Created
October 13, 2021 17:57
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Logfiles for GitLab pipeline https://bbpgitlab.epfl.ch/hpc/coreneuron/-/pipelines/19854 (:no_entry:) running on GitHub PR BlueBrain/CoreNeuron#634.
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634141705:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634141705:resolve_secrets [0Ksection_start:1634141705:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor413853823, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72582 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72582_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 2780594 | |
| job state: R | |
| section_end:1634141758:prepare_executor [0Ksection_start:1634141758:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634141760:prepare_script [0Ksection_start:1634141760: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:1634141760:get_sources [0Ksection_start:1634141760: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=274436 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1634141769:restore_cache [0Ksection_start:1634141769:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for spack_setup (72576)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=274500 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72576 responseStatus[0;m=200 OK token[0;m=wznhyWZn | |
| section_end:1634141770:download_artifacts [0Ksection_start:1634141770: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/P19854/72582/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72582/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72582/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72582/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72582/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = [email protected]:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = [email protected]: | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for coreneuron is commit="7187ac5842413a6e4f050105d40e1f35bad3fac2" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/coreneuron/package.py b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| index f138183..24a1854 100644 | |
| --- a/var/spack/repos/builtin/packages/coreneuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| @@ -18,7 +18,7 @@ class Coreneuron(CMakePackage): | |
| url = "https://github.com/BlueBrain/CoreNeuron" | |
| git = "https://github.com/BlueBrain/CoreNeuron" | |
| - version('develop', branch='master') | |
| + version('develop', commit="7187ac5842413a6e4f050105d40e1f35bad3fac2") | |
| # 1.0.1 > 1.0.0.20210519 > 1.0 as far as Spack is concerned | |
| version('1.0.0.20211012', commit='846b3a6') | |
| version('1.0.0.20210708', commit='d54a3aa') | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72582/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72582/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:16:21 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.31 / 0.51 (60.03 %) | |
| Files: 12534 | |
| [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%[email protected]~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 ^[email protected]%[email protected] patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| [^] qu3qasv ^[email protected]%[email protected]+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 ^[email protected]%[email protected]~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [^] 4phgvnp ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - prwvb2t ^[email protected]%[email protected]+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] jop6mvp ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - mddtpd5 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] v5gxu5s ^[email protected]%[email protected]+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 | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/coreneuron-develop-ekzdtg | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72582/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72582/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:22:26 2021 | |
| Hits: 35 / 117 (29.91 %) | |
| Direct: 19 / 117 (16.24 %) | |
| Preprocessed: 16 / 98 (16.33 %) | |
| Misses: 82 | |
| Direct: 98 | |
| Preprocessed: 82 | |
| Uncacheable: 18 | |
| Primary storage: | |
| Hits: 143 / 234 (61.11 %) | |
| Misses: 91 | |
| Cache size (GB): 0.31 / 0.51 (61.46 %) | |
| Files: 12624 | |
| Uncacheable: | |
| Called for linking: 15 | |
| No input file: 3 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.22.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:1634142147:step_script [0Ksection_start:1634142147: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=290683 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 13185 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:1634142171:archive_cache [0Ksection_start:1634142171: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=290915 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72582 responseStatus[0;m=201 Created token[0;m=v7ZQqUy3 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=290936 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72582 responseStatus[0;m=201 Created token[0;m=v7ZQqUy3 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=290959 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=72582 responseStatus[0;m=201 Created token[0;m=v7ZQqUy3 | |
| section_end:1634142173:upload_artifacts_on_success [0Ksection_start:1634142173:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634142173:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634141545:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634141545:resolve_secrets [0Ksection_start:1634141545:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor360239805, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72580 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72580_PROD_P112_CP2_C9 | |
| 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 2780563 | |
| job state: R | |
| section_end:1634141567:prepare_executor [0Ksection_start:1634141567:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634141569:prepare_script [0Ksection_start:1634141569: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:1634141569:get_sources [0Ksection_start:1634141569: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=267238 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1634141577:restore_cache [0Ksection_start:1634141577:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for spack_setup (72576)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=267462 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72576 responseStatus[0;m=200 OK token[0;m=wznhyWZn | |
| section_end:1634141578:download_artifacts [0Ksection_start:1634141578: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/P19854/72580/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72580/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72580/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72580/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72580/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = [email protected]:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = [email protected]: | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for coreneuron is commit="7187ac5842413a6e4f050105d40e1f35bad3fac2" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/coreneuron/package.py b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| index f138183..24a1854 100644 | |
| --- a/var/spack/repos/builtin/packages/coreneuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| @@ -18,7 +18,7 @@ class Coreneuron(CMakePackage): | |
| url = "https://github.com/BlueBrain/CoreNeuron" | |
| git = "https://github.com/BlueBrain/CoreNeuron" | |
| - version('develop', branch='master') | |
| + version('develop', commit="7187ac5842413a6e4f050105d40e1f35bad3fac2") | |
| # 1.0.1 > 1.0.0.20210519 > 1.0 as far as Spack is concerned | |
| version('1.0.0.20211012', commit='846b3a6') | |
| version('1.0.0.20210708', commit='d54a3aa') | |
| [32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be amiea4vkblpwhetoty6thfkfrdug4p64 | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72580/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72580/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:13:11 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.35 / 0.51 (68.24 %) | |
| Files: 6697 | |
| [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: 'amiea4vkblpwhetoty6thfkfrdug4p64' | |
| [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 | |
| -------------------------------- | |
| - amiea4v coreneuron@develop%[email protected]~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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] pvpzjkl ^[email protected]%[email protected]+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 ^[email protected]%[email protected]~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| - 5mabxtb ^[email protected]%[email protected]+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] qagbv7u ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] kjhqfqv ^[email protected]%[email protected]~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] 2yojmmk ^[email protected]%[email protected]+cxx~debug~fortran+hl~java+mpi+pic+shared~szip~threadsafe api=none arch=linux-rhel7-x86_64 | |
| [^] wjshhip ^[email protected]%[email protected]+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] gwht6mm ^[email protected]%[email protected]~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - nayogh4 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] icfhbit ^[email protected]%[email protected]+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 ^[email protected]%[email protected]~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 | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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-1.0.0.20211007-kjhqfq | |
| ==> Installing coreneuron-develop-amiea4vkblpwhetoty6thfkfrdug4p64 | |
| ==> No binary for coreneuron-develop-amiea4vkblpwhetoty6thfkfrdug4p64 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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4 | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72580/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72580/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:15:53 2021 | |
| Hits: 29 / 117 (24.79 %) | |
| Direct: 13 / 118 (11.02 %) | |
| Preprocessed: 16 / 105 (15.24 %) | |
| Misses: 88 | |
| Direct: 105 | |
| Preprocessed: 89 | |
| Uncacheable: 20 | |
| Primary storage: | |
| Hits: 131 / 236 (55.51 %) | |
| Misses: 105 | |
| Cache size (GB): 0.37 / 0.51 (71.74 %) | |
| Files: 6799 | |
| Uncacheable: | |
| Called for linking: 16 | |
| Compiler produced no output: 1 | |
| No input file: 3 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.22.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:1634141754:step_script [0Ksection_start:1634141754: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=274281 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 7360 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:1634141775:archive_cache [0Ksection_start:1634141775: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=274992 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72580 responseStatus[0;m=201 Created token[0;m=rycJUKMP | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=275015 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72580 responseStatus[0;m=201 Created token[0;m=rycJUKMP | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=275038 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=72580 responseStatus[0;m=201 Created token[0;m=rycJUKMP | |
| section_end:1634141776:upload_artifacts_on_success [0Ksection_start:1634141776:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634141776:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634141777:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634141777:resolve_secrets [0Ksection_start:1634141777:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor915683793, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72581 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72581_PROD_P112_CP2_C9 | |
| 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 2780606 | |
| job state: PD | |
| job state: PD | |
| job state: R | |
| section_end:1634141827:prepare_executor [0Ksection_start:1634141827:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634141829:prepare_script [0Ksection_start:1634141829: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:1634141829:get_sources [0Ksection_start:1634141829: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=276352 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1634141840:restore_cache [0Ksection_start:1634141840:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:nmodl:gpu (72578)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=277228 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72578 responseStatus[0;m=200 OK token[0;m=TovGZrK8 | |
| section_end:1634141841:download_artifacts [0Ksection_start:1634141841: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/P19854/72581/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72581/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72581/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72581/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72581/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = [email protected]:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = [email protected]: | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for coreneuron is commit="7187ac5842413a6e4f050105d40e1f35bad3fac2" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/coreneuron/package.py b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| index f138183..24a1854 100644 | |
| --- a/var/spack/repos/builtin/packages/coreneuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| @@ -18,7 +18,7 @@ class Coreneuron(CMakePackage): | |
| url = "https://github.com/BlueBrain/CoreNeuron" | |
| git = "https://github.com/BlueBrain/CoreNeuron" | |
| - version('develop', branch='master') | |
| + version('develop', commit="7187ac5842413a6e4f050105d40e1f35bad3fac2") | |
| # 1.0.1 > 1.0.0.20210519 > 1.0 as far as Spack is concerned | |
| version('1.0.0.20211012', commit='846b3a6') | |
| version('1.0.0.20210708', commit='d54a3aa') | |
| [32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install coreneuron@develop%nvhpc+nmodl+gpu+tests~legacy-unit~report build_type=RelWithDebInfo ^/awi7vrm4eaiuzdafhedebwthgzxznx4j | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72581/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72581/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:17:31 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.31 / 0.51 (60.03 %) | |
| Files: 12534 | |
| [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 | |
| [+] ^nmodl@develop%[email protected]~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]+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 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected]+libyaml arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| Concretized | |
| -------------------------------- | |
| - aoe2ga6 coreneuron@develop%[email protected]~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 ^[email protected]%[email protected] patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| [^] qu3qasv ^[email protected]%[email protected]+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 ^[email protected]%[email protected]~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [^] 4phgvnp ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - prwvb2t ^[email protected]%[email protected]+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] jop6mvp ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - mddtpd5 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] awi7vrm ^nmodl@develop%[email protected]~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] afnqqnp ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] xpep3yw ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ujf2qes ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] v5gxu5s ^[email protected]%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] 5pew2nu ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 6leiazm ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 373m5vr ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] hgzmzzz ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 2p3niph ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 444mrrp ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ux4mwzh ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] tbbefeg ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] qywkw4y ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] rdab26o ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] dszppxf ^[email protected]%[email protected]+libyaml arch=linux-rhel7-x86_64 | |
| [^] ggibzjm ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] lhwntcl ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] l3syz4z ^[email protected]%[email protected] 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 | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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-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/P19854/72576/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/P19854/72576/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-pluggy-0.13.0-tbbefe | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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-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/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/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/P19854/72576/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/P19854/72576/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/P19854/72576/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/P19854/72576/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/P19854/72576/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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/coreneuron-develop-aoe2ga | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72581/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72581/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:25:07 2021 | |
| Hits: 15 / 95 (15.79 %) | |
| Direct: 1 / 95 (1.05 %) | |
| Preprocessed: 14 / 94 (14.89 %) | |
| Misses: 80 | |
| Direct: 94 | |
| Preprocessed: 80 | |
| Uncacheable: 15 | |
| Primary storage: | |
| Hits: 16 / 190 (8.42 %) | |
| Misses: 174 | |
| Cache size (GB): 0.32 / 0.51 (61.69 %) | |
| Files: 12707 | |
| Uncacheable: | |
| Called for linking: 12 | |
| No input file: 3 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.22.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:1634142308:step_script [0Ksection_start:1634142308: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=295081 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 13268 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:1634142327:archive_cache [0Ksection_start:1634142327: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=295557 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72581 responseStatus[0;m=201 Created token[0;m=JavNznfA | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=295586 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72581 responseStatus[0;m=201 Created token[0;m=JavNznfA | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=295616 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=72581 responseStatus[0;m=201 Created token[0;m=JavNznfA | |
| section_end:1634142328:upload_artifacts_on_success [0Ksection_start:1634142328:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634142328:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634141860:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634141860:resolve_secrets [0Ksection_start:1634141860:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor865340219, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72579 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72579_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 2780608 | |
| job state: R | |
| section_end:1634141890:prepare_executor [0Ksection_start:1634141890:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634141892:prepare_script [0Ksection_start:1634141892: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:1634141893:get_sources [0Ksection_start:1634141893: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=280091 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| 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:1634141902:restore_cache [0Ksection_start:1634141902:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:nmodl:intel (72577)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=280485 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72577 responseStatus[0;m=200 OK token[0;m=JvBYxAgf | |
| section_end:1634141903:download_artifacts [0Ksection_start:1634141903: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/P19854/72579/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72579/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72579/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72579/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72579/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = [email protected]:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = [email protected]: | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for coreneuron is commit="7187ac5842413a6e4f050105d40e1f35bad3fac2" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| diff --git a/var/spack/repos/builtin/packages/coreneuron/package.py b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| index f138183..24a1854 100644 | |
| --- a/var/spack/repos/builtin/packages/coreneuron/package.py | |
| +++ b/var/spack/repos/builtin/packages/coreneuron/package.py | |
| @@ -18,7 +18,7 @@ class Coreneuron(CMakePackage): | |
| url = "https://github.com/BlueBrain/CoreNeuron" | |
| git = "https://github.com/BlueBrain/CoreNeuron" | |
| - version('develop', branch='master') | |
| + version('develop', commit="7187ac5842413a6e4f050105d40e1f35bad3fac2") | |
| # 1.0.1 > 1.0.0.20210519 > 1.0 as far as Spack is concerned | |
| version('1.0.0.20211012', commit='846b3a6') | |
| version('1.0.0.20210708', commit='d54a3aa') | |
| [32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be fbjlykb4ys6kgbq2z2zyrw6ufddzw3ts | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72579/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72579/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:18:37 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.37 / 0.51 (71.74 %) | |
| Files: 6799 | |
| [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: 'fbjlykb4ys6kgbq2z2zyrw6ufddzw3ts' | |
| [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%[email protected]~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]+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 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]+libyaml arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| Concretized | |
| -------------------------------- | |
| - fbjlykb coreneuron@develop%[email protected]~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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] pvpzjkl ^[email protected]%[email protected]+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 ^[email protected]%[email protected]~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| - 5mabxtb ^[email protected]%[email protected]+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] qagbv7u ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] kjhqfqv ^[email protected]%[email protected]~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] 2yojmmk ^[email protected]%[email protected]+cxx~debug~fortran+hl~java+mpi+pic+shared~szip~threadsafe api=none arch=linux-rhel7-x86_64 | |
| [^] wjshhip ^[email protected]%[email protected]+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] gwht6mm ^[email protected]%[email protected]~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - nayogh4 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] lqyttqy ^nmodl@develop%[email protected]~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ubiktsv ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] yrbfda2 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] oe2c27i ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] icfhbit ^[email protected]%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] oe2hrft ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] jo63uk3 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] kcyedyh ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] mikhjgq ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] hziuwhj ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] vpsqgcg ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] xgnwei3 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] gc3zsis ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] 557icag ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] za7jmvs ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] chpzzlm ^[email protected]%[email protected]+libyaml arch=linux-rhel7-x86_64 | |
| [^] 4237mpr ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] runxrmn ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] d6t5uhn ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] zas5d2a ^[email protected]%[email protected]~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 | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-attrs-20.3.0-kcyedy | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72576/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-pytz-2020.1-oe2c27 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-six-1.16.0-xgnwei | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-markupsafe-1.1.1-oe2hrf | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pyparsing-2.4.2-vpsqgc | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-setuptools-50.3.2-xfgkmk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pyyaml-5.3.1-chpzzl | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libsonata-report-1.0.0.20211007-kjhqfq | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72576/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/P19854/72576/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/P19854/72576/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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/nmodl-develop-lqyttq | |
| ==> Installing coreneuron-develop-fbjlykb4ys6kgbq2z2zyrw6ufddzw3ts | |
| ==> No binary for coreneuron-develop-fbjlykb4ys6kgbq2z2zyrw6ufddzw3ts 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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72579/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72579/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:21:50 2021 | |
| Hits: 81 / 95 (85.26 %) | |
| Direct: 0 / 96 (0.00 %) | |
| Preprocessed: 81 / 96 (84.38 %) | |
| Misses: 14 | |
| Direct: 96 | |
| Preprocessed: 15 | |
| Uncacheable: 17 | |
| Primary storage: | |
| Hits: 81 / 192 (42.19 %) | |
| Misses: 111 | |
| Cache size (GB): 0.37 / 0.51 (72.33 %) | |
| Files: 6908 | |
| Uncacheable: | |
| Called for linking: 13 | |
| Compiler produced no output: 1 | |
| No input file: 3 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.22.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:1634142111:step_script [0Ksection_start:1634142111: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=289238 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 7469 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:1634142129:archive_cache [0Ksection_start:1634142129: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=289627 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72579 responseStatus[0;m=201 Created token[0;m=RFnsF-a5 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=289652 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72579 responseStatus[0;m=201 Created token[0;m=RFnsF-a5 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=289680 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=72579 responseStatus[0;m=201 Created token[0;m=RFnsF-a5 | |
| section_end:1634142130:upload_artifacts_on_success [0Ksection_start:1634142130:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634142131:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634142772:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634142772:resolve_secrets [0Ksection_start:1634142772:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor299977374, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72590 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72590_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 2780819 | |
| job state: R | |
| section_end:1634142883:prepare_executor [0Ksection_start:1634142883:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634142885:prepare_script [0Ksection_start:1634142885: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:1634142887:get_sources [0Ksection_start:1634142887: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=12585 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1634142939:restore_cache [0Ksection_start:1634142939:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:gpu (72582)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=13440 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72582 responseStatus[0;m=200 OK token[0;m=v7ZQqUy3 | |
| section_end:1634142940:download_artifacts [0Ksection_start:1634142940: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/P19854/72590/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72590/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72590/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72590/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72590/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = [email protected]:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = [email protected]: | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for neuron is branch="master" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72590/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72590/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:35:59 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.51 / 0.51 (99.46 %) | |
| Files: 73138 | |
| [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%[email protected]~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 | |
| [^] ^[email protected]%[email protected]+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 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - ^py-cython%gcc | |
| - ^py-numpy%gcc | |
| Concretized | |
| -------------------------------- | |
| - qdta367 neuron@develop%[email protected]+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 ^[email protected]%[email protected] patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| - gluy7kg ^[email protected]%[email protected]~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [+] ekzdtgq ^coreneuron@develop%[email protected]~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 ^[email protected]%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] jop6mvp ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - prwvb2t ^[email protected]%[email protected]+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] 5lqiecm ^[email protected]%[email protected]+bzip2+curses+git~libunistring+libxml2+tar+xz patches=6e530daaae14725d578d6cafbf7d523accc9ed29fd817bd421cf98a5f51e9e1b,bbe9f0539aa504966ac104224d25a9260faa1015ed3adda936467be9c7de4eae,fb27a3fb5e414bdc50ffebbbe2da986473df70a493caa4396226f51a67c55424 arch=linux-rhel7-x86_64 | |
| [^] id52ywi ^[email protected]%[email protected]+shared arch=linux-rhel7-x86_64 | |
| [^] o2ibs4c ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] hbvd5d6 ^[email protected]%[email protected]~python patches=05ff238cf435825ef835c7ae39376b52dc83d8caf19e962f0766c841386a305a,10a88ad47f9797cf7cf2d7d07241f665a3b6d1f31fa026728c8c2ae93e1664e9 arch=linux-rhel7-x86_64 | |
| [^] nfl4mod ^[email protected]%[email protected] patches=6e94c68d45d4cb8148c8c53699921d10b13784f758f0563ce64c838e0ca48ceb arch=linux-rhel7-x86_64 | |
| [^] qd22znx ^[email protected]%[email protected]~pic arch=linux-rhel7-x86_64 | |
| [^] riwuxjc ^[email protected]%[email protected]+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] ijdcmaa ^[email protected]%[email protected]~symlinks+termlib arch=linux-rhel7-x86_64 | |
| [^] tvukhb5 ^[email protected]%[email protected] patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,4e8cdf69294c376c45c39d059f11769c5c996c2d84cdfb56eb69890e0aa4e991,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-x86_64 | |
| - mddtpd5 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] eg6a4hu ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] rsay7hd ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] v5gxu5s ^[email protected]%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ottdmb2 ^[email protected]%[email protected]+blas+lapack arch=linux-rhel7-x86_64 | |
| [^] syahjjg ^[email protected]%[email protected]~ilp64+shared threads=none arch=linux-rhel7-x86_64 | |
