: 3 / 658 (0.46 %) | |
| Preprocessed: 429 / 649 (66.10 %) | |
| Misses: 217 | |
| Direct: 655 | |
| Preprocessed: 220 | |
| Uncacheable: 124 | |
| Primary storage: | |
| Hits: 435 / 1310 (33.21 %) | |
| Misses: 875 | |
| Cache size (GB): 0.01 / 5.00 (0.17 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ 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=${SPACK_PACKAGE_DEPENDENCIES}^/${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/2.22.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:1632929478:step_script [0Ksection_start:1632929478:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m | |
| [0;m[32;1mCreating cache neuron-intel-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=52701 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ccache/: found 34210 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/neuron-intel-5[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1632929500:archive_cache [0Ksection_start:1632929500: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=52853 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64143 responseStatus[0;m=201 Created token[0;m=szy5mziD | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=52871 revision[0;m=7a6612da version[0;m=13.12.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64143 responseStatus[0;m=201 Created token[0;m=szy5mziD | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=52893 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64143 responseStatus[0;m=201 Created token[0;m=szy5mziD | |
| section_end:1632929502:upload_artifacts_on_success [0Ksection_start:1632929502:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632929502:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632927558:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632927558:resolve_secrets [0Ksection_start:1632927558: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor258413768, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64134 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64134_PROD_P112_CP1_C1 | |
| 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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2746874 | |
| job state: R | |
| section_end:1632927574:prepare_executor [0Ksection_start:1632927574:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r5i2n31 via bbpv1.epfl.ch... | |
| section_end:1632927579:prepare_script [0Ksection_start:1632927579: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:1632927580:get_sources [0Ksection_start:1632927580:restore_cache [0K[0K[36;1mRestoring cache[0;m | |
| [0;m[32;1mChecking cache for nmodl-nvhpc-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=171717 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading cache.zip from https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/nmodl-nvhpc-5[0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1632927586:restore_cache [0Ksection_start:1632927586:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for spack_setup (64132)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=171904 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64132 responseStatus[0;m=200 OK token[0;m=98yyH3EC | |
| section_end:1632927586:download_artifacts [0Ksection_start:1632927586: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/P18104/64134/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64134/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64134/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/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/P18104/64134/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64134/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be awi7vrm4eaiuzdafhedebwthgzxznx4j | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache -z[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache -s[0;m | |
| Summary: | |
| 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): 0.04 / 5.00 (0.84 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git gcc[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: 'awi7vrm4eaiuzdafhedebwthgzxznx4j' | |
| [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 | |
| -------------------------------- | |
| - awi7vrm nmodl@develop%nvhpc@21.2~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - 2ifshpf ^bison@3.6.4%nvhpc@21.2 patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| - gluy7kg ^cmake@3.15.7%nvhpc@21.2~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| - prwvb2t ^flex@2.6.4%nvhpc@21.2+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| - mddtpd5 ^ninja@1.10.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| - afnqqnp ^py-jinja2@2.10.3%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| - xpep3yw ^py-babel@2.7.0%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| - ujf2qes ^py-pytz@2020.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] rsay7hd ^py-setuptools@50.3.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] v5gxu5s ^python@3.8.3%nvhpc@21.2+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 | |
| - 5pew2nu ^py-markupsafe@1.1.1%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| [^] 6leiazm ^py-pytest@5.3.4%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 373m5vr ^py-attrs@20.3.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] hgzmzzz ^py-more-itertools@8.7.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 2p3niph ^py-packaging@19.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] 444mrrp ^py-pyparsing@2.4.2%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] ux4mwzh ^py-six@1.16.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] tbbefeg ^py-pluggy@0.13.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] zbwtznm ^py-setuptools-scm@4.1.2%nvhpc@21.2+toml arch=linux-rhel7-x86_64 | |
| [^] k3yba4y ^py-toml@0.10.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] qywkw4y ^py-py@1.8.0%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| [^] rdab26o ^py-wcwidth@0.1.7%nvhpc@21.2 arch=linux-rhel7-x86_64 | |
| - dszppxf ^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 | |
| - lhwntcl ^py-sympy@1.4%gcc@9.3.0 arch=linux-rhel7-x86_64 | |
| - l3syz4z ^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_JOB_CPUS_PER_NODE} --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-3.6.4-2ifshpf6x23hf7ccztxnrrqdx4mxt3rj) | |
| ==> 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-gluy7kgf2wgh5bfrenva7x4mtnzhr6r4) | |
| ==> 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-prwvb2t3p3bo5eivmcrvx2eyffvcwfqy) | |
| ==> 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-mddtpd5kgds34dklkfm2prewsfy6becf) | |
| ==> 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-v5gxu5slpix24wzbfiyzo52rwso5gsaa) | |
| [+] /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 | |
| ==> Installing py-mpmath-1.1.0-l3syz4zlt7jlkpe56wtyhdvsi5e5h2nj | |
| ==> No binary for py-mpmath-1.1.0-l3syz4zlt7jlkpe56wtyhdvsi5e5h2nj found: installing from source | |
| ==> Warning: Missing a source id for nmodl@develop | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-mpmath-1.1.0-l3syz4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-setuptools-50.3.2-rsay7h | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-six-1.16.0-ux4mwz | |
| ==> Installing py-pyyaml-5.3.1-dszppxfqapggdokpec7viw45xx62rjaf | |
| ==> No binary for py-pyyaml-5.3.1-dszppxfqapggdokpec7viw45xx62rjaf found: installing from source | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-pyyaml-5.3.1-dszppx | |
| ==> Installing py-sympy-1.4-lhwntcljkmu6eptc4dzn2ibspkjvhvjw | |
| ==> No binary for py-sympy-1.4-lhwntcljkmu6eptc4dzn2ibspkjvhvjw found: installing from source | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-sympy-1.4-lhwntc | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pyparsing-2.4.2-444mrr | |
| ==> Installing py-markupsafe-1.1.1-5pew2nu7kniwhdjc57ouymcgz3koo2qo | |
| ==> No binary for py-markupsafe-1.1.1-5pew2nu7kniwhdjc57ouymcgz3koo2qo found: installing from source | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-markupsafe-1.1.1-5pew2n | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-more-itertools-8.7.0-hgzmzz | |
| ==> Installing py-pytz-2020.1-ujf2qesoetsxrgrnfr4i32d7aqx6ahnj | |
| ==> No binary for py-pytz-2020.1-ujf2qesoetsxrgrnfr4i32d7aqx6ahnj found: installing from source | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-pytz-2020.1-ujf2qe | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-wcwidth-0.1.7-rdab26 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-attrs-20.3.0-373m5v | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-toml-0.10.0-k3yba4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-packaging-19.2-2p3nip | |
| ==> Installing py-babel-2.7.0-xpep3ywshdt2sumfvwl7xwr4iyharkla | |
| ==> No binary for py-babel-2.7.0-xpep3ywshdt2sumfvwl7xwr4iyharkla found: installing from source | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-babel-2.7.0-xpep3y | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-setuptools-scm-4.1.2-zbwtzn | |
| ==> Installing py-jinja2-2.10.3-afnqqnpla6cdujgmlak32wyouz3gljv2 | |
| ==> No binary for py-jinja2-2.10.3-afnqqnpla6cdujgmlak32wyouz3gljv2 found: installing from source | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-jinja2-2.10.3-afnqqn | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pluggy-0.13.0-tbbefe | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-py-1.8.0-qywkw4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/nvhpc-21.2/py-pytest-5.3.4-6leiaz | |
| ==> Installing nmodl-develop-awi7vrm4eaiuzdafhedebwthgzxznx4j | |
| ==> No binary for nmodl-develop-awi7vrm4eaiuzdafhedebwthgzxznx4j 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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/nmodl-develop-awi7vr | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then ccache -s; fi[0;m | |
| Summary: | |
| Hits: 130 / 132 (98.48 %) | |
| Direct: 130 / 132 (98.48 %) | |
| Preprocessed: 0 / 2 (0.00 %) | |
| Misses: 2 | |
| Direct: 2 | |
| Preprocessed: 2 | |
| Uncacheable: 26 | |
| Primary storage: | |
| Hits: 260 / 264 (98.48 %) | |
| Misses: 4 | |
| Cache size (GB): 0.04 / 5.00 (0.84 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ 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=${SPACK_PACKAGE_DEPENDENCIES}^/${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/2.22.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:1632927965:step_script [0Ksection_start:1632927965:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m | |
| [0;m[32;1mCreating cache nmodl-nvhpc-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=184173 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ccache/: found 1323 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/nmodl-nvhpc-5[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1632927972:archive_cache [0Ksection_start:1632927972: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=184416 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64134 responseStatus[0;m=201 Created token[0;m=e2yXxzYi | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=184444 revision[0;m=7a6612da version[0;m=13.12.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64134 responseStatus[0;m=201 Created token[0;m=e2yXxzYi | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=184471 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64134 responseStatus[0;m=201 Created token[0;m=e2yXxzYi | |
| section_end:1632927974:upload_artifacts_on_success [0Ksection_start:1632927974:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632927974:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632927558:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632927558:resolve_secrets [0Ksection_start:1632927558: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor200724134, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64133 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64133_PROD_P112_CP0_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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2746873 | |
| job state: R | |
| section_end:1632927574:prepare_executor [0Ksection_start:1632927574:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r5i2n31 via bbpv1.epfl.ch... | |
| section_end:1632927580:prepare_script [0Ksection_start:1632927580: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:1632927580:get_sources [0Ksection_start:1632927580:restore_cache [0K[0K[36;1mRestoring cache[0;m | |
| [0;m[32;1mChecking cache for nmodl-intel-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=171788 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading cache.zip from https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/nmodl-intel-5[0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1632927592:restore_cache [0Ksection_start:1632927592:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for spack_setup (64132)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=173262 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64132 responseStatus[0;m=200 OK token[0;m=98yyH3EC | |
| section_end:1632927593:download_artifacts [0Ksection_start:1632927593: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/P18104/64133/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64133/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64133/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/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/P18104/64133/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64133/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/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/P18104/64132/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache -z[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache -s[0;m | |
| Summary: | |
| 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): 0.11 / 5.00 (2.26 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git gcc[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_JOB_CPUS_PER_NODE} --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://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/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/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-attrs-20.3.0-kcyedy | |
| ==> 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/P18104/64132/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-toml-0.10.0-p553ws | |
| ==> Installing py-wcwidth-0.1.7-za7jmvshfdsnmghmumjvxfinateuen3k | |
| ==> No binary for py-wcwidth-0.1.7-za7jmvshfdsnmghmumjvxfinateuen3k found: installing from source | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/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://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/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-pytz-2020.1-oe2c27 | |
| ==> Installing py-sympy-1.4-runxrmnc6ccdqey2sq7njyz4u4i2x7xw | |
| ==> No binary for py-sympy-1.4-runxrmnc6ccdqey2sq7njyz4u4i2x7xw found: installing from source | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-sympy-1.4-runxrm | |
| [+] /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-packaging-19.2-hziuwhjrhckeozwekkhwxabvm4onfilt | |
| ==> No binary for py-packaging-19.2-hziuwhjrhckeozwekkhwxabvm4onfilt found: installing from source | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-packaging-19.2-hziuwh | |
| ==> Installing py-babel-2.7.0-yrbfda2telivet3ruvwscmtafc7zoys7 | |
| ==> No binary for py-babel-2.7.0-yrbfda2telivet3ruvwscmtafc7zoys7 found: installing from source | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-babel-2.7.0-yrbfda | |
| ==> Installing py-pluggy-0.13.0-gc3zsisoxxbiopoa44i536m232c65zb4 | |
| ==> No binary for py-pluggy-0.13.0-gc3zsisoxxbiopoa44i536m232c65zb4 found: installing from source | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/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://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-py-1.8.0-557ica | |
| ==> Installing py-jinja2-2.10.3-ubiktsvw22gxnvhwzsoloqliz7czyhab | |
| ==> No binary for py-jinja2-2.10.3-ubiktsvw22gxnvhwzsoloqliz7czyhab found: installing from source | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-jinja2-2.10.3-ubikts | |
| ==> Installing py-pytest-5.3.4-jo63uk3qcowoxe2ogccodpfmsdr2r557 | |
| ==> No binary for py-pytest-5.3.4-jo63uk3qcowoxe2ogccodpfmsdr2r557 found: installing from source | |
| ==> Fetching https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/_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/P18104/64132/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/P18104/64132/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/nmodl-develop-lqyttq | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then ccache -s; fi[0;m | |
| Summary: | |
| Hits: 123 / 132 (93.18 %) | |
| Direct: 123 / 132 (93.18 %) | |
| Preprocessed: 0 / 9 (0.00 %) | |
| Misses: 9 | |
| Direct: 9 | |
| Preprocessed: 9 | |
| Uncacheable: 28 | |
| Primary storage: | |
| Hits: 246 / 264 (93.18 %) | |
| Misses: 18 | |
| Cache size (GB): 0.11 / 5.00 (2.26 %) | |
| Use the -v/--verbose option for more details. | |
| [32;1m$ 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=${SPACK_PACKAGE_DEPENDENCIES}^/${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/2.22.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:1632928127:step_script [0Ksection_start:1632928127:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m | |
| [0;m[32;1mCreating cache nmodl-intel-5...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=189831 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ccache/: found 1896 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/nmodl-intel-5[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1632928150:archive_cache [0Ksection_start:1632928150: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=190317 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64133 responseStatus[0;m=201 Created token[0;m=msqpyj_B | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=190348 revision[0;m=7a6612da version[0;m=13.12.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64133 responseStatus[0;m=201 Created token[0;m=msqpyj_B | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=190382 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64133 responseStatus[0;m=201 Created token[0;m=msqpyj_B | |
| section_end:1632928152:upload_artifacts_on_success [0Ksection_start:1632928152:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632928152:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| ! |
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Learn more about bidirectional Unicode characters
| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632927534:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632927534:resolve_secrets [0Ksection_start:1632927534: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor351044997, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64132 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64132_PROD_P112_CP0_C0 | |
| 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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2746871 | |
| job state: R | |
| section_end:1632927535:prepare_executor [0Ksection_start:1632927535:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r5i2n31 via bbpv1.epfl.ch... | |
| section_end:1632927537:prepare_script [0Ksection_start:1632927537: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:1632927538:get_sources [0Ksection_start:1632927538: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 | |
| SPACK_PACKAGE_REF_neuron=branch="olupton/channel-benchmark" | |
| SPACK_PACKAGE_REF_spack=branch="olupton/can-I-haz-channel-benchmark" | |
| [32;1m$ fi[0;m | |
| [32;1m$ echo Using ${PWD} as a working directory common to the whole pipeline...[0;m | |
| Using /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64132 as a working directory common to the whole pipeline... | |
| [32;1m$ 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 ${SPACK_BRANCH} of Spack...[0;m | |
| Checking out the olupton/can-I-haz-channel-benchmark of Spack... | |
| [32;1m$ git clone --depth 1 --single-branch --branch ${SPACK_BRANCH} ${SPACK_URL} spack[0;m | |
| Cloning into 'spack'... | |
| Checking out files: 21% (1636/7673) Checking out files: 22% (1689/7673) Checking out files: 23% (1765/7673) Checking out files: 24% (1842/7673) Checking out files: 25% (1919/7673) Checking out files: 26% (1995/7673) Checking out files: 27% (2072/7673) Checking out files: 28% (2149/7673) Checking out files: 28% (2224/7673) Checking out files: 29% (2226/7673) Checking out files: 30% (2302/7673) Checking out files: 31% (2379/7673) Checking out files: 32% (2456/7673) Checking out files: 33% (2533/7673) Checking out files: 34% (2609/7673) Checking out files: 35% (2686/7673) Checking out files: 35% (2700/7673) Checking out files: 36% (2763/7673) Checking out files: 37% (2840/7673) Checking out files: 38% (2916/7673) Checking out files: 39% (2993/7673) Checking out files: 40% (3070/7673) Checking out files: 41% (3146/7673) Checking out files: 42% (3223/7673) Checking out files: 43% (3300/7673) Checking out files: 44% (3377/7673) Checking out files: 45% (3453/7673) Checking out files: 46% (3530/7673) Checking out files: 47% (3607/7673) Checking out files: 48% (3684/7673) Checking out files: 48% (3703/7673) Checking out files: 49% (3760/7673) Checking out files: 50% (3837/7673) Checking out files: 51% (3914/7673) Checking out files: 52% (3990/7673) Checking out files: 53% (4067/7673) Checking out files: 54% (4144/7673) Checking out files: 55% (4221/7673) Checking out files: 56% (4297/7673) Checking out files: 57% (4374/7673) Checking out files: 58% (4451/7673) Checking out files: 59% (4528/7673) Checking out files: 60% (4604/7673) Checking out files: 61% (4681/7673) Checking out files: 62% (4758/7673) Checking out files: 63% (4834/7673) Checking out files: 64% (4911/7673) Checking out files: 65% (4988/7673) Checking out files: 66% (5065/7673) Checking out files: 67% (5141/7673) Checking out files: 68% (5218/7673) Checking out files: 69% (5295/7673) Checking out files: 70% (5372/7673) Checking out files: 71% (5448/7673) Checking out files: 72% (5525/7673) Checking out files: 73% (5602/7673) Checking out files: 74% (5679/7673) Checking out files: 74% (5692/7673) Checking out files: 75% (5755/7673) Checking out files: 76% (5832/7673) Checking out files: 77% (5909/7673) Checking out files: 78% (5985/7673) Checking out files: 79% (6062/7673) Checking out files: 80% (6139/7673) Checking out files: 81% (6216/7673) Checking out files: 82% (6292/7673) Checking out files: 83% (6369/7673) Checking out files: 84% (6446/7673) Checking out files: 85% (6523/7673) Checking out files: 86% (6599/7673) Checking out files: 87% (6676/7673) Checking out files: 88% (6753/7673) Checking out files: 89% (6829/7673) Checking out files: 90% (6906/7673) Checking out files: 91% (6983/7673) Checking out files: 91% (7030/7673) Checking out files: 92% (7060/7673) Checking out files: 93% (7136/7673) Checking out files: 94% (7213/7673) Checking out files: 95% (7290/7673) Checking out files: 96% (7367/7673) Checking out files: 97% (7443/7673) Checking out files: 98% (7520/7673) Checking out files: 99% (7597/7673) Checking out files: 100% (7673/7673) Checking out files: 100% (7673/7673), done. | |
| [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:1632927551:step_script [0Ksection_start:1632927551: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=170828 revision[0;m=7a6612da version[0;m=13.12.0 | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=64132 responseStatus[0;m=201 Created token[0;m=98yyH3EC | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=170848 revision[0;m=7a6612da version[0;m=13.12.0 | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=64132 responseStatus[0;m=201 Created token[0;m=98yyH3EC | |
| section_end:1632927553:upload_artifacts_on_success [0Ksection_start:1632927553:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632927553:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
This file contains hidden or 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.
