Created
March 10, 2022 13:09
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Logfiles for GitLab pipeline https://bbpgitlab.epfl.ch/hpc/coreneuron/-/pipelines/42207 (:no_entry:) running on GitHub PR BlueBrain/CoreNeuron#772.
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1646914432:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914432:resolve_secrets [0Ksection_start:1646914432: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-executor288833037, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181135 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=8 | |
| A slurm job will be created with name GL_J181135_PROD_P112_CP3_C6 | |
| Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321569 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J181135_PROD_P112_CP3_C6 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=2 --jobid=321569 --cpus-per-task=8 --mem=76G | |
| section_end:1646914457:prepare_executor [0Ksection_start:1646914457:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n7 via bbpv1.epfl.ch... | |
| section_end:1646914462:prepare_script [0Ksection_start:1646914462: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:1646914465:get_sources [0Ksection_start:1646914465:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for build:coreneuron:mod2c:intel-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=155280 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:1646914469:restore_cache [0Ksection_start:1646914469:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for spack_setup (181128)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=155422 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181128 responseStatus[0;m=200 OK token[0;m=kU5588jS | |
| section_end:1646914470:download_artifacts [0Ksection_start:1646914470: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$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181135/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181135/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181135/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181135/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181135/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/config.yaml:2 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:2 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:3 root: $user_cache_path/software | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:5 all: install_{compiler.name}-{compiler.version}-{target}/{name}-{version}-{hash:6} | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:6 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:7 tcl: $user_cache_path/modules | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 environments: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:10 root: $user_cache_path/environments | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:88 concretization: separately | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:12 build_jobs: 8 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # This is the path to the root of the Spack install tree. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # You can use $spack here to refer to the root of the spack instance. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``). | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Another option that prevents conflicts and potential permission issues is | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # home directory. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # builds directly inside Spack's instance without staging them in a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # temporary space. Problems with specifying a path inside a Spack instance | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # are that it precludes its use as a system package and its ability to be | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # pip installable. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # In any case, if the username is not already in the path, Spack will append | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # the value of `$user` in an attempt to avoid potential conflicts between | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # The build stage can be purged with `spack clean --stage` and | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # `spack clean -a`, so it is important that the specified directory uniquely | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # identifies Spack staging to avoid accidentally wiping out non-Spack work. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:118 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:123 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:128 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:136 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:145 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:207 terminal_title: False | |
| _builtin debug: False | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207/J181135_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install coreneuron%intel +tests~legacy-unit build_type=Debug | |
| [32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(module load unstable python; echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][\"nodes\"][0][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be hsyhen5wbojr4dsx5rf32wndj3dpm5nb | |
| [32;1m$ 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=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /nvme/bbpcihpcproj12/321569/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321569/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:14:56 2022 | |
| 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): 0.29 / 0.51 (56.51 %) | |