| [^] 6leiazm ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 373m5vr ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] hgzmzzz ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 2p3niph ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 444mrrp ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ux4mwzh ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] tbbefeg ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] zbwtznm ^[email protected]%[email protected]+toml arch=linux-rhel7-x86_64 | |
| [^] k3yba4y ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] qywkw4y ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] rdab26o ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] d32wle3 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 2j2zh6h ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] pmg6zft ^[email protected]%[email protected] 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 | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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/P19854/72576/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/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-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-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-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/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-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-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-packaging-19.2-2p3nip | |
| [+] /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-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-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-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' | |
| Session terminated, killing shell... ...killed. | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780819.4 ON r2i2n34 CANCELLED AT 2021-10-13T19:35:06 DUE TO TIME LIMIT *** | |
| srun: error: r2i2n34: task 0: Terminated | |
| section_end:1634146507:step_script [0K[31;1mERROR: Job failed: execution took longer than 1h0m0s seconds | |
| [0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634142131:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634142131:resolve_secrets [0Ksection_start:1634142131:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor945019245, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72588 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72588_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 2780694 | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: R | |
| section_end:1634142195:prepare_executor [0Ksection_start:1634142195:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634142196:prepare_script [0Ksection_start:1634142196: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:1634142196:get_sources [0Ksection_start:1634142196: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=291291 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| 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:1634142257:restore_cache [0Ksection_start:1634142257:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:intel (72580)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=293839 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72580 responseStatus[0;m=200 OK token[0;m=rycJUKMP | |
| section_end:1634142258:download_artifacts [0Ksection_start:1634142258: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/P19854/72588/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72588/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = [email protected]:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = [email protected]: | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for neuron is branch="master" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| [32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron@develop%intel+coreneuron+debug+tests~legacy-unit ^/amiea4vkblpwhetoty6thfkfrdug4p64 | |
| [32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be l2cuclt2wvuiw4s54hywewweoywsqlpu | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72588/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72588/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:24:39 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.48 / 0.51 (93.76 %) | |
| Files: 70996 | |
| [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: 'l2cuclt2wvuiw4s54hywewweoywsqlpu' | |
| [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%[email protected]~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 | |
| [^] ^[email protected]%[email protected]+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 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]+cxx~debug~fortran+hl~java+mpi+pic+shared~szip~threadsafe api=none arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| Concretized | |
| -------------------------------- | |
| - l2cuclt neuron@develop%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - mxqypex ^[email protected]%[email protected]~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [+] amiea4v ^coreneuron@develop%[email protected]~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 ^[email protected]%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] kjhqfqv ^[email protected]%[email protected]~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] 2yojmmk ^[email protected]%[email protected]+cxx~debug~fortran+hl~java+mpi+pic+shared~szip~threadsafe api=none arch=linux-rhel7-x86_64 | |
| [^] wjshhip ^[email protected]%[email protected]+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] gwht6mm ^[email protected]%[email protected]~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] zas5d2a ^[email protected]%[email protected]~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - 5mabxtb ^[email protected]%[email protected]+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] 6vrzcuv ^[email protected]%[email protected]+bzip2+curses+git~libunistring+libxml2+tar+xz arch=linux-rhel7-x86_64 | |
| [^] 6zbb66a ^[email protected]%[email protected]+shared arch=linux-rhel7-x86_64 | |
| [^] qlmq4dv ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 6lr2umn ^[email protected]%[email protected]~python arch=linux-rhel7-x86_64 | |
| [^] 2qyzkdl ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] wzx3yy4 ^[email protected]%[email protected]~pic arch=linux-rhel7-x86_64 | |
| [^] nedfnju ^[email protected]%[email protected]~symlinks+termlib arch=linux-rhel7-x86_64 | |
| [^] d4pg4b2 ^[email protected]%[email protected] patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-x86_64 | |
| - nayogh4 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] i3t5fut ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] xfgkmkd ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] icfhbit ^[email protected]%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] l643i7a ^[email protected]%[email protected]+blas+lapack arch=linux-rhel7-x86_64 | |
| [^] nnxc4wm ^[email protected]%[email protected]~ilp64+shared threads=none arch=linux-rhel7-x86_64 | |
| [+] jo63uk3 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] kcyedyh ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] mikhjgq ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] hziuwhj ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] vpsqgcg ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] xgnwei3 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] gc3zsis ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ze65gmo ^[email protected]%[email protected]+toml arch=linux-rhel7-x86_64 | |
| [^] p553wsa ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] 557icag ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] za7jmvs ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - zniig3b ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - 2v5wfwa ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] kej56sd ^[email protected]%[email protected] 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 | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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 | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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-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/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/libsonata-report-1.0.0.20211007-kjhqfq | |
| [+] /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/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-attrs-20.3.0-kcyedy | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-cython-0.29.21-i3t5fu | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-more-itertools-8.7.0-mikhjg | |
| ==> Installing py-coverage-5.3-2v5wfwapuwn63xqjymkn5jpew7mdm6uk | |
| ==> No binary for py-coverage-5.3-2v5wfwapuwn63xqjymkn5jpew7mdm6uk found: installing from source | |
| ==> Warning: Missing a source id for neuron@develop | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/28/280baa8ec489c4f542f8940f9c4c2181f0306a8ee1a54eceba071a449fb870a0.tar.gz | |
| ==> py-coverage: Executing phase: 'build' | |
| ==> py-coverage: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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-toml-0.10.0-p553ws | |
| [+] /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/P19854/72576/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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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-numpy-1.19.4-l643i7 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-setuptools-scm-4.1.2-ze65gm | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk | |
| ==> Installing py-pytest-cov-2.8.1-zniig3b6klz2ibslrfa3digiozwp46fe | |
| ==> No binary for py-pytest-cov-2.8.1-zniig3b6klz2ibslrfa3digiozwp46fe found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/cc/cc6742d8bac45070217169f5f72ceee1e0e55b0221f54bcf24845972d3a47f2b.tar.gz | |
| ==> py-pytest-cov: Executing phase: 'build' | |
| ==> py-pytest-cov: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-cov-2.8.1-zniig3 | |
| ==> Installing neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu | |
| ==> No binary for neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu 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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/neuron-develop-l2cucl | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72588/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72588/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:31:42 2021 | |
| Hits: 447 / 758 (58.97 %) | |
| Direct: 10 / 767 (1.30 %) | |
| Preprocessed: 437 / 751 (58.19 %) | |
| Misses: 311 | |
| Direct: 757 | |
| Preprocessed: 314 | |
| Uncacheable: 133 | |
| Primary storage: | |
| Hits: 471 / 1528 (30.82 %) | |
| Misses: 1057 | |
| Cache size (GB): 0.49 / 0.51 (94.80 %) | |
| Files: 70484 | |
| Cleanups: 10 | |
| Uncacheable: | |
| Autoconf compile/link: 7 | |
| Called for linking: 110 | |
| Called for preprocessing: 1 | |
| Compilation failed: 3 | |
| No input file: 6 | |
| Preprocessing failed: 6 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.22.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:1634142706:step_script [0Ksection_start:1634142706: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=5923 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 71045 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:1634142769:archive_cache [0Ksection_start:1634142769: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=7730 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72588 responseStatus[0;m=201 Created token[0;m=tJxPzVuY | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=7759 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72588 responseStatus[0;m=201 Created token[0;m=tJxPzVuY | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=7786 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=72588 responseStatus[0;m=201 Created token[0;m=tJxPzVuY | |
| section_end:1634142771:upload_artifacts_on_success [0Ksection_start:1634142771:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634142772:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634142527:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634142527:resolve_secrets [0Ksection_start:1634142527:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor165075812, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72589 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72589_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 2780772 | |
| job state: PD | |
| job state: R | |
| section_end:1634142618:prepare_executor [0Ksection_start:1634142618:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634142619:prepare_script [0Ksection_start:1634142619: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:1634142620:get_sources [0Ksection_start:1634142620: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=2613 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| 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:1634142671:restore_cache [0Ksection_start:1634142671:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron+nmodl:gpu (72581)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=4784 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72581 responseStatus[0;m=200 OK token[0;m=JavNznfA | |
| section_end:1634142672:download_artifacts [0Ksection_start:1634142672: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/P19854/72589/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72589/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = [email protected]:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = [email protected]: | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for neuron is branch="master" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| [32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron@develop%nvhpc+coreneuron+debug+tests~legacy-unit ^/aoe2ga6salt5qv6vqlldt23jmmxeb6d5^py-cython%gcc^py-numpy%gcc | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72589/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72589/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:31:32 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.51 / 0.51 (99.46 %) | |
| Files: 73138 | |
| [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 | |
| [+] ^coreneuron@develop%[email protected]~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 | |
| [^] ^[email protected]%[email protected]+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 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^nmodl@develop%[email protected]~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]+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 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected]+libyaml arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - ^py-cython%gcc | |
| - ^py-numpy%gcc | |
| Concretized | |
| -------------------------------- | |
| - o6xo3er neuron@develop%[email protected]+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 ^[email protected]%[email protected] patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| - gluy7kg ^[email protected]%[email protected]~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [+] aoe2ga6 ^coreneuron@develop%[email protected]~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 ^[email protected]%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] jop6mvp ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] awi7vrm ^nmodl@develop%[email protected]~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] afnqqnp ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] xpep3yw ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ujf2qes ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] v5gxu5s ^[email protected]%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] 5pew2nu ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 6leiazm ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 373m5vr ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] hgzmzzz ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 2p3niph ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 444mrrp ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ux4mwzh ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] tbbefeg ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] qywkw4y ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] rdab26o ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] dszppxf ^[email protected]%[email protected]+libyaml arch=linux-rhel7-x86_64 | |
| [^] ggibzjm ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] lhwntcl ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] l3syz4z ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - prwvb2t ^[email protected]%[email protected]+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] 5lqiecm ^[email protected]%[email protected]+bzip2+curses+git~libunistring+libxml2+tar+xz patches=6e530daaae14725d578d6cafbf7d523accc9ed29fd817bd421cf98a5f51e9e1b,bbe9f0539aa504966ac104224d25a9260faa1015ed3adda936467be9c7de4eae,fb27a3fb5e414bdc50ffebbbe2da986473df70a493caa4396226f51a67c55424 arch=linux-rhel7-x86_64 | |
| [^] id52ywi ^[email protected]%[email protected]+shared arch=linux-rhel7-x86_64 | |
| [^] o2ibs4c ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] hbvd5d6 ^[email protected]%[email protected]~python patches=05ff238cf435825ef835c7ae39376b52dc83d8caf19e962f0766c841386a305a,10a88ad47f9797cf7cf2d7d07241f665a3b6d1f31fa026728c8c2ae93e1664e9 arch=linux-rhel7-x86_64 | |
| [^] nfl4mod ^[email protected]%[email protected] patches=6e94c68d45d4cb8148c8c53699921d10b13784f758f0563ce64c838e0ca48ceb arch=linux-rhel7-x86_64 | |
| [^] qd22znx ^[email protected]%[email protected]~pic arch=linux-rhel7-x86_64 | |
| [^] riwuxjc ^[email protected]%[email protected]+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] ijdcmaa ^[email protected]%[email protected]~symlinks+termlib arch=linux-rhel7-x86_64 | |
| [^] tvukhb5 ^[email protected]%[email protected] patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,4e8cdf69294c376c45c39d059f11769c5c996c2d84cdfb56eb69890e0aa4e991,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-x86_64 | |
| - mddtpd5 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] eg6a4hu ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] i4mwhdw ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ottdmb2 ^[email protected]%[email protected]+blas+lapack arch=linux-rhel7-x86_64 | |
| [^] syahjjg ^[email protected]%[email protected]~ilp64+shared threads=none arch=linux-rhel7-x86_64 | |
| [^] d32wle3 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 2j2zh6h ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] pmg6zft ^[email protected]%[email protected] 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 | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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 | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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-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/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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 | |
| ==> Warning: Missing a source id for nmodl@develop | |
| ==> Warning: Missing a source id for neuron@develop | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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-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-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-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-six-1.16.0-ux4mwz | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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-coverage-5.3-2j2zh6 | |
| [+] /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-mpi4py-3.0.3-i4mwhd | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/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/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/nmodl-develop-awi7vr | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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 | |
| ==> neuron: Executing phase: 'cmake' | |
| ==> neuron: Executing phase: 'build' | |
| ==> neuron: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/neuron-develop-o6xo3e | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72589/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72589/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 19:09:31 2021 | |
| Hits: 518 / 751 (68.97 %) | |
| Direct: 7 / 760 (0.92 %) | |
| Preprocessed: 511 / 747 (68.41 %) | |
| Misses: 233 | |
| Direct: 753 | |
| Preprocessed: 236 | |
| Uncacheable: 125 | |
| Primary storage: | |
| Hits: 527 / 1514 (34.81 %) | |
| Misses: 987 | |
| Cache size (GB): 0.51 / 0.51 (99.61 %) | |
| Files: 72312 | |
| Cleanups: 15 | |
| Uncacheable: | |
| Autoconf compile/link: 7 | |
| Called for linking: 102 | |
| Called for preprocessing: 1 | |
| Compilation failed: 3 | |
| No input file: 6 | |
| Preprocessing failed: 6 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.22.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:1634144991:step_script [0Ksection_start:1634144991: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=55709 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 72873 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:1634145078:archive_cache [0Ksection_start:1634145078: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=56149 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72589 responseStatus[0;m=201 Created token[0;m=ueJBbsEw | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=56171 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72589 responseStatus[0;m=201 Created token[0;m=ueJBbsEw | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=56195 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=72589 responseStatus[0;m=201 Created token[0;m=ueJBbsEw | |
| section_end:1634145080:upload_artifacts_on_success [0Ksection_start:1634145080:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634145080:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634142329:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634142329:resolve_secrets [0Ksection_start:1634142329:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor079249170, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72587 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72587_PROD_P112_CP2_C9 | |
| 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 2780715 | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: R | |
| section_end:1634142401:prepare_executor [0Ksection_start:1634142401:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634142403:prepare_script [0Ksection_start:1634142403: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:1634142403:get_sources [0Ksection_start:1634142403: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=298545 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1634142474:restore_cache [0Ksection_start:1634142474:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron+nmodl:intel (72579)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=301141 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72579 responseStatus[0;m=200 OK token[0;m=RFnsF-a5 | |
| section_end:1634142475:download_artifacts [0Ksection_start:1634142475: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/P19854/72587/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72587/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = [email protected]:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = [email protected]: | |
| [32;1m$ 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 ${PACKAGE_REF}[0;m | |
| New ref for neuron is branch="master" | |
| [32;1m$ 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 "${SPACK_PACKAGE_FILE}")[0;m | |
| [32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron@develop%intel+coreneuron+debug+tests~legacy-unit ^/fbjlykb4ys6kgbq2z2zyrw6ufddzw3ts | |
| [32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be x5fc6bslh4t3tjgxm7245xtkkgztnyge | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72587/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72587/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:28:19 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.48 / 0.51 (93.76 %) | |
| Files: 70996 | |
| [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: 'x5fc6bslh4t3tjgxm7245xtkkgztnyge' | |
| [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%[email protected]~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 | |
| [^] ^[email protected]%[email protected]+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 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]+cxx~debug~fortran+hl~java+mpi+pic+shared~szip~threadsafe api=none arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ^nmodl@develop%[email protected]~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]+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 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]+libyaml arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ^[email protected]%[email protected]~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| Concretized | |
| -------------------------------- | |
| - x5fc6bs neuron@develop%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - mxqypex ^[email protected]%[email protected]~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| [+] fbjlykb ^coreneuron@develop%[email protected]~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 ^[email protected]%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] kjhqfqv ^[email protected]%[email protected]~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [^] 2yojmmk ^[email protected]%[email protected]+cxx~debug~fortran+hl~java+mpi+pic+shared~szip~threadsafe api=none arch=linux-rhel7-x86_64 | |
| [^] wjshhip ^[email protected]%[email protected]+optimize+pic+shared arch=linux-rhel7-x86_64 | |
| [^] gwht6mm ^[email protected]%[email protected]~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] lqyttqy ^nmodl@develop%[email protected]~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| [+] ubiktsv ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] yrbfda2 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] oe2c27i ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] icfhbit ^[email protected]%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] oe2hrft ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] jo63uk3 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] kcyedyh ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] mikhjgq ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] hziuwhj ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] vpsqgcg ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] xgnwei3 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] gc3zsis ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] 557icag ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] za7jmvs ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] chpzzlm ^[email protected]%[email protected]+libyaml arch=linux-rhel7-x86_64 | |
| [^] 4237mpr ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] runxrmn ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] d6t5uhn ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] zas5d2a ^[email protected]%[email protected]~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - 5mabxtb ^[email protected]%[email protected]+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| [^] 6vrzcuv ^[email protected]%[email protected]+bzip2+curses+git~libunistring+libxml2+tar+xz arch=linux-rhel7-x86_64 | |
| [^] 6zbb66a ^[email protected]%[email protected]+shared arch=linux-rhel7-x86_64 | |
| [^] qlmq4dv ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 6lr2umn ^[email protected]%[email protected]~python arch=linux-rhel7-x86_64 | |
| [^] 2qyzkdl ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] wzx3yy4 ^[email protected]%[email protected]~pic arch=linux-rhel7-x86_64 | |
| [^] nedfnju ^[email protected]%[email protected]~symlinks+termlib arch=linux-rhel7-x86_64 | |
| [^] d4pg4b2 ^[email protected]%[email protected] patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-x86_64 | |
| - nayogh4 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] i3t5fut ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] yg3vxts ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] l643i7a ^[email protected]%[email protected]+blas+lapack arch=linux-rhel7-x86_64 | |
| [^] nnxc4wm ^[email protected]%[email protected]~ilp64+shared threads=none arch=linux-rhel7-x86_64 | |
| [+] zniig3b ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [+] 2v5wfwa ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] kej56sd ^[email protected]%[email protected] 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 | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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 | |
| ==> [email protected] : 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 | |
| ==> [email protected] : 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/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-more-itertools-8.7.0-mikhjg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-six-1.16.0-xgnwei | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-attrs-20.3.0-kcyedy | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pytz-2020.1-oe2c27 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-wcwidth-0.1.7-za7jmv | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-setuptools-50.3.2-xfgkmk | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-py-1.8.0-557ica | |
| ==> [email protected] : 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/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pyparsing-2.4.2-vpsqgc | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pyyaml-5.3.1-chpzzl | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libxml2-2.9.10-6lr2um | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/libsonata-report-1.0.0.20211007-kjhqfq | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/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/P19854/72576/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/P19854/72576/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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-packaging-19.2-hziuwh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/gettext-0.21-6vrzcu | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-numpy-1.19.4-l643i7 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72576/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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/nmodl-develop-lqyttq | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk | |
| ==> Installing neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge | |
| ==> No binary for neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge 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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/neuron-develop-x5fc6b | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72587/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72587/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:51:50 2021 | |
| Hits: 445 / 754 (59.02 %) | |
| Direct: 6 / 763 (0.79 %) | |
| Preprocessed: 439 / 751 (58.46 %) | |
| Misses: 309 | |
| Direct: 757 | |
| Preprocessed: 312 | |
| Uncacheable: 132 | |
| Primary storage: | |
| Hits: 453 / 1520 (29.80 %) | |
| Misses: 1067 | |
| Cache size (GB): 0.48 / 0.51 (92.92 %) | |
| Files: 68545 | |
| Cleanups: 10 | |
| Uncacheable: | |
| Autoconf compile/link: 7 | |
| Called for linking: 109 | |
| Called for preprocessing: 1 | |
| Compilation failed: 3 | |
| No input file: 6 | |
| Preprocessing failed: 6 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.22.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:1634143915:step_script [0Ksection_start:1634143915: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=45795 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 69106 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:1634143982:archive_cache [0Ksection_start:1634143982: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=46350 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72587 responseStatus[0;m=201 Created token[0;m=ps8N-M3y | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=46377 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72587 responseStatus[0;m=201 Created token[0;m=ps8N-M3y | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=46401 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=72587 responseStatus[0;m=201 Created token[0;m=ps8N-M3y | |
| section_end:1634143984:upload_artifacts_on_success [0Ksection_start:1634143984:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634143984:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634141445:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634141445:resolve_secrets [0Ksection_start:1634141445:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor792155825, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72578 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72578_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 2780448 | |
| job state: R | |