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632928041:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632928041:resolve_secrets [0Ksection_start:1632928041: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor140576499, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64142 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64142_PROD_P112_CP2_C2 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| chown: changing ownership of â/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104/64133/spack-build/spack-stage-nmodl-develop-lqyttqytclxdwwickak7uvjmb6a3au3g/spack-build-lqyttqy/test/unit/CMakeFiles/testvisitor.dir/visitor/local_to_assigned.cpp.o.dâ: No such file or directory | |
| [31;1mERROR: Preparation failed: exit status 2 | |
| [0;m[32;1mWill be retried in 3s ... | |
| [0;m[0KUsing Custom executor with driver BB5 PROD runner v0.0.3... | |
| [0;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor633194455, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64142 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64142_PROD_P112_CP2_C2 | |
| 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 | |
| sbatch: INFO: Job eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2746900 | |
| job state: PD | |
| job state: R | |
| section_end:1632928127:prepare_executor [0Ksection_start:1632928127:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on ldir01u01.bbp.epfl.ch via bbpv1.epfl.ch... | |
| section_end:1632928129:prepare_script [0Ksection_start:1632928129: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:1632928129:get_sources [0Ksection_start:1632928129:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:coreneuron:gpu (64138)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=31790 revision[0;m=54944146 version[0;m=13.10.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64138 responseStatus[0;m=200 OK token[0;m=RfVDGiD5 | |
| section_end:1632928130:download_artifacts [0Ksection_start:1632928130: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_INSTALLED_HASH} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r5i2n31 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20210929-1509 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64138/spack-build/spack-stage-coreneuron-develop-ekzdtgq26p6y5mzmpphbjqbifw32enfk/spack-build-ekzdtgq | |
| 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 1.53 sec | |
| Start 7: ring_binqueue_TEST | |
| 2/18 Test #3: alignment_test ......................... Passed 2.13 sec | |
| 3/18 Test #4: queuing_test ........................... Passed 3.63 sec | |
| Start 8: ring_multisend_TEST | |
| 4/18 Test #5: lfp_test ............................... Passed 3.63 sec | |
| 5/18 Test #2: interleave_info_constructor_test ....... Passed 3.83 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 6/18 Test #6: ring_TEST .............................. Passed 10.34 sec | |
| Start 10: ring_permute1_TEST | |
| 7/18 Test #7: ring_binqueue_TEST ..................... Passed 9.13 sec | |
| Start 11: ring_permute2_TEST | |
| 8/18 Test #8: ring_multisend_TEST .................... Passed 8.23 sec | |
| 9/18 Test #9: ring_spike_buffer_TEST ................. Passed 8.08 sec | |
| Start 12: ring_gap_TEST | |
| Start 13: ring_gap_binqueue_TEST | |
| 10/18 Test #10: ring_permute1_TEST ..................... Passed 9.79 sec | |
| 11/18 Test #11: ring_permute2_TEST ..................... Passed 9.49 sec | |
| Start 14: ring_gap_multisend_TEST | |
| Start 15: ring_gap_permute1_TEST | |
| 12/18 Test #13: ring_gap_binqueue_TEST ................. Passed 14.01 sec | |
| 13/18 Test #12: ring_gap_TEST .......................... Passed 14.01 sec | |
| Start 16: ring_gap_permute2_TEST | |
| Start 17: ring_permute2_cudaInterface_TEST | |
| 14/18 Test #14: ring_gap_multisend_TEST ................ Passed 10.20 sec | |
| Start 18: ring_gap_permute2_cudaInterface_TEST | |
| 15/18 Test #15: ring_gap_permute1_TEST ................. Passed 10.20 sec | |
| 16/18 Test #17: ring_permute2_cudaInterface_TEST ....... Passed 9.03 sec | |
| 17/18 Test #16: ring_gap_permute2_TEST ................. Passed 9.03 sec | |
| 18/18 Test #18: ring_gap_permute2_cudaInterface_TEST ... Passed 6.64 sec | |
| 100% tests passed, 0 tests failed out of 18 | |
| Total Test time (real) = 37.52 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:1632928185:step_script [0Ksection_start:1632928185: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=33272 revision[0;m=54944146 version[0;m=13.10.0 | |
| 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=64142 responseStatus[0;m=201 Created token[0;m=v7fd7eF8 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=33297 revision[0;m=54944146 version[0;m=13.10.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64142 responseStatus[0;m=201 Created token[0;m=v7fd7eF8 | |
| section_end:1632928186:upload_artifacts_on_success [0Ksection_start:1632928186:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632928187:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
This file contains hidden or 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 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632927904:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632927904:resolve_secrets [0Ksection_start:1632927904: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor605972394, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64140 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64140_PROD_P112_CP2_C2 | |
| 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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2746885 | |
| job state: R | |
| section_end:1632927961:prepare_executor [0Ksection_start:1632927961:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r4i3n10 via bbpv1.epfl.ch... | |
| section_end:1632927963:prepare_script [0Ksection_start:1632927963: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:1632927964:get_sources [0Ksection_start:1632927964:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:coreneuron:intel (64136)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=151896 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64136 responseStatus[0;m=200 OK token[0;m=2apcC84C | |
| section_end:1632927965:download_artifacts [0Ksection_start:1632927965: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_INSTALLED_HASH} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r5i2n31 | |
| Build name: Linux-icpc | |
| Create new tag: 20210929-1506 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64136/spack-build/spack-stage-coreneuron-develop-slnpueymehi7yjdqxbf2l4uajdb5navc/spack-build-slnpuey | |
| 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 | |
| 1/17 Test #6: ring_TEST .......................... Passed 1.60 sec | |
| 2/17 Test #1: cmd_interface_test ................. Passed 1.61 sec | |
| Start 7: ring_binqueue_TEST | |
| Start 8: ring_multisend_TEST | |
| 3/17 Test #3: alignment_test ..................... Passed 2.03 sec | |
| 4/17 Test #4: queuing_test ....................... Passed 2.13 sec | |
| 5/17 Test #5: lfp_test ........................... Passed 2.12 sec | |
| 6/17 Test #2: interleave_info_constructor_test ... Passed 2.23 sec | |
| Start 9: ring_spike_buffer_TEST | |
| Start 10: ring_permute1_TEST | |
| 7/17 Test #7: ring_binqueue_TEST ................. Passed 1.81 sec | |
| Start 11: ring_permute2_TEST | |
| 8/17 Test #8: ring_multisend_TEST ................ Passed 2.32 sec | |
| Start 12: ring_gap_TEST | |
| 9/17 Test #9: ring_spike_buffer_TEST ............. Passed 2.72 sec | |
| 10/17 Test #10: ring_permute1_TEST ................. Passed 2.72 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| Start 14: ring_gap_multisend_TEST | |
| 11/17 Test #12: ring_gap_TEST ...................... Passed 1.31 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 12/17 Test #11: ring_permute2_TEST ................. Passed 2.03 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 13/17 Test #13: ring_gap_binqueue_TEST ............. Passed 3.11 sec | |
| Start 17: reporting_1 | |
| 14/17 Test #16: ring_gap_permute2_TEST ............. Passed 2.91 sec | |
| 15/17 Test #15: ring_gap_permute1_TEST ............. Passed 3.21 sec | |
| 16/17 Test #14: ring_gap_multisend_TEST ............ Passed 3.51 sec | |
| 17/17 Test #17: reporting_1 ........................ Passed 0.46 sec | |
| 100% tests passed, 0 tests failed out of 17 | |
| Total Test time (real) = 8.95 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:1632927994:step_script [0Ksection_start:1632927994: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=153661 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64140 responseStatus[0;m=201 Created token[0;m=RZbFFSjM | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=153686 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64140 responseStatus[0;m=201 Created token[0;m=RZbFFSjM | |
| section_end:1632927996:upload_artifacts_on_success [0Ksection_start:1632927996:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632927996:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
This file contains hidden or 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 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632928986:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632928986:resolve_secrets [0Ksection_start:1632928986: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor827339805, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64141 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64141_PROD_P112_CP1_C9 | |
| 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 | |
| sbatch: INFO: Job eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2747070 | |
| job state: R | |
| section_end:1632929056:prepare_executor [0Ksection_start:1632929056:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on ldir01u01.bbp.epfl.ch via bbpv1.epfl.ch... | |
| section_end:1632929058:prepare_script [0Ksection_start:1632929058: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:1632929059:get_sources [0Ksection_start:1632929059:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:coreneuron+nmodl:gpu (64137)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=39618 revision[0;m=54944146 version[0;m=13.10.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64137 responseStatus[0;m=200 OK token[0;m=z5McydUR | |
| section_end:1632929060:download_artifacts [0Ksection_start:1632929060: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_INSTALLED_HASH} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r5i2n31 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20210929-1524 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64137/spack-build/spack-stage-coreneuron-develop-aoe2ga6salt5qv6vqlldt23jmmxeb6d5/spack-build-aoe2ga6 | |
| 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 #2: interleave_info_constructor_test ....... Passed 1.31 sec | |
| 2/18 Test #3: alignment_test ......................... Passed 1.31 sec | |
| Start 7: ring_binqueue_TEST | |
| 3/18 Test #5: lfp_test ............................... Passed 1.91 sec | |
| 4/18 Test #4: queuing_test ........................... Passed 1.92 sec | |
| Start 8: ring_multisend_TEST | |
| 5/18 Test #1: cmd_interface_test ..................... Passed 1.92 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 6/18 Test #7: ring_binqueue_TEST ..................... Passed 17.60 sec | |
| 7/18 Test #9: ring_spike_buffer_TEST ................. Passed 16.99 sec | |
| 8/18 Test #8: ring_multisend_TEST .................... Passed 17.29 sec | |
| Start 10: ring_permute1_TEST | |
| Start 11: ring_permute2_TEST | |
| Start 12: ring_gap_TEST | |
| 9/18 Test #6: ring_TEST .............................. Passed 19.22 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 10/18 Test #10: ring_permute1_TEST ..................... Passed 19.19 sec | |
| 11/18 Test #11: ring_permute2_TEST ..................... Passed 19.19 sec | |
| Start 14: ring_gap_multisend_TEST | |
| Start 15: ring_gap_permute1_TEST | |
| 12/18 Test #12: ring_gap_TEST .......................... Passed 19.69 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 13/18 Test #13: ring_gap_binqueue_TEST ................. Passed 19.69 sec | |
| Start 17: ring_permute2_cudaInterface_TEST | |
| 14/18 Test #17: ring_permute2_cudaInterface_TEST ....... Passed 21.55 sec | |
| Start 18: ring_gap_permute2_cudaInterface_TEST | |
| 15/18 Test #14: ring_gap_multisend_TEST ................ Passed 27.52 sec | |
| 16/18 Test #15: ring_gap_permute1_TEST ................. Passed 28.12 sec | |
| 17/18 Test #16: ring_gap_permute2_TEST ................. Passed 27.92 sec | |
| 18/18 Test #18: ring_gap_permute2_cudaInterface_TEST ... Passed 9.17 sec | |
| 100% tests passed, 0 tests failed out of 18 | |
| Total Test time (real) = 69.97 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:1632929148:step_script [0Ksection_start:1632929148: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=42735 revision[0;m=54944146 version[0;m=13.10.0 | |
| 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=64141 responseStatus[0;m=201 Created token[0;m=VyAzppsr | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=42788 revision[0;m=54944146 version[0;m=13.10.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64141 responseStatus[0;m=201 Created token[0;m=VyAzppsr | |
| section_end:1632929149:upload_artifacts_on_success [0Ksection_start:1632929149:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632929150:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632928981:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632928981:resolve_secrets [0Ksection_start:1632928981: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor406314457, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64139 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64139_PROD_P112_CP0_C1 | |
| 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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2747071 | |
| job state: R | |
| section_end:1632929056:prepare_executor [0Ksection_start:1632929056:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r5i2n31 via bbpv1.epfl.ch... | |
| section_end:1632929058:prepare_script [0Ksection_start:1632929058: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:1632929059:get_sources [0Ksection_start:1632929059:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:coreneuron+nmodl:intel (64135)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=209119 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64135 responseStatus[0;m=200 OK token[0;m=WcpCqrnt | |
| section_end:1632929060:download_artifacts [0Ksection_start:1632929060: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_INSTALLED_HASH} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r5i2n31 | |
| Build name: Linux-icpc | |
| Create new tag: 20210929-1525 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64135/spack-build/spack-stage-coreneuron-develop-pafoegig5pmhy5yporc37ixdb4prvice/spack-build-pafoegi | |
| 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 | |
| 1/17 Test #1: cmd_interface_test ................. Passed 2.39 sec | |
| Start 7: ring_binqueue_TEST | |
| 2/17 Test #3: alignment_test ..................... Passed 2.39 sec | |
| 3/17 Test #6: ring_TEST .......................... Passed 2.58 sec | |
| Start 8: ring_multisend_TEST | |
| 4/17 Test #4: queuing_test ....................... Passed 2.83 sec | |
| 5/17 Test #2: interleave_info_constructor_test ... Passed 2.86 sec | |
| 6/17 Test #5: lfp_test ........................... Passed 2.85 sec | |
| Start 9: ring_spike_buffer_TEST | |
| Start 10: ring_permute1_TEST | |
| 7/17 Test #7: ring_binqueue_TEST ................. Passed 1.78 sec | |
| Start 11: ring_permute2_TEST | |
| 8/17 Test #8: ring_multisend_TEST ................ Passed 1.59 sec | |
| Start 12: ring_gap_TEST | |
| 9/17 Test #10: ring_permute1_TEST ................. Passed 2.13 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 10/17 Test #9: ring_spike_buffer_TEST ............. Passed 2.24 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 11/17 Test #11: ring_permute2_TEST ................. Passed 1.63 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 12/17 Test #12: ring_gap_TEST ...................... Passed 1.62 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 13/17 Test #13: ring_gap_binqueue_TEST ............. Passed 1.51 sec | |
| Start 17: reporting_1 | |
| 14/17 Test #14: ring_gap_multisend_TEST ............ Passed 1.42 sec | |
| 15/17 Test #15: ring_gap_permute1_TEST ............. Passed 1.31 sec | |
| 16/17 Test #16: ring_gap_permute2_TEST ............. Passed 1.31 sec | |
| 17/17 Test #17: reporting_1 ........................ Passed 1.14 sec | |
| 100% tests passed, 0 tests failed out of 17 | |
| Total Test time (real) = 7.99 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:1632929121:step_script [0Ksection_start:1632929121: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=211474 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64139 responseStatus[0;m=201 Created token[0;m=Rjdzvnbx | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=211510 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64139 responseStatus[0;m=201 Created token[0;m=Rjdzvnbx | |
| section_end:1632929123:upload_artifacts_on_success [0Ksection_start:1632929123:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632929124:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
This file contains hidden or 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.