| Files: 5592 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'hsyhen5wbojr4dsx5rf32wndj3dpm5nb' | |
| [32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - coreneuron%intel~legacy-unit+tests build_type=Debug | |
| Concretized | |
| -------------------------------- | |
| - hsyhen5 coreneuron@develop%intel@2021.4.0~caliper~codegenopt~gpu~ipo~ispc~knl~legacy-unit+mpi~nmodl~openmp~profile+report+shared~sympy~sympyopt+tests~unified build_type=Debug arch=linux-rhel7-skylake | |
| - dwdch6b ^bison@3.8.2%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] dl7pfht ^boost@1.78.0%intel@2021.4.0+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 visibility=hidden arch=linux-rhel7-skylake | |
| - z3q5f3x ^cmake@3.21.4%intel@2021.4.0~doc+ncurses+openssl+ownlibs~qt build_type=Release arch=linux-rhel7-skylake | |
| - s4ueg72 ^flex@2.6.3%intel@2021.4.0+lex~nls arch=linux-rhel7-skylake | |
| [^] 3narjkw ^hpe-mpi@2.25.hmpt%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] nfrzrlo ^libsonata-report@1.1%intel@2021.4.0~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ofveh3j ^hdf5@1.10.7%intel@2021.4.0+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] xys6npz ^pkgconf@1.8.0%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] e7w5nez ^zlib@1.2.11%intel@2021.4.0+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] wk3uenv ^spdlog@1.9.2%intel@2021.4.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - 6ggc5yr ^ninja@1.10.2%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] f27a7nn ^python@3.9.7%intel@2021.4.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] gdhqypa ^reportinglib@2.5.6%intel@2021.4.0~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} || install_failed=1[0;m | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bison-3.8.2-ej2cew (external bison-3.8.2-dwdch6bmdeclr2novthsywtrryotawwz) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/boost-1.78.0-hiorc7 (external boost-1.78.0-dl7pfhtsvyaq3273gr2g3l5vr37eeydc) | |
| ==> cmake@3.21.4 : has external module in ['cmake/3.21.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cmake-3.21.4-cdyb7k (external cmake-3.21.4-z3q5f3xwpuibd3qbgdscqmu3efarbu42) | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/flex-2.6.3-3mtl7j (external flex-2.6.3-s4ueg72j7l6vkdyvfxj2tweo7v7s3otx) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/hpe-mpi-2.25.hmpt-4ukyxt (external hpe-mpi-2.25.hmpt-3narjkwjh6i2jr3zl3g5wdjlqi52hkwh) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/pkgconf-1.8.0-xys6np | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/zlib-1.2.11-mswjss (external zlib-1.2.11-e7w5nezpwf572epfhbosqfzboztysout) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ninja-1.10.2-eh33rh (external ninja-1.10.2-6ggc5yre7qddwxdjmn7sfptpdoiy4dtp) | |
| ==> python@3.9.7 : has external module in ['python/3.9.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/python-3.9.7-yj5alh (external python-3.9.7-f27a7nnhppeztxijpispnaedcfo2vjxi) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/spdlog-1.9.2-wk3uen | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/reportinglib-2.5.6-gdhqyp | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/hdf5-1.10.7-ofveh3 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/libsonata-report-1.1-nfrzrl | |
| ==> Installing coreneuron-develop-hsyhen5wbojr4dsx5rf32wndj3dpm5nb | |
| ==> No binary for coreneuron-develop-hsyhen5wbojr4dsx5rf32wndj3dpm5nb found: installing from source | |
| ==> No patches needed for coreneuron | |
| ==> coreneuron: Executing phase: 'cmake' | |
| ==> coreneuron: Executing phase: 'build' | |
| ==> coreneuron: Executing phase: 'install' | |
| ==> coreneuron: Successfully installed coreneuron-develop-hsyhen5wbojr4dsx5rf32wndj3dpm5nb | |
| Fetch: 3.77s. Build: 31.42s. Total: 35.20s. | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_intel-2021.4.0-skylake/coreneuron-develop-hsyhen | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| [32;1m$ 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: /nvme/bbpcihpcproj12/321569/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321569/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:16:17 2022 | |
| Hits: 109 / 115 (94.78 %) | |
| Direct: 91 / 116 (78.45 %) | |
| Preprocessed: 18 / 25 (72.00 %) | |
| Misses: 6 | |
| Direct: 25 | |
| Preprocessed: 7 | |
| Uncacheable: 18 | |
| Primary storage: | |
| Hits: 200 / 232 (86.21 %) | |
| Misses: 32 | |
| Cache size (GB): 0.29 / 0.51 (56.56 %) | |
| Files: 5604 | |
| Uncacheable: | |
| Called for linking: 14 | |
| Compiler produced no output: 1 | |
| No input file: 3 | |
| [32;1m$ tar -C "${CCACHE_DIR}" -cf "${CI_PROJECT_DIR}/ccache.tar" .[0;m | |
| [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 ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ 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_DEPENDENCY_ON_PREVIOUS_JOB=^/${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ 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/3.9.7 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-scipy/1.7.1 | |
| Autoloading py-numpy/1.19.5 | |
| Autoloading py-mpi4py/3.1.2 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.4.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m | |