| section_end:1634141462:prepare_executor [0Ksection_start:1634141462:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634141464:prepare_script [0Ksection_start:1634141464: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:1634141465:get_sources [0Ksection_start:1634141465: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=265067 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| 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:1634141480:restore_cache [0Ksection_start:1634141480:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for spack_setup (72576)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=265127 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72576 responseStatus[0;m=200 OK token[0;m=wznhyWZn | |
| section_end:1634141481:download_artifacts [0Ksection_start:1634141481: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/P19854/72578/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72578/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72578/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72578/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72578/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = [email protected]:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = [email protected]: | |
| [32;1m$ 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=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72578/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72578/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:12:03 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.15 / 0.51 (29.94 %) | |
| Files: 1151 | |
| [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%[email protected]~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - 2ifshpf ^[email protected]%[email protected] patches=ad81ef1b088459a396d908295afc3809f9a25076efaa459cdd2f21eabd1f4b16 arch=linux-rhel7-x86_64 | |
| - gluy7kg ^[email protected]%[email protected]~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| - prwvb2t ^[email protected]%[email protected]+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| - mddtpd5 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - afnqqnp ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - xpep3yw ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - ujf2qes ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] rsay7hd ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] v5gxu5s ^[email protected]%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 6leiazm ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 373m5vr ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] hgzmzzz ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 2p3niph ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] 444mrrp ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ux4mwzh ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] tbbefeg ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] zbwtznm ^[email protected]%[email protected]+toml arch=linux-rhel7-x86_64 | |
| [^] k3yba4y ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] qywkw4y ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] rdab26o ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - dszppxf ^[email protected]%[email protected]+libyaml arch=linux-rhel7-x86_64 | |
| [^] ggibzjm ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - lhwntcl ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - l3syz4z ^[email protected]%[email protected] 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 | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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-six-1.16.0-ux4mwz | |
| ==> 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://mirror.spack.io/_source-cache/archive/fc/fc17abe05fbab3382b61a123c398508183406fa132e0223874578e20946499f6.tar.gz | |
| ==> py-mpmath: Executing phase: 'build' | |
| ==> py-mpmath: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/gcc-9.3.0/py-mpmath-1.1.0-l3syz4 | |
| ==> Installing py-pyyaml-5.3.1-dszppxfqapggdokpec7viw45xx62rjaf | |
| ==> No binary for py-pyyaml-5.3.1-dszppxfqapggdokpec7viw45xx62rjaf found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/b8/b8eac752c5e14d3eca0e6dd9199cd627518cb5ec06add0de9d32baeee6fe645d.tar.gz | |
| ==> py-pyyaml: Executing phase: 'build_ext' | |
| ==> py-pyyaml: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/py-wcwidth-0.1.7-rdab26 | |
| ==> Installing py-markupsafe-1.1.1-5pew2nu7kniwhdjc57ouymcgz3koo2qo | |
| ==> No binary for py-markupsafe-1.1.1-5pew2nu7kniwhdjc57ouymcgz3koo2qo found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/29/29872e92839765e546828bb7754a68c418d927cd064fd4708fab9fe9c8bb116b.tar.gz | |
| ==> py-markupsafe: Executing phase: 'build' | |
| ==> py-markupsafe: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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-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-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 | |
| ==> Installing py-pytz-2020.1-ujf2qesoetsxrgrnfr4i32d7aqx6ahnj | |
| ==> No binary for py-pytz-2020.1-ujf2qesoetsxrgrnfr4i32d7aqx6ahnj found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/c3/c35965d010ce31b23eeb663ed3cc8c906275d6be1a34393a1d73a41febf4a048.tar.gz | |
| ==> py-pytz: Executing phase: 'build' | |
| ==> py-pytz: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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-toml-0.10.0-k3yba4 | |
| ==> Installing py-sympy-1.4-lhwntcljkmu6eptc4dzn2ibspkjvhvjw | |
| ==> No binary for py-sympy-1.4-lhwntcljkmu6eptc4dzn2ibspkjvhvjw found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/71/71a11e5686ae7ab6cb8feb5bd2651ef4482f8fd43a7c27e645a165e4353b23e1.tar.gz | |
| ==> py-sympy: Executing phase: 'build' | |
| ==> py-sympy: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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-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://mirror.spack.io/_source-cache/archive/e8/e86135ae101e31e2c8ec20a4e0c5220f4eed12487d5cf3f78be7e98d3a57fc28.tar.gz | |
| ==> py-babel: Executing phase: 'build' | |
| ==> py-babel: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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://mirror.spack.io/_source-cache/archive/9f/9fe95f19286cfefaa917656583d020be14e7859c6b0252588391e47db34527de.tar.gz | |
| ==> py-jinja2: Executing phase: 'build' | |
| ==> py-jinja2: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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-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-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-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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/nvhpc-21.2/nmodl-develop-awi7vr | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72578/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72578/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:14:46 2021 | |
| Hits: 130 / 132 (98.48 %) | |
| Direct: 122 / 132 (92.42 %) | |
| Preprocessed: 8 / 10 (80.00 %) | |
| Misses: 2 | |
| Direct: 10 | |
| Preprocessed: 2 | |
| Uncacheable: 26 | |
| Primary storage: | |
| Hits: 258 / 264 (97.73 %) | |
| Misses: 6 | |
| Cache size (GB): 0.15 / 0.51 (29.95 %) | |
| Files: 1155 | |
| Uncacheable: | |
| Called for linking: 26 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.22.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:1634141689:step_script [0Ksection_start:1634141689: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=272646 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 1716 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:1634141703:archive_cache [0Ksection_start:1634141703: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=273183 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72578 responseStatus[0;m=201 Created token[0;m=TovGZrK8 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=273212 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72578 responseStatus[0;m=201 Created token[0;m=TovGZrK8 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=273257 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=72578 responseStatus[0;m=201 Created token[0;m=TovGZrK8 | |
| section_end:1634141704:upload_artifacts_on_success [0Ksection_start:1634141704:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634141704:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634141444:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634141444:resolve_secrets [0Ksection_start:1634141444:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor314345959, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72577 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72577_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 2780449 | |
| job state: R | |
| section_end:1634141462:prepare_executor [0Ksection_start:1634141462:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634141464:prepare_script [0Ksection_start:1634141464: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:1634141465:get_sources [0Ksection_start:1634141465: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=265046 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| 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:1634141490:restore_cache [0Ksection_start:1634141490:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for spack_setup (72576)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=265606 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72576 responseStatus[0;m=200 OK token[0;m=wznhyWZn | |
| section_end:1634141491:download_artifacts [0Ksection_start:1634141491: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/P19854/72577/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72577/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72577/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:69 - $tempdir/$user/spack-stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 - ~/.spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 # - $spack/var/spack/stage | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:70 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/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/P19854/72577/spack-config/config.yaml:4 # name/hash. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:2 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72577/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:3 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:20 all: ${ARCHITECTURE}/${COMPILERNAME}-${COMPILERVER}/${PACKAGE}-${VERSION}-${HASH:6} | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:5 root: $spack/opt/spack | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/config.yaml:6 build_jobs: 36 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:33 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:34 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:38 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:39 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/spack/etc/spack/defaults/config.yaml:76 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:85 tcl: $spack/share/spack/modules | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:91 lmod: $spack/share/spack/lmod | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:96 test_stage: ~/.spack/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:104 misc_cache: ~/.spack/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:110 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:115 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:120 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:128 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:137 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:163 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:170 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:178 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:184 concretizer: original | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/etc/spack/defaults/config.yaml:189 db_lock_timeout: 300 | |
| _builtin package_lock_timeout: !!null 'None' | |
| [32;1m$ 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:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = [email protected]:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = [email protected]: | |
| [32;1m$ REF_OVERRIDE_NAME=SPACK_PACKAGE_REF_${SPACK_PACKAGE}[0;m | |
| [32;1m$ PACKAGE_REF=${!REF_OVERRIDE_NAME:-$SPACK_PACKAGE_REF}[0;m | |
| [32;1m$ SPACK_PACKAGE_FILE="$(spack location -p ${SPACK_PACKAGE})/package.py"[0;m | |
| [32;1m$ if [ "${PACKAGE_REF}" ]; then[0;m | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}@develop${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER}${SPACK_PACKAGE_SPEC}${SPACK_PACKAGE_DEPENDENCIES:+ }${SPACK_PACKAGE_DEPENDENCIES}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install nmodl@develop%intel~legacy-unit | |
| [32;1m$ JSON_SPEC=$(spack --config-scope ${SPACK_CONFIG} spec --json ${SPACK_FULL_SPEC})[0;m | |
| ==> Warning: Missing a source id for nmodl@develop | |
| [32;1m$ SPACK_INSTALLED_HASH=$(echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][0][\"${SPACK_PACKAGE}\"][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be lqyttqytclxdwwickak7uvjmb6a3au3g | |
| [32;1m$ SPACK_STAGE_DIR=${SPACK_BUILD}/spack-stage-${SPACK_PACKAGE}-develop-${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ SPACK_BUILD_DIR=${SPACK_STAGE_DIR}/spack-build-${SPACK_INSTALLED_HASH:0:7}[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=${SPACK_STAGE_DIR}[0;m | |
| [32;1m$ export CCACHE_DIR=${CI_PROJECT_DIR}/ccache[0;m | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ mkdir -p ${CCACHE_BASEDIR}[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72577/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72577/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:12:14 2021 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.44 / 0.51 (85.34 %) | |
| Files: 2362 | |
| [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%[email protected]~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-x86_64 | |
| - ymcya3l ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - mxqypex ^[email protected]%[email protected]~doc+ncurses+openssl+ownlibs~qt build_type=Release patches=1c540040c7e203dd8e27aa20345ecb07fe06570d56410a24a266ae570b1c4c39,bf695e3febb222da2ed94b3beea600650e4318975da90e4a71d6f31a6d5d8c3d arch=linux-rhel7-x86_64 | |
| - 5mabxtb ^[email protected]%[email protected]+lex patches=09c22e5c6fef327d3e48eb23f0d610dcd3a35ab9207f12e0f875701c677978d3 arch=linux-rhel7-x86_64 | |
| - nayogh4 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - ubiktsv ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - yrbfda2 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] oe2c27i ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] xfgkmkd ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] icfhbit ^[email protected]%[email protected]+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 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - jo63uk3 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] kcyedyh ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - mikhjgq ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - hziuwhj ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] vpsqgcg ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] xgnwei3 ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - gc3zsis ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] ze65gmo ^[email protected]%[email protected]+toml arch=linux-rhel7-x86_64 | |
| [^] p553wsa ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - 557icag ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - za7jmvs ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| [^] chpzzlm ^[email protected]%[email protected]+libyaml arch=linux-rhel7-x86_64 | |
| [^] 4237mpr ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - runxrmn ^[email protected]%[email protected] arch=linux-rhel7-x86_64 | |
| - d6t5uhn ^[email protected]%[email protected] 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 | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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) | |
| ==> [email protected] : 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 | |
| [+] /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 | |
| ==> Installing py-mpmath-1.1.0-d6t5uhnfv6vz76zvbq6dxzezju47q4b2 | |
| ==> No binary for py-mpmath-1.1.0-d6t5uhnfv6vz76zvbq6dxzezju47q4b2 found: installing from source | |
| ==> Warning: Missing a source id for nmodl@develop | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/fc/fc17abe05fbab3382b61a123c398508183406fa132e0223874578e20946499f6.tar.gz | |
| ==> py-mpmath: Executing phase: 'build' | |
| ==> py-mpmath: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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 | |
| ==> Installing py-markupsafe-1.1.1-oe2hrfthehpamljikolcjblr7mt52724 | |
| ==> No binary for py-markupsafe-1.1.1-oe2hrfthehpamljikolcjblr7mt52724 found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/29/29872e92839765e546828bb7754a68c418d927cd064fd4708fab9fe9c8bb116b.tar.gz | |
| ==> py-markupsafe: Executing phase: 'build' | |
| ==> py-markupsafe: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-markupsafe-1.1.1-oe2hrf | |
| ==> 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/P19854/72576/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-pytz-2020.1-oe2c27 | |
| ==> Installing py-wcwidth-0.1.7-za7jmvshfdsnmghmumjvxfinateuen3k | |
| ==> No binary for py-wcwidth-0.1.7-za7jmvshfdsnmghmumjvxfinateuen3k found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/3d/3df37372226d6e63e1b1e1eda15c594bca98a22d33a23832a90998faa96bc65e.tar.gz | |
| ==> py-wcwidth: Executing phase: 'build' | |
| ==> py-wcwidth: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-wcwidth-0.1.7-za7jmv | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/libraries/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-toml-0.10.0-p553ws | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-pyparsing-2.4.2-vpsqgc | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/applications/2021-01-06/linux-rhel7-x86_64/intel-19.1.2.254/py-attrs-20.3.0-kcyedy | |
| ==> Installing py-sympy-1.4-runxrmnc6ccdqey2sq7njyz4u4i2x7xw | |
| ==> No binary for py-sympy-1.4-runxrmnc6ccdqey2sq7njyz4u4i2x7xw found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/71/71a11e5686ae7ab6cb8feb5bd2651ef4482f8fd43a7c27e645a165e4353b23e1.tar.gz | |
| ==> py-sympy: Executing phase: 'build' | |
| ==> py-sympy: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-sympy-1.4-runxrm | |
| ==> Installing py-babel-2.7.0-yrbfda2telivet3ruvwscmtafc7zoys7 | |
| ==> No binary for py-babel-2.7.0-yrbfda2telivet3ruvwscmtafc7zoys7 found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/e8/e86135ae101e31e2c8ec20a4e0c5220f4eed12487d5cf3f78be7e98d3a57fc28.tar.gz | |
| ==> py-babel: Executing phase: 'build' | |
| ==> py-babel: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/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://mirror.spack.io/_source-cache/archive/28/28b924174df7a2fa32c1953825ff29c61e2f5e082343165438812f00d3a7fc47.tar.gz | |
| ==> py-packaging: Executing phase: 'build' | |
| ==> py-packaging: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-packaging-19.2-hziuwh | |
| ==> Installing py-jinja2-2.10.3-ubiktsvw22gxnvhwzsoloqliz7czyhab | |
| ==> No binary for py-jinja2-2.10.3-ubiktsvw22gxnvhwzsoloqliz7czyhab found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/9f/9fe95f19286cfefaa917656583d020be14e7859c6b0252588391e47db34527de.tar.gz | |
| ==> py-jinja2: Executing phase: 'build' | |
| ==> py-jinja2: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-jinja2-2.10.3-ubikts | |
| ==> Installing py-py-1.8.0-557icag4kia4rysswd2uxdettfkewclq | |
| ==> No binary for py-py-1.8.0-557icag4kia4rysswd2uxdettfkewclq found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/dc/dc639b046a6e2cff5bbe40194ad65936d6ba360b52b3c3fe1d08a82dd50b5e53.tar.gz | |
| ==> py-py: Executing phase: 'build' | |
| ==> py-py: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-py-1.8.0-557ica | |
| ==> Installing py-pluggy-0.13.0-gc3zsisoxxbiopoa44i536m232c65zb4 | |
| ==> No binary for py-pluggy-0.13.0-gc3zsisoxxbiopoa44i536m232c65zb4 found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/fa/fa5fa1622fa6dd5c030e9cad086fa19ef6a0cf6d7a2d12318e10cb49d6d68f34.tar.gz | |
| ==> py-pluggy: Executing phase: 'build' | |
| ==> py-pluggy: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi | |
| ==> Installing py-pytest-5.3.4-jo63uk3qcowoxe2ogccodpfmsdr2r557 | |
| ==> No binary for py-pytest-5.3.4-jo63uk3qcowoxe2ogccodpfmsdr2r557 found: installing from source | |
| ==> Fetching https://mirror.spack.io/_source-cache/archive/1d/1d122e8be54d1a709e56f82e2d85dcba3018313d64647f38a91aec88c239b600.tar.gz | |
| ==> py-pytest: Executing phase: 'build' | |
| ==> py-pytest: Executing phase: 'install' | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/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/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/nmodl-develop-lqyttq | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72577/ccache | |
| Primary config: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72577/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/externals/2021-01-06/linux-rhel7-x86_64/gcc-9.3.0/ccache-4.4.2-rg3w3q/etc/ccache.conf | |
| Stats updated: Wed Oct 13 18:16:18 2021 | |
| Hits: 121 / 132 (91.67 %) | |
| Direct: 113 / 132 (85.61 %) | |
| Preprocessed: 8 / 19 (42.11 %) | |
| Misses: 11 | |
| Direct: 19 | |
| Preprocessed: 11 | |
| Uncacheable: 28 | |
| Primary storage: | |
| Hits: 242 / 266 (90.98 %) | |
| Misses: 24 | |
| Cache size (GB): 0.43 / 0.51 (84.41 %) | |
| Files: 2375 | |
| Cleanups: 1 | |
| Uncacheable: | |
| Called for linking: 28 | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ SPACK_PACKAGE_DEPENDENCIES=^/${SPACK_INSTALLED_HASH}[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCIES=${SPACK_PACKAGE_DEPENDENCIES}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| Autoloading python/3.8.3 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-numpy/1.19.4 | |
| Autoloading py-mpi4py/3.0.3 | |
| Autoloading hpe-mpi/2.22.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:1634141779:step_script [0Ksection_start:1634141779: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=275128 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache/: found 2936 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:1634141798:archive_cache [0Ksection_start:1634141798: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=275328 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72577 responseStatus[0;m=201 Created token[0;m=JvBYxAgf | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=275350 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72577 responseStatus[0;m=201 Created token[0;m=JvBYxAgf | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=275374 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=72577 responseStatus[0;m=201 Created token[0;m=JvBYxAgf | |
| section_end:1634141800:upload_artifacts_on_success [0Ksection_start:1634141800:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634141800:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| ! |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634141387:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634141387:resolve_secrets [0Ksection_start:1634141387:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor912904754, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72576 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72576_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 2780447 | |
| job state: R | |
| section_end:1634141388:prepare_executor [0Ksection_start:1634141388:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634141389:prepare_script [0Ksection_start:1634141389: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:1634141389:get_sources [0Ksection_start:1634141389: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="master" | |
| [32;1m$ fi[0;m | |
| [32;1m$ echo Using ${PWD} as a working directory common to the whole pipeline...[0;m | |
| Using /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576 as a working directory common to the whole pipeline... | |
| [32;1m$ SPACK_BRANCH_PARSED=$(sed -n -e "s/^SPACK_PACKAGE_REF_spack=branch=\(['\"]\)\([^\1]\+\)\1/\2/p" spack_clone_variables.env)[0;m | |
| [32;1m$ SPACK_BRANCH=${SPACK_BRANCH_PARSED:-$SPACK_BRANCH}[0;m | |
| [32;1m$ echo Checking out the ${SPACK_BRANCH} of Spack...[0;m | |
| Checking out the develop of Spack... | |
| [32;1m$ git clone --depth 1 --single-branch --branch ${SPACK_BRANCH} ${SPACK_URL} spack[0;m | |
| Cloning into 'spack'... | |
| Checking out files: 31% (2421/7694) Checking out files: 32% (2463/7694) Checking out files: 33% (2540/7694) Checking out files: 34% (2616/7694) Checking out files: 35% (2693/7694) Checking out files: 36% (2770/7694) Checking out files: 37% (2847/7694) Checking out files: 38% (2924/7694) Checking out files: 39% (3001/7694) Checking out files: 40% (3078/7694) Checking out files: 41% (3155/7694) Checking out files: 42% (3232/7694) Checking out files: 43% (3309/7694) Checking out files: 44% (3386/7694) Checking out files: 44% (3409/7694) Checking out files: 45% (3463/7694) Checking out files: 46% (3540/7694) Checking out files: 47% (3617/7694) Checking out files: 48% (3694/7694) Checking out files: 49% (3771/7694) Checking out files: 50% (3847/7694) Checking out files: 51% (3924/7694) Checking out files: 52% (4001/7694) Checking out files: 53% (4078/7694) Checking out files: 54% (4155/7694) Checking out files: 55% (4232/7694) Checking out files: 56% (4309/7694) Checking out files: 57% (4386/7694) Checking out files: 57% (4419/7694) Checking out files: 58% (4463/7694) Checking out files: 58% (4522/7694) Checking out files: 59% (4540/7694) Checking out files: 60% (4617/7694) Checking out files: 61% (4694/7694) Checking out files: 62% (4771/7694) Checking out files: 62% (4791/7694) Checking out files: 62% (4827/7694) Checking out files: 62% (4830/7694) Checking out files: 63% (4848/7694) Checking out files: 63% (4913/7694) Checking out files: 64% (4925/7694) Checking out files: 64% (4955/7694) Checking out files: 65% (5002/7694) Checking out files: 65% (5037/7694) Checking out files: 66% (5079/7694) Checking out files: 66% (5124/7694) Checking out files: 67% (5155/7694) Checking out files: 67% (5214/7694) Checking out files: 68% (5232/7694) Checking out files: 69% (5309/7694) Checking out files: 69% (5343/7694) Checking out files: 69% (5380/7694) Checking out files: 70% (5386/7694) Checking out files: 71% (5463/7694) Checking out files: 72% (5540/7694) Checking out files: 73% (5617/7694) Checking out files: 73% (5634/7694) Checking out files: 73% (5642/7694) Checking out files: 73% (5679/7694) Checking out files: 73% (5691/7694) Checking out files: 74% (5694/7694) Checking out files: 75% (5771/7694) Checking out files: 76% (5848/7694) Checking out files: 76% (5860/7694) Checking out files: 76% (5876/7694) Checking out files: 76% (5879/7694) Checking out files: 77% (5925/7694) Checking out files: 78% (6002/7694) Checking out files: 79% (6079/7694) Checking out files: 80% (6156/7694) Checking out files: 81% (6233/7694) Checking out files: 81% (6257/7694) Checking out files: 82% (6310/7694) Checking out files: 82% (6341/7694) Checking out files: 83% (6387/7694) Checking out files: 84% (6463/7694) Checking out files: 85% (6540/7694) Checking out files: 86% (6617/7694) Checking out files: 86% (6632/7694) Checking out files: 87% (6694/7694) Checking out files: 87% (6738/7694) Checking out files: 88% (6771/7694) Checking out files: 88% (6801/7694) Checking out files: 89% (6848/7694) Checking out files: 90% (6925/7694) Checking out files: 91% (7002/7694) Checking out files: 92% (7079/7694) Checking out files: 93% (7156/7694) Checking out files: 93% (7206/7694) Checking out files: 94% (7233/7694) Checking out files: 94% (7248/7694) Checking out files: 95% (7310/7694) Checking out files: 96% (7387/7694) Checking out files: 97% (7464/7694) Checking out files: 98% (7541/7694) Checking out files: 98% (7555/7694) Checking out files: 99% (7618/7694) Checking out files: 99% (7635/7694) Checking out files: 100% (7694/7694) Checking out files: 100% (7694/7694), 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:1634141438:step_script [0Ksection_start:1634141438: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=264673 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72576 responseStatus[0;m=201 Created token[0;m=wznhyWZn | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=264688 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=72576 responseStatus[0;m=201 Created token[0;m=wznhyWZn | |
| section_end:1634141439:upload_artifacts_on_success [0Ksection_start:1634141439:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634141439:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634142251:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634142251:resolve_secrets [0Ksection_start:1634142251:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor885379837, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72586 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72586_PROD_P112_CP1_C1 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod_p2,prod_p1,interactive | |
| Submitted batch job 2780712 | |
| job state: R | |
| section_end:1634142315:prepare_executor [0Ksection_start:1634142315:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i3n6 via bbpv1.epfl.ch... | |
| section_end:1634142316:prepare_script [0Ksection_start:1634142316: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:1634142317:get_sources [0Ksection_start:1634142317:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:gpu (72582)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=13371 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72582 responseStatus[0;m=200 OK token[0;m=v7ZQqUy3 | |
| section_end:1634142318:download_artifacts [0Ksection_start:1634142318:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ export CTEST_PARALLEL_LEVEL=${SLURM_TASKS_PER_NODE}[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ cd ${SPACK_BUILD_DIR}[0;m | |
| [32;1m$ export BOOST_TEST_COLOR_OUTPUT=no[0;m | |
| [32;1m$ i_am_a_failure=0[0;m | |
| [32;1m$ spack build-env ${SPACK_FULL_SPEC} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r2i2n34 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20211013-1625 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72582/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 #3: alignment_test ......................... Passed 1.60 sec | |
| Start 7: ring_binqueue_TEST | |
| 2/18 Test #1: cmd_interface_test ..................... Passed 1.75 sec | |
| 3/18 Test #2: interleave_info_constructor_test ....... Passed 1.84 sec | |
| Start 8: ring_multisend_TEST | |
| 4/18 Test #5: lfp_test ............................... Passed 1.94 sec | |
| 5/18 Test #4: queuing_test ........................... Passed 1.94 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 6/18 Test #6: ring_TEST .............................. Passed 2.73 sec | |
| Start 10: ring_permute1_TEST | |
| 7/18 Test #7: ring_binqueue_TEST ..................... Passed 7.51 sec | |
| Start 11: ring_permute2_TEST | |
| 8/18 Test #9: ring_spike_buffer_TEST ................. Passed 7.27 sec | |
| Start 12: ring_gap_TEST | |
| 9/18 Test #8: ring_multisend_TEST .................... Passed 8.50 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 10/18 Test #10: ring_permute1_TEST ..................... Passed 7.67 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 11/18 Test #11: ring_permute2_TEST ..................... Passed 5.43 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 12/18 Test #12: ring_gap_TEST .......................... Passed 5.54 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 13/18 Test #13: ring_gap_binqueue_TEST ................. Passed 10.79 sec | |
| Start 17: ring_permute2_cudaInterface_TEST | |
| 14/18 Test #14: ring_gap_multisend_TEST ................ Passed 10.79 sec | |
| Start 18: ring_gap_permute2_cudaInterface_TEST | |
| 15/18 Test #15: ring_gap_permute1_TEST ................. Passed 12.10 sec | |
| 16/18 Test #16: ring_gap_permute2_TEST ................. Passed 11.93 sec | |
| 17/18 Test #17: ring_permute2_cudaInterface_TEST ....... Passed 9.02 sec | |
| 18/18 Test #18: ring_gap_permute2_cudaInterface_TEST ... Passed 8.99 sec | |
| 100% tests passed, 0 tests failed out of 18 | |
| Total Test time (real) = 30.25 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:1634142364:step_script [0Ksection_start:1634142364: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=15175 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| Testing/: found 7 matching files and directories [0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72586 responseStatus[0;m=201 Created token[0;m=rjGDFzg8 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=15209 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72586 responseStatus[0;m=201 Created token[0;m=rjGDFzg8 | |