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632928719:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632928719:resolve_secrets [0Ksection_start:1632928719: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor398615428, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64150 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64150_PROD_P112_CP2_C2 | |
| 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 | |
| sbatch: INFO: Job eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2747059 | |
| job state: R | |
| section_end:1632928812:prepare_executor [0Ksection_start:1632928812:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on ldir01u01.bbp.epfl.ch via bbpv1.epfl.ch... | |
| section_end:1632928815:prepare_script [0Ksection_start:1632928815: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:1632928815:get_sources [0Ksection_start:1632928815:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:neuron:gpu (64146)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=34927 revision[0;m=54944146 version[0;m=13.10.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64146 responseStatus[0;m=200 OK token[0;m=4wmTqz2U | |
| section_end:1632928816:download_artifacts [0Ksection_start:1632928816: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 | |
| slurmstepd: error: _is_a_lwp: open() /proc/35100/status failed: No such file or directory | |
| slurmstepd: error: _is_a_lwp: open() /proc/35102/status failed: No such file or directory | |
| slurmstepd: error: _is_a_lwp: 1 read() attempts on /proc/35105/status failed: No such process | |
| [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_INSTALLED_HASH} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r4i3n10 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20210929-1520 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64146/spack-build/spack-stage-neuron-develop-qdta367h6ly225azfnup34o2tpbkhbcb/spack-build-qdta367 | |
| Start 1: testneuron | |
| Start 2: ringtest | |
| Start 3: connect_dend | |
| Start 4: pynrn_tests::basic_tests | |
| Start 5: rxdmod_tests::rxd_tests | |
| Start 6: rxdmod_tests::rxd_mpi_tests | |
| Start 7: parallel_tests | |
| Start 8: parallel_partrans | |
| 1/136 Test #1: testneuron ......................................................... Passed 0.93 sec | |
| 2/136 Test #2: ringtest ........................................................... Passed 1.42 sec | |
| Start 9: parallel_bas | |
| Start 10: coreneuron_modtests::direct_py | |
| 3/136 Test #3: connect_dend ....................................................... Passed 1.43 sec | |
| Start 11: coreneuron_modtests::direct_hoc | |
| 4/136 Test #8: parallel_partrans .................................................. Passed 4.23 sec | |
| Start 12: coreneuron_modtests::spikes_py | |
| 5/136 Test #7: parallel_tests ..................................................... Passed 7.28 sec | |
| Start 13: coreneuron_modtests::spikes_file_mode_py | |
| 6/136 Test #11: coreneuron_modtests::direct_hoc .................................... Passed 9.69 sec | |
| Start 14: coreneuron_modtests::datareturn_py | |
| 7/136 Test #13: coreneuron_modtests::spikes_file_mode_py ........................... Passed 5.84 sec | |
| Start 15: coreneuron_modtests::test_units_py | |
| 8/136 Test #10: coreneuron_modtests::direct_py ..................................... Passed 12.52 sec | |
| Start 16: coreneuron_modtests::test_netmove_py | |
| 9/136 Test #9: parallel_bas ....................................................... Passed 14.23 sec | |
| 10/136 Test #4: pynrn_tests::basic_tests ........................................... Passed 15.85 sec | |
| Start 17: coreneuron_modtests::test_watchrange_py | |
| Start 18: coreneuron_modtests::test_natrans_py | |
| 11/136 Test #12: coreneuron_modtests::spikes_py ..................................... Passed 14.74 sec | |
| 12/136 Test #18: coreneuron_modtests::test_natrans_py ............................... Passed 7.02 sec | |
| Start 19: coreneuron_modtests::spikes_mpi_py | |
| 13/136 Test #15: coreneuron_modtests::test_units_py ................................. Passed 9.67 sec | |
| 14/136 Test #17: coreneuron_modtests::test_watchrange_py ............................ Passed 7.66 sec | |
| Start 20: coreneuron_modtests::spikes_mpi_file_mode_py | |
| 15/136 Test #14: coreneuron_modtests::datareturn_py ................................. Passed 11.59 sec | |
| Start 21: external_ringtest::neuron | |
| 16/136 Test #16: coreneuron_modtests::test_netmove_py ............................... Passed 11.18 sec | |
| 17/136 Test #21: external_ringtest::neuron .......................................... Passed 2.10 sec | |
| Start 22: external_ringtest::neuron_mpi | |
| 18/136 Test #20: coreneuron_modtests::spikes_mpi_file_mode_py ....................... Passed 4.31 sec | |
| Start 23: external_ringtest::coreneuron_cpu_mpi | |
| 19/136 Test #22: external_ringtest::neuron_mpi ...................................... Passed 7.22 sec | |
| Start 25: external_ringtest::coreneuron_cpu_mpi_offline::preparation | |
| 20/136 Test #19: coreneuron_modtests::spikes_mpi_py ................................. Passed 24.60 sec | |
| Start 26: external_ringtest::coreneuron_cpu_mpi_threads | |
| 21/136 Test #23: external_ringtest::coreneuron_cpu_mpi .............................. Passed 19.89 sec | |
| Start 27: external_ringtest::coreneuron_gpu_mpi | |
| 22/136 Test #25: external_ringtest::coreneuron_cpu_mpi_offline::preparation ......... Passed 18.18 sec | |
| Start 24: external_ringtest::coreneuron_cpu_mpi_offline | |
| 23/136 Test #26: external_ringtest::coreneuron_cpu_mpi_threads ...................... Passed 25.26 sec | |
| Start 29: external_ringtest::coreneuron_gpu_mpi_offline::preparation | |
| 24/136 Test #24: external_ringtest::coreneuron_cpu_mpi_offline ...................... Passed 23.05 sec | |
| Start 30: external_ringtest::coreneuron_gpu_mpi_threads | |
| 25/136 Test #27: external_ringtest::coreneuron_gpu_mpi .............................. Passed 30.37 sec | |
| Start 32: testcorenrn_bbcore::neuron | |
| Start 33: testcorenrn_bbcore::coreneuron_gpu_online | |
| 26/136 Test #32: testcorenrn_bbcore::neuron ......................................... Passed 2.41 sec | |
| 27/136 Test #29: external_ringtest::coreneuron_gpu_mpi_offline::preparation ......... Passed 25.86 sec | |
| Start 28: external_ringtest::coreneuron_gpu_mpi_offline | |
| Start 34: testcorenrn_bbcore::coreneuron_gpu_online_psolve_alternate | |
| 28/136 Test #33: testcorenrn_bbcore::coreneuron_gpu_online .......................... Passed 20.55 sec | |
| Start 36: testcorenrn_bbcore::coreneuron_gpu_offline::preparation | |
| 29/136 Test #36: testcorenrn_bbcore::coreneuron_gpu_offline::preparation ............ Passed 1.80 sec | |
| Start 35: testcorenrn_bbcore::coreneuron_gpu_offline | |
| 30/136 Test #30: external_ringtest::coreneuron_gpu_mpi_threads ...................... Passed 34.98 sec | |
| Start 37: testcorenrn_bbcore::coreneuron_cpu_online | |
| Start 38: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate | |
| 31/136 Test #34: testcorenrn_bbcore::coreneuron_gpu_online_psolve_alternate ......... Passed 14.44 sec | |
| Start 40: testcorenrn_bbcore::coreneuron_cpu_offline::preparation | |
| 32/136 Test #35: testcorenrn_bbcore::coreneuron_gpu_offline ......................... Passed 11.73 sec | |
| Start 42: testcorenrn_deriv::neuron | |
| 33/136 Test #37: testcorenrn_bbcore::coreneuron_cpu_online .......................... Passed 4.82 sec | |
| 34/136 Test #38: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate ......... Passed 5.02 sec | |
| Start 43: testcorenrn_deriv::coreneuron_gpu_online | |
| Start 44: testcorenrn_deriv::coreneuron_gpu_online_psolve_alternate | |
| 35/136 Test #40: testcorenrn_bbcore::coreneuron_cpu_offline::preparation ............ Passed 2.12 sec | |
| Start 39: testcorenrn_bbcore::coreneuron_cpu_offline | |
| 36/136 Test #42: testcorenrn_deriv::neuron .......................................... Passed 2.52 sec | |
| Start 46: testcorenrn_deriv::coreneuron_gpu_offline::preparation | |
| 37/136 Test #28: external_ringtest::coreneuron_gpu_mpi_offline ...................... Passed 18.47 sec | |
| Start 31: external_ringtest::compare_results | |
| Start 47: testcorenrn_deriv::coreneuron_cpu_online | |
| 38/136 Test #31: external_ringtest::compare_results ................................. Passed 0.08 sec | |
| Start 48: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate | |
| 39/136 Test #39: testcorenrn_bbcore::coreneuron_cpu_offline ......................... Passed 2.89 sec | |
| Start 41: testcorenrn_bbcore::compare_results | |
| 40/136 Test #46: testcorenrn_deriv::coreneuron_gpu_offline::preparation ............. Passed 2.09 sec | |
| 41/136 Test #41: testcorenrn_bbcore::compare_results ................................ Passed 0.10 sec | |
| Start 45: testcorenrn_deriv::coreneuron_gpu_offline | |
| Start 50: testcorenrn_deriv::coreneuron_cpu_offline::preparation | |
| 42/136 Test #50: testcorenrn_deriv::coreneuron_cpu_offline::preparation ............. Passed 2.11 sec | |
| Start 49: testcorenrn_deriv::coreneuron_cpu_offline | |
| 43/136 Test #47: testcorenrn_deriv::coreneuron_cpu_online ........................... Passed 5.32 sec | |
| 44/136 Test #43: testcorenrn_deriv::coreneuron_gpu_online ........................... Passed 9.14 sec | |
| 45/136 Test #48: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate .......... Passed 5.84 sec | |
| 46/136 Test #44: testcorenrn_deriv::coreneuron_gpu_online_psolve_alternate .......... Passed 9.24 sec | |
| Start 52: testcorenrn_gf::neuron | |
| Start 53: testcorenrn_gf::coreneuron_gpu_online | |
| 47/136 Test #49: testcorenrn_deriv::coreneuron_cpu_offline .......................... Passed 3.04 sec | |
| 48/136 Test #52: testcorenrn_gf::neuron ............................................. Passed 4.12 sec | |
| 49/136 Test #45: testcorenrn_deriv::coreneuron_gpu_offline .......................... Passed 9.26 sec | |
| Start 51: testcorenrn_deriv::compare_results | |
| Start 54: testcorenrn_gf::coreneuron_gpu_online_psolve_alternate | |
| 50/136 Test #51: testcorenrn_deriv::compare_results ................................. Passed 0.11 sec | |
| Start 56: testcorenrn_gf::coreneuron_gpu_offline::preparation | |
| 51/136 Test #56: testcorenrn_gf::coreneuron_gpu_offline::preparation ................ Passed 2.91 sec | |
| Start 55: testcorenrn_gf::coreneuron_gpu_offline | |
| 52/136 Test #55: testcorenrn_gf::coreneuron_gpu_offline ............................. Passed 25.69 sec | |
| Start 57: testcorenrn_gf::coreneuron_cpu_online | |
| 53/136 Test #53: testcorenrn_gf::coreneuron_gpu_online .............................. Passed 33.63 sec | |
| Start 58: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate | |
| 54/136 Test #54: testcorenrn_gf::coreneuron_gpu_online_psolve_alternate ............. Passed 32.82 sec | |
| Start 60: testcorenrn_gf::coreneuron_cpu_offline::preparation | |
| 55/136 Test #60: testcorenrn_gf::coreneuron_cpu_offline::preparation ................ Passed 3.51 sec | |
| Start 59: testcorenrn_gf::coreneuron_cpu_offline | |
| 56/136 Test #59: testcorenrn_gf::coreneuron_cpu_offline ............................. Passed 24.59 sec | |
| Start 62: testcorenrn_patstim::neuron | |
| 57/136 Test #57: testcorenrn_gf::coreneuron_cpu_online .............................. Passed 33.09 sec | |
| Start 64: testcorenrn_patstim::coreneuron_gpu_offline::preparation | |
| 58/136 Test #62: testcorenrn_patstim::neuron ........................................ Passed 2.93 sec | |
| Start 66: testcorenrn_patstim::coreneuron_cpu_offline::preparation | |
| 59/136 Test #64: testcorenrn_patstim::coreneuron_gpu_offline::preparation ........... Passed 3.22 sec | |
| 60/136 Test #58: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate ............. Passed 36.11 sec | |
| Start 61: testcorenrn_gf::compare_results | |
| Start 63: testcorenrn_patstim::coreneuron_gpu_offline | |
| Start 68: testcorenrn_vecplay::neuron | |
| 61/136 Test #61: testcorenrn_gf::compare_results .................................... Passed 0.19 sec | |
| 62/136 Test #66: testcorenrn_patstim::coreneuron_cpu_offline::preparation ........... Passed 3.00 sec | |
| 63/136 Test #68: testcorenrn_vecplay::neuron ........................................ Passed 2.69 sec | |
| Start 65: testcorenrn_patstim::coreneuron_cpu_offline | |
| Start 69: testcorenrn_vecplay::coreneuron_gpu_online | |
| 64/136 Test #5: rxdmod_tests::rxd_tests ............................................ Passed 218.76 sec | |
| Start 70: testcorenrn_vecplay::coreneuron_gpu_online_psolve_alternate | |
| 65/136 Test #65: testcorenrn_patstim::coreneuron_cpu_offline ........................ Passed 22.53 sec | |
| Start 72: testcorenrn_vecplay::coreneuron_gpu_offline::preparation | |
| 66/136 Test #63: testcorenrn_patstim::coreneuron_gpu_offline ........................ Passed 27.46 sec | |
| Start 67: testcorenrn_patstim::compare_results | |
| 67/136 Test #67: testcorenrn_patstim::compare_results ............................... Passed 0.10 sec | |
| 68/136 Test #72: testcorenrn_vecplay::coreneuron_gpu_offline::preparation ........... Passed 2.35 sec | |
| Start 71: testcorenrn_vecplay::coreneuron_gpu_offline | |
| 69/136 Test #69: testcorenrn_vecplay::coreneuron_gpu_online ......................... Passed 31.71 sec | |
| Start 73: testcorenrn_vecplay::coreneuron_cpu_online | |
| 70/136 Test #70: testcorenrn_vecplay::coreneuron_gpu_online_psolve_alternate ........ Passed 24.96 sec | |
| Start 74: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate | |
| 71/136 Test #71: testcorenrn_vecplay::coreneuron_gpu_offline ........................ Passed 23.59 sec | |