| section_end:1646914580:step_script [0Ksection_start:1646914580:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache build:coreneuron:mod2c:intel-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=160341 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache.tar: found 1 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/build%3Acoreneuron%3Amod2c%3Aintel-8[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1646914593:archive_cache [0Ksection_start:1646914593: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=161048 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=181135 responseStatus[0;m=201 Created token[0;m=Wt4nrJzM | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=161088 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=181135 responseStatus[0;m=201 Created token[0;m=Wt4nrJzM | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=161128 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=181135 responseStatus[0;m=201 Created token[0;m=Wt4nrJzM | |
| section_end:1646914596:upload_artifacts_on_success [0Ksection_start:1646914596:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646914597: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:1646914431:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914431:resolve_secrets [0Ksection_start:1646914431: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-executor834249929, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181132 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=8 | |
| A slurm job will be created with name GL_J181132_PROD_P112_CP2_C3 | |
| Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321572 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J181132_PROD_P112_CP2_C3 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=2 --jobid=321572 --cpus-per-task=8 --mem=76G | |
| section_end:1646914457:prepare_executor [0Ksection_start:1646914457:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n8 via bbpv1.epfl.ch... | |
| section_end:1646914460:prepare_script [0Ksection_start:1646914460: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:1646914462:get_sources [0Ksection_start:1646914462:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for build:coreneuron:mod2c:nvhpc:acc:unified-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=254610 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:1646914466:restore_cache [0Ksection_start:1646914466:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for spack_setup (181128)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=254687 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181128 responseStatus[0;m=200 OK token[0;m=kU5588jS | |
| section_end:1646914467:download_artifacts [0Ksection_start:1646914467: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$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181132/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181132/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181132/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181132/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181132/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/config.yaml:2 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:2 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:3 root: $user_cache_path/software | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:5 all: install_{compiler.name}-{compiler.version}-{target}/{name}-{version}-{hash:6} | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:6 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:7 tcl: $user_cache_path/modules | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 environments: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:10 root: $user_cache_path/environments | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:88 concretization: separately | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:12 build_jobs: 8 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # This is the path to the root of the Spack install tree. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # You can use $spack here to refer to the root of the spack instance. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``). | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Another option that prevents conflicts and potential permission issues is | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # home directory. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # builds directly inside Spack's instance without staging them in a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # temporary space. Problems with specifying a path inside a Spack instance | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # are that it precludes its use as a system package and its ability to be | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # pip installable. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # In any case, if the username is not already in the path, Spack will append | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # the value of `$user` in an attempt to avoid potential conflicts between | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # The build stage can be purged with `spack clean --stage` and | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # `spack clean -a`, so it is important that the specified directory uniquely | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # identifies Spack staging to avoid accidentally wiping out non-Spack work. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:118 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:123 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:128 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:136 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:145 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:207 terminal_title: False | |
| _builtin debug: False | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207/J181132_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install coreneuron%nvhpc +gpu+unified+openmp+tests~legacy-unit build_type=RelWithDebInfo | |
| [32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(module load unstable python; echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][\"nodes\"][0][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be 5u3hb5563fiewjkvz6z6mzftkoy4lmwk | |