| section_end:1634142365:upload_artifacts_on_success [0Ksection_start:1634142365:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634142366:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634141801:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634141801:resolve_secrets [0Ksection_start:1634141801:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor175931376, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72584 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72584_PROD_P112_CP0_C0 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=cpu ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job eligible for phase1 and phase2, setting partition=prod_p2,prod_p1 | |
| Submitted batch job 2780605 | |
| job state: PD | |
| job state: PD | |
| job state: R | |
| section_end:1634141827:prepare_executor [0Ksection_start:1634141827:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634141829:prepare_script [0Ksection_start:1634141829: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:1634141831:get_sources [0Ksection_start:1634141831:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:intel (72580)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=276473 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72580 responseStatus[0;m=200 OK token[0;m=rycJUKMP | |
| section_end:1634141832:download_artifacts [0Ksection_start:1634141832:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ export CTEST_PARALLEL_LEVEL=${SLURM_TASKS_PER_NODE}[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ cd ${SPACK_BUILD_DIR}[0;m | |
| [32;1m$ export BOOST_TEST_COLOR_OUTPUT=no[0;m | |
| [32;1m$ i_am_a_failure=0[0;m | |
| [32;1m$ spack build-env ${SPACK_FULL_SPEC} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r2i2n34 | |
| Build name: Linux-icpc | |
| Create new tag: 20211013-1617 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72580/spack-build/spack-stage-coreneuron-develop-amiea4vkblpwhetoty6thfkfrdug4p64/spack-build-amiea4v | |
| Start 1: cmd_interface_test | |
| Start 2: interleave_info_constructor_test | |
| Start 3: alignment_test | |
| Start 4: queuing_test | |
| Start 5: lfp_test | |
| Start 6: ring_TEST | |
| Start 17: reporting_1 | |
| 1/17 Test #3: alignment_test ..................... Passed 1.82 sec | |
| 2/17 Test #17: reporting_1 ........................ Passed 1.85 sec | |
| Start 7: ring_binqueue_TEST | |
| 3/17 Test #6: ring_TEST .......................... Passed 2.13 sec | |
| Start 8: ring_multisend_TEST | |
| 4/17 Test #4: queuing_test ....................... Passed 2.62 sec | |
| 5/17 Test #2: interleave_info_constructor_test ... Passed 2.68 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 6/17 Test #1: cmd_interface_test ................. Passed 2.68 sec | |
| 7/17 Test #5: lfp_test ........................... Passed 2.68 sec | |
| Start 10: ring_permute1_TEST | |
| 8/17 Test #7: ring_binqueue_TEST ................. Passed 0.87 sec | |
| Start 11: ring_permute2_TEST | |
| 9/17 Test #8: ring_multisend_TEST ................ Passed 1.28 sec | |
| Start 12: ring_gap_TEST | |
| 10/17 Test #9: ring_spike_buffer_TEST ............. Passed 3.65 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 11/17 Test #10: ring_permute1_TEST ................. Passed 3.65 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 12/17 Test #11: ring_permute2_TEST ................. Passed 3.92 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 13/17 Test #12: ring_gap_TEST ...................... Passed 3.25 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 14/17 Test #13: ring_gap_binqueue_TEST ............. Passed 2.70 sec | |
| 15/17 Test #14: ring_gap_multisend_TEST ............ Passed 3.25 sec | |
| 16/17 Test #15: ring_gap_permute1_TEST ............. Passed 3.08 sec | |
| 17/17 Test #16: ring_gap_permute2_TEST ............. Passed 3.08 sec | |
| 100% tests passed, 0 tests failed out of 17 | |
| Total Test time (real) = 9.78 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:1634141857:step_script [0Ksection_start:1634141857: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=279147 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| Testing/: found 7 matching files and directories [0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72584 responseStatus[0;m=201 Created token[0;m=ETNWmDR7 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=279181 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72584 responseStatus[0;m=201 Created token[0;m=ETNWmDR7 | |
| section_end:1634141858:upload_artifacts_on_success [0Ksection_start:1634141858:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634141859:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634142367:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634142367:resolve_secrets [0Ksection_start:1634142367:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor888337510, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72585 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72585_PROD_P112_CP1_C1 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod_p2,prod_p1,interactive | |
| chown: changing ownership of â/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/share/lib/python/neuron/rxd/geometry3d/_cmake_tmp_setup.pyâ: 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;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor476594426, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72585 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72585_PROD_P112_CP1_C1 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod_p2,prod_p1,interactive | |
| Submitted batch job 2780729 | |
| job state: R | |
| section_end:1634142478:prepare_executor [0Ksection_start:1634142478:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i3n6 via bbpv1.epfl.ch... | |
| section_end:1634142480:prepare_script [0Ksection_start:1634142480: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:1634142480:get_sources [0Ksection_start:1634142480:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron+nmodl:gpu (72581)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=16145 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72581 responseStatus[0;m=200 OK token[0;m=JavNznfA | |
| section_end:1634142481:download_artifacts [0Ksection_start:1634142481:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ export CTEST_PARALLEL_LEVEL=${SLURM_TASKS_PER_NODE}[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ cd ${SPACK_BUILD_DIR}[0;m | |
| [32;1m$ export BOOST_TEST_COLOR_OUTPUT=no[0;m | |
| [32;1m$ i_am_a_failure=0[0;m | |
| [32;1m$ spack build-env ${SPACK_FULL_SPEC} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r2i2n34 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20211013-1628 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72581/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 #1: cmd_interface_test ..................... Passed 1.71 sec | |
| Start 7: ring_binqueue_TEST | |
| 2/18 Test #3: alignment_test ......................... Passed 1.71 sec | |
| 3/18 Test #4: queuing_test ........................... Passed 1.89 sec | |
| Start 8: ring_multisend_TEST | |
| 4/18 Test #2: interleave_info_constructor_test ....... Passed 2.08 sec | |
| 5/18 Test #5: lfp_test ............................... Passed 2.09 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 6/18 Test #6: ring_TEST .............................. Passed 2.93 sec | |
| Start 10: ring_permute1_TEST | |
| 7/18 Test #9: ring_spike_buffer_TEST ................. Passed 8.70 sec | |
| Start 11: ring_permute2_TEST | |
| 8/18 Test #7: ring_binqueue_TEST ..................... Passed 9.76 sec | |
| Start 12: ring_gap_TEST | |
| 9/18 Test #8: ring_multisend_TEST .................... Passed 9.67 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 10/18 Test #10: ring_permute1_TEST ..................... Passed 8.72 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 11/18 Test #11: ring_permute2_TEST ..................... Passed 4.53 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 12/18 Test #12: ring_gap_TEST .......................... Passed 6.31 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 13/18 Test #13: ring_gap_binqueue_TEST ................. Passed 9.85 sec | |
| Start 17: ring_permute2_cudaInterface_TEST | |
| 14/18 Test #14: ring_gap_multisend_TEST ................ Passed 9.86 sec | |
| Start 18: ring_gap_permute2_cudaInterface_TEST | |
| 15/18 Test #15: ring_gap_permute1_TEST ................. Passed 7.68 sec | |
| 16/18 Test #16: ring_gap_permute2_TEST ................. Passed 8.38 sec | |
| 17/18 Test #17: ring_permute2_cudaInterface_TEST ....... Passed 7.67 sec | |
| 18/18 Test #18: ring_gap_permute2_cudaInterface_TEST ... Passed 7.60 sec | |
| 100% tests passed, 0 tests failed out of 18 | |
| Total Test time (real) = 29.15 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:1634142525:step_script [0Ksection_start:1634142525: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=18091 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| Testing/: found 7 matching files and directories [0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72585 responseStatus[0;m=201 Created token[0;m=YuZ1UCaY | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=18124 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72585 responseStatus[0;m=201 Created token[0;m=YuZ1UCaY | |
| section_end:1634142526:upload_artifacts_on_success [0Ksection_start:1634142526:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634142526:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634142174:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634142174:resolve_secrets [0Ksection_start:1634142174:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor505661852, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72583 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72583_PROD_P112_CP1_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 2780699 | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: PD | |
| job state: R | |
| section_end:1634142218:prepare_executor [0Ksection_start:1634142218:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634142220:prepare_script [0Ksection_start:1634142220: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:1634142221:get_sources [0Ksection_start:1634142221:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron+nmodl:intel (72579)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=291547 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72579 responseStatus[0;m=200 OK token[0;m=RFnsF-a5 | |
| section_end:1634142222:download_artifacts [0Ksection_start:1634142222:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ export CTEST_PARALLEL_LEVEL=${SLURM_TASKS_PER_NODE}[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ cd ${SPACK_BUILD_DIR}[0;m | |
| [32;1m$ export BOOST_TEST_COLOR_OUTPUT=no[0;m | |
| [32;1m$ i_am_a_failure=0[0;m | |
| [32;1m$ spack build-env ${SPACK_FULL_SPEC} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r2i2n34 | |
| Build name: Linux-icpc | |
| Create new tag: 20211013-1623 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72579/spack-build/spack-stage-coreneuron-develop-fbjlykb4ys6kgbq2z2zyrw6ufddzw3ts/spack-build-fbjlykb | |
| Start 1: cmd_interface_test | |
| Start 2: interleave_info_constructor_test | |
| Start 3: alignment_test | |
| Start 4: queuing_test | |
| Start 5: lfp_test | |
| Start 6: ring_TEST | |
| Start 17: reporting_1 | |
| 1/17 Test #17: reporting_1 ........................ Passed 1.79 sec | |
| 2/17 Test #6: ring_TEST .......................... Passed 1.80 sec | |
| Start 7: ring_binqueue_TEST | |
| 3/17 Test #2: interleave_info_constructor_test ... Passed 2.13 sec | |
| Start 8: ring_multisend_TEST | |
| 4/17 Test #3: alignment_test ..................... Passed 2.33 sec | |
| 5/17 Test #5: lfp_test ........................... Passed 2.33 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 6/17 Test #4: queuing_test ....................... Passed 2.54 sec | |
| 7/17 Test #1: cmd_interface_test ................. Passed 2.71 sec | |
| Start 10: ring_permute1_TEST | |
| 8/17 Test #7: ring_binqueue_TEST ................. Passed 3.27 sec | |
| Start 11: ring_permute2_TEST | |
| 9/17 Test #9: ring_spike_buffer_TEST ............. Passed 4.42 sec | |
| Start 12: ring_gap_TEST | |
| 10/17 Test #10: ring_permute1_TEST ................. Passed 4.06 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 11/17 Test #8: ring_multisend_TEST ................ Passed 4.96 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 12/17 Test #11: ring_permute2_TEST ................. Passed 2.02 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 13/17 Test #15: ring_gap_permute1_TEST ............. Passed 3.43 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 14/17 Test #13: ring_gap_binqueue_TEST ............. Passed 4.06 sec | |
| 15/17 Test #12: ring_gap_TEST ...................... Passed 4.06 sec | |
| 16/17 Test #14: ring_gap_multisend_TEST ............ Passed 3.78 sec | |
| 17/17 Test #16: ring_gap_permute2_TEST ............. Passed 0.63 sec | |
| 100% tests passed, 0 tests failed out of 17 | |
| Total Test time (real) = 11.18 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:1634142249:step_script [0Ksection_start:1634142249: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=293645 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| Testing/: found 7 matching files and directories [0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72583 responseStatus[0;m=201 Created token[0;m=G6oyajs3 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=293677 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72583 responseStatus[0;m=201 Created token[0;m=G6oyajs3 | |
| section_end:1634142250:upload_artifacts_on_success [0Ksection_start:1634142250:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634142251:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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Learn more about bidirectional Unicode characters
| Log was not fetched because job had status: skipped |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634143985:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634143985:resolve_secrets [0Ksection_start:1634143985:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor574804776, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72592 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72592_PROD_P112_CP2_C9 | |
| 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 2780935 | |
| job state: R | |
| section_end:1634144114:prepare_executor [0Ksection_start:1634144114:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634144116:prepare_script [0Ksection_start:1634144116: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:1634144117:get_sources [0Ksection_start:1634144117:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:neuron:intel (72588)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=47333 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72588 responseStatus[0;m=200 OK token[0;m=tJxPzVuY | |
| section_end:1634144118:download_artifacts [0Ksection_start:1634144118:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ export CTEST_PARALLEL_LEVEL=${SLURM_TASKS_PER_NODE}[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ cd ${SPACK_BUILD_DIR}[0;m | |
| [32;1m$ export BOOST_TEST_COLOR_OUTPUT=no[0;m | |
| [32;1m$ i_am_a_failure=0[0;m | |
| [32;1m$ spack build-env ${SPACK_FULL_SPEC} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r2i2n34 | |
| Build name: Linux-icpc | |
| Create new tag: 20211013-1657 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt | |
| Start 28: external_ringtest::coreneuron_cpu_mpi_offline::preparation | |
| Start 35: testcorenrn_bbcore::coreneuron_cpu_offline::preparation | |
| Start 41: testcorenrn_deriv::coreneuron_cpu_offline::preparation | |
| Start 47: testcorenrn_gf::coreneuron_cpu_offline::preparation | |
| Start 51: testcorenrn_patstim::coreneuron_cpu_offline::preparation | |
| 1/94 Test #35: testcorenrn_bbcore::coreneuron_cpu_offline::preparation ............ Passed 14.43 sec | |
| Start 75: testcorenrn_conc::coreneuron_cpu_offline::preparation | |
| 2/94 Test #41: testcorenrn_deriv::coreneuron_cpu_offline::preparation ............. Passed 15.48 sec | |
| Start 81: testcorenrn_kin::coreneuron_cpu_offline::preparation | |
| 3/94 Test #51: testcorenrn_patstim::coreneuron_cpu_offline::preparation ........... Passed 21.42 sec | |
| Start 57: testcorenrn_vecplay::coreneuron_cpu_offline::preparation | |
| 4/94 Test #47: testcorenrn_gf::coreneuron_cpu_offline::preparation ................ Passed 22.51 sec | |
| Start 69: testcorenrn_watch::coreneuron_cpu_offline::preparation | |
| 5/94 Test #81: testcorenrn_kin::coreneuron_cpu_offline::preparation ............... Passed 14.69 sec | |
| Start 24: external_ringtest::neuron | |
| 6/94 Test #75: testcorenrn_conc::coreneuron_cpu_offline::preparation .............. Passed 16.67 sec | |
| Start 31: testcorenrn_bbcore::neuron | |
| 7/94 Test #28: external_ringtest::coreneuron_cpu_mpi_offline::preparation .........***Failed 33.20 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| MPT ERROR: Rank 1(g:1) received signal SIGSEGV(11). | |
| Process ID: 48847, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i2n34, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special, Rank 1, Process 48847: Dumping core on signal SIGSEGV(11) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/external_ringtest/coreneuron_cpu_mpi_offline | |
| srun: error: r2i2n34: task 1: Segmentation fault (core dumped) | |
| srun: Terminating job step 2780935.6 | |
| slurmstepd: error: *** STEP 2780935.6 ON r2i2n34 CANCELLED AT 2021-10-13T18:58:15 *** | |
| srun: error: r2i2n34: task 0: Terminated | |
| srun: Force Terminated job step 2780935.6 | |
| Start 25: external_ringtest::neuron_mpi | |
| 8/94 Test #57: testcorenrn_vecplay::coreneuron_cpu_offline::preparation ........... Passed 15.72 sec | |
| Start 26: external_ringtest::coreneuron_cpu_mpi | |
| 9/94 Test #69: testcorenrn_watch::coreneuron_cpu_offline::preparation ............. Passed 17.23 sec | |
| Start 27: external_ringtest::coreneuron_cpu_mpi_offline | |
| 10/94 Test #31: testcorenrn_bbcore::neuron ......................................... Passed 13.92 sec | |
| Start 32: testcorenrn_bbcore::coreneuron_cpu_online | |
| 11/94 Test #27: external_ringtest::coreneuron_cpu_mpi_offline ...................... Passed 8.96 sec | |
| Start 29: external_ringtest::coreneuron_cpu_mpi_threads | |
| 12/94 Test #24: external_ringtest::neuron .......................................... Passed 21.38 sec | |
| Start 33: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate | |
| 13/94 Test #25: external_ringtest::neuron_mpi ...................................... Passed 23.30 sec | |
| Start 34: testcorenrn_bbcore::coreneuron_cpu_offline | |
| Start 37: testcorenrn_deriv::neuron | |
| 14/94 Test #26: external_ringtest::coreneuron_cpu_mpi ..............................***Failed 24.93 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| MPT ERROR: Rank 1(g:1) received signal SIGSEGV(11). | |
| Process ID: 49394, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i2n34, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special, Rank 1, Process 49394: Dumping core on signal SIGSEGV(11) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/external_ringtest/coreneuron_cpu_mpi | |
| srun: error: r2i2n34: task 1: Segmentation fault (core dumped) | |
| srun: Terminating job step 2780935.15 | |
| slurmstepd: error: *** STEP 2780935.15 ON r2i2n34 CANCELLED AT 2021-10-13T18:58:44 *** | |
| srun: error: r2i2n34: task 0: Terminated | |
| srun: Force Terminated job step 2780935.15 | |
| Start 38: testcorenrn_deriv::coreneuron_cpu_online | |
| Start 39: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate | |
| 15/94 Test #34: testcorenrn_bbcore::coreneuron_cpu_offline ......................... Passed 8.06 sec | |
| Start 40: testcorenrn_deriv::coreneuron_cpu_offline | |
| 16/94 Test #32: testcorenrn_bbcore::coreneuron_cpu_online .......................... Passed 20.50 sec | |
| Start 71: testcorenrn_conc::neuron | |
| 17/94 Test #37: testcorenrn_deriv::neuron .......................................... Passed 26.49 sec | |
| Start 72: testcorenrn_conc::coreneuron_cpu_online | |
| 18/94 Test #40: testcorenrn_deriv::coreneuron_cpu_offline .......................... Passed 21.92 sec | |
| Start 73: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate | |
| 19/94 Test #33: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate ......... Passed 37.93 sec | |
| Start 74: testcorenrn_conc::coreneuron_cpu_offline | |
| 20/94 Test #71: testcorenrn_conc::neuron ........................................... Passed 25.96 sec | |
| Start 77: testcorenrn_kin::neuron | |
| 21/94 Test #29: external_ringtest::coreneuron_cpu_mpi_threads ......................***Failed 44.52 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| MPT ERROR: Rank 1(g:1) received signal SIGSEGV(11). | |
| Process ID: 49545, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i2n34, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special, Rank 1, Process 49545: Dumping core on signal SIGSEGV(11) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/external_ringtest/coreneuron_cpu_mpi_threads | |
| srun: error: r2i2n34: task 1: Segmentation fault (core dumped) | |
| srun: Terminating job step 2780935.18 | |
| slurmstepd: error: *** STEP 2780935.18 ON r2i2n34 CANCELLED AT 2021-10-13T18:59:15 *** | |
| srun: error: r2i2n34: task 0: Terminated | |
| srun: Force Terminated job step 2780935.18 | |
| Start 43: testcorenrn_gf::neuron | |
| 22/94 Test #39: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate .......... Passed 31.43 sec | |
| Start 78: testcorenrn_kin::coreneuron_cpu_online | |
| 23/94 Test #38: testcorenrn_deriv::coreneuron_cpu_online ........................... Passed 33.84 sec | |
| Start 79: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate | |
| 24/94 Test #72: testcorenrn_conc::coreneuron_cpu_online ............................ Passed 14.02 sec | |
| Start 80: testcorenrn_kin::coreneuron_cpu_offline | |
| 25/94 Test #74: testcorenrn_conc::coreneuron_cpu_offline ........................... Passed 8.33 sec | |
| Start 87: channel_benchmark_hippo::neuron | |
| 26/94 Test #77: testcorenrn_kin::neuron ............................................ Passed 12.04 sec | |
| Start 88: channel_benchmark_hippo::coreneuron_cpu_online | |
| 27/94 Test #80: testcorenrn_kin::coreneuron_cpu_offline ............................ Passed 13.32 sec | |
| Start 89: channel_benchmark_hippo::coreneuron_cpu_filemode | |
| 28/94 Test #73: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate ........... Passed 29.27 sec | |
| Start 91: channel_benchmark_sscx::neuron | |
| 29/94 Test #43: testcorenrn_gf::neuron ............................................. Passed 26.12 sec | |
| Start 44: testcorenrn_gf::coreneuron_cpu_online | |
| 30/94 Test #78: testcorenrn_kin::coreneuron_cpu_online ............................. Passed 30.95 sec | |
| Start 92: channel_benchmark_sscx::coreneuron_cpu_online | |
| 31/94 Test #79: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate ............ Passed 35.00 sec | |
| Start 93: channel_benchmark_sscx::coreneuron_cpu_filemode | |
| 32/94 Test #87: channel_benchmark_hippo::neuron .................................... Passed 57.18 sec | |
| Start 1: testneuron | |
| 33/94 Test #1: testneuron ......................................................... Passed 10.76 sec | |
| Start 2: ringtest | |
| 34/94 Test #88: channel_benchmark_hippo::coreneuron_cpu_online ..................... Passed 68.27 sec | |
| Start 3: connect_dend | |
| 35/94 Test #2: ringtest ........................................................... Passed 17.71 sec | |
| Start 4: pynrn_tests::basic_tests | |
| 36/94 Test #3: connect_dend ....................................................... Passed 20.18 sec | |
| Start 5: rxdmod_tests::rxd_tests | |
| 37/94 Test #44: testcorenrn_gf::coreneuron_cpu_online ..............................***Failed 77.01 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testgf.hoc near line 48 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(100) | |
| 1 prun("") | |
| MPT ERROR: Rank 1(g:1) is aborting with error code -1. | |
| Process ID: 50535, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780935.38 ON r2i2n34 CANCELLED AT 2021-10-13T19:00:57 *** | |
| srun: error: r2i2n34: task 0: Killed | |
| srun: Terminating job step 2780935.38 | |
| srun: error: r2i2n34: task 1: Exited with exit code 255 | |
| Start 45: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate | |
| 38/94 Test #91: channel_benchmark_sscx::neuron ..................................... Passed 100.96 sec | |
| Start 6: rxdmod_tests::rxd_mpi_tests | |
| 39/94 Test #89: channel_benchmark_hippo::coreneuron_cpu_filemode ................... Passed 108.71 sec | |
| Start 7: parallel_tests | |
| 40/94 Test #92: channel_benchmark_sscx::coreneuron_cpu_online ...................... Passed 104.64 sec | |
| Start 8: parallel_partrans | |
| 41/94 Test #93: channel_benchmark_sscx::coreneuron_cpu_filemode .................... Passed 108.86 sec | |
| Start 9: parallel_bas | |
| 42/94 Test #45: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate .............***Failed 49.49 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Segmentation violation | |
| Backtrace: | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testgf.hoc near line 48 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(1) | |
| 1 prun("") | |
| MPT ERROR: Rank 1(g:1) is aborting with error code -1. | |
| Process ID: 50986, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testgf.hoc near line 48 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(1) | |
| 0 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780935.41 ON r2i2n34 CANCELLED AT 2021-10-13T19:01:48 *** | |
| srun: error: r2i2n34: task 0: Exited with exit code 255 | |
| srun: Terminating job step 2780935.41 | |
| srun: error: r2i2n34: task 1: Killed | |
| Start 46: testcorenrn_gf::coreneuron_cpu_offline | |
| 43/94 Test #46: testcorenrn_gf::coreneuron_cpu_offline ............................. Passed 19.83 sec | |
| Start 49: testcorenrn_patstim::neuron | |
| 44/94 Test #8: parallel_partrans .................................................. Passed 41.43 sec | |
| Start 10: coreneuron_modtests::direct_py | |
| 45/94 Test #7: parallel_tests ..................................................... Passed 57.27 sec | |
| Start 11: coreneuron_modtests::direct_hoc | |
| 46/94 Test #49: testcorenrn_patstim::neuron ........................................ Passed 38.01 sec | |
| Start 50: testcorenrn_patstim::coreneuron_cpu_offline | |
| 47/94 Test #11: coreneuron_modtests::direct_hoc .................................... Passed 27.71 sec | |
| Start 12: coreneuron_modtests::spikes_py | |
| 48/94 Test #50: testcorenrn_patstim::coreneuron_cpu_offline ........................ Passed 9.02 sec | |
| Start 53: testcorenrn_vecplay::neuron | |
| 49/94 Test #10: coreneuron_modtests::direct_py .....................................***Failed 43.83 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/direct_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_direct.py Fatal Python error: Segmentation fault | |
| Thread 0x00002acacb7dd700 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/python/neuron/gui.py", line 87 in run | |
| File "/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/lib/python3.8/threading.py", line 932 in _bootstrap_inner | |
| File "/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/lib/python3.8/threading.py", line 890 in _bootstrap | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/direct_py/test/coreneuron/test_direct.py", line 52 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/direct_py/test/coreneuron/test_direct.py", line 70 in test_direct_memory_transfer | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 13: coreneuron_modtests::spikes_file_mode_py | |
| 50/94 Test #12: coreneuron_modtests::spikes_py .....................................***Failed 54.12 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/spikes_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_spikes.py Fatal Python error: Segmentation fault | |
| Thread 0x00002acacb7dd700 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/python/neuron/gui.py", line 87 in run | |
| File "/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/lib/python3.8/threading.py", line 932 in _bootstrap_inner | |
| File "/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/lib/python3.8/threading.py", line 890 in _bootstrap | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/spikes_py/test/coreneuron/test_spikes.py", line 95 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/spikes_py/test/coreneuron/test_spikes.py", line 127 in test_spikes | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 14: coreneuron_modtests::fornetcon_py | |
| 51/94 Test #53: testcorenrn_vecplay::neuron ........................................ Passed 54.14 sec | |
| Start 54: testcorenrn_vecplay::coreneuron_cpu_online | |
| 52/94 Test #9: parallel_bas ....................................................... Passed 128.82 sec | |
| Start 15: coreneuron_modtests::fast_imem_py | |
| 53/94 Test #4: pynrn_tests::basic_tests ........................................... Passed 190.60 sec | |
| Start 16: coreneuron_modtests::datareturn_py | |
| 54/94 Test #13: coreneuron_modtests::spikes_file_mode_py ...........................***Failed 67.78 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/spikes_file_mode_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_spikes.py Fatal Python error: Segmentation fault | |
| Thread 0x00002acacb7dd700 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/python/neuron/gui.py", line 87 in run | |
| File "/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/lib/python3.8/threading.py", line 932 in _bootstrap_inner | |
| File "/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/lib/python3.8/threading.py", line 890 in _bootstrap | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/spikes_file_mode_py/test/coreneuron/test_spikes.py", line 95 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/spikes_file_mode_py/test/coreneuron/test_spikes.py", line 129 in test_spikes | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 17: coreneuron_modtests::test_units_py | |
| 55/94 Test #54: testcorenrn_vecplay::coreneuron_cpu_online .........................***Failed 24.64 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7d5 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testvecplay.hoc near line 54 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(100) | |
| 0 prun("") | |
| MPT ERROR: Rank 0(g:0) is aborting with error code -1. | |
| Process ID: 52490, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7d5 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testvecplay.hoc near line 54 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(100) | |
| 1 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780935.50 ON r2i2n34 CANCELLED AT 2021-10-13T19:04:13 *** | |
| srun: error: r2i2n34: task 0: Killed | |
| srun: Terminating job step 2780935.50 | |
| srun: error: r2i2n34: task 1: Exited with exit code 255 | |
| Start 55: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate | |
| 56/94 Test #14: coreneuron_modtests::fornetcon_py ..................................***Failed 39.68 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/fornetcon_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_fornetcon.py Fatal Python error: Segmentation fault | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/fornetcon_py/test/coreneuron/test_fornetcon.py", line 65 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/fornetcon_py/test/coreneuron/test_fornetcon.py", line 97 in runassert | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/fornetcon_py/test/coreneuron/test_fornetcon.py", line 105 in test_fornetcon | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 18: coreneuron_modtests::test_netmove_py | |
| 57/94 Test #16: coreneuron_modtests::datareturn_py .................................***Failed 35.02 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/datareturn_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_datareturn.py Fatal Python error: Segmentation fault | |
| Thread 0x00002acacb7dd700 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/python/neuron/gui.py", line 87 in run | |
| File "/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/lib/python3.8/threading.py", line 932 in _bootstrap_inner | |
| File "/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/lib/python3.8/threading.py", line 890 in _bootstrap | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/datareturn_py/test/coreneuron/test_datareturn.py", line 151 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/datareturn_py/test/coreneuron/test_datareturn.py", line 181 in test_datareturn | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 19: coreneuron_modtests::test_watchrange_py | |
| 58/94 Test #15: coreneuron_modtests::fast_imem_py .................................. Passed 41.42 sec | |
| Start 20: coreneuron_modtests::test_psolve_py | |
| 59/94 Test #55: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate ........***Failed 34.20 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Segmentation violation | |
| Backtrace: | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7d5 | |