| Start 76: testcorenrn_vecplay::coreneuron_cpu_offline::preparation | |
| 72/136 Test #76: testcorenrn_vecplay::coreneuron_cpu_offline::preparation ........... Passed 2.11 sec | |
| Start 75: testcorenrn_vecplay::coreneuron_cpu_offline | |
| 73/136 Test #73: testcorenrn_vecplay::coreneuron_cpu_online ......................... Passed 22.39 sec | |
| 74/136 Test #74: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate ........ Passed 18.35 sec | |
| Start 78: testcorenrn_vecevent::neuron | |
| 75/136 Test #75: testcorenrn_vecplay::coreneuron_cpu_offline ........................ Passed 12.34 sec | |
| Start 77: testcorenrn_vecplay::compare_results | |
| 76/136 Test #77: testcorenrn_vecplay::compare_results ............................... Passed 0.18 sec | |
| 77/136 Test #78: testcorenrn_vecevent::neuron ....................................... Passed 2.79 sec | |
| Start 79: testcorenrn_vecevent::coreneuron_gpu_online | |
| 78/136 Test #6: rxdmod_tests::rxd_mpi_tests ........................................ Passed 273.38 sec | |
| Start 80: testcorenrn_vecevent::coreneuron_gpu_online_psolve_alternate | |
| 79/136 Test #79: testcorenrn_vecevent::coreneuron_gpu_online ........................ Passed 10.58 sec | |
| Start 82: testcorenrn_vecevent::coreneuron_gpu_offline::preparation | |
| 80/136 Test #82: testcorenrn_vecevent::coreneuron_gpu_offline::preparation .......... Passed 2.31 sec | |
| Start 81: testcorenrn_vecevent::coreneuron_gpu_offline | |
| 81/136 Test #80: testcorenrn_vecevent::coreneuron_gpu_online_psolve_alternate ....... Passed 5.07 sec | |
| Start 83: testcorenrn_vecevent::coreneuron_cpu_online | |
| 82/136 Test #81: testcorenrn_vecevent::coreneuron_gpu_offline ....................... Passed 3.86 sec | |
| Start 84: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate | |
| 83/136 Test #83: testcorenrn_vecevent::coreneuron_cpu_online ........................ Passed 13.04 sec | |
| Start 86: testcorenrn_vecevent::coreneuron_cpu_offline::preparation | |
| 84/136 Test #86: testcorenrn_vecevent::coreneuron_cpu_offline::preparation .......... Passed 1.65 sec | |
| Start 85: testcorenrn_vecevent::coreneuron_cpu_offline | |
| 85/136 Test #84: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate ....... Passed 11.68 sec | |
| Start 88: testcorenrn_watch::neuron | |
| Start 89: testcorenrn_watch::coreneuron_gpu_online | |
| 86/136 Test #88: testcorenrn_watch::neuron .......................................... Passed 1.91 sec | |
| Start 90: testcorenrn_watch::coreneuron_gpu_online_psolve_alternate | |
| 87/136 Test #85: testcorenrn_vecevent::coreneuron_cpu_offline ....................... Passed 2.60 sec | |
| Start 87: testcorenrn_vecevent::compare_results | |
| Start 92: testcorenrn_watch::coreneuron_gpu_offline::preparation | |
| 88/136 Test #87: testcorenrn_vecevent::compare_results .............................. Passed 0.42 sec | |
| Start 93: testcorenrn_watch::coreneuron_cpu_online | |
| 89/136 Test #92: testcorenrn_watch::coreneuron_gpu_offline::preparation ............. Passed 2.01 sec | |
| Start 91: testcorenrn_watch::coreneuron_gpu_offline | |
| 90/136 Test #89: testcorenrn_watch::coreneuron_gpu_online ........................... Passed 4.90 sec | |
| Start 94: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate | |
| 91/136 Test #93: testcorenrn_watch::coreneuron_cpu_online ........................... Passed 6.01 sec | |
| Start 96: testcorenrn_watch::coreneuron_cpu_offline::preparation | |
| 92/136 Test #96: testcorenrn_watch::coreneuron_cpu_offline::preparation ............. Passed 2.11 sec | |
| Start 95: testcorenrn_watch::coreneuron_cpu_offline | |
| 93/136 Test #90: testcorenrn_watch::coreneuron_gpu_online_psolve_alternate .......... Passed 12.13 sec | |
| Start 98: testcorenrn_conc::neuron | |
| Start 99: testcorenrn_conc::coreneuron_gpu_online | |
| 94/136 Test #98: testcorenrn_conc::neuron ........................................... Passed 1.81 sec | |
| Start 100: testcorenrn_conc::coreneuron_gpu_online_psolve_alternate | |
| 95/136 Test #91: testcorenrn_watch::coreneuron_gpu_offline .......................... Passed 15.56 sec | |
| 96/136 Test #94: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate .......... Passed 15.26 sec | |
| 97/136 Test #95: testcorenrn_watch::coreneuron_cpu_offline .......................... Passed 8.74 sec | |
| Start 97: testcorenrn_watch::compare_results | |
| Start 102: testcorenrn_conc::coreneuron_gpu_offline::preparation | |
| Start 103: testcorenrn_conc::coreneuron_cpu_online | |
| Start 104: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate | |
| Start 106: testcorenrn_conc::coreneuron_cpu_offline::preparation | |
| Start 108: testcorenrn_kin::neuron | |
| 98/136 Test #97: testcorenrn_watch::compare_results ................................. Passed 0.62 sec | |
| Start 109: testcorenrn_kin::coreneuron_gpu_online | |
| 99/136 Test #106: testcorenrn_conc::coreneuron_cpu_offline::preparation .............. Passed 2.31 sec | |
| 100/136 Test #102: testcorenrn_conc::coreneuron_gpu_offline::preparation .............. Passed 2.42 sec | |
| 101/136 Test #108: testcorenrn_kin::neuron ............................................ Passed 2.41 sec | |
| Start 101: testcorenrn_conc::coreneuron_gpu_offline | |
| Start 105: testcorenrn_conc::coreneuron_cpu_offline | |
| Start 110: testcorenrn_kin::coreneuron_gpu_online_psolve_alternate | |
| 102/136 Test #103: testcorenrn_conc::coreneuron_cpu_online ............................ Passed 5.04 sec | |
| Start 112: testcorenrn_kin::coreneuron_gpu_offline::preparation | |
| 103/136 Test #105: testcorenrn_conc::coreneuron_cpu_offline ........................... Passed 3.42 sec | |
| 104/136 Test #104: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate ........... Passed 6.44 sec | |
| Start 113: testcorenrn_kin::coreneuron_cpu_online | |
| Start 114: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate | |
| 105/136 Test #112: testcorenrn_kin::coreneuron_gpu_offline::preparation ............... Passed 2.61 sec | |
| 106/136 Test #100: testcorenrn_conc::coreneuron_gpu_online_psolve_alternate ........... Passed 11.97 sec | |
| 107/136 Test #99: testcorenrn_conc::coreneuron_gpu_online ............................ Passed 13.98 sec | |
| Start 111: testcorenrn_kin::coreneuron_gpu_offline | |
| Start 116: testcorenrn_kin::coreneuron_cpu_offline::preparation | |
| 108/136 Test #116: testcorenrn_kin::coreneuron_cpu_offline::preparation ............... Passed 2.01 sec | |
| Start 115: testcorenrn_kin::coreneuron_cpu_offline | |
| 109/136 Test #109: testcorenrn_kin::coreneuron_gpu_online ............................. Passed 9.29 sec | |
| Start 118: testcorenrn_netstimdirect::direct_netstimdirect | |
| 110/136 Test #101: testcorenrn_conc::coreneuron_gpu_offline ........................... Passed 8.40 sec | |
| 111/136 Test #113: testcorenrn_kin::coreneuron_cpu_online ............................. Passed 4.88 sec | |
| Start 107: testcorenrn_conc::compare_results | |
| 112/136 Test #114: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate ............ Passed 5.42 sec | |
| 113/136 Test #107: testcorenrn_conc::compare_results .................................. Passed 0.24 sec | |
| 114/136 Test #115: testcorenrn_kin::coreneuron_cpu_offline ............................ Passed 2.20 sec | |
| Start 119: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate | |
| Start 121: channel_benchmark_hippo::neuron | |
| Start 122: channel_benchmark_hippo::coreneuron_gpu | |
| 115/136 Test #110: testcorenrn_kin::coreneuron_gpu_online_psolve_alternate ............ Passed 9.51 sec | |
| Start 124: channel_benchmark_hippo::coreneuron_gpu_offline::preparation | |
| 116/136 Test #111: testcorenrn_kin::coreneuron_gpu_offline ............................ Passed 6.09 sec | |
| Start 117: testcorenrn_kin::compare_results | |
| 117/136 Test #117: testcorenrn_kin::compare_results ................................... Passed 0.10 sec | |
| Start 125: channel_benchmark_hippo::coreneuron_cpu | |
| 118/136 Test #118: testcorenrn_netstimdirect::direct_netstimdirect .................... Passed 22.28 sec | |
| Start 127: channel_benchmark_hippo::coreneuron_cpu_offline::preparation | |
| Start 129: channel_benchmark_sscx::neuron | |
| 119/136 Test #119: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate ... Passed 29.47 sec | |
| Start 120: testcorenrn_netstimdirect::compare_results | |
| Start 130: channel_benchmark_sscx::coreneuron_gpu | |
| 120/136 Test #120: testcorenrn_netstimdirect::compare_results ......................... Passed 0.31 sec | |
| Start 132: channel_benchmark_sscx::coreneuron_gpu_offline::preparation | |
| 121/136 Test #124: channel_benchmark_hippo::coreneuron_gpu_offline::preparation ....... Passed 132.40 sec | |
| Start 123: channel_benchmark_hippo::coreneuron_gpu_offline | |
| 122/136 Test #123: channel_benchmark_hippo::coreneuron_gpu_offline .................... Passed 23.08 sec | |
| Start 133: channel_benchmark_sscx::coreneuron_cpu | |
| 123/136 Test #121: channel_benchmark_hippo::neuron .................................... Passed 157.05 sec | |
| Start 135: channel_benchmark_sscx::coreneuron_cpu_offline::preparation | |
| 124/136 Test #122: channel_benchmark_hippo::coreneuron_gpu ............................ Passed 159.86 sec | |
| 125/136 Test #132: channel_benchmark_sscx::coreneuron_gpu_offline::preparation ........ Passed 134.79 sec | |
| Start 131: channel_benchmark_sscx::coreneuron_gpu_offline | |
| 126/136 Test #127: channel_benchmark_hippo::coreneuron_cpu_offline::preparation ....... Passed 145.45 sec | |
| Start 126: channel_benchmark_hippo::coreneuron_cpu_offline | |
| 127/136 Test #125: channel_benchmark_hippo::coreneuron_cpu ............................ Passed 164.81 sec | |
| 128/136 Test #131: channel_benchmark_sscx::coreneuron_gpu_offline ..................... Passed 9.03 sec | |
| 129/136 Test #130: channel_benchmark_sscx::coreneuron_gpu ............................. Passed 146.23 sec | |
| 130/136 Test #129: channel_benchmark_sscx::neuron ..................................... Passed 156.97 sec | |
| 131/136 Test #126: channel_benchmark_hippo::coreneuron_cpu_offline .................... Passed 16.15 sec | |
| Start 128: channel_benchmark_hippo::compare_results | |
| 132/136 Test #128: channel_benchmark_hippo::compare_results ........................... Passed 0.05 sec | |
| 133/136 Test #135: channel_benchmark_sscx::coreneuron_cpu_offline::preparation ........ Passed 50.81 sec | |
| Start 134: channel_benchmark_sscx::coreneuron_cpu_offline | |
| 134/136 Test #134: channel_benchmark_sscx::coreneuron_cpu_offline ..................... Passed 5.82 sec | |
| 135/136 Test #133: channel_benchmark_sscx::coreneuron_cpu ............................. Passed 59.30 sec | |
| Start 136: channel_benchmark_sscx::compare_results | |
| 136/136 Test #136: channel_benchmark_sscx::compare_results ............................ Passed 0.05 sec | |
| 100% tests passed, 0 tests failed out of 136 | |
| Total Test time (real) = 542.08 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:1632929374:step_script [0Ksection_start:1632929374: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=44301 revision[0;m=54944146 version[0;m=13.10.0 | |
| 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=64150 responseStatus[0;m=201 Created token[0;m=CoJGgPhH | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=44422 revision[0;m=54944146 version[0;m=13.10.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64150 responseStatus[0;m=201 Created token[0;m=CoJGgPhH | |
| section_end:1632929376:upload_artifacts_on_success [0Ksection_start:1632929376:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632929376:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632928770:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632928770:resolve_secrets [0Ksection_start:1632928770: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor188666766, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64148 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64148_PROD_P112_CP3_C6 | |
| 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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2747060 | |
| job state: R | |
| section_end:1632928812:prepare_executor [0Ksection_start:1632928812:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r4i3n11 via bbpv1.epfl.ch... | |
| section_end:1632928815:prepare_script [0Ksection_start:1632928815: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:1632928816:get_sources [0Ksection_start:1632928816:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:neuron:intel (64144)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=21708 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64144 responseStatus[0;m=200 OK token[0;m=KBxKSSrg | |
| section_end:1632928817:download_artifacts [0Ksection_start:1632928817: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_INSTALLED_HASH} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r4i3n10 | |
| Build name: Linux-icpc | |
| Create new tag: 20210929-1520 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64144/spack-build/spack-stage-neuron-develop-5kdcka37x3gxke2xyyl4ihllzpls2crx/spack-build-5kdcka3 | |
| Start 1: testneuron | |
| Start 2: ringtest | |
| Start 3: connect_dend | |
| Start 4: pynrn_tests::basic_tests | |
| Start 5: rxdmod_tests::rxd_tests | |
| Start 6: rxdmod_tests::rxd_mpi_tests | |
| Start 7: parallel_tests | |
| Start 8: parallel_partrans | |
| 1/93 Test #3: connect_dend ....................................................... Passed 0.57 sec | |
| 2/93 Test #1: testneuron ......................................................... Passed 0.57 sec | |
| Start 9: parallel_bas | |
| Start 10: coreneuron_modtests::direct_py | |