| /usr/lib64/libc.so.6 : ()+0x16f7d5 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testvecplay.hoc near line 54 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(1) | |
| 1 prun("") | |
| MPT ERROR: Rank 1(g:1) is aborting with error code -1. | |
| Process ID: 52689, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testvecplay.hoc near line 54 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(1) | |
| 0 prun("") | |
| slurmstepd: error: *** STEP 2780935.51 ON r2i2n34 CANCELLED AT 2021-10-13T19:04:48 *** | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| srun: error: r2i2n34: task 0: Exited with exit code 255 | |
| srun: Terminating job step 2780935.51 | |
| srun: error: r2i2n34: task 1: Killed | |
| Start 56: testcorenrn_vecplay::coreneuron_cpu_offline | |
| 60/94 Test #17: coreneuron_modtests::test_units_py .................................***Failed 47.10 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_units_py | |
| plugins: cov-2.8.1 | |
| collected 1 item | |
| test/coreneuron/test_units.py Fatal Python error: Segmentation fault | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_units_py/test/coreneuron/test_units.py", line 28 in test_units | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 21: coreneuron_modtests::test_natrans_py | |
| 61/94 Test #56: testcorenrn_vecplay::coreneuron_cpu_offline ........................ Passed 8.27 sec | |
| Start 65: testcorenrn_watch::neuron | |
| 62/94 Test #18: coreneuron_modtests::test_netmove_py ...............................***Failed 38.11 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_netmove_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_netmove.py Fatal Python error: Segmentation fault | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_netmove_py/test/coreneuron/test_netmove.py", line 69 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_netmove_py/test/coreneuron/test_netmove.py", line 89 in runassert | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_netmove_py/test/coreneuron/test_netmove.py", line 111 in test_netmove | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 30: external_ringtest::compare_results | |
| 63/94 Test #30: external_ringtest::compare_results .................................***Failed 3.84 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/external_ringtest/coreneuron_cpu_mpi/spk2.std' | |
| Start 36: testcorenrn_bbcore::compare_results | |
| 64/94 Test #36: testcorenrn_bbcore::compare_results ................................***Failed 4.32 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/testcorenrn_bbcore/coreneuron_cpu_online/outbbcore.dat' | |
| Start 42: testcorenrn_deriv::compare_results | |
| 65/94 Test #65: testcorenrn_watch::neuron .......................................... Passed 14.97 sec | |
| Start 66: testcorenrn_watch::coreneuron_cpu_online | |
| 66/94 Test #19: coreneuron_modtests::test_watchrange_py ............................***Failed 39.98 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_watchrange_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_watchrange.py Fatal Python error: Segmentation fault | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_watchrange_py/test/coreneuron/test_watchrange.py", line 68 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_watchrange_py/test/coreneuron/test_watchrange.py", line 91 in runassert | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_watchrange_py/test/coreneuron/test_watchrange.py", line 141 in test_watchrange | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 48: testcorenrn_gf::compare_results | |
| 67/94 Test #20: coreneuron_modtests::test_psolve_py ................................***Failed 40.35 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_psolve_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 2 items | |
| test/coreneuron/test_psolve.py Fatal Python error: Segmentation fault | |
| Thread 0x00002acacb7dd700 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/python/neuron/gui.py", line 87 in run | |
| File "/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/lib/python3.8/threading.py", line 932 in _bootstrap_inner | |
| File "/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/lib/python3.8/threading.py", line 890 in _bootstrap | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_psolve_py/test/coreneuron/test_psolve.py", line 45 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_psolve_py/test/coreneuron/test_psolve.py", line 56 in test_psolve | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 52: testcorenrn_patstim::compare_results | |
| 68/94 Test #42: testcorenrn_deriv::compare_results .................................***Failed 6.81 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/testcorenrn_deriv/coreneuron_cpu_online/outderiv.dat' | |
| Start 58: testcorenrn_vecplay::compare_results | |
| 69/94 Test #48: testcorenrn_gf::compare_results ....................................***Failed 3.90 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/testcorenrn_gf/coreneuron_cpu_online/outgf.dat' | |
| Start 76: testcorenrn_conc::compare_results | |
| 70/94 Test #52: testcorenrn_patstim::compare_results ............................... Passed 4.06 sec | |
| Start 82: testcorenrn_kin::compare_results | |
| 71/94 Test #58: testcorenrn_vecplay::compare_results ...............................***Failed 3.93 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/testcorenrn_vecplay/coreneuron_cpu_online/outvecplay.dat' | |
| Start 86: external_nrntest | |
| 72/94 Test #76: testcorenrn_conc::compare_results ..................................***Failed 3.36 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/testcorenrn_conc/coreneuron_cpu_online/outconc.dat' | |
| Start 90: channel_benchmark_hippo::compare_results | |
| 73/94 Test #82: testcorenrn_kin::compare_results ...................................***Failed 3.30 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/testcorenrn_kin/coreneuron_cpu_online/outkin.dat' | |
| Start 94: channel_benchmark_sscx::compare_results | |
| 74/94 Test #90: channel_benchmark_hippo::compare_results ...........................***Failed 6.37 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/channel_benchmark_hippo/coreneuron_cpu_online/out.dat' | |
| 75/94 Test #21: coreneuron_modtests::test_natrans_py ...............................***Failed 36.04 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_natrans_py | |
| plugins: cov-2.8.1 | |
| collected 1 item | |
| test/gjtests/test_natrans.py Fatal Python error: Segmentation fault | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_natrans_py/test/gjtests/test_natrans.py", line 95 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/test_natrans_py/test/gjtests/test_natrans.py", line 114 in test_natrans | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 67: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate | |
| 76/94 Test #94: channel_benchmark_sscx::compare_results ............................***Failed 9.21 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/channel_benchmark_sscx/coreneuron_cpu_online/out.dat' | |
| 77/94 Test #66: testcorenrn_watch::coreneuron_cpu_online ...........................***Failed 26.33 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testwatch.hoc near line 54 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(100) | |
| 0 prun("") | |
| MPT ERROR: Rank 0(g:0) is aborting with error code -1. | |
| Process ID: 53106, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testwatch.hoc near line 54 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(100) | |
| 1 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780935.54 ON r2i2n34 CANCELLED AT 2021-10-13T19:05:37 *** | |
| srun: error: r2i2n34: task 0: Killed | |
| srun: Terminating job step 2780935.54 | |
| srun: error: r2i2n34: task 1: Exited with exit code 255 | |
| Start 68: testcorenrn_watch::coreneuron_cpu_offline | |
| 78/94 Test #68: testcorenrn_watch::coreneuron_cpu_offline .......................... Passed 9.57 sec | |
| Start 83: testcorenrn_netstimdirect::direct_netstimdirect | |
| 79/94 Test #67: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate ..........***Failed 29.90 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Segmentation violation | |
| Backtrace: | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testwatch.hoc near line 54 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(1) | |
| 0 prun("") | |
| MPT ERROR: Rank 0(g:0) is aborting with error code -1. | |
| Process ID: 53249, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testwatch.hoc near line 54 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(1) | |
| 1 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780935.55 ON r2i2n34 CANCELLED AT 2021-10-13T19:05:57 *** | |
| srun: error: r2i2n34: task 0: Killed | |
| srun: Terminating job step 2780935.55 | |
| srun: error: r2i2n34: task 1: Exited with exit code 255 | |
| Start 84: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate | |
| Start 70: testcorenrn_watch::compare_results | |
| 80/94 Test #70: testcorenrn_watch::compare_results .................................***Failed 3.73 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/testcorenrn_watch/coreneuron_cpu_online/outwatch.dat' | |
| 81/94 Test #83: testcorenrn_netstimdirect::direct_netstimdirect ....................***Failed 28.62 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 0 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| psolve time 0.00999999 | |
| Vector[5] | |
| Vector[6] | |
| Vector[5] | |
| Vector[6] | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testnetstimdirect.hoc near line 68 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(100) | |
| 0 prun("") | |
| MPT ERROR: Rank 0(g:0) is aborting with error code -1. | |
| Process ID: 53545, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testnetstimdirect.hoc near line 68 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(100) | |
| 1 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780935.57 ON r2i2n34 CANCELLED AT 2021-10-13T19:06:15 *** | |
| srun: error: r2i2n34: task 0: Killed | |
| srun: Terminating job step 2780935.57 | |
| srun: error: r2i2n34: task 1: Exited with exit code 255 | |
| Start 22: coreneuron_modtests::spikes_mpi_py | |
| 82/94 Test #84: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate ...***Failed 27.66 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 0 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| psolve time 0.00999999 | |
| Vector[5] | |
| Vector[6] | |
| Vector[5] | |
| Vector[6] | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Segmentation violation | |
| Backtrace: | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testnetstimdirect.hoc near line 68 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(1) | |
| 1 prun("") | |
| MPT ERROR: Rank 1(g:1) is aborting with error code -1. | |
| Process ID: 53636, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testnetstimdirect.hoc near line 68 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(1) | |
| 0 prun("") | |
| slurmstepd: error: *** STEP 2780935.58 ON r2i2n34 CANCELLED AT 2021-10-13T19:06:25 *** | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| srun: error: r2i2n34: task 0: Exited with exit code 255 | |
| srun: Terminating job step 2780935.58 | |
| srun: error: r2i2n34: task 1: Killed | |
| Start 23: coreneuron_modtests::spikes_mpi_file_mode_py | |
| Start 85: testcorenrn_netstimdirect::compare_results | |
| 83/94 Test #85: testcorenrn_netstimdirect::compare_results .........................***Failed 4.35 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/testcorenrn_netstimdirect/direct_netstimdirect/outnetstimdirect.dat' | |
| 84/94 Test #22: coreneuron_modtests::spikes_mpi_py .................................***Failed 31.51 sec | |
| numprocs=2 | |
| MPT ERROR: Rank 1(g:1) received signal SIGSEGV(11). | |
| Process ID: 53864, Host: r2i2n34, Program: /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/bin/python3.8 | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i2n34, Program /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/bin/python3.8, Rank 1, Process 53864: Dumping core on signal SIGSEGV(11) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/spikes_mpi_py | |
| srun: error: r2i2n34: task 1: Segmentation fault (core dumped) | |
| srun: Terminating job step 2780935.59 | |
| slurmstepd: error: *** STEP 2780935.59 ON r2i2n34 CANCELLED AT 2021-10-13T19:06:47 *** | |
| srun: error: r2i2n34: task 0: Terminated | |
| srun: Force Terminated job step 2780935.59 | |
| 85/94 Test #23: coreneuron_modtests::spikes_mpi_file_mode_py .......................***Failed 31.34 sec | |
| numprocs=2 | |
| MPT ERROR: Rank 0(g:0) received signal SIGSEGV(11). | |
| Process ID: 53997, Host: r2i2n34, Program: /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/bin/python3.8 | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i2n34, Program /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/bin/python3.8, Rank 0, Process 53997: Dumping core on signal SIGSEGV(11) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/coreneuron_modtests/spikes_mpi_file_mode_py | |
| srun: error: r2i2n34: task 0: Segmentation fault (core dumped) | |
| srun: Terminating job step 2780935.60 | |
| slurmstepd: error: *** STEP 2780935.60 ON r2i2n34 CANCELLED AT 2021-10-13T19:06:57 *** | |
| srun: error: r2i2n34: task 1: Terminated | |
| srun: Force Terminated job step 2780935.60 | |
| Start 63: testcorenrn_vecevent::coreneuron_cpu_offline::preparation | |
| 86/94 Test #63: testcorenrn_vecevent::coreneuron_cpu_offline::preparation .......... Passed 18.46 sec | |
| Start 59: testcorenrn_vecevent::neuron | |
| 87/94 Test #59: testcorenrn_vecevent::neuron ....................................... Passed 18.18 sec | |
| Start 60: testcorenrn_vecevent::coreneuron_cpu_online | |
| 88/94 Test #60: testcorenrn_vecevent::coreneuron_cpu_online ........................***Failed 24.31 sec | |
| numprocs=4 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testvecevent.hoc near line 47 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(100) | |
| 0 prun("") | |
| MPT ERROR: Rank 0(g:0) is aborting with error code -1. | |
| Process ID: 54765, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| Segmentation violation | |
| Segmentation violation | |
| Backtrace: | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 3 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 3 in testvecevent.hoc near line 47 | |
| 3 prun("") | |
| ^ | |
| 3 ParallelContext[0].psolve(100) | |
| 3 prun("") | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testvecevent.hoc near line 47 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(100) | |
| 1 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780935.63 ON r2i2n34 CANCELLED AT 2021-10-13T19:07:56 *** | |
| slurmstepd: error: *** STEP 2780935.63 ON r2i2n34 CANCELLED AT 2021-10-13T19:07:56 *** | |
| srun: error: r2i2n34: tasks 0,2: Killed | |
| srun: Terminating job step 2780935.63 | |
| srun: error: r2i2n34: tasks 1,3: Exited with exit code 255 | |
| Start 61: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate | |
| 89/94 Test #61: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate .......***Failed 26.79 sec | |
| numprocs=4 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Segmentation violation | |
| Segmentation violation | |
| Segmentation violation | |
| Backtrace: | |
| Backtrace: | |
| Backtrace: | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-amiea4/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : ()+0x355deb | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testvecevent.hoc near line 47 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(1) | |
| 1 prun("") | |
| MPT ERROR: Rank 1(g:1) is aborting with error code -1. | |
| Process ID: 54989, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testvecevent.hoc near line 47 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(1) | |
| 0 prun("") | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 3 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 3 in testvecevent.hoc near line 47 | |
| 3 prun("") | |
| ^ | |
| 3 ParallelContext[0].psolve(1) | |
| 3 prun("") | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 2 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 2 in testvecevent.hoc near line 47 | |
| 2 prun("") | |
| ^ | |
| 2 ParallelContext[0].psolve(1) | |
| 2 prun("") | |
| slurmstepd: error: *** STEP 2780935.64 ON r2i2n34 CANCELLED AT 2021-10-13T19:08:23 *** | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| srun: error: r2i2n34: tasks 0,2-3: Exited with exit code 255 | |
| srun: Terminating job step 2780935.64 | |
| srun: error: r2i2n34: task 1: Killed | |
| Start 62: testcorenrn_vecevent::coreneuron_cpu_offline | |
| 90/94 Test #62: testcorenrn_vecevent::coreneuron_cpu_offline ....................... Passed 8.50 sec | |
| Start 64: testcorenrn_vecevent::compare_results | |
| 91/94 Test #64: testcorenrn_vecevent::compare_results ..............................***Failed 3.95 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72588/spack-build/spack-stage-neuron-develop-l2cuclt2wvuiw4s54hywewweoywsqlpu/spack-build-l2cuclt/test/testcorenrn_vecevent/coreneuron_cpu_online/outvecevent.dat' | |
| 92/94 Test #86: external_nrntest ................................................... Passed 794.97 sec | |
| 93/94 Test #6: rxdmod_tests::rxd_mpi_tests ........................................ Passed 1340.74 sec | |
| 94/94 Test #5: rxdmod_tests::rxd_tests ............................................ Passed 1488.46 sec | |
| 61% tests passed, 37 tests failed out of 94 | |
| Total Test time (real) = 1680.70 sec | |
| The following tests FAILED: | |
| 10 - coreneuron_modtests::direct_py (Failed) | |
| 12 - coreneuron_modtests::spikes_py (Failed) | |
| 13 - coreneuron_modtests::spikes_file_mode_py (Failed) | |
| 14 - coreneuron_modtests::fornetcon_py (Failed) | |
| 16 - coreneuron_modtests::datareturn_py (Failed) | |
| 17 - coreneuron_modtests::test_units_py (Failed) | |
| 18 - coreneuron_modtests::test_netmove_py (Failed) | |
| 19 - coreneuron_modtests::test_watchrange_py (Failed) | |
| 20 - coreneuron_modtests::test_psolve_py (Failed) | |
| 21 - coreneuron_modtests::test_natrans_py (Failed) | |
| 22 - coreneuron_modtests::spikes_mpi_py (Failed) | |
| 23 - coreneuron_modtests::spikes_mpi_file_mode_py (Failed) | |
| 26 - external_ringtest::coreneuron_cpu_mpi (Failed) | |
| 28 - external_ringtest::coreneuron_cpu_mpi_offline::preparation (Failed) | |
| 29 - external_ringtest::coreneuron_cpu_mpi_threads (Failed) | |
| 30 - external_ringtest::compare_results (Failed) | |
| 36 - testcorenrn_bbcore::compare_results (Failed) | |
| 42 - testcorenrn_deriv::compare_results (Failed) | |
| 44 - testcorenrn_gf::coreneuron_cpu_online (Failed) | |
| 45 - testcorenrn_gf::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 48 - testcorenrn_gf::compare_results (Failed) | |
| 54 - testcorenrn_vecplay::coreneuron_cpu_online (Failed) | |
| 55 - testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 58 - testcorenrn_vecplay::compare_results (Failed) | |
| 60 - testcorenrn_vecevent::coreneuron_cpu_online (Failed) | |
| 61 - testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 64 - testcorenrn_vecevent::compare_results (Failed) | |
| 66 - testcorenrn_watch::coreneuron_cpu_online (Failed) | |
| 67 - testcorenrn_watch::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 70 - testcorenrn_watch::compare_results (Failed) | |
| 76 - testcorenrn_conc::compare_results (Failed) | |
| 82 - testcorenrn_kin::compare_results (Failed) | |
| 83 - testcorenrn_netstimdirect::direct_netstimdirect (Failed) | |
| 84 - testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate (Failed) | |
| 85 - testcorenrn_netstimdirect::compare_results (Failed) | |
| 90 - channel_benchmark_hippo::compare_results (Failed) | |
| 94 - channel_benchmark_sscx::compare_results (Failed) | |
| Errors while running CTest | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.8.3 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| srun: error: r2i2n34: task 0: Exited with exit code 1 | |
| section_end:1634145950:step_script [0Ksection_start:1634145950:upload_artifacts_on_failure [0K[0K[36;1mUploading artifacts for failed 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=67205 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| Testing/: found 8 matching files and directories [0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72592 responseStatus[0;m=201 Created token[0;m=rwfjNtKi | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=67241 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72592 responseStatus[0;m=201 Created token[0;m=rwfjNtKi | |
| section_end:1634145951:upload_artifacts_on_failure [0Ksection_start:1634145951:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634145952:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1 | |
| [0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634145952:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634145952:resolve_secrets [0Ksection_start:1634145952:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor901133431, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72593 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72593_PROD_P112_CP2_C9 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod_p2,prod_p1,interactive | |
| Submitted batch job 2780937 | |
| job state: R | |
| section_end:1634146073:prepare_executor [0Ksection_start:1634146073:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i3n6 via bbpv1.epfl.ch... | |
| section_end:1634146075:prepare_script [0Ksection_start:1634146075: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:1634146076:get_sources [0Ksection_start:1634146076:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:neuron+nmodl:gpu (72589)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=27675 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72589 responseStatus[0;m=200 OK token[0;m=ueJBbsEw | |
| section_end:1634146076:download_artifacts [0Ksection_start:1634146076:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ export CTEST_PARALLEL_LEVEL=${SLURM_TASKS_PER_NODE}[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ cd ${SPACK_BUILD_DIR}[0;m | |
| [32;1m$ export BOOST_TEST_COLOR_OUTPUT=no[0;m | |
| [32;1m$ i_am_a_failure=0[0;m | |
| [32;1m$ spack build-env ${SPACK_FULL_SPEC} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r2i2n34 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20211013-1728 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er | |
| Start 27: external_ringtest::coreneuron_cpu_mpi_offline::preparation | |
| Start 31: external_ringtest::coreneuron_gpu_mpi_offline::preparation | |
| Start 38: testcorenrn_bbcore::coreneuron_gpu_offline::preparation | |
| Start 42: testcorenrn_bbcore::coreneuron_cpu_offline::preparation | |
| Start 48: testcorenrn_deriv::coreneuron_gpu_offline::preparation | |
| Start 52: testcorenrn_deriv::coreneuron_cpu_offline::preparation | |
| 1/115 Test #38: testcorenrn_bbcore::coreneuron_gpu_offline::preparation ............ Passed 2.18 sec | |
| Start 66: testcorenrn_patstim::coreneuron_gpu_offline::preparation | |
| 2/115 Test #42: testcorenrn_bbcore::coreneuron_cpu_offline::preparation ............ Passed 2.27 sec | |
| Start 23: external_ringtest::neuron | |
| 3/115 Test #48: testcorenrn_deriv::coreneuron_gpu_offline::preparation ............. Passed 2.44 sec | |
| Start 34: testcorenrn_bbcore::neuron | |
| 4/115 Test #52: testcorenrn_deriv::coreneuron_cpu_offline::preparation ............. Passed 2.44 sec | |
| Start 35: testcorenrn_bbcore::coreneuron_gpu_online | |
| 5/115 Test #66: testcorenrn_patstim::coreneuron_gpu_offline::preparation ........... Passed 1.43 sec | |
| Start 36: testcorenrn_bbcore::coreneuron_gpu_online_psolve_alternate | |
| 6/115 Test #23: external_ringtest::neuron .......................................... Passed 1.43 sec | |
| Start 37: testcorenrn_bbcore::coreneuron_gpu_offline | |
| 7/115 Test #34: testcorenrn_bbcore::neuron ......................................... Passed 1.54 sec | |
| Start 39: testcorenrn_bbcore::coreneuron_cpu_online | |
| 8/115 Test #37: testcorenrn_bbcore::coreneuron_gpu_offline ......................... Passed 2.53 sec | |
| Start 40: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate | |
| 9/115 Test #27: external_ringtest::coreneuron_cpu_mpi_offline::preparation .........***Failed 6.46 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 0 UH��AWAVATSH��M��M��L�%�I� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 0 UH��AWAVATSH��M��M��L�%�I� | |
| MPT ERROR: Rank 1(g:1) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 28546, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 0 UH��AWAVATSH��M��M��L�%�I� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 0 UH��AWAVATSH��M��M��L�%�I� | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special, Rank 1, Process 28546: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/external_ringtest/coreneuron_cpu_mpi_offline | |
| srun: error: r2i3n6: task 1: Aborted (core dumped) | |
| srun: Terminating job step 2780937.6 | |
| slurmstepd: error: *** STEP 2780937.6 ON r2i3n6 CANCELLED AT 2021-10-13T19:28:21 *** | |
| srun: error: r2i3n6: task 0: Terminated | |
| srun: Force Terminated job step 2780937.6 | |
| Start 58: testcorenrn_gf::coreneuron_gpu_offline::preparation | |
| 10/115 Test #31: external_ringtest::coreneuron_gpu_mpi_offline::preparation .........***Failed 6.38 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 0 UH��AWAVATSH��M��M��L�%�I� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 0 UH��AWAVATSH��M��M��L�%�I� | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 0 UH��AWAVATSH��M��M��L�%�I� | |
| Run with --help for more information. | |
| MPT ERROR: Rank 1(g:1) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 28585, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 0 UH��AWAVATSH��M��M��L�%�I� | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special, Rank 1, Process 28585: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/external_ringtest/coreneuron_gpu_mpi_offline | |
| srun: error: r2i3n6: task 1: Aborted (core dumped) | |
| srun: Terminating job step 2780937.9 | |
| slurmstepd: error: *** STEP 2780937.9 ON r2i3n6 CANCELLED AT 2021-10-13T19:28:21 *** | |
| srun: error: r2i3n6: task 0: Terminated | |
| srun: Force Terminated job step 2780937.9 | |
| Start 62: testcorenrn_gf::coreneuron_cpu_offline::preparation | |
| 11/115 Test #35: testcorenrn_bbcore::coreneuron_gpu_online ..........................***Failed 4.84 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 1 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 0 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --gpu --tstop 100 --cell-permute 1 --verbose 2 --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 28764, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 28764: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_bbcore/coreneuron_gpu_online | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.12 | |
| Start 41: testcorenrn_bbcore::coreneuron_cpu_offline | |
| 12/115 Test #58: testcorenrn_gf::coreneuron_gpu_offline::preparation ................ Passed 2.00 sec | |
| Start 68: testcorenrn_patstim::coreneuron_cpu_offline::preparation | |
| 13/115 Test #62: testcorenrn_gf::coreneuron_cpu_offline::preparation ................ Passed 2.00 sec | |
| Start 74: testcorenrn_vecplay::coreneuron_gpu_offline::preparation | |
| 14/115 Test #36: testcorenrn_bbcore::coreneuron_gpu_online_psolve_alternate .........***Failed 5.31 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 1 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 0 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --gpu --tstop 100 --cell-permute 1 --verbose 2 --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 28820, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 28820: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_bbcore/coreneuron_gpu_online_psolve_alternate | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.13 | |
| Start 44: testcorenrn_deriv::neuron | |
| 15/115 Test #41: testcorenrn_bbcore::coreneuron_cpu_offline ......................... Passed 1.67 sec | |
| Start 45: testcorenrn_deriv::coreneuron_gpu_online | |
| 16/115 Test #39: testcorenrn_bbcore::coreneuron_cpu_online ..........................***Failed 5.50 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 0 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 28887, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 28887: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_bbcore/coreneuron_cpu_online | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.15 | |
| Start 46: testcorenrn_deriv::coreneuron_gpu_online_psolve_alternate | |
| 17/115 Test #68: testcorenrn_patstim::coreneuron_cpu_offline::preparation ........... Passed 1.74 sec | |
| Start 78: testcorenrn_vecplay::coreneuron_cpu_offline::preparation | |
| 18/115 Test #74: testcorenrn_vecplay::coreneuron_gpu_offline::preparation ........... Passed 1.74 sec | |
| Start 94: testcorenrn_watch::coreneuron_gpu_offline::preparation | |
| 19/115 Test #44: testcorenrn_deriv::neuron .......................................... Passed 1.51 sec | |
| Start 47: testcorenrn_deriv::coreneuron_gpu_offline | |
| 20/115 Test #40: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate .........***Failed 5.00 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 0 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 28971, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 28971: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_bbcore/coreneuron_cpu_online_psolve_alternate | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.16 | |
| Start 49: testcorenrn_deriv::coreneuron_cpu_online | |
| 21/115 Test #78: testcorenrn_vecplay::coreneuron_cpu_offline::preparation ........... Passed 1.75 sec | |
| Start 98: testcorenrn_watch::coreneuron_cpu_offline::preparation | |
| 22/115 Test #94: testcorenrn_watch::coreneuron_gpu_offline::preparation ............. Passed 1.84 sec | |
| Start 24: external_ringtest::neuron_mpi | |
| 23/115 Test #47: testcorenrn_deriv::coreneuron_gpu_offline .......................... Passed 2.62 sec | |
| Start 50: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate | |
| 24/115 Test #98: testcorenrn_watch::coreneuron_cpu_offline::preparation ............. Passed 1.85 sec | |
| Start 25: external_ringtest::coreneuron_cpu_mpi | |
| 25/115 Test #45: testcorenrn_deriv::coreneuron_gpu_online ...........................***Failed 4.90 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 1 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --gpu --tstop 100 --cell-permute 1 --verbose 2 --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 29256, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 29256: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_deriv/coreneuron_gpu_online | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.23 | |
| Start 51: testcorenrn_deriv::coreneuron_cpu_offline | |
| 26/115 Test #46: testcorenrn_deriv::coreneuron_gpu_online_psolve_alternate ..........***Failed 4.87 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 1 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --gpu --tstop 100 --cell-permute 1 --verbose 2 --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 29304, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 29304: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_deriv/coreneuron_gpu_online_psolve_alternate | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.24 | |
| Start 65: testcorenrn_patstim::coreneuron_gpu_offline | |
| 27/115 Test #24: external_ringtest::neuron_mpi ...................................... Passed 2.76 sec | |
| Start 26: external_ringtest::coreneuron_cpu_mpi_offline | |
| 28/115 Test #51: testcorenrn_deriv::coreneuron_cpu_offline .......................... Passed 1.84 sec | |
| Start 104: channel_benchmark_hippo::neuron | |
| 29/115 Test #49: testcorenrn_deriv::coreneuron_cpu_online ...........................***Failed 5.45 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 29481, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 29481: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_deriv/coreneuron_cpu_online | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.28 | |
| Start 105: channel_benchmark_hippo::coreneuron_gpu_online | |
| 30/115 Test #65: testcorenrn_patstim::coreneuron_gpu_offline ........................ Passed 2.69 sec | |
| Start 106: channel_benchmark_hippo::coreneuron_gpu_filemode | |
| 31/115 Test #26: external_ringtest::coreneuron_cpu_mpi_offline ...................... Passed 3.16 sec | |
| Start 28: external_ringtest::coreneuron_cpu_mpi_threads | |
| 32/115 Test #50: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate ..........***Failed 5.06 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 29710, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 29710: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_deriv/coreneuron_cpu_online_psolve_alternate | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.31 | |
| Start 107: channel_benchmark_hippo::coreneuron_cpu_online | |