| 3/93 Test #2: ringtest ........................................................... Passed 1.39 sec | |
| Start 11: coreneuron_modtests::direct_hoc | |
| 4/93 Test #8: parallel_partrans .................................................. Passed 3.78 sec | |
| Start 12: coreneuron_modtests::spikes_py | |
| 5/93 Test #11: coreneuron_modtests::direct_hoc .................................... Passed 3.73 sec | |
| Start 13: coreneuron_modtests::spikes_file_mode_py | |
| 6/93 Test #7: parallel_tests ..................................................... Passed 6.11 sec | |
| Start 14: coreneuron_modtests::fornetcon_py | |
| 7/93 Test #10: coreneuron_modtests::direct_py ..................................... Passed 11.25 sec | |
| Start 15: coreneuron_modtests::datareturn_py | |
| 8/93 Test #4: pynrn_tests::basic_tests ........................................... Passed 13.34 sec | |
| Start 16: coreneuron_modtests::test_units_py | |
| 9/93 Test #12: coreneuron_modtests::spikes_py ..................................... Passed 9.45 sec | |
| 10/93 Test #13: coreneuron_modtests::spikes_file_mode_py ........................... Passed 9.03 sec | |
| 11/93 Test #9: parallel_bas ....................................................... Passed 13.58 sec | |
| Start 17: coreneuron_modtests::test_netmove_py | |
| Start 18: coreneuron_modtests::test_watchrange_py | |
| Start 19: coreneuron_modtests::test_natrans_py | |
| 12/93 Test #14: coreneuron_modtests::fornetcon_py .................................. Passed 7.63 sec | |
| 13/93 Test #16: coreneuron_modtests::test_units_py ................................. Passed 6.41 sec | |
| Start 20: coreneuron_modtests::spikes_mpi_py | |
| 14/93 Test #15: coreneuron_modtests::datareturn_py ................................. Passed 10.06 sec | |
| 15/93 Test #18: coreneuron_modtests::test_watchrange_py ............................ Passed 8.92 sec | |
| Start 21: coreneuron_modtests::spikes_mpi_file_mode_py | |
| 16/93 Test #20: coreneuron_modtests::spikes_mpi_py ................................. Passed 3.82 sec | |
| 17/93 Test #19: coreneuron_modtests::test_natrans_py ............................... Passed 10.33 sec | |
| Start 22: external_ringtest::neuron | |
| Start 23: external_ringtest::neuron_mpi | |
| 18/93 Test #17: coreneuron_modtests::test_netmove_py ............................... Passed 11.14 sec | |
| 19/93 Test #21: coreneuron_modtests::spikes_mpi_file_mode_py ....................... Passed 3.11 sec | |
| Start 24: external_ringtest::coreneuron_cpu_mpi | |
| 20/93 Test #22: external_ringtest::neuron .......................................... Passed 2.11 sec | |
| Start 26: external_ringtest::coreneuron_cpu_mpi_offline::preparation | |
| 21/93 Test #23: external_ringtest::neuron_mpi ...................................... Passed 3.85 sec | |
| Start 27: external_ringtest::coreneuron_cpu_mpi_threads | |
| 22/93 Test #26: external_ringtest::coreneuron_cpu_mpi_offline::preparation ......... Passed 4.21 sec | |
| Start 25: external_ringtest::coreneuron_cpu_mpi_offline | |
| 23/93 Test #24: external_ringtest::coreneuron_cpu_mpi .............................. Passed 5.82 sec | |
| Start 29: testcorenrn_bbcore::neuron | |
| Start 30: testcorenrn_bbcore::coreneuron_cpu_online | |
| 24/93 Test #27: external_ringtest::coreneuron_cpu_mpi_threads ...................... Passed 4.47 sec | |
| Start 31: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate | |
| Start 33: testcorenrn_bbcore::coreneuron_cpu_offline::preparation | |
| 25/93 Test #29: testcorenrn_bbcore::neuron ......................................... Passed 1.80 sec | |
| Start 35: testcorenrn_deriv::neuron | |
| 26/93 Test #30: testcorenrn_bbcore::coreneuron_cpu_online .......................... Passed 2.30 sec | |
| Start 36: testcorenrn_deriv::coreneuron_cpu_online | |
| 27/93 Test #25: external_ringtest::coreneuron_cpu_mpi_offline ...................... Passed 2.91 sec | |
| 28/93 Test #31: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate ......... Passed 1.62 sec | |
| Start 28: external_ringtest::compare_results | |
| Start 37: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate | |
| Start 39: testcorenrn_deriv::coreneuron_cpu_offline::preparation | |
| 29/93 Test #33: testcorenrn_bbcore::coreneuron_cpu_offline::preparation ............ Passed 1.92 sec | |
| 30/93 Test #28: external_ringtest::compare_results ................................. Passed 0.31 sec | |
| 31/93 Test #35: testcorenrn_deriv::neuron .......................................... Passed 1.82 sec | |
| Start 32: testcorenrn_bbcore::coreneuron_cpu_offline | |
| Start 41: testcorenrn_gf::neuron | |
| 32/93 Test #36: testcorenrn_deriv::coreneuron_cpu_online ........................... Passed 2.60 sec | |
| 33/93 Test #39: testcorenrn_deriv::coreneuron_cpu_offline::preparation ............. Passed 2.18 sec | |
| 34/93 Test #32: testcorenrn_bbcore::coreneuron_cpu_offline ......................... Passed 1.89 sec | |
| Start 34: testcorenrn_bbcore::compare_results | |
| Start 38: testcorenrn_deriv::coreneuron_cpu_offline | |
| 35/93 Test #34: testcorenrn_bbcore::compare_results ................................ Passed 0.30 sec | |
| 36/93 Test #37: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate .......... Passed 2.88 sec | |
| Start 42: testcorenrn_gf::coreneuron_cpu_online | |
| 37/93 Test #41: testcorenrn_gf::neuron ............................................. Passed 2.98 sec | |
| Start 43: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate | |
| 38/93 Test #38: testcorenrn_deriv::coreneuron_cpu_offline .......................... Passed 1.60 sec | |
| Start 40: testcorenrn_deriv::compare_results | |
| 39/93 Test #40: testcorenrn_deriv::compare_results ................................. Passed 0.40 sec | |
| Start 45: testcorenrn_gf::coreneuron_cpu_offline::preparation | |
| 40/93 Test #42: testcorenrn_gf::coreneuron_cpu_online .............................. Passed 3.01 sec | |
| Start 47: testcorenrn_patstim::neuron | |
| 41/93 Test #45: testcorenrn_gf::coreneuron_cpu_offline::preparation ................ Passed 3.26 sec | |
| Start 44: testcorenrn_gf::coreneuron_cpu_offline | |
| 42/93 Test #47: testcorenrn_patstim::neuron ........................................ Passed 3.06 sec | |
| 43/93 Test #43: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate ............. Passed 5.27 sec | |
| Start 49: testcorenrn_patstim::coreneuron_cpu_offline::preparation | |
| Start 51: testcorenrn_vecplay::neuron | |
| 44/93 Test #44: testcorenrn_gf::coreneuron_cpu_offline ............................. Passed 2.11 sec | |
| Start 46: testcorenrn_gf::compare_results | |
| 45/93 Test #46: testcorenrn_gf::compare_results .................................... Passed 0.10 sec | |
| Start 52: testcorenrn_vecplay::coreneuron_cpu_online | |
| 46/93 Test #51: testcorenrn_vecplay::neuron ........................................ Passed 2.01 sec | |
| Start 53: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate | |
| 47/93 Test #49: testcorenrn_patstim::coreneuron_cpu_offline::preparation ........... Passed 2.42 sec | |
| Start 48: testcorenrn_patstim::coreneuron_cpu_offline | |
| 48/93 Test #52: testcorenrn_vecplay::coreneuron_cpu_online ......................... Passed 2.21 sec | |
| Start 55: testcorenrn_vecplay::coreneuron_cpu_offline::preparation | |
| 49/93 Test #48: testcorenrn_patstim::coreneuron_cpu_offline ........................ Passed 2.11 sec | |
| Start 50: testcorenrn_patstim::compare_results | |
| 50/93 Test #53: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate ........ Passed 2.81 sec | |
| 51/93 Test #50: testcorenrn_patstim::compare_results ............................... Passed 0.10 sec | |
| 52/93 Test #55: testcorenrn_vecplay::coreneuron_cpu_offline::preparation ........... Passed 1.62 sec | |
| Start 54: testcorenrn_vecplay::coreneuron_cpu_offline | |
| Start 57: testcorenrn_vecevent::neuron | |
| 53/93 Test #54: testcorenrn_vecplay::coreneuron_cpu_offline ........................ Passed 1.71 sec | |
| Start 56: testcorenrn_vecplay::compare_results | |
| 54/93 Test #57: testcorenrn_vecevent::neuron ....................................... Passed 2.01 sec | |
| 55/93 Test #56: testcorenrn_vecplay::compare_results ............................... Passed 0.20 sec | |
| Start 58: testcorenrn_vecevent::coreneuron_cpu_online | |
| 56/93 Test #58: testcorenrn_vecevent::coreneuron_cpu_online ........................ Passed 2.40 sec | |
| Start 59: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate | |
| 57/93 Test #59: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate ....... Passed 2.70 sec | |
| Start 61: testcorenrn_vecevent::coreneuron_cpu_offline::preparation | |
| Start 63: testcorenrn_watch::neuron | |
| 58/93 Test #63: testcorenrn_watch::neuron .......................................... Passed 2.40 sec | |
| 59/93 Test #61: testcorenrn_vecevent::coreneuron_cpu_offline::preparation .......... Passed 3.01 sec | |
| Start 60: testcorenrn_vecevent::coreneuron_cpu_offline | |
| Start 64: testcorenrn_watch::coreneuron_cpu_online | |
| 60/93 Test #60: testcorenrn_vecevent::coreneuron_cpu_offline ....................... Passed 2.41 sec | |
| Start 62: testcorenrn_vecevent::compare_results | |
| Start 65: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate | |
| 61/93 Test #62: testcorenrn_vecevent::compare_results .............................. Passed 0.11 sec | |
| Start 67: testcorenrn_watch::coreneuron_cpu_offline::preparation | |
| 62/93 Test #64: testcorenrn_watch::coreneuron_cpu_online ........................... Passed 5.42 sec | |
| Start 69: testcorenrn_conc::neuron | |
| Start 70: testcorenrn_conc::coreneuron_cpu_online | |
| 63/93 Test #67: testcorenrn_watch::coreneuron_cpu_offline::preparation ............. Passed 2.41 sec | |
| Start 66: testcorenrn_watch::coreneuron_cpu_offline | |
| 64/93 Test #69: testcorenrn_conc::neuron ........................................... Passed 2.21 sec | |
| Start 71: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate | |
| 65/93 Test #65: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate .......... Passed 5.43 sec | |
| Start 73: testcorenrn_conc::coreneuron_cpu_offline::preparation | |
| Start 75: testcorenrn_kin::neuron | |
| 66/93 Test #66: testcorenrn_watch::coreneuron_cpu_offline .......................... Passed 2.22 sec | |
| Start 68: testcorenrn_watch::compare_results | |
| Start 76: testcorenrn_kin::coreneuron_cpu_online | |
| 67/93 Test #70: testcorenrn_conc::coreneuron_cpu_online ............................ Passed 3.78 sec | |
| Start 77: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate | |
| 68/93 Test #68: testcorenrn_watch::compare_results ................................. Passed 0.76 sec | |
| Start 79: testcorenrn_kin::coreneuron_cpu_offline::preparation | |
| 69/93 Test #73: testcorenrn_conc::coreneuron_cpu_offline::preparation .............. Passed 2.38 sec | |
| 70/93 Test #75: testcorenrn_kin::neuron ............................................ Passed 2.68 sec | |
| Start 72: testcorenrn_conc::coreneuron_cpu_offline | |
| 71/93 Test #71: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate ........... Passed 7.12 sec | |
| 72/93 Test #72: testcorenrn_conc::coreneuron_cpu_offline ........................... Passed 3.91 sec | |
| Start 74: testcorenrn_conc::compare_results | |
| Start 81: testcorenrn_netstimdirect::direct_netstimdirect | |
| 73/93 Test #79: testcorenrn_kin::coreneuron_cpu_offline::preparation ............... Passed 4.74 sec | |
| 74/93 Test #74: testcorenrn_conc::compare_results .................................. Passed 0.31 sec | |
| Start 78: testcorenrn_kin::coreneuron_cpu_offline | |
| 75/93 Test #76: testcorenrn_kin::coreneuron_cpu_online ............................. Passed 6.80 sec | |
| Start 82: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate | |
| 76/93 Test #78: testcorenrn_kin::coreneuron_cpu_offline ............................ Passed 1.71 sec | |
| 77/93 Test #77: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate ............ Passed 7.97 sec | |
| Start 80: testcorenrn_kin::compare_results | |
| Start 84: channel_benchmark_hippo::neuron | |
| 78/93 Test #80: testcorenrn_kin::compare_results ................................... Passed 0.31 sec | |
| Start 85: channel_benchmark_hippo::coreneuron_cpu | |
| 79/93 Test #82: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate ... Passed 10.02 sec | |
| Start 87: channel_benchmark_hippo::coreneuron_cpu_offline::preparation | |
| Start 89: channel_benchmark_sscx::neuron | |
| 80/93 Test #81: testcorenrn_netstimdirect::direct_netstimdirect .................... Passed 81.23 sec | |
| Start 83: testcorenrn_netstimdirect::compare_results | |
| Start 90: channel_benchmark_sscx::coreneuron_cpu | |
| 81/93 Test #83: testcorenrn_netstimdirect::compare_results ......................... Passed 0.71 sec | |
| Start 92: channel_benchmark_sscx::coreneuron_cpu_offline::preparation | |
| 82/93 Test #5: rxdmod_tests::rxd_tests ............................................ Passed 157.97 sec | |
| 83/93 Test #87: channel_benchmark_hippo::coreneuron_cpu_offline::preparation ....... Passed 84.22 sec | |
| Start 86: channel_benchmark_hippo::coreneuron_cpu_offline | |
| 84/93 Test #85: channel_benchmark_hippo::coreneuron_cpu ............................ Passed 102.38 sec | |
| 85/93 Test #84: channel_benchmark_hippo::neuron .................................... Passed 104.09 sec | |
| 86/93 Test #89: channel_benchmark_sscx::neuron ..................................... Passed 101.77 sec | |
| 87/93 Test #86: channel_benchmark_hippo::coreneuron_cpu_offline .................... Passed 22.68 sec | |
| Start 88: channel_benchmark_hippo::compare_results | |
| 88/93 Test #88: channel_benchmark_hippo::compare_results ........................... Passed 0.33 sec | |
| 89/93 Test #92: channel_benchmark_sscx::coreneuron_cpu_offline::preparation ........ Passed 60.73 sec | |
| Start 91: channel_benchmark_sscx::coreneuron_cpu_offline | |
| 90/93 Test #91: channel_benchmark_sscx::coreneuron_cpu_offline ..................... Passed 7.78 sec | |
| 91/93 Test #90: channel_benchmark_sscx::coreneuron_cpu ............................. Passed 72.13 sec | |
| Start 93: channel_benchmark_sscx::compare_results | |
| 92/93 Test #93: channel_benchmark_sscx::compare_results ............................ Passed 0.19 sec | |
| 93/93 Test #6: rxdmod_tests::rxd_mpi_tests ........................................ Passed 237.65 sec | |
| 100% tests passed, 0 tests failed out of 93 | |
| Total Test time (real) = 237.75 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:1632929073:step_script [0Ksection_start:1632929073: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=29887 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64148 responseStatus[0;m=201 Created token[0;m=SYbJMy93 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=29924 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64148 responseStatus[0;m=201 Created token[0;m=SYbJMy93 | |
| section_end:1632929074:upload_artifacts_on_success [0Ksection_start:1632929074:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632929076:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632930312:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632930312:resolve_secrets [0Ksection_start:1632930312: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor233831514, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64149 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64149_PROD_P112_CP2_C0 | |
| 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 | |
| sbatch: INFO: Job eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2747153 | |
| job state: R | |
| section_end:1632930404:prepare_executor [0Ksection_start:1632930404:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on ldir01u01.bbp.epfl.ch via bbpv1.epfl.ch... | |
| section_end:1632930406:prepare_script [0Ksection_start:1632930406: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:1632930407:get_sources [0Ksection_start:1632930407:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:neuron+nmodl:gpu (64145)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=50200 revision[0;m=54944146 version[0;m=13.10.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64145 responseStatus[0;m=200 OK token[0;m=yEp164ki | |
| section_end:1632930408:download_artifacts [0Ksection_start:1632930408: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 | |
| slurmstepd: error: _is_a_lwp: open() /proc/50385/status failed: No such file or directory | |
| [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_INSTALLED_HASH} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r5i2n31 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20210929-1547 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64145/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er | |
| Start 1: testneuron | |
| Start 2: ringtest | |
| Start 3: connect_dend | |
| Start 4: pynrn_tests::basic_tests | |
| Start 5: rxdmod_tests::rxd_tests | |
| Start 6: rxdmod_tests::rxd_mpi_tests | |
| Start 7: parallel_tests | |
| Start 8: parallel_partrans | |
| 1/116 Test #1: testneuron ......................................................... Passed 0.83 sec | |
| 2/116 Test #3: connect_dend ....................................................... Passed 0.84 sec | |
| 3/116 Test #2: ringtest ........................................................... Passed 1.24 sec | |
| Start 9: parallel_bas | |
| Start 10: coreneuron_modtests::direct_py | |
| Start 11: coreneuron_modtests::direct_hoc | |
| 4/116 Test #8: parallel_partrans .................................................. Passed 7.96 sec | |
| 5/116 Test #7: parallel_tests ..................................................... Passed 7.97 sec | |
| Start 12: coreneuron_modtests::spikes_py | |
| Start 13: coreneuron_modtests::spikes_file_mode_py | |
| 6/116 Test #13: coreneuron_modtests::spikes_file_mode_py ........................... Passed 4.01 sec | |
| 7/116 Test #11: coreneuron_modtests::direct_hoc .................................... Passed 11.25 sec | |
| 8/116 Test #10: coreneuron_modtests::direct_py ..................................... Passed 11.56 sec | |
| Start 14: coreneuron_modtests::datareturn_py | |
| Start 15: coreneuron_modtests::test_units_py | |
| Start 16: coreneuron_modtests::test_netmove_py | |
| 9/116 Test #12: coreneuron_modtests::spikes_py ..................................... Passed 7.45 sec | |
| Start 17: coreneuron_modtests::test_watchrange_py | |
| 10/116 Test #4: pynrn_tests::basic_tests ........................................... Passed 16.63 sec | |
| Start 18: coreneuron_modtests::test_natrans_py | |
| 11/116 Test #9: parallel_bas ....................................................... Passed 16.00 sec | |
| 12/116 Test #18: coreneuron_modtests::test_natrans_py ............................... Passed 6.23 sec | |
| Start 19: coreneuron_modtests::spikes_mpi_py | |
| 13/116 Test #15: coreneuron_modtests::test_units_py ................................. Passed 10.76 sec | |
| 14/116 Test #17: coreneuron_modtests::test_watchrange_py ............................ Passed 7.96 sec | |
| Start 20: coreneuron_modtests::spikes_mpi_file_mode_py | |
| 15/116 Test #14: coreneuron_modtests::datareturn_py ................................. Passed 13.78 sec | |
| Start 21: external_ringtest::neuron | |
| 16/116 Test #16: coreneuron_modtests::test_netmove_py ............................... Passed 15.68 sec | |
| 17/116 Test #21: external_ringtest::neuron .......................................... Passed 1.50 sec | |
| Start 22: external_ringtest::neuron_mpi | |
| 18/116 Test #22: external_ringtest::neuron_mpi ...................................... Passed 4.60 sec | |
| Start 23: external_ringtest::coreneuron_cpu_mpi | |
| 19/116 Test #19: coreneuron_modtests::spikes_mpi_py ................................. Passed 10.94 sec | |
| Start 25: external_ringtest::coreneuron_cpu_mpi_offline::preparation | |
| 20/116 Test #20: coreneuron_modtests::spikes_mpi_file_mode_py ....................... Passed 11.92 sec | |
| Start 26: external_ringtest::coreneuron_cpu_mpi_threads | |
| 21/116 Test #25: external_ringtest::coreneuron_cpu_mpi_offline::preparation ......... Passed 15.64 sec | |
| Start 24: external_ringtest::coreneuron_cpu_mpi_offline | |
| 22/116 Test #23: external_ringtest::coreneuron_cpu_mpi .............................. Passed 19.16 sec | |
| Start 27: external_ringtest::coreneuron_gpu_mpi | |
| 23/116 Test #26: external_ringtest::coreneuron_cpu_mpi_threads ...................... Passed 17.20 sec | |
| Start 29: external_ringtest::coreneuron_gpu_mpi_offline::preparation | |
| 24/116 Test #24: external_ringtest::coreneuron_cpu_mpi_offline ...................... Passed 6.68 sec | |
| Start 30: external_ringtest::coreneuron_gpu_mpi_threads | |
| 25/116 Test #29: external_ringtest::coreneuron_gpu_mpi_offline::preparation ......... Passed 23.46 sec | |
| Start 28: external_ringtest::coreneuron_gpu_mpi_offline | |
| 26/116 Test #27: external_ringtest::coreneuron_gpu_mpi .............................. Passed 24.62 sec | |
| Start 32: testcorenrn_bbcore::neuron | |
| Start 33: testcorenrn_bbcore::coreneuron_gpu_online | |
| 27/116 Test #32: testcorenrn_bbcore::neuron ......................................... Passed 1.81 sec | |
| Start 34: testcorenrn_bbcore::coreneuron_gpu_online_psolve_alternate | |
| 28/116 Test #30: external_ringtest::coreneuron_gpu_mpi_threads ...................... Passed 31.62 sec | |
| Start 36: testcorenrn_bbcore::coreneuron_gpu_offline::preparation | |
| Start 37: testcorenrn_bbcore::coreneuron_cpu_online | |
| 29/116 Test #33: testcorenrn_bbcore::coreneuron_gpu_online .......................... Passed 13.18 sec | |
| Start 38: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate | |
| 30/116 Test #36: testcorenrn_bbcore::coreneuron_gpu_offline::preparation ............ Passed 2.02 sec | |
| Start 35: testcorenrn_bbcore::coreneuron_gpu_offline | |
| 31/116 Test #34: testcorenrn_bbcore::coreneuron_gpu_online_psolve_alternate ......... Passed 11.88 sec | |
| Start 40: testcorenrn_bbcore::coreneuron_cpu_offline::preparation | |
| 32/116 Test #37: testcorenrn_bbcore::coreneuron_cpu_online .......................... Passed 3.72 sec | |
| Start 42: testcorenrn_deriv::neuron | |
| 33/116 Test #40: testcorenrn_bbcore::coreneuron_cpu_offline::preparation ............ Passed 2.21 sec | |
| Start 39: testcorenrn_bbcore::coreneuron_cpu_offline | |
| 34/116 Test #42: testcorenrn_deriv::neuron .......................................... Passed 2.51 sec | |
| Start 43: testcorenrn_deriv::coreneuron_gpu_online | |
| 35/116 Test #35: testcorenrn_bbcore::coreneuron_gpu_offline ......................... Passed 3.92 sec | |
| Start 44: testcorenrn_deriv::coreneuron_gpu_online_psolve_alternate | |
| 36/116 Test #38: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate ......... Passed 5.43 sec | |
| Start 46: testcorenrn_deriv::coreneuron_gpu_offline::preparation | |
| 37/116 Test #28: external_ringtest::coreneuron_gpu_mpi_offline ...................... Passed 20.44 sec | |
| Start 31: external_ringtest::compare_results | |
| Start 47: testcorenrn_deriv::coreneuron_cpu_online | |
| 38/116 Test #31: external_ringtest::compare_results ................................. Passed 0.11 sec | |
| 39/116 Test #46: testcorenrn_deriv::coreneuron_gpu_offline::preparation ............. Passed 1.82 sec | |
| 40/116 Test #39: testcorenrn_bbcore::coreneuron_cpu_offline ......................... Passed 3.63 sec | |
| Start 41: testcorenrn_bbcore::compare_results | |
| Start 45: testcorenrn_deriv::coreneuron_gpu_offline | |
| Start 48: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate | |
| 41/116 Test #41: testcorenrn_bbcore::compare_results ................................ Passed 0.71 sec | |
| Start 50: testcorenrn_deriv::coreneuron_cpu_offline::preparation | |
| 42/116 Test #50: testcorenrn_deriv::coreneuron_cpu_offline::preparation ............. Passed 2.11 sec | |
| Start 49: testcorenrn_deriv::coreneuron_cpu_offline | |
| 43/116 Test #47: testcorenrn_deriv::coreneuron_cpu_online ........................... Passed 6.34 sec | |
| 44/116 Test #49: testcorenrn_deriv::coreneuron_cpu_offline .......................... Passed 2.82 sec | |
| Start 52: testcorenrn_gf::neuron | |
| 45/116 Test #43: testcorenrn_deriv::coreneuron_gpu_online ........................... Passed 9.68 sec | |
| 46/116 Test #44: testcorenrn_deriv::coreneuron_gpu_online_psolve_alternate .......... Passed 9.08 sec | |
| 47/116 Test #48: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate .......... Passed 6.65 sec | |
| Start 53: testcorenrn_gf::coreneuron_gpu_online | |
| 48/116 Test #45: testcorenrn_deriv::coreneuron_gpu_offline .......................... Passed 9.97 sec | |
| Start 51: testcorenrn_deriv::compare_results | |
| 49/116 Test #51: testcorenrn_deriv::compare_results ................................. Passed 0.06 sec | |
| 50/116 Test #52: testcorenrn_gf::neuron ............................................. Passed 4.28 sec | |
| Start 54: testcorenrn_gf::coreneuron_gpu_online_psolve_alternate | |
| Start 56: testcorenrn_gf::coreneuron_gpu_offline::preparation | |
| 51/116 Test #56: testcorenrn_gf::coreneuron_gpu_offline::preparation ................ Passed 2.27 sec | |
| Start 55: testcorenrn_gf::coreneuron_gpu_offline | |
| 52/116 Test #55: testcorenrn_gf::coreneuron_gpu_offline ............................. Passed 30.00 sec | |
| Start 57: testcorenrn_gf::coreneuron_cpu_online | |
| 53/116 Test #53: testcorenrn_gf::coreneuron_gpu_online .............................. Passed 35.81 sec | |
| Start 58: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate | |
| 54/116 Test #54: testcorenrn_gf::coreneuron_gpu_online_psolve_alternate ............. Passed 35.94 sec | |
| Start 60: testcorenrn_gf::coreneuron_cpu_offline::preparation | |
| 55/116 Test #60: testcorenrn_gf::coreneuron_cpu_offline::preparation ................ Passed 3.07 sec | |
| Start 59: testcorenrn_gf::coreneuron_cpu_offline | |
| 56/116 Test #57: testcorenrn_gf::coreneuron_cpu_online .............................. Passed 36.83 sec | |
| Start 62: testcorenrn_patstim::neuron | |
| 57/116 Test #59: testcorenrn_gf::coreneuron_cpu_offline ............................. Passed 30.49 sec | |
| Start 64: testcorenrn_patstim::coreneuron_gpu_offline::preparation | |
| 58/116 Test #62: testcorenrn_patstim::neuron ........................................ Passed 2.21 sec | |
| Start 66: testcorenrn_patstim::coreneuron_cpu_offline::preparation | |
| 59/116 Test #58: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate ............. Passed 41.09 sec | |
| Start 61: testcorenrn_gf::compare_results | |
| Start 68: testcorenrn_vecplay::neuron | |
| 60/116 Test #64: testcorenrn_patstim::coreneuron_gpu_offline::preparation ........... Passed 3.32 sec | |
| 61/116 Test #61: testcorenrn_gf::compare_results .................................... Passed 0.41 sec | |
| Start 63: testcorenrn_patstim::coreneuron_gpu_offline | |
| 62/116 Test #66: testcorenrn_patstim::coreneuron_cpu_offline::preparation ........... Passed 2.82 sec | |
| Start 65: testcorenrn_patstim::coreneuron_cpu_offline | |
| 63/116 Test #68: testcorenrn_vecplay::neuron ........................................ Passed 3.62 sec | |
| Start 69: testcorenrn_vecplay::coreneuron_gpu_online | |
| 64/116 Test #65: testcorenrn_patstim::coreneuron_cpu_offline ........................ Passed 24.05 sec | |