| 33/115 Test #25: external_ringtest::coreneuron_cpu_mpi ..............................***Failed 6.65 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%�I� | |
| Run with --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%�I� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%�I� | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%�I� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 29764, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special, Rank 0, Process 29764: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/external_ringtest/coreneuron_cpu_mpi | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.32 | |
| slurmstepd: error: *** STEP 2780937.32 ON r2i3n6 CANCELLED AT 2021-10-13T19:28:35 *** | |
| srun: error: r2i3n6: task 1: Terminated | |
| srun: Force Terminated job step 2780937.32 | |
| Start 29: external_ringtest::coreneuron_gpu_mpi | |
| 34/115 Test #28: external_ringtest::coreneuron_cpu_mpi_threads ......................***Failed 9.06 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%�I� | |
| Run with --help for more information. | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%�I� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%�I� | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%�I� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 30044, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special, Rank 0, Process 30044: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/external_ringtest/coreneuron_cpu_mpi_threads | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.39 | |
| slurmstepd: error: *** STEP 2780937.39 ON r2i3n6 CANCELLED AT 2021-10-13T19:28:42 *** | |
| srun: error: r2i3n6: task 1: Terminated | |
| srun: Force Terminated job step 2780937.39 | |
| Start 30: external_ringtest::coreneuron_gpu_mpi_offline | |
| 35/115 Test #29: external_ringtest::coreneuron_gpu_mpi ..............................***Failed 9.37 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%�I� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%�I� | |
| MPT ERROR: Rank 1(g:1) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 30119, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%�I� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%�I� | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special, Rank 1, Process 30119: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/external_ringtest/coreneuron_gpu_mpi | |
| srun: error: r2i3n6: task 1: Aborted (core dumped) | |
| srun: Terminating job step 2780937.41 | |
| slurmstepd: error: *** STEP 2780937.41 ON r2i3n6 CANCELLED AT 2021-10-13T19:28:45 *** | |
| srun: error: r2i3n6: task 0: Terminated | |
| srun: Force Terminated job step 2780937.41 | |
| Start 32: external_ringtest::coreneuron_gpu_mpi_threads | |
| 36/115 Test #32: external_ringtest::coreneuron_gpu_mpi_threads ......................***Failed 8.70 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%�I� | |
| Run with --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%�I� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%�I� | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 30236, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%�I� | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special, Rank 0, Process 30236: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/external_ringtest/coreneuron_gpu_mpi_threads | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.43 | |
| slurmstepd: error: *** STEP 2780937.43 ON r2i3n6 CANCELLED AT 2021-10-13T19:28:53 *** | |
| srun: error: r2i3n6: task 1: Terminated | |
| srun: Force Terminated job step 2780937.43 | |
| Start 54: testcorenrn_gf::neuron | |
| 37/115 Test #30: external_ringtest::coreneuron_gpu_mpi_offline ...................... Passed 16.79 sec | |
| Start 55: testcorenrn_gf::coreneuron_gpu_online | |
| 38/115 Test #54: testcorenrn_gf::neuron ............................................. Passed 6.29 sec | |
| Start 56: testcorenrn_gf::coreneuron_gpu_online_psolve_alternate | |
| 39/115 Test #55: testcorenrn_gf::coreneuron_gpu_online ..............................***Failed 7.56 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 1 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 1(g:1) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 30360, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| nrncore_arg: | --gpu --tstop 100 --cell-permute 1 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 1, Process 30360: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_gf/coreneuron_gpu_online | |
| srun: error: r2i3n6: task 1: Aborted (core dumped) | |
| srun: Terminating job step 2780937.45 | |
| slurmstepd: error: *** STEP 2780937.45 ON r2i3n6 CANCELLED AT 2021-10-13T19:29:06 *** | |
| srun: error: r2i3n6: task 0: Terminated | |
| srun: Force Terminated job step 2780937.45 | |
| Start 57: testcorenrn_gf::coreneuron_gpu_offline | |
| 40/115 Test #56: testcorenrn_gf::coreneuron_gpu_online_psolve_alternate .............***Failed 9.31 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 1 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --gpu --tstop 100 --cell-permute 1 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 30393, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 30393: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_gf/coreneuron_gpu_online_psolve_alternate | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.46 | |
| slurmstepd: error: *** STEP 2780937.46 ON r2i3n6 CANCELLED AT 2021-10-13T19:29:09 *** | |
| srun: error: r2i3n6: task 1: Terminated | |
| srun: Force Terminated job step 2780937.46 | |
| Start 59: testcorenrn_gf::coreneuron_cpu_online | |
| 41/115 Test #59: testcorenrn_gf::coreneuron_cpu_online ..............................***Failed 6.72 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 1(g:1) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 30511, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 1, Process 30511: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_gf/coreneuron_cpu_online | |
| srun: error: r2i3n6: task 1: Aborted (core dumped) | |
| srun: Terminating job step 2780937.48 | |
| slurmstepd: error: *** STEP 2780937.48 ON r2i3n6 CANCELLED AT 2021-10-13T19:29:15 *** | |
| srun: error: r2i3n6: task 0: Terminated | |
| srun: Force Terminated job step 2780937.48 | |
| Start 60: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate | |
| 42/115 Test #57: testcorenrn_gf::coreneuron_gpu_offline ............................. Passed 14.52 sec | |
| Start 61: testcorenrn_gf::coreneuron_cpu_offline | |
| 43/115 Test #60: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate .............***Failed 9.28 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 30566, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 30566: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_gf/coreneuron_cpu_online_psolve_alternate | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.49 | |
| slurmstepd: error: *** STEP 2780937.49 ON r2i3n6 CANCELLED AT 2021-10-13T19:29:25 *** | |
| srun: error: r2i3n6: task 1: Terminated | |
| srun: Force Terminated job step 2780937.49 | |
| Start 64: testcorenrn_patstim::neuron | |
| 44/115 Test #64: testcorenrn_patstim::neuron ........................................ Passed 3.59 sec | |
| Start 67: testcorenrn_patstim::coreneuron_cpu_offline | |
| 45/115 Test #61: testcorenrn_gf::coreneuron_cpu_offline ............................. Passed 12.13 sec | |
| Start 70: testcorenrn_vecplay::neuron | |
| 46/115 Test #70: testcorenrn_vecplay::neuron ........................................ Passed 2.98 sec | |
| Start 71: testcorenrn_vecplay::coreneuron_gpu_online | |
| 47/115 Test #67: testcorenrn_patstim::coreneuron_cpu_offline ........................ Passed 8.76 sec | |
| Start 72: testcorenrn_vecplay::coreneuron_gpu_online_psolve_alternate | |
| 48/115 Test #71: testcorenrn_vecplay::coreneuron_gpu_online .........................***Failed 7.46 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 1 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 1(g:1) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 30838, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| nrncore_arg: | --gpu --tstop 100 --cell-permute 1 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 1, Process 30838: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_vecplay/coreneuron_gpu_online | |
| srun: error: r2i3n6: task 1: Aborted (core dumped) | |
| srun: Terminating job step 2780937.54 | |
| slurmstepd: error: *** STEP 2780937.54 ON r2i3n6 CANCELLED AT 2021-10-13T19:29:43 *** | |
| srun: error: r2i3n6: task 0: Terminated | |
| srun: Force Terminated job step 2780937.54 | |
| Start 73: testcorenrn_vecplay::coreneuron_gpu_offline | |
| 49/115 Test #72: testcorenrn_vecplay::coreneuron_gpu_online_psolve_alternate ........***Failed 9.28 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 1 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --gpu --tstop 100 --cell-permute 1 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| CLI parsing error, see nrniv-core --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 30875, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 30875: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_vecplay/coreneuron_gpu_online_psolve_alternate | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.55 | |
| slurmstepd: error: *** STEP 2780937.55 ON r2i3n6 CANCELLED AT 2021-10-13T19:29:47 *** | |
| srun: error: r2i3n6: task 1: Terminated | |
| srun: Force Terminated job step 2780937.55 | |
| Start 75: testcorenrn_vecplay::coreneuron_cpu_online | |
| 50/115 Test #75: testcorenrn_vecplay::coreneuron_cpu_online .........................***Failed 6.98 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 1(g:1) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 30995, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 1, Process 30995: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_vecplay/coreneuron_cpu_online | |
| srun: error: r2i3n6: task 1: Aborted (core dumped) | |
| srun: Terminating job step 2780937.57 | |
| slurmstepd: error: *** STEP 2780937.57 ON r2i3n6 CANCELLED AT 2021-10-13T19:29:53 *** | |
| srun: error: r2i3n6: task 0: Terminated | |
| srun: Force Terminated job step 2780937.57 | |
| Start 76: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate | |
| 51/115 Test #73: testcorenrn_vecplay::coreneuron_gpu_offline ........................ Passed 15.26 sec | |
| Start 77: testcorenrn_vecplay::coreneuron_cpu_offline | |
| 52/115 Test #105: channel_benchmark_hippo::coreneuron_gpu_online .....................***Failed 89.09 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./cacummb.mod" "./cacumm.mod" "./CaDynamics_DC0.mod" "./CaDynamics_E2.mod" "./cagk.mod" "./Ca_HVA2.mod" "./Ca_HVA.mod" "./cal2.mod" "./Ca_LVAst.mod" "./Ca.mod" "./can2.mod" "./cat.mod" "./CoreConfig.mod" "./gap.mod" "./halfgap.mod" "./h.mod" "./Ih.mod" "./Im.mod" "./kadist.mod" "./kaprox.mod" "./kca.mod" "./kd2.mod" "./kdb.mod" "./kd.mod" "./kdrbca1.mod" "./kdrca1.mod" "./KdShu2007.mod" "./kmb.mod" "./km.mod" "./K_Pst.mod" "./K_Tst.mod" "./na3n.mod" "./Nap_Et2.mod" "./NaTa_t.mod" "./NaTg.mod" "./NaTs2_t.mod" "./naxn.mod" "./netstim_inhpoisson.mod" "./new_calcium_channels.mod" "./ProbAMPANMDA_EMS.mod" "./ProbGABAAB_EMS.mod" "./ProfileHelper.mod" "./SK_E2.mod" "./SKv3_1.mod" "./TTXDynamicsSwitch.mod" "./VecStim.mod" | |
| arg_tstop 10 | |
| arg_target_count 6 | |
| arg_model hippo | |
| arg_coreneuron 1 | |
| arg_coreneuron_gpu 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_datapath benchmark/channels | |
| arg_prcell_gid -1 | |
| 1 | |
| Loading 6 templates | |
| Instatiated 0 cell of type 0 | |
| Instatiated 1 cell of type 1 | |
| Instatiated 2 cell of type 2 | |
| Instatiated 3 cell of type 3 | |
| Instatiated 4 cell of type 4 | |
| Instatiated 5 cell of type 5 | |
| done cells | |
| add report | |
| Starting Simulation | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 29973, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special, Rank 0, Process 29973: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/channel_benchmark_hippo/coreneuron_gpu_online | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.37 | |
| Start 108: channel_benchmark_hippo::coreneuron_cpu_filemode | |
| 53/115 Test #106: channel_benchmark_hippo::coreneuron_gpu_filemode ...................***Failed 89.78 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./cacummb.mod" "./cacumm.mod" "./CaDynamics_DC0.mod" "./CaDynamics_E2.mod" "./cagk.mod" "./Ca_HVA2.mod" "./Ca_HVA.mod" "./cal2.mod" "./Ca_LVAst.mod" "./Ca.mod" "./can2.mod" "./cat.mod" "./CoreConfig.mod" "./gap.mod" "./halfgap.mod" "./h.mod" "./Ih.mod" "./Im.mod" "./kadist.mod" "./kaprox.mod" "./kca.mod" "./kd2.mod" "./kdb.mod" "./kd.mod" "./kdrbca1.mod" "./kdrca1.mod" "./KdShu2007.mod" "./kmb.mod" "./km.mod" "./K_Pst.mod" "./K_Tst.mod" "./na3n.mod" "./Nap_Et2.mod" "./NaTa_t.mod" "./NaTg.mod" "./NaTs2_t.mod" "./naxn.mod" "./netstim_inhpoisson.mod" "./new_calcium_channels.mod" "./ProbAMPANMDA_EMS.mod" "./ProbGABAAB_EMS.mod" "./ProfileHelper.mod" "./SK_E2.mod" "./SKv3_1.mod" "./TTXDynamicsSwitch.mod" "./VecStim.mod" | |
| arg_tstop 10 | |
| arg_target_count 6 | |
| arg_model hippo | |
| arg_coreneuron 1 | |
| arg_coreneuron_gpu 1 | |
| arg_coreneuron_filemode 1 | |
| arg_dump_coreneuron_model 0 | |
| arg_datapath benchmark/channels | |
| arg_prcell_gid -1 | |
| 1 | |
| Loading 6 templates | |
| Instatiated 0 cell of type 0 | |
| Instatiated 1 cell of type 1 | |
| Instatiated 2 cell of type 2 | |
| Instatiated 3 cell of type 3 | |
| Instatiated 4 cell of type 4 | |
| Instatiated 5 cell of type 5 | |
| done cells | |
| add report | |
| Starting CoreNEURON data generation | |
| Starting Simulation | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 30014, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special, Rank 0, Process 30014: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/channel_benchmark_hippo/coreneuron_gpu_filemode | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.38 | |
| Start 110: channel_benchmark_sscx::neuron | |
| 54/115 Test #76: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate ........***Failed 8.44 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 1(g:1) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 31049, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 1, Process 31049: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_vecplay/coreneuron_cpu_online_psolve_alternate | |
| srun: error: r2i3n6: task 1: Aborted (core dumped) | |
| srun: Terminating job step 2780937.58 | |
| slurmstepd: error: *** STEP 2780937.58 ON r2i3n6 CANCELLED AT 2021-10-13T19:30:02 *** | |
| srun: error: r2i3n6: task 0: Terminated | |
| srun: Force Terminated job step 2780937.58 | |
| Start 90: testcorenrn_watch::neuron | |
| 55/115 Test #104: channel_benchmark_hippo::neuron .................................... Passed 91.43 sec | |
| Start 111: channel_benchmark_sscx::coreneuron_gpu_online | |
| 56/115 Test #107: channel_benchmark_hippo::coreneuron_cpu_online .....................***Failed 89.36 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./cacummb.mod" "./cacumm.mod" "./CaDynamics_DC0.mod" "./CaDynamics_E2.mod" "./cagk.mod" "./Ca_HVA2.mod" "./Ca_HVA.mod" "./cal2.mod" "./Ca_LVAst.mod" "./Ca.mod" "./can2.mod" "./cat.mod" "./CoreConfig.mod" "./gap.mod" "./halfgap.mod" "./h.mod" "./Ih.mod" "./Im.mod" "./kadist.mod" "./kaprox.mod" "./kca.mod" "./kd2.mod" "./kdb.mod" "./kd.mod" "./kdrbca1.mod" "./kdrca1.mod" "./KdShu2007.mod" "./kmb.mod" "./km.mod" "./K_Pst.mod" "./K_Tst.mod" "./na3n.mod" "./Nap_Et2.mod" "./NaTa_t.mod" "./NaTg.mod" "./NaTs2_t.mod" "./naxn.mod" "./netstim_inhpoisson.mod" "./new_calcium_channels.mod" "./ProbAMPANMDA_EMS.mod" "./ProbGABAAB_EMS.mod" "./ProfileHelper.mod" "./SK_E2.mod" "./SKv3_1.mod" "./TTXDynamicsSwitch.mod" "./VecStim.mod" | |
| arg_tstop 10 | |
| arg_target_count 6 | |
| arg_model hippo | |
| arg_coreneuron 1 | |
| arg_coreneuron_gpu 0 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_datapath benchmark/channels | |
| arg_prcell_gid -1 | |
| 1 | |
| Loading 6 templates | |
| Instatiated 0 cell of type 0 | |
| Instatiated 1 cell of type 1 | |
| Instatiated 2 cell of type 2 | |
| Instatiated 3 cell of type 3 | |
| Instatiated 4 cell of type 4 | |
| Instatiated 5 cell of type 5 | |
| done cells | |
| add report | |
| Starting Simulation | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 10 UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 10 UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 30078, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special, Rank 0, Process 30078: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/channel_benchmark_hippo/coreneuron_cpu_online | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.40 | |
| Start 112: channel_benchmark_sscx::coreneuron_gpu_filemode | |
| 57/115 Test #77: testcorenrn_vecplay::coreneuron_cpu_offline ........................ Passed 4.42 sec | |
| Start 91: testcorenrn_watch::coreneuron_gpu_online | |
| 58/115 Test #90: testcorenrn_watch::neuron .......................................... Passed 3.01 sec | |
| Start 92: testcorenrn_watch::coreneuron_gpu_online_psolve_alternate | |
| 59/115 Test #92: testcorenrn_watch::coreneuron_gpu_online_psolve_alternate ..........***Failed 45.94 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 1 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --gpu --tstop 100 --cell-permute 1 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| CLI parsing error, see nrniv-core --help for more information. | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 31486, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 31486: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_watch/coreneuron_gpu_online_psolve_alternate | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.66 | |
| slurmstepd: error: *** STEP 2780937.66 ON r2i3n6 CANCELLED AT 2021-10-13T19:30:51 *** | |
| srun: error: r2i3n6: task 1: Terminated | |
| srun: Force Terminated job step 2780937.66 | |
| Start 93: testcorenrn_watch::coreneuron_gpu_offline | |
| 60/115 Test #93: testcorenrn_watch::coreneuron_gpu_offline .......................... Passed 16.10 sec | |
| Start 95: testcorenrn_watch::coreneuron_cpu_online | |
| 61/115 Test #95: testcorenrn_watch::coreneuron_cpu_online ...........................***Failed 5.80 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 1(g:1) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 31617, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 1, Process 31617: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_watch/coreneuron_cpu_online | |
| srun: error: r2i3n6: task 1: Aborted (core dumped) | |
| srun: Terminating job step 2780937.68 | |
| slurmstepd: error: *** STEP 2780937.68 ON r2i3n6 CANCELLED AT 2021-10-13T19:31:13 *** | |
| srun: error: r2i3n6: task 0: Terminated | |
| srun: Force Terminated job step 2780937.68 | |
| Start 96: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate | |
| 62/115 Test #111: channel_benchmark_sscx::coreneuron_gpu_online ......................***Failed 77.06 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./cacummb.mod" "./cacumm.mod" "./CaDynamics_DC0.mod" "./CaDynamics_E2.mod" "./cagk.mod" "./Ca_HVA2.mod" "./Ca_HVA.mod" "./cal2.mod" "./Ca_LVAst.mod" "./Ca.mod" "./can2.mod" "./cat.mod" "./CoreConfig.mod" "./gap.mod" "./halfgap.mod" "./h.mod" "./Ih.mod" "./Im.mod" "./kadist.mod" "./kaprox.mod" "./kca.mod" "./kd2.mod" "./kdb.mod" "./kd.mod" "./kdrbca1.mod" "./kdrca1.mod" "./KdShu2007.mod" "./kmb.mod" "./km.mod" "./K_Pst.mod" "./K_Tst.mod" "./na3n.mod" "./Nap_Et2.mod" "./NaTa_t.mod" "./NaTg.mod" "./NaTs2_t.mod" "./naxn.mod" "./netstim_inhpoisson.mod" "./new_calcium_channels.mod" "./ProbAMPANMDA_EMS.mod" "./ProbGABAAB_EMS.mod" "./ProfileHelper.mod" "./SK_E2.mod" "./SKv3_1.mod" "./TTXDynamicsSwitch.mod" "./VecStim.mod" | |
| arg_tstop 10 | |
| arg_target_count 16 | |
| arg_model sscx | |
| arg_coreneuron 1 | |
| arg_coreneuron_gpu 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_datapath benchmark/channels | |
| arg_prcell_gid -1 | |
| 1 | |
| Loading 16 templates | |
| Instatiated 0 cell of type 0 | |
| Instatiated 1 cell of type 1 | |
| Instatiated 2 cell of type 2 | |
| Instatiated 3 cell of type 3 | |
| Instatiated 4 cell of type 4 | |
| Instatiated 5 cell of type 5 | |
| Instatiated 6 cell of type 6 | |
| Instatiated 7 cell of type 7 | |
| Instatiated 8 cell of type 8 | |
| Instatiated 9 cell of type 9 | |
| Instatiated 10 cell of type 10 | |
| Instatiated 11 cell of type 11 | |
| Instatiated 12 cell of type 12 | |
| Instatiated 13 cell of type 13 | |
| Instatiated 14 cell of type 14 | |
| Instatiated 15 cell of type 15 | |
| done cells | |
| add report | |
| Starting Simulation | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 31312, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special, Rank 0, Process 31312: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/channel_benchmark_sscx/coreneuron_gpu_online | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.63 | |
| Start 113: channel_benchmark_sscx::coreneuron_cpu_online | |
| 63/115 Test #112: channel_benchmark_sscx::coreneuron_gpu_filemode ....................***Failed 77.57 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./cacummb.mod" "./cacumm.mod" "./CaDynamics_DC0.mod" "./CaDynamics_E2.mod" "./cagk.mod" "./Ca_HVA2.mod" "./Ca_HVA.mod" "./cal2.mod" "./Ca_LVAst.mod" "./Ca.mod" "./can2.mod" "./cat.mod" "./CoreConfig.mod" "./gap.mod" "./halfgap.mod" "./h.mod" "./Ih.mod" "./Im.mod" "./kadist.mod" "./kaprox.mod" "./kca.mod" "./kd2.mod" "./kdb.mod" "./kd.mod" "./kdrbca1.mod" "./kdrca1.mod" "./KdShu2007.mod" "./kmb.mod" "./km.mod" "./K_Pst.mod" "./K_Tst.mod" "./na3n.mod" "./Nap_Et2.mod" "./NaTa_t.mod" "./NaTg.mod" "./NaTs2_t.mod" "./naxn.mod" "./netstim_inhpoisson.mod" "./new_calcium_channels.mod" "./ProbAMPANMDA_EMS.mod" "./ProbGABAAB_EMS.mod" "./ProfileHelper.mod" "./SK_E2.mod" "./SKv3_1.mod" "./TTXDynamicsSwitch.mod" "./VecStim.mod" | |
| arg_tstop 10 | |
| arg_target_count 16 | |
| arg_model sscx | |
| arg_coreneuron 1 | |
| arg_coreneuron_gpu 1 | |
| arg_coreneuron_filemode 1 | |
| arg_dump_coreneuron_model 0 | |
| arg_datapath benchmark/channels | |
| arg_prcell_gid -1 | |
| 1 | |
| Loading 16 templates | |
| Instatiated 0 cell of type 0 | |
| Instatiated 1 cell of type 1 | |
| Instatiated 2 cell of type 2 | |
| Instatiated 3 cell of type 3 | |
| Instatiated 4 cell of type 4 | |
| Instatiated 5 cell of type 5 | |
| Instatiated 6 cell of type 6 | |
| Instatiated 7 cell of type 7 | |
| Instatiated 8 cell of type 8 | |
| Instatiated 9 cell of type 9 | |
| Instatiated 10 cell of type 10 | |
| Instatiated 11 cell of type 11 | |
| Instatiated 12 cell of type 12 | |
| Instatiated 13 cell of type 13 | |
| Instatiated 14 cell of type 14 | |
| Instatiated 15 cell of type 15 | |
| done cells | |
| add report | |
| Starting CoreNEURON data generation | |
| Starting Simulation | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 31353, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special, Rank 0, Process 31353: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/channel_benchmark_sscx/coreneuron_gpu_filemode | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.64 | |
| Start 114: channel_benchmark_sscx::coreneuron_cpu_filemode | |
| 64/115 Test #108: channel_benchmark_hippo::coreneuron_cpu_filemode ...................***Failed 79.55 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./cacummb.mod" "./cacumm.mod" "./CaDynamics_DC0.mod" "./CaDynamics_E2.mod" "./cagk.mod" "./Ca_HVA2.mod" "./Ca_HVA.mod" "./cal2.mod" "./Ca_LVAst.mod" "./Ca.mod" "./can2.mod" "./cat.mod" "./CoreConfig.mod" "./gap.mod" "./halfgap.mod" "./h.mod" "./Ih.mod" "./Im.mod" "./kadist.mod" "./kaprox.mod" "./kca.mod" "./kd2.mod" "./kdb.mod" "./kd.mod" "./kdrbca1.mod" "./kdrca1.mod" "./KdShu2007.mod" "./kmb.mod" "./km.mod" "./K_Pst.mod" "./K_Tst.mod" "./na3n.mod" "./Nap_Et2.mod" "./NaTa_t.mod" "./NaTg.mod" "./NaTs2_t.mod" "./naxn.mod" "./netstim_inhpoisson.mod" "./new_calcium_channels.mod" "./ProbAMPANMDA_EMS.mod" "./ProbGABAAB_EMS.mod" "./ProfileHelper.mod" "./SK_E2.mod" "./SKv3_1.mod" "./TTXDynamicsSwitch.mod" "./VecStim.mod" | |
| arg_tstop 10 | |
| arg_target_count 6 | |
| arg_model hippo | |
| arg_coreneuron 1 | |
| arg_coreneuron_gpu 0 | |
| arg_coreneuron_filemode 1 | |
| arg_dump_coreneuron_model 0 | |
| arg_datapath benchmark/channels | |
| arg_prcell_gid -1 | |
| 1 | |
| Loading 6 templates | |
| Instatiated 0 cell of type 0 | |
| Instatiated 1 cell of type 1 | |
| Instatiated 2 cell of type 2 | |
| Instatiated 3 cell of type 3 | |
| Instatiated 4 cell of type 4 | |
| Instatiated 5 cell of type 5 | |
| done cells | |
| add report | |
| Starting CoreNEURON data generation | |
| Starting Simulation | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 10 UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 10 UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 31204, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special, Rank 0, Process 31204: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/channel_benchmark_hippo/coreneuron_cpu_filemode | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.60 | |
| Start 1: testneuron | |
| 65/115 Test #96: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate ..........***Failed 7.42 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 31671, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 31671: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_watch/coreneuron_cpu_online_psolve_alternate | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.69 | |
| slurmstepd: error: *** STEP 2780937.69 ON r2i3n6 CANCELLED AT 2021-10-13T19:31:20 *** | |
| srun: error: r2i3n6: task 1: Terminated | |
| srun: Force Terminated job step 2780937.69 | |
| Start 97: testcorenrn_watch::coreneuron_cpu_offline | |
| 66/115 Test #1: testneuron ......................................................... Passed 0.07 sec | |
| Start 2: ringtest | |
| 67/115 Test #2: ringtest ........................................................... Passed 0.33 sec | |
| Start 3: connect_dend | |
| 68/115 Test #3: connect_dend ....................................................... Passed 0.18 sec | |
| Start 4: pynrn_tests::basic_tests | |
| 69/115 Test #110: channel_benchmark_sscx::neuron ..................................... Passed 79.16 sec | |
| Start 5: rxdmod_tests::rxd_tests | |
| 70/115 Test #97: testcorenrn_watch::coreneuron_cpu_offline .......................... Passed 4.28 sec | |
| Start 100: testcorenrn_netstimdirect::direct_netstimdirect | |
| 71/115 Test #100: testcorenrn_netstimdirect::direct_netstimdirect ....................***Failed 5.98 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 0 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| psolve time 0.04 | |
| Vector[5] | |
| Vector[6] | |
| Vector[5] | |
| Vector[6] | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 1(g:1) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 31915, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 1, Process 31915: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_netstimdirect/direct_netstimdirect | |
| srun: error: r2i3n6: task 1: Aborted (core dumped) | |
| srun: Terminating job step 2780937.73 | |
| slurmstepd: error: *** STEP 2780937.73 ON r2i3n6 CANCELLED AT 2021-10-13T19:31:30 *** | |
| srun: error: r2i3n6: task 0: Terminated | |
| srun: Force Terminated job step 2780937.73 | |
| Start 101: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate | |
| 72/115 Test #101: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate ...***Failed 7.94 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 0 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| psolve time 0.04 | |
| Vector[5] | |
| Vector[5] | |
| Vector[6] | |
| Vector[6] | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 32093, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 32093: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_netstimdirect/direct_netstimdirect_psolve_alternate | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.74 | |
| slurmstepd: error: *** STEP 2780937.74 ON r2i3n6 CANCELLED AT 2021-10-13T19:31:39 *** | |
| srun: error: r2i3n6: task 1: Terminated | |
| srun: Force Terminated job step 2780937.74 | |
| Start 6: rxdmod_tests::rxd_mpi_tests | |
| Start 7: parallel_tests | |
| 73/115 Test #113: channel_benchmark_sscx::coreneuron_cpu_online ......................***Failed 42.54 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./cacummb.mod" "./cacumm.mod" "./CaDynamics_DC0.mod" "./CaDynamics_E2.mod" "./cagk.mod" "./Ca_HVA2.mod" "./Ca_HVA.mod" "./cal2.mod" "./Ca_LVAst.mod" "./Ca.mod" "./can2.mod" "./cat.mod" "./CoreConfig.mod" "./gap.mod" "./halfgap.mod" "./h.mod" "./Ih.mod" "./Im.mod" "./kadist.mod" "./kaprox.mod" "./kca.mod" "./kd2.mod" "./kdb.mod" "./kd.mod" "./kdrbca1.mod" "./kdrca1.mod" "./KdShu2007.mod" "./kmb.mod" "./km.mod" "./K_Pst.mod" "./K_Tst.mod" "./na3n.mod" "./Nap_Et2.mod" "./NaTa_t.mod" "./NaTg.mod" "./NaTs2_t.mod" "./naxn.mod" "./netstim_inhpoisson.mod" "./new_calcium_channels.mod" "./ProbAMPANMDA_EMS.mod" "./ProbGABAAB_EMS.mod" "./ProfileHelper.mod" "./SK_E2.mod" "./SKv3_1.mod" "./TTXDynamicsSwitch.mod" "./VecStim.mod" | |
| arg_tstop 10 | |
| arg_target_count 16 | |
| arg_model sscx | |
| arg_coreneuron 1 | |
| arg_coreneuron_gpu 0 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_datapath benchmark/channels | |
| arg_prcell_gid -1 | |
| 1 | |
| Loading 16 templates | |
| Instatiated 0 cell of type 0 | |
| Instatiated 1 cell of type 1 | |
| Instatiated 2 cell of type 2 | |
| Instatiated 3 cell of type 3 | |
| Instatiated 4 cell of type 4 | |
| Instatiated 5 cell of type 5 | |
| Instatiated 6 cell of type 6 | |
| Instatiated 7 cell of type 7 | |
| Instatiated 8 cell of type 8 | |
| Instatiated 9 cell of type 9 | |
| Instatiated 10 cell of type 10 | |
| Instatiated 11 cell of type 11 | |
| Instatiated 12 cell of type 12 | |
| Instatiated 13 cell of type 13 | |
| Instatiated 14 cell of type 14 | |
| Instatiated 15 cell of type 15 | |
| done cells | |
| add report | |
| Starting Simulation | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 10 UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 10 UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 31766, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special, Rank 0, Process 31766: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/channel_benchmark_sscx/coreneuron_cpu_online | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.70 | |
| Start 8: parallel_partrans | |
| 74/115 Test #4: pynrn_tests::basic_tests ........................................... Passed 41.49 sec | |
| Start 9: parallel_bas | |
| 75/115 Test #114: channel_benchmark_sscx::coreneuron_cpu_filemode ....................***Failed 43.08 sec | |
| numprocs=1 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./cacummb.mod" "./cacumm.mod" "./CaDynamics_DC0.mod" "./CaDynamics_E2.mod" "./cagk.mod" "./Ca_HVA2.mod" "./Ca_HVA.mod" "./cal2.mod" "./Ca_LVAst.mod" "./Ca.mod" "./can2.mod" "./cat.mod" "./CoreConfig.mod" "./gap.mod" "./halfgap.mod" "./h.mod" "./Ih.mod" "./Im.mod" "./kadist.mod" "./kaprox.mod" "./kca.mod" "./kd2.mod" "./kdb.mod" "./kd.mod" "./kdrbca1.mod" "./kdrca1.mod" "./KdShu2007.mod" "./kmb.mod" "./km.mod" "./K_Pst.mod" "./K_Tst.mod" "./na3n.mod" "./Nap_Et2.mod" "./NaTa_t.mod" "./NaTg.mod" "./NaTs2_t.mod" "./naxn.mod" "./netstim_inhpoisson.mod" "./new_calcium_channels.mod" "./ProbAMPANMDA_EMS.mod" "./ProbGABAAB_EMS.mod" "./ProfileHelper.mod" "./SK_E2.mod" "./SKv3_1.mod" "./TTXDynamicsSwitch.mod" "./VecStim.mod" | |
| arg_tstop 10 | |
| arg_target_count 16 | |
| arg_model sscx | |
| arg_coreneuron 1 | |
| arg_coreneuron_gpu 0 | |
| arg_coreneuron_filemode 1 | |
| arg_dump_coreneuron_model 0 | |
| arg_datapath benchmark/channels | |
| arg_prcell_gid -1 | |
| 1 | |
| Loading 16 templates | |
| Instatiated 0 cell of type 0 | |
| Instatiated 1 cell of type 1 | |
| Instatiated 2 cell of type 2 | |
| Instatiated 3 cell of type 3 | |
| Instatiated 4 cell of type 4 | |
| Instatiated 5 cell of type 5 | |
| Instatiated 6 cell of type 6 | |
| Instatiated 7 cell of type 7 | |
| Instatiated 8 cell of type 8 | |
| Instatiated 9 cell of type 9 | |
| Instatiated 10 cell of type 10 | |
| Instatiated 11 cell of type 11 | |
| Instatiated 12 cell of type 12 | |
| Instatiated 13 cell of type 13 | |
| Instatiated 14 cell of type 14 | |
| Instatiated 15 cell of type 15 | |
| done cells | |
| add report | |
| Starting CoreNEURON data generation | |
| Starting Simulation | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 10 UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 10 UH��AWAVATSH��M��M��L�%Bb�A�$H�:b���H�{���8��H�W��� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 31803, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/90ea78c38c7a4aacdb78ced8468c4c6dfd59890c8fe3ca5775c9632385aa661b/x86_64/special, Rank 0, Process 31803: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/channel_benchmark_sscx/coreneuron_cpu_filemode | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.71 | |
| Start 10: coreneuron_modtests::direct_py | |
| 76/115 Test #8: parallel_partrans .................................................. Passed 2.76 sec | |
| Start 11: coreneuron_modtests::direct_hoc | |