| Start 70: testcorenrn_vecplay::coreneuron_gpu_online_psolve_alternate | |
| 65/116 Test #63: testcorenrn_patstim::coreneuron_gpu_offline ........................ Passed 25.27 sec | |
| Start 67: testcorenrn_patstim::compare_results | |
| 66/116 Test #67: testcorenrn_patstim::compare_results ............................... Passed 0.40 sec | |
| Start 72: testcorenrn_vecplay::coreneuron_gpu_offline::preparation | |
| 67/116 Test #72: testcorenrn_vecplay::coreneuron_gpu_offline::preparation ........... Passed 2.41 sec | |
| Start 71: testcorenrn_vecplay::coreneuron_gpu_offline | |
| 68/116 Test #5: rxdmod_tests::rxd_tests ............................................ Passed 216.09 sec | |
| 69/116 Test #69: testcorenrn_vecplay::coreneuron_gpu_online ......................... Passed 30.74 sec | |
| Start 73: testcorenrn_vecplay::coreneuron_cpu_online | |
| 70/116 Test #73: testcorenrn_vecplay::coreneuron_cpu_online ......................... Passed 19.16 sec | |
| Start 74: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate | |
| 71/116 Test #71: testcorenrn_vecplay::coreneuron_gpu_offline ........................ Passed 26.74 sec | |
| Start 76: testcorenrn_vecplay::coreneuron_cpu_offline::preparation | |
| 72/116 Test #76: testcorenrn_vecplay::coreneuron_cpu_offline::preparation ........... Passed 2.71 sec | |
| Start 75: testcorenrn_vecplay::coreneuron_cpu_offline | |
| 73/116 Test #70: testcorenrn_vecplay::coreneuron_gpu_online_psolve_alternate ........ Passed 36.39 sec | |
| 74/116 Test #75: testcorenrn_vecplay::coreneuron_cpu_offline ........................ Passed 19.55 sec | |
| Start 78: testcorenrn_vecevent::neuron | |
| 75/116 Test #74: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate ........ Passed 25.07 sec | |
| Start 77: testcorenrn_vecplay::compare_results | |
| 76/116 Test #77: testcorenrn_vecplay::compare_results ............................... Passed 0.10 sec | |
| 77/116 Test #78: testcorenrn_vecevent::neuron ....................................... Passed 1.97 sec | |
| Start 79: testcorenrn_vecevent::coreneuron_gpu_online | |
| 78/116 Test #79: testcorenrn_vecevent::coreneuron_gpu_online ........................ Passed 13.95 sec | |
| Start 80: testcorenrn_vecevent::coreneuron_gpu_online_psolve_alternate | |
| 79/116 Test #6: rxdmod_tests::rxd_mpi_tests ........................................ Passed 384.86 sec | |
| Start 82: testcorenrn_vecevent::coreneuron_gpu_offline::preparation | |
| 80/116 Test #80: testcorenrn_vecevent::coreneuron_gpu_online_psolve_alternate ....... Passed 109.63 sec | |
| Start 83: testcorenrn_vecevent::coreneuron_cpu_online | |
| 81/116 Test #82: testcorenrn_vecevent::coreneuron_gpu_offline::preparation .......... Passed 1.62 sec | |
| Start 81: testcorenrn_vecevent::coreneuron_gpu_offline | |
| 82/116 Test #83: testcorenrn_vecevent::coreneuron_cpu_online ........................ Passed 9.78 sec | |
| Start 84: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate | |
| 83/116 Test #81: testcorenrn_vecevent::coreneuron_gpu_offline ....................... Passed 9.24 sec | |
| Start 86: testcorenrn_vecevent::coreneuron_cpu_offline::preparation | |
| 84/116 Test #86: testcorenrn_vecevent::coreneuron_cpu_offline::preparation .......... Passed 3.41 sec | |
| Start 85: testcorenrn_vecevent::coreneuron_cpu_offline | |
| 85/116 Test #85: testcorenrn_vecevent::coreneuron_cpu_offline ....................... Passed 6.61 sec | |
| 86/116 Test #84: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate ....... Passed 10.26 sec | |
| Start 87: testcorenrn_vecevent::compare_results | |
| Start 88: testcorenrn_watch::neuron | |
| Start 89: testcorenrn_watch::coreneuron_gpu_online | |
| Start 90: testcorenrn_watch::coreneuron_gpu_online_psolve_alternate | |
| 87/116 Test #87: testcorenrn_vecevent::compare_results .............................. Passed 0.11 sec | |
| Start 92: testcorenrn_watch::coreneuron_gpu_offline::preparation | |
| 88/116 Test #88: testcorenrn_watch::neuron .......................................... Passed 1.82 sec | |
| Start 93: testcorenrn_watch::coreneuron_cpu_online | |
| 89/116 Test #92: testcorenrn_watch::coreneuron_gpu_offline::preparation ............. Passed 2.41 sec | |
| Start 91: testcorenrn_watch::coreneuron_gpu_offline | |
| 90/116 Test #93: testcorenrn_watch::coreneuron_cpu_online ........................... Passed 8.63 sec | |
| Start 94: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate | |
| 91/116 Test #89: testcorenrn_watch::coreneuron_gpu_online ........................... Passed 13.35 sec | |
| 92/116 Test #91: testcorenrn_watch::coreneuron_gpu_offline .......................... Passed 10.43 sec | |
| 93/116 Test #90: testcorenrn_watch::coreneuron_gpu_online_psolve_alternate .......... Passed 13.36 sec | |
| Start 96: testcorenrn_watch::coreneuron_cpu_offline::preparation | |
| Start 98: testcorenrn_netstimdirect::direct_netstimdirect | |
| Start 99: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate | |
| 94/116 Test #94: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate .......... Passed 4.94 sec | |
| Start 101: channel_benchmark_hippo::neuron | |
| Start 102: channel_benchmark_hippo::coreneuron_gpu | |
| 95/116 Test #96: testcorenrn_watch::coreneuron_cpu_offline::preparation ............. Passed 3.02 sec | |
| Start 95: testcorenrn_watch::coreneuron_cpu_offline | |
| 96/116 Test #98: testcorenrn_netstimdirect::direct_netstimdirect .................... Passed 26.14 sec | |
| Start 104: channel_benchmark_hippo::coreneuron_gpu_offline::preparation | |
| Start 105: channel_benchmark_hippo::coreneuron_cpu | |
| 97/116 Test #95: testcorenrn_watch::coreneuron_cpu_offline .......................... Passed 23.23 sec | |
| Start 97: testcorenrn_watch::compare_results | |
| Start 107: channel_benchmark_hippo::coreneuron_cpu_offline::preparation | |
| 98/116 Test #97: testcorenrn_watch::compare_results ................................. Passed 0.51 sec | |
| Start 109: channel_benchmark_sscx::neuron | |
| 99/116 Test #99: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate ... Passed 30.97 sec | |
| Start 100: testcorenrn_netstimdirect::compare_results | |
| Start 110: channel_benchmark_sscx::coreneuron_gpu | |
| 100/116 Test #100: testcorenrn_netstimdirect::compare_results ......................... Passed 0.11 sec | |
| Start 112: channel_benchmark_sscx::coreneuron_gpu_offline::preparation | |
| 101/116 Test #101: channel_benchmark_hippo::neuron .................................... Passed 122.57 sec | |
| Start 113: channel_benchmark_sscx::coreneuron_cpu | |
| 102/116 Test #102: channel_benchmark_hippo::coreneuron_gpu ............................ Passed 133.30 sec | |
| Start 115: channel_benchmark_sscx::coreneuron_cpu_offline::preparation | |
| 103/116 Test #112: channel_benchmark_sscx::coreneuron_gpu_offline::preparation ........ Passed 140.35 sec | |
| Start 111: channel_benchmark_sscx::coreneuron_gpu_offline | |
| 104/116 Test #107: channel_benchmark_hippo::coreneuron_cpu_offline::preparation ....... Passed 149.09 sec | |
| Start 106: channel_benchmark_hippo::coreneuron_cpu_offline | |
| 105/116 Test #104: channel_benchmark_hippo::coreneuron_gpu_offline::preparation ....... Passed 153.01 sec | |
| Start 103: channel_benchmark_hippo::coreneuron_gpu_offline | |
| 106/116 Test #109: channel_benchmark_sscx::neuron ..................................... Passed 157.42 sec | |
| 107/116 Test #103: channel_benchmark_hippo::coreneuron_gpu_offline .................... Passed 12.02 sec | |
| 108/116 Test #111: channel_benchmark_sscx::coreneuron_gpu_offline ..................... Passed 20.75 sec | |
| 109/116 Test #110: channel_benchmark_sscx::coreneuron_gpu ............................. Passed 165.61 sec | |
| 110/116 Test #106: channel_benchmark_hippo::coreneuron_cpu_offline .................... Passed 22.14 sec | |
| 111/116 Test #105: channel_benchmark_hippo::coreneuron_cpu ............................ Passed 175.75 sec | |
| Start 108: channel_benchmark_hippo::compare_results | |
| 112/116 Test #108: channel_benchmark_hippo::compare_results ........................... Passed 0.06 sec | |
| 113/116 Test #115: channel_benchmark_sscx::coreneuron_cpu_offline::preparation ........ Passed 79.32 sec | |
| Start 114: channel_benchmark_sscx::coreneuron_cpu_offline | |
| 114/116 Test #113: channel_benchmark_sscx::coreneuron_cpu ............................. Passed 95.98 sec | |
| 115/116 Test #114: channel_benchmark_sscx::coreneuron_cpu_offline ..................... Passed 6.36 sec | |
| Start 116: channel_benchmark_sscx::compare_results | |
| 116/116 Test #116: channel_benchmark_sscx::compare_results ............................ Passed 0.06 sec | |
| 100% tests passed, 0 tests failed out of 116 | |
| Total Test time (real) = 641.68 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:1632931066:step_script [0Ksection_start:1632931066: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=57694 revision[0;m=54944146 version[0;m=13.10.0 | |
| 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=64149 responseStatus[0;m=201 Created token[0;m=7ziLUJcf | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=57722 revision[0;m=54944146 version[0;m=13.10.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64149 responseStatus[0;m=201 Created token[0;m=7ziLUJcf | |
| section_end:1632931067:upload_artifacts_on_success [0Ksection_start:1632931067:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632931067:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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| [0KRunning with gitlab-runner 13.12.0 (7a6612da) | |
| [0;m[0K on BB5 map runner pnPo3yJy | |
| [0;msection_start:1632929509:resolve_secrets [0K[0K[36;1mResolving secrets[0;m | |
| [0;msection_end:1632929509:resolve_secrets [0Ksection_start:1632929509: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;mBB5 PROD runner running on bbpv1.epfl.ch, version 13.12.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor759188857, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 18104, build ref 27dbbda7c45bd1441407f170826e6c673d23667a, job ID 64147 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P18104 | |
| A slurm job will be created with name GL_J64147_PROD_P112_CP2_C2 | |
| 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 eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2747129 | |
| job state: R | |
| section_end:1632929635:prepare_executor [0Ksection_start:1632929635:prepare_script [0K[0K[36;1mPreparing environment[0;m | |
| [0;mRunning on r5i2n31 via bbpv1.epfl.ch... | |
| section_end:1632929637:prepare_script [0Ksection_start:1632929637: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:1632929638:get_sources [0Ksection_start:1632929638:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m | |
| [0;m[32;1mDownloading artifacts for build:neuron+nmodl:intel (64143)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=230821 revision[0;m=7a6612da version[0;m=13.12.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=64143 responseStatus[0;m=200 OK token[0;m=szy5mziD | |
| section_end:1632929639:download_artifacts [0Ksection_start:1632929639: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_INSTALLED_HASH} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r4i3n11 | |
| Build name: Linux-icpc | |
| Create new tag: 20210929-1535 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P18104/64143/spack-build/spack-stage-neuron-develop-33owxfayp5jnlxsuih5kg6pwz2kmmyuq/spack-build-33owxfa | |
| Start 1: testneuron | |
| Start 2: ringtest | |
| Start 3: connect_dend | |
| Start 4: pynrn_tests::basic_tests | |
| Start 5: rxdmod_tests::rxd_tests | |
| Start 6: rxdmod_tests::rxd_mpi_tests | |
| Start 7: parallel_tests | |
| Start 8: parallel_partrans | |
| 1/93 Test #1: testneuron ......................................................... Passed 1.85 sec | |
| Start 9: parallel_bas | |
| 2/93 Test #3: connect_dend ....................................................... Passed 3.95 sec | |
| 3/93 Test #2: ringtest ........................................................... Passed 3.96 sec | |
| Start 10: coreneuron_modtests::direct_py | |
| Start 11: coreneuron_modtests::direct_hoc | |
| 4/93 Test #8: parallel_partrans .................................................. Passed 12.05 sec | |
| Start 12: coreneuron_modtests::spikes_py | |
| 5/93 Test #7: parallel_tests ..................................................... Passed 16.29 sec | |
| Start 13: coreneuron_modtests::spikes_file_mode_py | |
| 6/93 Test #11: coreneuron_modtests::direct_hoc .................................... Passed 14.07 sec | |
| Start 14: coreneuron_modtests::fornetcon_py | |
| 7/93 Test #10: coreneuron_modtests::direct_py ..................................... Passed 18.70 sec | |
| Start 15: coreneuron_modtests::datareturn_py | |
| 8/93 Test #9: parallel_bas ....................................................... Passed 24.82 sec | |
| Start 16: coreneuron_modtests::test_units_py | |
| 9/93 Test #12: coreneuron_modtests::spikes_py ..................................... Passed 15.98 sec | |
| Start 17: coreneuron_modtests::test_netmove_py | |
| 10/93 Test #13: coreneuron_modtests::spikes_file_mode_py ........................... Passed 13.40 sec | |
| Start 18: coreneuron_modtests::test_watchrange_py | |
| 11/93 Test #14: coreneuron_modtests::fornetcon_py .................................. Passed 14.80 sec | |
| Start 19: coreneuron_modtests::test_natrans_py | |
| 12/93 Test #15: coreneuron_modtests::datareturn_py ................................. Passed 14.60 sec | |
| 13/93 Test #16: coreneuron_modtests::test_units_py ................................. Passed 15.14 sec | |