| 77/115 Test #10: coreneuron_modtests::direct_py .....................................***Failed 4.47 sec | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| numprocs=1 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 32430, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special, Rank 0, Process 32430: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/coreneuron_modtests/direct_py | |
| Child aborted | |
| Start 12: coreneuron_modtests::spikes_py | |
| 78/115 Test #11: coreneuron_modtests::direct_hoc ....................................***Failed 4.05 sec | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| numprocs=1 | |
| nrncore_arg: | --gpu --tstop 5 --cell-permute 1 --verbose 2 --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 32462, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special, Rank 0, Process 32462: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/coreneuron_modtests/direct_hoc | |
| Child aborted | |
| Start 13: coreneuron_modtests::spikes_file_mode_py | |
| 79/115 Test #12: coreneuron_modtests::spikes_py .....................................***Failed 4.44 sec | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| numprocs=1 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 32721, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special, Rank 0, Process 32721: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/coreneuron_modtests/spikes_py | |
| Child aborted | |
| Start 14: coreneuron_modtests::fast_imem_py | |
| 80/115 Test #14: coreneuron_modtests::fast_imem_py .................................. Passed 0.98 sec | |
| Start 15: coreneuron_modtests::datareturn_py | |
| 81/115 Test #13: coreneuron_modtests::spikes_file_mode_py ...........................***Failed 4.91 sec | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| numprocs=1 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 32732, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special, Rank 0, Process 32732: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/coreneuron_modtests/spikes_file_mode_py | |
| Child aborted | |
| Start 16: coreneuron_modtests::test_units_py | |
| 82/115 Test #16: coreneuron_modtests::test_units_py .................................***Failed 4.24 sec | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| numprocs=1 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 32798, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special, Rank 0, Process 32798: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/coreneuron_modtests/test_units_py | |
| Child aborted | |
| Start 17: coreneuron_modtests::test_netmove_py | |
| 83/115 Test #15: coreneuron_modtests::datareturn_py .................................***Failed 4.79 sec | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| numprocs=1 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 32795, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special, Rank 0, Process 32795: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/coreneuron_modtests/datareturn_py | |
| Child aborted | |
| Start 18: coreneuron_modtests::test_watchrange_py | |
| 84/115 Test #17: coreneuron_modtests::test_netmove_py ...............................***Failed 5.11 sec | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| numprocs=1 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 32855, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special, Rank 0, Process 32855: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/coreneuron_modtests/test_netmove_py | |
| Child aborted | |
| Start 19: coreneuron_modtests::test_psolve_py | |
| 85/115 Test #18: coreneuron_modtests::test_watchrange_py ............................***Failed 5.17 sec | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| numprocs=1 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 32857, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special, Rank 0, Process 32857: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/coreneuron_modtests/test_watchrange_py | |
| Child aborted | |
| Start 20: coreneuron_modtests::test_natrans_py | |
| 86/115 Test #20: coreneuron_modtests::test_natrans_py ...............................***Failed 4.37 sec | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| numprocs=1 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 0.1 UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 0.1 UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 32910, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special, Rank 0, Process 32910: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/coreneuron_modtests/test_natrans_py | |
| Child aborted | |
| Start 33: external_ringtest::compare_results | |
| 87/115 Test #33: external_ringtest::compare_results .................................***Failed 0.07 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/external_ringtest/coreneuron_cpu_mpi/spk2.std' | |
| Start 43: testcorenrn_bbcore::compare_results | |
| 88/115 Test #43: testcorenrn_bbcore::compare_results ................................***Failed 0.07 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_bbcore/coreneuron_gpu_online/outbbcore.dat' | |
| Start 53: testcorenrn_deriv::compare_results | |
| 89/115 Test #53: testcorenrn_deriv::compare_results .................................***Failed 0.07 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_deriv/coreneuron_gpu_online/outderiv.dat' | |
| Start 63: testcorenrn_gf::compare_results | |
| 90/115 Test #63: testcorenrn_gf::compare_results ....................................***Failed 0.07 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_gf/coreneuron_gpu_online/outgf.dat' | |
| Start 69: testcorenrn_patstim::compare_results | |
| 91/115 Test #69: testcorenrn_patstim::compare_results ............................... Passed 0.07 sec | |
| Start 79: testcorenrn_vecplay::compare_results | |
| 92/115 Test #79: testcorenrn_vecplay::compare_results ...............................***Failed 0.07 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_vecplay/coreneuron_gpu_online/outvecplay.dat' | |
| Start 102: testcorenrn_netstimdirect::compare_results | |
| 93/115 Test #102: testcorenrn_netstimdirect::compare_results .........................***Failed 0.07 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_netstimdirect/direct_netstimdirect/outnetstimdirect.dat' | |
| Start 103: external_nrntest | |
| 94/115 Test #19: coreneuron_modtests::test_psolve_py ................................***Failed 5.20 sec | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| numprocs=1 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 32908, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special, Rank 0, Process 32908: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/coreneuron_modtests/test_psolve_py | |
| Child aborted | |
| Start 109: channel_benchmark_hippo::compare_results | |
| 95/115 Test #109: channel_benchmark_hippo::compare_results ...........................***Failed 0.09 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/channel_benchmark_hippo/coreneuron_gpu_online/out.dat' | |
| Start 115: channel_benchmark_sscx::compare_results | |
| 96/115 Test #115: channel_benchmark_sscx::compare_results ............................***Failed 0.10 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/channel_benchmark_sscx/coreneuron_gpu_online/out.dat' | |
| 97/115 Test #9: parallel_bas ....................................................... Passed 246.39 sec | |
| Start 21: coreneuron_modtests::spikes_mpi_py | |
| 98/115 Test #21: coreneuron_modtests::spikes_mpi_py .................................***Failed 6.52 sec | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 34118, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special, Rank 0, Process 34118: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/coreneuron_modtests/spikes_mpi_py | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.79 | |
| slurmstepd: error: *** STEP 2780937.79 ON r2i3n6 CANCELLED AT 2021-10-13T19:36:15 *** | |
| srun: error: r2i3n6: task 1: Terminated | |
| srun: Force Terminated job step 2780937.79 | |
| Start 22: coreneuron_modtests::spikes_mpi_file_mode_py | |
| 99/115 Test #22: coreneuron_modtests::spikes_mpi_file_mode_py .......................***Failed 6.91 sec | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./fornetcon.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./sample.mod" "./unitstest.mod" "./watchrange.mod" | |
| numprocs=2 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT ERROR: Rank 1(g:1) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 34207, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M�Ç�L�%�Ъ | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/87e0f023d96a2fc751fdbc002b2c7723a84d67c26eba3f5f75ecc66f9e6c7d24/x86_64/special, Rank 1, Process 34207: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/coreneuron_modtests/spikes_mpi_file_mode_py | |
| srun: error: r2i3n6: task 1: Aborted (core dumped) | |
| srun: Terminating job step 2780937.80 | |
| slurmstepd: error: *** STEP 2780937.80 ON r2i3n6 CANCELLED AT 2021-10-13T19:36:22 *** | |
| srun: error: r2i3n6: task 0: Terminated | |
| srun: Force Terminated job step 2780937.80 | |
| 100/115 Test #6: rxdmod_tests::rxd_mpi_tests ........................................ Passed 325.41 sec | |
| 101/115 Test #91: testcorenrn_watch::coreneuron_gpu_online ...........................***Failed 547.11 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 1 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 1(g:1) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 31385, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 1, Process 31385: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_watch/coreneuron_gpu_online | |
| srun: error: r2i3n6: task 1: Aborted (core dumped) | |
| srun: Terminating job step 2780937.65 | |
| slurmstepd: error: *** STEP 2780937.65 ON r2i3n6 CANCELLED AT 2021-10-13T19:39:09 *** | |
| srun: error: r2i3n6: task 0: Terminated | |
| srun: Force Terminated job step 2780937.65 | |
| Start 84: testcorenrn_vecevent::coreneuron_gpu_offline::preparation | |
| Start 99: testcorenrn_watch::compare_results | |
| 102/115 Test #99: testcorenrn_watch::compare_results .................................***Failed 0.14 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_watch/coreneuron_gpu_online/outwatch.dat' | |
| 103/115 Test #84: testcorenrn_vecevent::coreneuron_gpu_offline::preparation .......... Passed 52.02 sec | |
| Start 88: testcorenrn_vecevent::coreneuron_cpu_offline::preparation | |
| 104/115 Test #88: testcorenrn_vecevent::coreneuron_cpu_offline::preparation .......... Passed 3.56 sec | |
| Start 80: testcorenrn_vecevent::neuron | |
| 105/115 Test #80: testcorenrn_vecevent::neuron ....................................... Passed 3.74 sec | |
| Start 81: testcorenrn_vecevent::coreneuron_gpu_online | |
| 106/115 Test #81: testcorenrn_vecevent::coreneuron_gpu_online ........................***Failed 9.26 sec | |
| numprocs=4 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 1 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| 10 | |
| 10 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 3(g:3) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 35241, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| nrncore_arg: | --gpu --tstop 100 --cell-permute 1 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT: ImportError: No module named site | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 3, Process 35241: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_vecevent/coreneuron_gpu_online | |
| srun: error: r2i3n6: task 3: Aborted (core dumped) | |
| srun: Terminating job step 2780937.87 | |
| slurmstepd: error: *** STEP 2780937.87 ON r2i3n6 CANCELLED AT 2021-10-13T19:40:18 *** | |
| srun: error: r2i3n6: tasks 0-2: Terminated | |
| srun: Force Terminated job step 2780937.87 | |
| Start 82: testcorenrn_vecevent::coreneuron_gpu_online_psolve_alternate | |
| 107/115 Test #82: testcorenrn_vecevent::coreneuron_gpu_online_psolve_alternate .......***Failed 9.90 sec | |
| numprocs=4 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 1 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| 10 | |
| 10 | |
| nrncore_arg: | --gpu --tstop 100 --cell-permute 1 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 2(g:2) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 35306, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following argument was not expected: UH��AWAVATSH��M��M��L�%"�� | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 2, Process 35306: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_vecevent/coreneuron_gpu_online_psolve_alternate | |
| srun: error: r2i3n6: task 2: Aborted (core dumped) | |
| srun: Terminating job step 2780937.88 | |
| slurmstepd: error: *** STEP 2780937.88 ON r2i3n6 CANCELLED AT 2021-10-13T19:40:28 *** | |
| srun: error: r2i3n6: tasks 0-1,3: Terminated | |
| srun: Force Terminated job step 2780937.88 | |
| Start 83: testcorenrn_vecevent::coreneuron_gpu_offline | |
| 108/115 Test #83: testcorenrn_vecevent::coreneuron_gpu_offline ....................... Passed 90.76 sec | |
| Start 85: testcorenrn_vecevent::coreneuron_cpu_online | |
| 109/115 Test #85: testcorenrn_vecevent::coreneuron_cpu_online ........................***Failed 9.26 sec | |
| numprocs=4 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| 10 | |
| 10 | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 3(g:3) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 35590, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| MPT: ImportError: No module named site | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 100 UH��AWAVATSH��M��M��L�%"�� | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 3, Process 35590: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_vecevent/coreneuron_cpu_online | |
| srun: error: r2i3n6: task 3: Aborted (core dumped) | |
| srun: Terminating job step 2780937.90 | |
| slurmstepd: error: *** STEP 2780937.90 ON r2i3n6 CANCELLED AT 2021-10-13T19:42:08 *** | |
| srun: error: r2i3n6: tasks 0-1: Terminated | |
| srun: error: r2i3n6: task 2: Terminated | |
| srun: Force Terminated job step 2780937.90 | |
| Start 86: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate | |
| 110/115 Test #86: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate .......***Failed 9.63 sec | |
| numprocs=4 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| MPT ERROR: Rank 0(g:0) received signal SIGABRT/SIGIOT(6). | |
| Process ID: 35650, Host: r2i3n6, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| CLI parsing error, see nrniv-core --help for more information. | |
| The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| Run with --help for more information. | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| terminate called after throwing an instance of 'CLI::ExtrasError' | |
| what(): The following arguments were not expected: 1 UH��AWAVATSH��M��M��L�%"�� | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i3n6, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/nrnivmodl/84d22880dc943e3350fad1c781b03bdf5ce76d9b58479e17de3fe6a470f81e00/x86_64/special, Rank 0, Process 35650: Dumping core on signal SIGABRT/SIGIOT(6) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_vecevent/coreneuron_cpu_online_psolve_alternate | |
| srun: error: r2i3n6: task 0: Aborted (core dumped) | |
| srun: Terminating job step 2780937.91 | |
| slurmstepd: error: *** STEP 2780937.91 ON r2i3n6 CANCELLED AT 2021-10-13T19:42:18 *** | |
| srun: error: r2i3n6: tasks 1-3: Terminated | |
| srun: Force Terminated job step 2780937.91 | |
| Start 87: testcorenrn_vecevent::coreneuron_cpu_offline | |
| 111/115 Test #87: testcorenrn_vecevent::coreneuron_cpu_offline ....................... Passed 18.67 sec | |
| Start 89: testcorenrn_vecevent::compare_results | |
| 112/115 Test #89: testcorenrn_vecevent::compare_results ..............................***Failed 0.08 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72589/spack-build/spack-stage-neuron-develop-o6xo3erzdudo5r5hse7yyvqm2vvvwzqt/spack-build-o6xo3er/test/testcorenrn_vecevent/coreneuron_gpu_online/outvecevent.dat' | |
| 113/115 Test #5: rxdmod_tests::rxd_tests ............................................***Timeout 1500.09 sec | |
| 114/115 Test #7: parallel_tests .....................................................***Timeout 1500.06 sec | |
| numprocs=6 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| 115/115 Test #103: external_nrntest ................................................... Passed 1465.43 sec | |
| 44% tests passed, 64 tests failed out of 115 | |
| Total Test time (real) = 1718.57 sec | |
| The following tests FAILED: | |
| 5 - rxdmod_tests::rxd_tests (Timeout) | |
| 7 - parallel_tests (Timeout) | |
| 10 - coreneuron_modtests::direct_py (Failed) | |
| 11 - coreneuron_modtests::direct_hoc (Failed) | |
| 12 - coreneuron_modtests::spikes_py (Failed) | |
| 13 - coreneuron_modtests::spikes_file_mode_py (Failed) | |
| 15 - coreneuron_modtests::datareturn_py (Failed) | |
| 16 - coreneuron_modtests::test_units_py (Failed) | |
| 17 - coreneuron_modtests::test_netmove_py (Failed) | |
| 18 - coreneuron_modtests::test_watchrange_py (Failed) | |
| 19 - coreneuron_modtests::test_psolve_py (Failed) | |
| 20 - coreneuron_modtests::test_natrans_py (Failed) | |
| 21 - coreneuron_modtests::spikes_mpi_py (Failed) | |
| 22 - coreneuron_modtests::spikes_mpi_file_mode_py (Failed) | |
| 25 - external_ringtest::coreneuron_cpu_mpi (Failed) | |
| 27 - external_ringtest::coreneuron_cpu_mpi_offline::preparation (Failed) | |
| 28 - external_ringtest::coreneuron_cpu_mpi_threads (Failed) | |
| 29 - external_ringtest::coreneuron_gpu_mpi (Failed) | |
| 31 - external_ringtest::coreneuron_gpu_mpi_offline::preparation (Failed) | |
| 32 - external_ringtest::coreneuron_gpu_mpi_threads (Failed) | |
| 33 - external_ringtest::compare_results (Failed) | |
| 35 - testcorenrn_bbcore::coreneuron_gpu_online (Failed) | |
| 36 - testcorenrn_bbcore::coreneuron_gpu_online_psolve_alternate (Failed) | |
| 39 - testcorenrn_bbcore::coreneuron_cpu_online (Failed) | |
| 40 - testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 43 - testcorenrn_bbcore::compare_results (Failed) | |
| 45 - testcorenrn_deriv::coreneuron_gpu_online (Failed) | |
| 46 - testcorenrn_deriv::coreneuron_gpu_online_psolve_alternate (Failed) | |
| 49 - testcorenrn_deriv::coreneuron_cpu_online (Failed) | |
| 50 - testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 53 - testcorenrn_deriv::compare_results (Failed) | |
| 55 - testcorenrn_gf::coreneuron_gpu_online (Failed) | |
| 56 - testcorenrn_gf::coreneuron_gpu_online_psolve_alternate (Failed) | |
| 59 - testcorenrn_gf::coreneuron_cpu_online (Failed) | |
| 60 - testcorenrn_gf::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 63 - testcorenrn_gf::compare_results (Failed) | |
| 71 - testcorenrn_vecplay::coreneuron_gpu_online (Failed) | |
| 72 - testcorenrn_vecplay::coreneuron_gpu_online_psolve_alternate (Failed) | |
| 75 - testcorenrn_vecplay::coreneuron_cpu_online (Failed) | |
| 76 - testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 79 - testcorenrn_vecplay::compare_results (Failed) | |
| 81 - testcorenrn_vecevent::coreneuron_gpu_online (Failed) | |
| 82 - testcorenrn_vecevent::coreneuron_gpu_online_psolve_alternate (Failed) | |
| 85 - testcorenrn_vecevent::coreneuron_cpu_online (Failed) | |
| 86 - testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 89 - testcorenrn_vecevent::compare_results (Failed) | |
| 91 - testcorenrn_watch::coreneuron_gpu_online (Failed) | |
| 92 - testcorenrn_watch::coreneuron_gpu_online_psolve_alternate (Failed) | |
| 95 - testcorenrn_watch::coreneuron_cpu_online (Failed) | |
| 96 - testcorenrn_watch::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 99 - testcorenrn_watch::compare_results (Failed) | |
| 100 - testcorenrn_netstimdirect::direct_netstimdirect (Failed) | |
| 101 - testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate (Failed) | |
| 102 - testcorenrn_netstimdirect::compare_results (Failed) | |
| 105 - channel_benchmark_hippo::coreneuron_gpu_online (Failed) | |
| 106 - channel_benchmark_hippo::coreneuron_gpu_filemode (Failed) | |
| 107 - channel_benchmark_hippo::coreneuron_cpu_online (Failed) | |
| 108 - channel_benchmark_hippo::coreneuron_cpu_filemode (Failed) | |
| 109 - channel_benchmark_hippo::compare_results (Failed) | |
| 111 - channel_benchmark_sscx::coreneuron_gpu_online (Failed) | |
| 112 - channel_benchmark_sscx::coreneuron_gpu_filemode (Failed) | |
| 113 - channel_benchmark_sscx::coreneuron_cpu_online (Failed) | |
| 114 - channel_benchmark_sscx::coreneuron_cpu_filemode (Failed) | |
| 115 - channel_benchmark_sscx::compare_results (Failed) | |
| Errors while running CTest | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.8.3 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| srun: error: r2i3n6: task 0: Exited with exit code 1 | |
| section_end:1634147815:step_script [0Ksection_start:1634147815:upload_artifacts_on_failure [0K[0K[36;1mUploading artifacts for failed 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=37823 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| Testing/: found 8 matching files and directories [0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72593 responseStatus[0;m=201 Created token[0;m=bc9cEzFt | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=37855 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72593 responseStatus[0;m=201 Created token[0;m=bc9cEzFt | |
| section_end:1634147816:upload_artifacts_on_failure [0Ksection_start:1634147816:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634147816:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1 | |
| [0;m |
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1634145081:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1634145081:resolve_secrets [0Ksection_start:1634145081:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 14.3.2, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor005193967, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 19854, build ref 7187ac5842413a6e4f050105d40e1f35bad3fac2, job ID 72591 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P19854 | |
| A slurm job will be created with name GL_J72591_PROD_P112_CP1_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 2780936 | |
| job state: R | |
| section_end:1634145207:prepare_executor [0Ksection_start:1634145207:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r2i2n34 via bbpv1.epfl.ch... | |
| section_end:1634145209:prepare_script [0Ksection_start:1634145209: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:1634145210:get_sources [0Ksection_start:1634145210:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:neuron+nmodl:intel (72587)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=57514 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=72587 responseStatus[0;m=200 OK token[0;m=ps8N-M3y | |
| section_end:1634145211:download_artifacts [0Ksection_start:1634145211:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ export CTEST_PARALLEL_LEVEL=${SLURM_TASKS_PER_NODE}[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ cd ${SPACK_BUILD_DIR}[0;m | |
| [32;1m$ export BOOST_TEST_COLOR_OUTPUT=no[0;m | |
| [32;1m$ i_am_a_failure=0[0;m | |
| [32;1m$ spack build-env ${SPACK_FULL_SPEC} -- ctest --output-on-failure -T Test || i_am_a_failure=1[0;m | |
| Site: r2i2n34 | |
| Build name: Linux-icpc | |
| Create new tag: 20211013-1715 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs | |
| Start 28: external_ringtest::coreneuron_cpu_mpi_offline::preparation | |
| Start 35: testcorenrn_bbcore::coreneuron_cpu_offline::preparation | |
| Start 41: testcorenrn_deriv::coreneuron_cpu_offline::preparation | |
| Start 47: testcorenrn_gf::coreneuron_cpu_offline::preparation | |
| Start 51: testcorenrn_patstim::coreneuron_cpu_offline::preparation | |
| 1/94 Test #35: testcorenrn_bbcore::coreneuron_cpu_offline::preparation ............ Passed 14.51 sec | |
| Start 75: testcorenrn_conc::coreneuron_cpu_offline::preparation | |
| 2/94 Test #41: testcorenrn_deriv::coreneuron_cpu_offline::preparation ............. Passed 15.03 sec | |
| Start 81: testcorenrn_kin::coreneuron_cpu_offline::preparation | |
| 3/94 Test #47: testcorenrn_gf::coreneuron_cpu_offline::preparation ................ Passed 16.62 sec | |
| Start 57: testcorenrn_vecplay::coreneuron_cpu_offline::preparation | |
| 4/94 Test #51: testcorenrn_patstim::coreneuron_cpu_offline::preparation ........... Passed 17.16 sec | |
| Start 69: testcorenrn_watch::coreneuron_cpu_offline::preparation | |
| 5/94 Test #75: testcorenrn_conc::coreneuron_cpu_offline::preparation .............. Passed 12.30 sec | |
| Start 24: external_ringtest::neuron | |
| 6/94 Test #81: testcorenrn_kin::coreneuron_cpu_offline::preparation ............... Passed 12.53 sec | |
| Start 31: testcorenrn_bbcore::neuron | |
| 7/94 Test #28: external_ringtest::coreneuron_cpu_mpi_offline::preparation .........***Failed 29.15 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| MPT ERROR: Rank 1(g:1) received signal SIGSEGV(11). | |
| Process ID: 58920, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i2n34, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special, Rank 1, Process 58920: Dumping core on signal SIGSEGV(11) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/external_ringtest/coreneuron_cpu_mpi_offline | |
| srun: error: r2i2n34: task 1: Segmentation fault (core dumped) | |
| srun: Terminating job step 2780936.5 | |
| slurmstepd: error: *** STEP 2780936.5 ON r2i2n34 CANCELLED AT 2021-10-13T19:16:27 *** | |
| srun: error: r2i2n34: task 0: Terminated | |
| srun: Force Terminated job step 2780936.5 | |
| Start 25: external_ringtest::neuron_mpi | |
| 8/94 Test #69: testcorenrn_watch::coreneuron_cpu_offline::preparation ............. Passed 12.96 sec | |
| Start 26: external_ringtest::coreneuron_cpu_mpi | |
| 9/94 Test #57: testcorenrn_vecplay::coreneuron_cpu_offline::preparation ........... Passed 15.86 sec | |
| Start 27: external_ringtest::coreneuron_cpu_mpi_offline | |
| 10/94 Test #31: testcorenrn_bbcore::neuron ......................................... Passed 11.39 sec | |
| Start 32: testcorenrn_bbcore::coreneuron_cpu_online | |
| 11/94 Test #27: external_ringtest::coreneuron_cpu_mpi_offline ...................... Passed 8.08 sec | |
| Start 29: external_ringtest::coreneuron_cpu_mpi_threads | |
| 12/94 Test #24: external_ringtest::neuron .......................................... Passed 20.03 sec | |
| Start 33: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate | |
| 13/94 Test #25: external_ringtest::neuron_mpi ...................................... Passed 21.17 sec | |
| Start 34: testcorenrn_bbcore::coreneuron_cpu_offline | |
| Start 37: testcorenrn_deriv::neuron | |
| 14/94 Test #26: external_ringtest::coreneuron_cpu_mpi ..............................***Failed 23.48 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| MPT ERROR: Rank 1(g:1) received signal SIGSEGV(11). | |
| Process ID: 59438, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i2n34, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special, Rank 1, Process 59438: Dumping core on signal SIGSEGV(11) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/external_ringtest/coreneuron_cpu_mpi | |
| srun: error: r2i2n34: task 1: Segmentation fault (core dumped) | |
| srun: Terminating job step 2780936.15 | |
| slurmstepd: error: *** STEP 2780936.15 ON r2i2n34 CANCELLED AT 2021-10-13T19:16:52 *** | |
| srun: error: r2i2n34: task 0: Terminated | |
| srun: Force Terminated job step 2780936.15 | |
| Start 38: testcorenrn_deriv::coreneuron_cpu_online | |
| Start 39: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate | |
| 15/94 Test #34: testcorenrn_bbcore::coreneuron_cpu_offline ......................... Passed 6.53 sec | |
| Start 40: testcorenrn_deriv::coreneuron_cpu_offline | |
| 16/94 Test #32: testcorenrn_bbcore::coreneuron_cpu_online .......................... Passed 18.06 sec | |
| Start 71: testcorenrn_conc::neuron | |
| 17/94 Test #37: testcorenrn_deriv::neuron .......................................... Passed 16.64 sec | |
| Start 72: testcorenrn_conc::coreneuron_cpu_online | |
| 18/94 Test #40: testcorenrn_deriv::coreneuron_cpu_offline .......................... Passed 11.33 sec | |
| Start 73: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate | |
| 19/94 Test #33: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate ......... Passed 21.64 sec | |
| Start 74: testcorenrn_conc::coreneuron_cpu_offline | |
| 20/94 Test #29: external_ringtest::coreneuron_cpu_mpi_threads ......................***Failed 30.09 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| MPT ERROR: Rank 1(g:1) received signal SIGSEGV(11). | |
| Process ID: 59610, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i2n34, Program /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/a1a0868ba5fbf062eadf987374a3bd5f993d19721f5aae5f9b4bbd05b13fa17d/x86_64/special, Rank 1, Process 59610: Dumping core on signal SIGSEGV(11) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/external_ringtest/coreneuron_cpu_mpi_threads | |
| srun: error: r2i2n34: task 1: Segmentation fault (core dumped) | |
| srun: Terminating job step 2780936.18 | |
| slurmstepd: error: *** STEP 2780936.18 ON r2i2n34 CANCELLED AT 2021-10-13T19:17:09 *** | |
| srun: error: r2i2n34: task 0: Terminated | |
| srun: Force Terminated job step 2780936.18 | |
| Start 43: testcorenrn_gf::neuron | |
| 21/94 Test #71: testcorenrn_conc::neuron ........................................... Passed 13.90 sec | |
| Start 77: testcorenrn_kin::neuron | |
| 22/94 Test #39: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate .......... Passed 17.74 sec | |
| Start 78: testcorenrn_kin::coreneuron_cpu_online | |
| 23/94 Test #74: testcorenrn_conc::coreneuron_cpu_offline ........................... Passed 7.32 sec | |
| Start 79: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate | |
| 24/94 Test #38: testcorenrn_deriv::coreneuron_cpu_online ........................... Passed 22.37 sec | |
| Start 80: testcorenrn_kin::coreneuron_cpu_offline | |
| 25/94 Test #77: testcorenrn_kin::neuron ............................................ Passed 10.61 sec | |
| Start 87: channel_benchmark_hippo::neuron | |
| 26/94 Test #43: testcorenrn_gf::neuron ............................................. Passed 15.04 sec | |
| Start 44: testcorenrn_gf::coreneuron_cpu_online | |
| 27/94 Test #72: testcorenrn_conc::coreneuron_cpu_online ............................ Passed 18.81 sec | |
| Start 88: channel_benchmark_hippo::coreneuron_cpu_online | |
| 28/94 Test #80: testcorenrn_kin::coreneuron_cpu_offline ............................ Passed 9.79 sec | |
| Start 89: channel_benchmark_hippo::coreneuron_cpu_filemode | |
| 29/94 Test #73: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate ........... Passed 18.67 sec | |
| Start 91: channel_benchmark_sscx::neuron | |
| 30/94 Test #78: testcorenrn_kin::coreneuron_cpu_online ............................. Passed 19.34 sec | |
| Start 92: channel_benchmark_sscx::coreneuron_cpu_online | |
| 31/94 Test #79: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate ............ Passed 16.19 sec | |
| Start 93: channel_benchmark_sscx::coreneuron_cpu_filemode | |
| 32/94 Test #44: testcorenrn_gf::coreneuron_cpu_online ..............................***Failed 44.12 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testgf.hoc near line 48 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(100) | |
| 1 prun("") | |
| MPT ERROR: Rank 1(g:1) is aborting with error code -1. | |
| Process ID: 60465, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testgf.hoc near line 48 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(100) | |
| 0 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780936.37 ON r2i2n34 CANCELLED AT 2021-10-13T19:18:04 *** | |
| srun: error: r2i2n34: task 0: Exited with exit code 255 | |
| srun: Terminating job step 2780936.37 | |
| srun: error: r2i2n34: task 1: Killed | |
| Start 45: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate | |
| 33/94 Test #87: channel_benchmark_hippo::neuron .................................... Passed 63.64 sec | |
| Start 1: testneuron | |
| 34/94 Test #1: testneuron ......................................................... Passed 12.77 sec | |
| Start 2: ringtest | |
| 35/94 Test #2: ringtest ........................................................... Passed 18.78 sec | |
| Start 3: connect_dend | |
| 36/94 Test #3: connect_dend ....................................................... Passed 14.26 sec | |
| Start 4: pynrn_tests::basic_tests | |
| 37/94 Test #88: channel_benchmark_hippo::coreneuron_cpu_online ..................... Passed 105.76 sec | |
| Start 5: rxdmod_tests::rxd_tests | |
| 38/94 Test #89: channel_benchmark_hippo::coreneuron_cpu_filemode ................... Passed 112.88 sec | |
| Start 6: rxdmod_tests::rxd_mpi_tests | |
| 39/94 Test #91: channel_benchmark_sscx::neuron ..................................... Passed 120.12 sec | |
| Start 7: parallel_tests | |
| 40/94 Test #92: channel_benchmark_sscx::coreneuron_cpu_online ...................... Passed 122.37 sec | |
| Start 8: parallel_partrans | |
| 41/94 Test #93: channel_benchmark_sscx::coreneuron_cpu_filemode .................... Passed 121.43 sec | |