| 14/93 Test #17: coreneuron_modtests::test_netmove_py ............................... Passed 13.91 sec | |
| Start 20: coreneuron_modtests::spikes_mpi_py | |
| 15/93 Test #18: coreneuron_modtests::test_watchrange_py ............................ Passed 15.28 sec | |
| Start 21: coreneuron_modtests::spikes_mpi_file_mode_py | |
| 16/93 Test #19: coreneuron_modtests::test_natrans_py ............................... Passed 15.29 sec | |
| Start 22: external_ringtest::neuron | |
| 17/93 Test #4: pynrn_tests::basic_tests ........................................... Passed 49.44 sec | |
| 18/93 Test #20: coreneuron_modtests::spikes_mpi_py ................................. Passed 10.55 sec | |
| Start 23: external_ringtest::neuron_mpi | |
| 19/93 Test #22: external_ringtest::neuron .......................................... Passed 8.05 sec | |
| Start 24: external_ringtest::coreneuron_cpu_mpi | |
| 20/93 Test #21: coreneuron_modtests::spikes_mpi_file_mode_py ....................... Passed 11.78 sec | |
| Start 26: external_ringtest::coreneuron_cpu_mpi_offline::preparation | |
| 21/93 Test #23: external_ringtest::neuron_mpi ...................................... Passed 9.62 sec | |
| Start 27: external_ringtest::coreneuron_cpu_mpi_threads | |
| 22/93 Test #24: external_ringtest::coreneuron_cpu_mpi .............................. Passed 9.53 sec | |
| Start 29: testcorenrn_bbcore::neuron | |
| Start 30: testcorenrn_bbcore::coreneuron_cpu_online | |
| 23/93 Test #26: external_ringtest::coreneuron_cpu_mpi_offline::preparation ......... Passed 11.39 sec | |
| Start 25: external_ringtest::coreneuron_cpu_mpi_offline | |
| 24/93 Test #25: external_ringtest::coreneuron_cpu_mpi_offline ...................... Passed 7.91 sec | |
| Start 31: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate | |
| Start 33: testcorenrn_bbcore::coreneuron_cpu_offline::preparation | |
| 25/93 Test #27: external_ringtest::coreneuron_cpu_mpi_threads ...................... Passed 15.08 sec | |
| 26/93 Test #29: testcorenrn_bbcore::neuron ......................................... Passed 11.66 sec | |
| Start 28: external_ringtest::compare_results | |
| Start 35: testcorenrn_deriv::neuron | |
| Start 36: testcorenrn_deriv::coreneuron_cpu_online | |
| 27/93 Test #30: testcorenrn_bbcore::coreneuron_cpu_online .......................... Passed 11.79 sec | |
| Start 37: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate | |
| 28/93 Test #28: external_ringtest::compare_results ................................. Passed 1.22 sec | |
| Start 39: testcorenrn_deriv::coreneuron_cpu_offline::preparation | |
| 29/93 Test #33: testcorenrn_bbcore::coreneuron_cpu_offline::preparation ............ Passed 3.54 sec | |
| Start 32: testcorenrn_bbcore::coreneuron_cpu_offline | |
| 30/93 Test #35: testcorenrn_deriv::neuron .......................................... Passed 4.73 sec | |
| 31/93 Test #31: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate ......... Passed 5.25 sec | |
| Start 41: testcorenrn_gf::neuron | |
| 32/93 Test #36: testcorenrn_deriv::coreneuron_cpu_online ........................... Passed 5.22 sec | |
| 33/93 Test #37: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate .......... Passed 5.22 sec | |
| Start 42: testcorenrn_gf::coreneuron_cpu_online | |
| 34/93 Test #39: testcorenrn_deriv::coreneuron_cpu_offline::preparation ............. Passed 4.91 sec | |
| Start 38: testcorenrn_deriv::coreneuron_cpu_offline | |
| 35/93 Test #32: testcorenrn_bbcore::coreneuron_cpu_offline ......................... Passed 3.41 sec | |
| Start 34: testcorenrn_bbcore::compare_results | |
| 36/93 Test #34: testcorenrn_bbcore::compare_results ................................ Passed 2.41 sec | |
| 37/93 Test #41: testcorenrn_gf::neuron ............................................. Passed 6.31 sec | |
| 38/93 Test #38: testcorenrn_deriv::coreneuron_cpu_offline .......................... Passed 4.61 sec | |
| Start 40: testcorenrn_deriv::compare_results | |
| Start 43: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate | |
| 39/93 Test #40: testcorenrn_deriv::compare_results ................................. Passed 1.02 sec | |
| Start 45: testcorenrn_gf::coreneuron_cpu_offline::preparation | |
| 40/93 Test #42: testcorenrn_gf::coreneuron_cpu_online .............................. Passed 10.36 sec | |
| Start 47: testcorenrn_patstim::neuron | |
| 41/93 Test #45: testcorenrn_gf::coreneuron_cpu_offline::preparation ................ Passed 6.02 sec | |
| Start 44: testcorenrn_gf::coreneuron_cpu_offline | |
| 42/93 Test #43: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate ............. Passed 10.39 sec | |
| Start 49: testcorenrn_patstim::coreneuron_cpu_offline::preparation | |
| 43/93 Test #47: testcorenrn_patstim::neuron ........................................ Passed 6.66 sec | |
| Start 51: testcorenrn_vecplay::neuron | |
| 44/93 Test #44: testcorenrn_gf::coreneuron_cpu_offline ............................. Passed 5.46 sec | |
| Start 46: testcorenrn_gf::compare_results | |
| 45/93 Test #46: testcorenrn_gf::compare_results .................................... Passed 1.47 sec | |
| Start 52: testcorenrn_vecplay::coreneuron_cpu_online | |
| 46/93 Test #49: testcorenrn_patstim::coreneuron_cpu_offline::preparation ........... Passed 5.37 sec | |
| Start 48: testcorenrn_patstim::coreneuron_cpu_offline | |
| 47/93 Test #51: testcorenrn_vecplay::neuron ........................................ Passed 5.99 sec | |
| Start 53: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate | |
| 48/93 Test #48: testcorenrn_patstim::coreneuron_cpu_offline ........................ Passed 3.91 sec | |
| Start 50: testcorenrn_patstim::compare_results | |
| 49/93 Test #50: testcorenrn_patstim::compare_results ............................... Passed 1.67 sec | |
| Start 55: testcorenrn_vecplay::coreneuron_cpu_offline::preparation | |
| 50/93 Test #52: testcorenrn_vecplay::coreneuron_cpu_online ......................... Passed 10.52 sec | |
| 51/93 Test #53: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate ........ Passed 13.21 sec | |
| Start 57: testcorenrn_vecevent::neuron | |
| 52/93 Test #55: testcorenrn_vecplay::coreneuron_cpu_offline::preparation ........... Passed 8.92 sec | |
| Start 54: testcorenrn_vecplay::coreneuron_cpu_offline | |
| 53/93 Test #54: testcorenrn_vecplay::coreneuron_cpu_offline ........................ Passed 3.21 sec | |
| Start 56: testcorenrn_vecplay::compare_results | |
| 54/93 Test #56: testcorenrn_vecplay::compare_results ............................... Passed 0.80 sec | |
| 55/93 Test #57: testcorenrn_vecevent::neuron ....................................... Passed 5.92 sec | |
| Start 58: testcorenrn_vecevent::coreneuron_cpu_online | |
| 56/93 Test #58: testcorenrn_vecevent::coreneuron_cpu_online ........................ Passed 9.01 sec | |
| Start 59: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate | |
| 57/93 Test #59: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate ....... Passed 9.71 sec | |
| Start 61: testcorenrn_vecevent::coreneuron_cpu_offline::preparation | |
| Start 63: testcorenrn_watch::neuron | |
| 58/93 Test #63: testcorenrn_watch::neuron .......................................... Passed 3.73 sec | |
| 59/93 Test #61: testcorenrn_vecevent::coreneuron_cpu_offline::preparation .......... Passed 5.74 sec | |
| Start 60: testcorenrn_vecevent::coreneuron_cpu_offline | |
| Start 64: testcorenrn_watch::coreneuron_cpu_online | |
| 60/93 Test #60: testcorenrn_vecevent::coreneuron_cpu_offline ....................... Passed 3.21 sec | |
| Start 62: testcorenrn_vecevent::compare_results | |
| Start 65: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate | |
| 61/93 Test #62: testcorenrn_vecevent::compare_results .............................. Passed 1.01 sec | |
| Start 67: testcorenrn_watch::coreneuron_cpu_offline::preparation | |
| 62/93 Test #64: testcorenrn_watch::coreneuron_cpu_online ........................... Passed 8.13 sec | |
| Start 69: testcorenrn_conc::neuron | |
| Start 70: testcorenrn_conc::coreneuron_cpu_online | |
| 63/93 Test #67: testcorenrn_watch::coreneuron_cpu_offline::preparation ............. Passed 5.35 sec | |
| Start 66: testcorenrn_watch::coreneuron_cpu_offline | |
| 64/93 Test #65: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate .......... Passed 10.57 sec | |
| Start 71: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate | |
| Start 73: testcorenrn_conc::coreneuron_cpu_offline::preparation | |
| 65/93 Test #69: testcorenrn_conc::neuron ........................................... Passed 5.85 sec | |
| Start 75: testcorenrn_kin::neuron | |
| 66/93 Test #66: testcorenrn_watch::coreneuron_cpu_offline .......................... Passed 4.23 sec | |
| Start 68: testcorenrn_watch::compare_results | |
| Start 76: testcorenrn_kin::coreneuron_cpu_online | |
| 67/93 Test #70: testcorenrn_conc::coreneuron_cpu_online ............................ Passed 7.55 sec | |
| Start 77: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate | |
| 68/93 Test #68: testcorenrn_watch::compare_results ................................. Passed 0.93 sec | |
| Start 79: testcorenrn_kin::coreneuron_cpu_offline::preparation | |
| 69/93 Test #73: testcorenrn_conc::coreneuron_cpu_offline::preparation .............. Passed 3.45 sec | |
| 70/93 Test #71: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate ........... Passed 3.65 sec | |
| Start 72: testcorenrn_conc::coreneuron_cpu_offline | |
| 71/93 Test #75: testcorenrn_kin::neuron ............................................ Passed 3.85 sec | |
| Start 81: testcorenrn_netstimdirect::direct_netstimdirect | |
| 72/93 Test #79: testcorenrn_kin::coreneuron_cpu_offline::preparation ............... Passed 5.92 sec | |
| Start 78: testcorenrn_kin::coreneuron_cpu_offline | |
| 73/93 Test #72: testcorenrn_conc::coreneuron_cpu_offline ........................... Passed 5.61 sec | |
| Start 74: testcorenrn_conc::compare_results | |
| 74/93 Test #74: testcorenrn_conc::compare_results .................................. Passed 1.00 sec | |
| 75/93 Test #76: testcorenrn_kin::coreneuron_cpu_online ............................. Passed 15.27 sec | |
| Start 82: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate | |
| 76/93 Test #78: testcorenrn_kin::coreneuron_cpu_offline ............................ Passed 7.94 sec | |
| Start 84: channel_benchmark_hippo::neuron | |
| 77/93 Test #77: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate ............ Passed 30.13 sec | |
| Start 80: testcorenrn_kin::compare_results | |
| 78/93 Test #80: testcorenrn_kin::compare_results ................................... Passed 2.40 sec | |
| Start 85: channel_benchmark_hippo::coreneuron_cpu | |
| 79/93 Test #81: testcorenrn_netstimdirect::direct_netstimdirect .................... Passed 31.15 sec | |
| Start 87: channel_benchmark_hippo::coreneuron_cpu_offline::preparation | |
| Start 89: channel_benchmark_sscx::neuron | |
| 80/93 Test #82: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate ... Passed 19.84 sec | |
| Start 83: testcorenrn_netstimdirect::compare_results | |
| Start 90: channel_benchmark_sscx::coreneuron_cpu | |
| 81/93 Test #83: testcorenrn_netstimdirect::compare_results ......................... Passed 0.81 sec | |
| Start 92: channel_benchmark_sscx::coreneuron_cpu_offline::preparation | |
| 82/93 Test #84: channel_benchmark_hippo::neuron .................................... Passed 49.77 sec | |
| 83/93 Test #90: channel_benchmark_sscx::coreneuron_cpu ............................. Passed 118.96 sec | |
| 84/93 Test #92: channel_benchmark_sscx::coreneuron_cpu_offline::preparation ........ Passed 119.50 sec | |
| 85/93 Test #87: channel_benchmark_hippo::coreneuron_cpu_offline::preparation ....... Passed 121.64 sec | |
| 86/93 Test #89: channel_benchmark_sscx::neuron ..................................... Passed 121.64 sec | |
| 87/93 Test #85: channel_benchmark_hippo::coreneuron_cpu ............................ Passed 122.77 sec | |
| Start 86: channel_benchmark_hippo::coreneuron_cpu_offline | |
| Start 91: channel_benchmark_sscx::coreneuron_cpu_offline | |
| 88/93 Test #91: channel_benchmark_sscx::coreneuron_cpu_offline ..................... Passed 10.61 sec | |
| Start 93: channel_benchmark_sscx::compare_results | |
| 89/93 Test #86: channel_benchmark_hippo::coreneuron_cpu_offline .................... Passed 10.82 sec | |
| Start 88: channel_benchmark_hippo::compare_results | |
| 90/93 Test #93: channel_benchmark_sscx::compare_results ............................ Passed 1.01 sec | |
| 91/93 Test #88: channel_benchmark_hippo::compare_results ........................... Passed 1.10 sec | |
| 92/93 Test #6: rxdmod_tests::rxd_mpi_tests ........................................ Passed 414.40 sec | |
| 93/93 Test #5: rxdmod_tests::rxd_tests ............................................ Passed 414.59 sec | |
| 100% tests passed, 0 tests failed out of 93 | |
| Total Test time (real) = 414.66 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:1632930116:step_script [0Ksection_start:1632930116: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=251940 revision[0;m=7a6612da version[0;m=13.12.0 | |
| 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=64147 responseStatus[0;m=201 Created token[0;m=Gzf9NVjJ | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=251989 revision[0;m=7a6612da version[0;m=13.12.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=64147 responseStatus[0;m=201 Created token[0;m=Gzf9NVjJ | |
| section_end:1632930119:upload_artifacts_on_success [0Ksection_start:1632930119:cleanup_file_variables [0K[0K[36;1mCleaning up file based variables[0;m | |
| [0;msection_end:1632930119:cleanup_file_variables [0K[32;1mJob succeeded | |
| [0;m |
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