| Start 9: parallel_bas | |
| 42/94 Test #45: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate .............***Failed 90.75 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Segmentation violation | |
| Backtrace: | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testgf.hoc near line 48 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(1) | |
| 1 prun("") | |
| MPT ERROR: Rank 1(g:1) is aborting with error code -1. | |
| Process ID: 60867, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testgf.hoc near line 48 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(1) | |
| 0 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780936.41 ON r2i2n34 CANCELLED AT 2021-10-13T19:19:39 *** | |
| srun: error: r2i2n34: task 0: Exited with exit code 255 | |
| srun: Terminating job step 2780936.41 | |
| srun: error: r2i2n34: task 1: Killed | |
| Start 46: testcorenrn_gf::coreneuron_cpu_offline | |
| 43/94 Test #46: testcorenrn_gf::coreneuron_cpu_offline ............................. Passed 11.96 sec | |
| Start 49: testcorenrn_patstim::neuron | |
| 44/94 Test #8: parallel_partrans .................................................. Passed 26.93 sec | |
| Start 10: coreneuron_modtests::direct_py | |
| 45/94 Test #7: parallel_tests ..................................................... Passed 45.59 sec | |
| Start 11: coreneuron_modtests::direct_hoc | |
| 46/94 Test #49: testcorenrn_patstim::neuron ........................................ Passed 27.45 sec | |
| Start 50: testcorenrn_patstim::coreneuron_cpu_offline | |
| 47/94 Test #11: coreneuron_modtests::direct_hoc .................................... Passed 9.50 sec | |
| Start 12: coreneuron_modtests::spikes_py | |
| 48/94 Test #50: testcorenrn_patstim::coreneuron_cpu_offline ........................ Passed 6.95 sec | |
| Start 53: testcorenrn_vecplay::neuron | |
| 49/94 Test #10: coreneuron_modtests::direct_py .....................................***Failed 46.63 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/direct_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_direct.py Fatal Python error: Segmentation fault | |
| Thread 0x00002acacb7de700 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/python/neuron/gui.py", line 87 in run | |
| File "/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/lib/python3.8/threading.py", line 932 in _bootstrap_inner | |
| File "/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/lib/python3.8/threading.py", line 890 in _bootstrap | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/direct_py/test/coreneuron/test_direct.py", line 52 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/direct_py/test/coreneuron/test_direct.py", line 70 in test_direct_memory_transfer | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 13: coreneuron_modtests::spikes_file_mode_py | |
| 50/94 Test #53: testcorenrn_vecplay::neuron ........................................ Passed 24.20 sec | |
| Start 54: testcorenrn_vecplay::coreneuron_cpu_online | |
| 51/94 Test #9: parallel_bas ....................................................... Passed 83.75 sec | |
| Start 14: coreneuron_modtests::fornetcon_py | |
| 52/94 Test #12: coreneuron_modtests::spikes_py .....................................***Failed 36.18 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/spikes_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_spikes.py Fatal Python error: Segmentation fault | |
| Thread 0x00002acacb7de700 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/python/neuron/gui.py", line 87 in run | |
| File "/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/lib/python3.8/threading.py", line 932 in _bootstrap_inner | |
| File "/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/lib/python3.8/threading.py", line 890 in _bootstrap | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/spikes_py/test/coreneuron/test_spikes.py", line 95 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/spikes_py/test/coreneuron/test_spikes.py", line 127 in test_spikes | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 15: coreneuron_modtests::fast_imem_py | |
| 53/94 Test #54: testcorenrn_vecplay::coreneuron_cpu_online .........................***Failed 21.82 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7d5 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testvecplay.hoc near line 54 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(100) | |
| 0 prun("") | |
| MPT ERROR: Rank 0(g:0) is aborting with error code -1. | |
| Process ID: 62380, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780936.50 ON r2i2n34 CANCELLED AT 2021-10-13T19:21:11 *** | |
| srun: error: r2i2n34: task 0: Exited with exit code 255 | |
| srun: Terminating job step 2780936.50 | |
| srun: error: r2i2n34: task 1: Killed | |
| Start 55: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate | |
| 54/94 Test #13: coreneuron_modtests::spikes_file_mode_py ...........................***Failed 32.86 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/spikes_file_mode_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_spikes.py Fatal Python error: Segmentation fault | |
| Thread 0x00002acacb7de700 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/python/neuron/gui.py", line 87 in run | |
| File "/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/lib/python3.8/threading.py", line 932 in _bootstrap_inner | |
| File "/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/lib/python3.8/threading.py", line 890 in _bootstrap | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/spikes_file_mode_py/test/coreneuron/test_spikes.py", line 95 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/spikes_file_mode_py/test/coreneuron/test_spikes.py", line 129 in test_spikes | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 16: coreneuron_modtests::datareturn_py | |
| 55/94 Test #14: coreneuron_modtests::fornetcon_py ..................................***Failed 28.04 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/fornetcon_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_fornetcon.py Fatal Python error: Segmentation fault | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/fornetcon_py/test/coreneuron/test_fornetcon.py", line 65 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/fornetcon_py/test/coreneuron/test_fornetcon.py", line 97 in runassert | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/fornetcon_py/test/coreneuron/test_fornetcon.py", line 105 in test_fornetcon | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 17: coreneuron_modtests::test_units_py | |
| 56/94 Test #4: pynrn_tests::basic_tests ........................................... Passed 137.09 sec | |
| Start 18: coreneuron_modtests::test_netmove_py | |
| 57/94 Test #55: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate ........***Failed 20.05 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Segmentation violation | |
| Backtrace: | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7d5 | |
| /usr/lib64/libc.so.6 : ()+0x16f7d5 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testvecplay.hoc near line 54 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(1) | |
| 1 prun("") | |
| MPT ERROR: Rank 1(g:1) is aborting with error code -1. | |
| Process ID: 62589, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testvecplay.hoc near line 54 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(1) | |
| 0 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780936.51 ON r2i2n34 CANCELLED AT 2021-10-13T19:21:31 *** | |
| srun: error: r2i2n34: task 0: Exited with exit code 255 | |
| srun: Terminating job step 2780936.51 | |
| srun: error: r2i2n34: task 1: Killed | |
| Start 56: testcorenrn_vecplay::coreneuron_cpu_offline | |
| 58/94 Test #15: coreneuron_modtests::fast_imem_py .................................. Passed 36.78 sec | |
| Start 19: coreneuron_modtests::test_watchrange_py | |
| 59/94 Test #56: testcorenrn_vecplay::coreneuron_cpu_offline ........................ Passed 7.45 sec | |
| Start 65: testcorenrn_watch::neuron | |
| 60/94 Test #16: coreneuron_modtests::datareturn_py .................................***Failed 27.67 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/datareturn_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_datareturn.py Fatal Python error: Segmentation fault | |
| Thread 0x00002acacb7de700 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/python/neuron/gui.py", line 87 in run | |
| File "/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/lib/python3.8/threading.py", line 932 in _bootstrap_inner | |
| File "/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/lib/python3.8/threading.py", line 890 in _bootstrap | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/datareturn_py/test/coreneuron/test_datareturn.py", line 151 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/datareturn_py/test/coreneuron/test_datareturn.py", line 181 in test_datareturn | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 20: coreneuron_modtests::test_psolve_py | |
| 61/94 Test #65: testcorenrn_watch::neuron .......................................... Passed 11.77 sec | |
| Start 66: testcorenrn_watch::coreneuron_cpu_online | |
| 62/94 Test #17: coreneuron_modtests::test_units_py .................................***Failed 28.82 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_units_py | |
| plugins: cov-2.8.1 | |
| collected 1 item | |
| test/coreneuron/test_units.py Fatal Python error: Segmentation fault | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_units_py/test/coreneuron/test_units.py", line 28 in test_units | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 21: coreneuron_modtests::test_natrans_py | |
| 63/94 Test #18: coreneuron_modtests::test_netmove_py ...............................***Failed 26.31 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_netmove_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_netmove.py Fatal Python error: Segmentation fault | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_netmove_py/test/coreneuron/test_netmove.py", line 69 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_netmove_py/test/coreneuron/test_netmove.py", line 89 in runassert | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_netmove_py/test/coreneuron/test_netmove.py", line 111 in test_netmove | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 30: external_ringtest::compare_results | |
| 64/94 Test #30: external_ringtest::compare_results .................................***Failed 3.34 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/external_ringtest/coreneuron_cpu_mpi/spk2.std' | |
| Start 36: testcorenrn_bbcore::compare_results | |
| 65/94 Test #36: testcorenrn_bbcore::compare_results ................................***Failed 8.45 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/testcorenrn_bbcore/coreneuron_cpu_online/outbbcore.dat' | |
| Start 42: testcorenrn_deriv::compare_results | |
| 66/94 Test #19: coreneuron_modtests::test_watchrange_py ............................***Failed 33.24 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_watchrange_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 1 item | |
| test/coreneuron/test_watchrange.py Fatal Python error: Segmentation fault | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_watchrange_py/test/coreneuron/test_watchrange.py", line 68 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_watchrange_py/test/coreneuron/test_watchrange.py", line 91 in runassert | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_watchrange_py/test/coreneuron/test_watchrange.py", line 141 in test_watchrange | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 48: testcorenrn_gf::compare_results | |
| 67/94 Test #42: testcorenrn_deriv::compare_results .................................***Failed 3.49 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/testcorenrn_deriv/coreneuron_cpu_online/outderiv.dat' | |
| Start 52: testcorenrn_patstim::compare_results | |
| 68/94 Test #48: testcorenrn_gf::compare_results ....................................***Failed 3.06 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/testcorenrn_gf/coreneuron_cpu_online/outgf.dat' | |
| Start 58: testcorenrn_vecplay::compare_results | |
| 69/94 Test #52: testcorenrn_patstim::compare_results ............................... Passed 2.68 sec | |
| Start 76: testcorenrn_conc::compare_results | |
| 70/94 Test #58: testcorenrn_vecplay::compare_results ...............................***Failed 2.91 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/testcorenrn_vecplay/coreneuron_cpu_online/outvecplay.dat' | |
| Start 82: testcorenrn_kin::compare_results | |
| 71/94 Test #66: testcorenrn_watch::coreneuron_cpu_online ...........................***Failed 22.32 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testwatch.hoc near line 54 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(100) | |
| 0 prun("") | |
| MPT ERROR: Rank 0(g:0) is aborting with error code -1. | |
| Process ID: 63055, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780936.54 ON r2i2n34 CANCELLED AT 2021-10-13T19:22:13 *** | |
| srun: error: r2i2n34: task 0: Exited with exit code 255 | |
| srun: Terminating job step 2780936.54 | |
| srun: error: r2i2n34: task 1: Killed | |
| Start 67: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate | |
| 72/94 Test #76: testcorenrn_conc::compare_results ..................................***Failed 2.90 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/testcorenrn_conc/coreneuron_cpu_online/outconc.dat' | |
| Start 86: external_nrntest | |
| 73/94 Test #82: testcorenrn_kin::compare_results ...................................***Failed 2.79 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/testcorenrn_kin/coreneuron_cpu_online/outkin.dat' | |
| Start 90: channel_benchmark_hippo::compare_results | |
| 74/94 Test #20: coreneuron_modtests::test_psolve_py ................................***Failed 30.68 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_psolve_py | |
| plugins: cov-2.8.1 | |
| numprocs=1 | |
| collected 2 items | |
| test/coreneuron/test_psolve.py Fatal Python error: Segmentation fault | |
| Thread 0x00002acacb7de700 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/python/neuron/gui.py", line 87 in run | |
| File "/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/lib/python3.8/threading.py", line 932 in _bootstrap_inner | |
| File "/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/lib/python3.8/threading.py", line 890 in _bootstrap | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_psolve_py/test/coreneuron/test_psolve.py", line 45 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_psolve_py/test/coreneuron/test_psolve.py", line 56 in test_psolve | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| Start 94: channel_benchmark_sscx::compare_results | |
| 75/94 Test #90: channel_benchmark_hippo::compare_results ...........................***Failed 3.57 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/channel_benchmark_hippo/coreneuron_cpu_online/out.dat' | |
| 76/94 Test #94: channel_benchmark_sscx::compare_results ............................***Failed 3.56 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/channel_benchmark_sscx/coreneuron_cpu_online/out.dat' | |
| Start 68: testcorenrn_watch::coreneuron_cpu_offline | |
| 77/94 Test #21: coreneuron_modtests::test_natrans_py ...............................***Failed 27.66 sec | |
| ============================= test session starts ============================== | |
| platform linux -- Python 3.8.3, pytest-5.3.4, py-1.8.0, pluggy-0.13.0 | |
| rootdir: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_natrans_py | |
| plugins: cov-2.8.1 | |
| collected 1 item | |
| test/gjtests/test_natrans.py Fatal Python error: Segmentation fault | |
| Current thread 0x00002aaaaab0f8c0 (most recent call first): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_natrans_py/test/gjtests/test_natrans.py", line 95 in run | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/test_natrans_py/test/gjtests/test_natrans.py", line 114 in test_natrans | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 167 in pytest_pyfunc_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/python.py", line 1445 in runtest | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 134 in pytest_runtest_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 210 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 237 in from_call | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 209 in call_runtest_hook | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 185 in call_and_report | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 99 in runtestprotocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/runner.py", line 84 in pytest_runtest_protocol | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 271 in pytest_runtestloop | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 247 in _main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 197 in wrap_session | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/main.py", line 240 in pytest_cmdline_main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/callers.py", line 187 in _multicall | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 83 in <lambda> | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/manager.py", line 92 in _hookexec | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pluggy-0.13.0-gc3zsi/lib/python3.8/site-packages/pluggy/hooks.py", line 286 in __call__ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/_pytest/config/__init__.py", line 92 in main | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/py-pytest-5.3.4-jo63uk/lib/python3.8/site-packages/pytest/__main__.py", line 7 in <module> | |
| File "/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/lib/python3.8/runpy.py", line 87 in _run_code | |
| File "/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/lib/python3.8/runpy.py", line 194 in _run_module_as_main | |
| Segmentation fault | |
| 78/94 Test #68: testcorenrn_watch::coreneuron_cpu_offline .......................... Passed 8.06 sec | |
| Start 83: testcorenrn_netstimdirect::direct_netstimdirect | |
| 79/94 Test #67: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate ..........***Failed 25.93 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Segmentation violation | |
| Backtrace: | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testwatch.hoc near line 54 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(1) | |
| 0 prun("") | |
| MPT ERROR: Rank 0(g:0) is aborting with error code -1. | |
| Process ID: 63332, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testwatch.hoc near line 54 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(1) | |
| 1 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780936.55 ON r2i2n34 CANCELLED AT 2021-10-13T19:22:39 *** | |
| srun: error: r2i2n34: task 0: Killed | |
| srun: Terminating job step 2780936.55 | |
| srun: error: r2i2n34: task 1: Exited with exit code 255 | |
| Start 84: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate | |
| Start 70: testcorenrn_watch::compare_results | |
| 80/94 Test #70: testcorenrn_watch::compare_results .................................***Failed 4.14 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/testcorenrn_watch/coreneuron_cpu_online/outwatch.dat' | |
| 81/94 Test #83: testcorenrn_netstimdirect::direct_netstimdirect ....................***Failed 24.47 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 0 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| psolve time 0 | |
| Vector[5] | |
| Vector[6] | |
| Vector[5] | |
| Vector[6] | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testnetstimdirect.hoc near line 68 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(100) | |
| 0 prun("") | |
| MPT ERROR: Rank 0(g:0) is aborting with error code -1. | |
| Process ID: 63662, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testnetstimdirect.hoc near line 68 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(100) | |
| 1 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780936.57 ON r2i2n34 CANCELLED AT 2021-10-13T19:22:52 *** | |
| srun: error: r2i2n34: task 0: Killed | |
| srun: Terminating job step 2780936.57 | |
| srun: error: r2i2n34: task 1: Exited with exit code 255 | |
| Start 22: coreneuron_modtests::spikes_mpi_py | |
| 82/94 Test #84: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate ...***Failed 18.33 sec | |
| numprocs=2 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 0 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| psolve time 0.00999999 | |
| Vector[5] | |
| Vector[5] | |
| Vector[6] | |
| Vector[6] | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Segmentation violation | |
| Backtrace: | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testnetstimdirect.hoc near line 68 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(1) | |
| 1 prun("") | |
| MPT ERROR: Rank 1(g:1) is aborting with error code -1. | |
| Process ID: 63823, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testnetstimdirect.hoc near line 68 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(1) | |
| 0 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780936.58 ON r2i2n34 CANCELLED AT 2021-10-13T19:22:57 *** | |
| srun: error: r2i2n34: task 0: Exited with exit code 255 | |
| srun: Terminating job step 2780936.58 | |
| srun: error: r2i2n34: task 1: Killed | |
| Start 23: coreneuron_modtests::spikes_mpi_file_mode_py | |
| Start 85: testcorenrn_netstimdirect::compare_results | |
| 83/94 Test #85: testcorenrn_netstimdirect::compare_results .........................***Failed 3.14 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/testcorenrn_netstimdirect/direct_netstimdirect/outnetstimdirect.dat' | |
| 84/94 Test #22: coreneuron_modtests::spikes_mpi_py .................................***Failed 25.83 sec | |
| numprocs=2 | |
| MPT ERROR: Rank 0(g:0) received signal SIGSEGV(11). | |
| Process ID: 64076, Host: r2i2n34, Program: /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/bin/python3.8 | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i2n34, Program /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/bin/python3.8, Rank 0, Process 64076: Dumping core on signal SIGSEGV(11) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/spikes_mpi_py | |
| srun: error: r2i2n34: task 0: Segmentation fault (core dumped) | |
| srun: Terminating job step 2780936.59 | |
| slurmstepd: error: *** STEP 2780936.59 ON r2i2n34 CANCELLED AT 2021-10-13T19:23:18 *** | |
| srun: error: r2i2n34: task 1: Terminated | |
| srun: Force Terminated job step 2780936.59 | |
| 85/94 Test #23: coreneuron_modtests::spikes_mpi_file_mode_py .......................***Failed 24.42 sec | |
| numprocs=2 | |
| MPT ERROR: Rank 0(g:0) received signal SIGSEGV(11). | |
| Process ID: 64158, Host: r2i2n34, Program: /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/bin/python3.8 | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| MPT: -----stack traceback ends----- | |
| MPT: On host r2i2n34, Program /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/bin/python3.8, Rank 0, Process 64158: Dumping core on signal SIGSEGV(11) into directory /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/coreneuron_modtests/spikes_mpi_file_mode_py | |
| srun: error: r2i2n34: task 0: Segmentation fault (core dumped) | |
| srun: Terminating job step 2780936.60 | |
| slurmstepd: error: *** STEP 2780936.60 ON r2i2n34 CANCELLED AT 2021-10-13T19:23:22 *** | |
| srun: error: r2i2n34: task 1: Terminated | |
| srun: Force Terminated job step 2780936.60 | |
| Start 63: testcorenrn_vecevent::coreneuron_cpu_offline::preparation | |
| 86/94 Test #63: testcorenrn_vecevent::coreneuron_cpu_offline::preparation .......... Passed 12.93 sec | |
| Start 59: testcorenrn_vecevent::neuron | |
| 87/94 Test #59: testcorenrn_vecevent::neuron ....................................... Passed 13.96 sec | |
| Start 60: testcorenrn_vecevent::coreneuron_cpu_online | |
| 88/94 Test #60: testcorenrn_vecevent::coreneuron_cpu_online ........................***Failed 19.47 sec | |
| numprocs=4 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testvecevent.hoc near line 47 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(100) | |
| 0 prun("") | |
| MPT ERROR: Rank 0(g:0) is aborting with error code -1. | |
| Process ID: 65183, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| MPT: ImportError: No module named site | |
| Segmentation violation | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testvecevent.hoc near line 47 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(100) | |
| 1 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780936.63 ON r2i2n34 CANCELLED AT 2021-10-13T19:24:07 *** | |
| srun: error: r2i2n34: tasks 0,2-3: Killed | |
| srun: Terminating job step 2780936.63 | |
| srun: error: r2i2n34: task 1: Exited with exit code 255 | |
| Start 61: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate | |
| 89/94 Test #61: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate .......***Failed 21.72 sec | |
| numprocs=4 | |
| NEURON -- VERSION + master (89c74d3+) 2021-10-13 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| 10 | |
| 10 | |
| 10 | |
| nrncore_arg: | --tstop 100 --verbose 2 --mpi --voltage 1000.| | |
| Segmentation violation | |
| Segmentation violation | |
| Segmentation violation | |
| Segmentation violation | |
| Backtrace: | |
| Backtrace: | |
| Backtrace: | |
| Backtrace: | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x36400 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /usr/lib64/libc.so.6 : ()+0x16f7b1 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/apps/hpc/jenkins/deploy/compilers/2021-01-06/linux-rhel7-x86_64/gcc-4.8.5/gcc-9.3.0-45gzrp/lib64/libstdc++.so.6 : _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2EPKcRKS3_()+0x28 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72576/spack/opt/spack/linux-rhel7-x86_64/intel-19.1.2.254/coreneuron-develop-fbjlyk/lib/libcoreneuron.so : prepare_args()+0x5f | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/libcorenrnmech.so : corenrn_embedded_run()+0x9a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z11nrncore_runPKc()+0xf9 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z14nrncore_psolvedi()+0x101 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : ()+0x3560ab | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : hoc_call_ob_proc()+0x1ef | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 1 in testvecevent.hoc near line 47 | |
| 1 prun("") | |
| ^ | |
| 1 ParallelContext[0].psolve(1) | |
| 1 prun("") | |
| MPT ERROR: Rank 1(g:1) is aborting with error code -1. | |
| Process ID: 65512, Host: r2i2n34, Program: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special | |
| MPT Version: HPE HMPT 2.22 03/31/20 16:17:35 | |
| MPT: --------stack traceback------- | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 3 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 3 in testvecevent.hoc near line 47 | |
| 3 prun("") | |
| ^ | |
| 3 ParallelContext[0].psolve(1) | |
| 3 prun("") | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 0 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 0 in testvecevent.hoc near line 47 | |
| 0 prun("") | |
| ^ | |
| 0 ParallelContext[0].psolve(1) | |
| 0 prun("") | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/lib/libnrniv.so : _Z20hoc_object_componentv()+0x81d | |
| 2 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/nrnivmodl/16e59b413722fa2d993abf06fc2e64a772692803ff5913bd0eb34e9c8bd45725/x86_64/special: Aborting. | |
| 2 in testvecevent.hoc near line 47 | |
| 2 prun("") | |
| ^ | |
| 2 ParallelContext[0].psolve(1) | |
| 2 prun("") | |
| srun: Job step aborted: Waiting up to 32 seconds for job step to finish. | |
| slurmstepd: error: *** STEP 2780936.64 ON r2i2n34 CANCELLED AT 2021-10-13T19:24:29 *** | |
| slurmstepd: error: *** STEP 2780936.64 ON r2i2n34 CANCELLED AT 2021-10-13T19:24:29 *** | |
| slurmstepd: error: *** STEP 2780936.64 ON r2i2n34 CANCELLED AT 2021-10-13T19:24:29 *** | |
| srun: error: r2i2n34: tasks 0,2-3: Exited with exit code 255 | |
| srun: Terminating job step 2780936.64 | |
| srun: error: r2i2n34: task 1: Killed | |
| Start 62: testcorenrn_vecevent::coreneuron_cpu_offline | |
| 90/94 Test #62: testcorenrn_vecevent::coreneuron_cpu_offline ....................... Passed 6.60 sec | |
| Start 64: testcorenrn_vecevent::compare_results | |
| 91/94 Test #64: testcorenrn_vecevent::compare_results ..............................***Failed 2.89 sec | |
| Traceback (most recent call last): | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 120, in <module> | |
| results = [ | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 121, in <listcomp> | |
| check_compatibility(data_type=data_type, test_data=test_data) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 58, in check_compatibility | |
| spike_data = load_ascii_spikes(data_path) | |
| File "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/compare_test_results.py", line 44, in load_ascii_spikes | |
| with open(data_path, "r") as data_file: | |
| FileNotFoundError: [Errno 2] No such file or directory: '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P19854/72587/spack-build/spack-stage-neuron-develop-x5fc6bslh4t3tjgxm7245xtkkgztnyge/spack-build-x5fc6bs/test/testcorenrn_vecevent/coreneuron_cpu_online/outvecevent.dat' | |
| 92/94 Test #86: external_nrntest ................................................... Passed 528.49 sec | |
| 93/94 Test #6: rxdmod_tests::rxd_mpi_tests ........................................ Passed 783.92 sec | |
| 94/94 Test #5: rxdmod_tests::rxd_tests ............................................ Passed 832.25 sec | |
| 61% tests passed, 37 tests failed out of 94 | |
| Total Test time (real) = 1024.00 sec | |
| The following tests FAILED: | |
| 10 - coreneuron_modtests::direct_py (Failed) | |
| 12 - coreneuron_modtests::spikes_py (Failed) | |
| 13 - coreneuron_modtests::spikes_file_mode_py (Failed) | |
| 14 - coreneuron_modtests::fornetcon_py (Failed) | |
| 16 - coreneuron_modtests::datareturn_py (Failed) | |
| 17 - coreneuron_modtests::test_units_py (Failed) | |
| 18 - coreneuron_modtests::test_netmove_py (Failed) | |
| 19 - coreneuron_modtests::test_watchrange_py (Failed) | |
| 20 - coreneuron_modtests::test_psolve_py (Failed) | |
| 21 - coreneuron_modtests::test_natrans_py (Failed) | |
| 22 - coreneuron_modtests::spikes_mpi_py (Failed) | |
| 23 - coreneuron_modtests::spikes_mpi_file_mode_py (Failed) | |
| 26 - external_ringtest::coreneuron_cpu_mpi (Failed) | |
| 28 - external_ringtest::coreneuron_cpu_mpi_offline::preparation (Failed) | |
| 29 - external_ringtest::coreneuron_cpu_mpi_threads (Failed) | |
| 30 - external_ringtest::compare_results (Failed) | |
| 36 - testcorenrn_bbcore::compare_results (Failed) | |
| 42 - testcorenrn_deriv::compare_results (Failed) | |
| 44 - testcorenrn_gf::coreneuron_cpu_online (Failed) | |
| 45 - testcorenrn_gf::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 48 - testcorenrn_gf::compare_results (Failed) | |
| 54 - testcorenrn_vecplay::coreneuron_cpu_online (Failed) | |
| 55 - testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 58 - testcorenrn_vecplay::compare_results (Failed) | |
| 60 - testcorenrn_vecevent::coreneuron_cpu_online (Failed) | |
| 61 - testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 64 - testcorenrn_vecevent::compare_results (Failed) | |
| 66 - testcorenrn_watch::coreneuron_cpu_online (Failed) | |
| 67 - testcorenrn_watch::coreneuron_cpu_online_psolve_alternate (Failed) | |
| 70 - testcorenrn_watch::compare_results (Failed) | |
| 76 - testcorenrn_conc::compare_results (Failed) | |
| 82 - testcorenrn_kin::compare_results (Failed) | |
| 83 - testcorenrn_netstimdirect::direct_netstimdirect (Failed) | |
| 84 - testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate (Failed) | |
| 85 - testcorenrn_netstimdirect::compare_results (Failed) | |
| 90 - channel_benchmark_hippo::compare_results (Failed) | |
| 94 - channel_benchmark_sscx::compare_results (Failed) | |
| Errors while running CTest | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.8.3 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| srun: error: r2i2n34: task 0: Exited with exit code 1 | |
| section_end:1634146385:step_script [0Ksection_start:1634146385:upload_artifacts_on_failure [0K[0K[36;1mUploading artifacts for failed 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=76966 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| Testing/: found 8 matching files and directories [0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=72591 responseStatus[0;m=201 Created token[0;m=GiFoef-o | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=76999 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ctest.xml: found 1 matching files and directories [0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=72591 responseStatus[0;m=201 Created token[0;m=GiFoef-o | |
| section_end:1634146386:upload_artifacts_on_failure [0Ksection_start:1634146386:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1634146387:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1 | |
| [0;m |
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