| [32;1m$ 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=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /nvme/bbpcihpcproj12/321572/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321572/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:14:51 2022 | |
| 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): 0.17 / 0.51 (32.45 %) | |
| Files: 6261 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: '5u3hb5563fiewjkvz6z6mzftkoy4lmwk' | |
| [32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - coreneuron%nvhpc+gpu~legacy-unit+openmp+tests+unified build_type=RelWithDebInfo | |
| Concretized | |
| -------------------------------- | |
| - 5u3hb55 coreneuron@develop%nvhpc@22.2~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi~nmodl+openmp~profile+report+shared~sympy~sympyopt+tests+unified build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - ocv5kkj ^bison@3.8.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] bfwiaoz ^boost@1.78.0%nvhpc@22.2+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 visibility=hidden arch=linux-rhel7-skylake | |
| - 55wtnz6 ^cmake@3.21.4%nvhpc@22.2~doc+ncurses+openssl+ownlibs~qt build_type=Release arch=linux-rhel7-skylake | |
| [^] wd5k5wi ^cuda@11.6.0%nvhpc@22.2~dev arch=linux-rhel7-skylake | |
| - xzdnug7 ^flex@2.6.3%nvhpc@22.2+lex~nls arch=linux-rhel7-skylake | |
| [^] yjmlhh2 ^hpe-mpi@2.25.hmpt%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] r5wt3dh ^libsonata-report@1.1%nvhpc@22.2~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ytku65t ^hdf5@1.10.7%nvhpc@22.2+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] kzqllej ^pkgconf@1.8.0%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] tayew4i ^zlib@1.2.11%nvhpc@22.2+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] 6bohspr ^spdlog@1.9.2%nvhpc@22.2~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - ij6isvr ^ninja@1.10.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] anlnosv ^python@3.9.7%nvhpc@22.2+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] 4mciih7 ^reportinglib@2.5.6%nvhpc@22.2~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} || install_failed=1[0;m | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bison-3.8.2-ej2cew (external bison-3.8.2-ocv5kkjjvqshvbpp4gh3xrg4aj3xxh2k) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/boost-1.78.0-hiorc7 (external boost-1.78.0-bfwiaozbrpjr7blzjkfcz67vabdnspxj) | |
| ==> cmake@3.21.4 : has external module in ['cmake/3.21.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cmake-3.21.4-cdyb7k (external cmake-3.21.4-55wtnz6tfxjhgdgfbzzwzuhyl746wv7j) | |
| ==> cuda@11.6.0 : has external module in ['cuda/11.6.0'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cuda-11.6.0-34qjta (external cuda-11.6.0-wd5k5wioelahwux72y3g3bytolebtkoh) | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/flex-2.6.3-3mtl7j (external flex-2.6.3-xzdnug7pkmqiem4ll6p4chgbnwyt7epd) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/hpe-mpi-2.25.hmpt-4ukyxt (external hpe-mpi-2.25.hmpt-yjmlhh2qrwgth4mrrn3f72mynalveqr5) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/pkgconf-1.8.0-kzqlle | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/zlib-1.2.11-mswjss (external zlib-1.2.11-tayew4indju53v3ylyin7shvfpp5genf) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ninja-1.10.2-eh33rh (external ninja-1.10.2-ij6isvr7fpc6nbooavdi3abtviuzpngb) | |
| ==> python@3.9.7 : has external module in ['python/3.9.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/python-3.9.7-yj5alh (external python-3.9.7-anlnosvxv5pmzlxnwx77gmjmmlsmov7b) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/spdlog-1.9.2-6bohsp | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/reportinglib-2.5.6-4mciih | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/hdf5-1.10.7-ytku65 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/libsonata-report-1.1-r5wt3d | |
| ==> Installing coreneuron-develop-5u3hb5563fiewjkvz6z6mzftkoy4lmwk | |
| ==> No binary for coreneuron-develop-5u3hb5563fiewjkvz6z6mzftkoy4lmwk found: installing from source | |
| ==> No patches needed for coreneuron | |
| ==> coreneuron: Executing phase: 'cmake' | |
| ==> coreneuron: Executing phase: 'build' | |
| ==> coreneuron: Executing phase: 'install' | |
| ==> coreneuron: Successfully installed coreneuron-develop-5u3hb5563fiewjkvz6z6mzftkoy4lmwk | |
| Fetch: 4.41s. Build: 41.73s. Total: 46.14s. | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_nvhpc-22.2-skylake/coreneuron-develop-5u3hb5 | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| [32;1m$ 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: /nvme/bbpcihpcproj12/321572/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321572/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:16:25 2022 | |
| Hits: 109 / 118 (92.37 %) | |
| Direct: 90 / 118 (76.27 %) | |
| Preprocessed: 19 / 28 (67.86 %) | |
| Misses: 9 | |
| Direct: 28 | |
| Preprocessed: 9 | |
| Uncacheable: 19 | |
| Primary storage: | |
| Hits: 200 / 236 (84.75 %) | |
| Misses: 36 | |
| Cache size (GB): 0.17 / 0.51 (32.47 %) | |
| Files: 6279 | |
| Uncacheable: | |
| Called for linking: 16 | |
| No input file: 3 | |
| [32;1m$ tar -C "${CCACHE_DIR}" -cf "${CI_PROJECT_DIR}/ccache.tar" .[0;m | |
| [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 ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ 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_DEPENDENCY_ON_PREVIOUS_JOB=^/${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ 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/3.9.7 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-scipy/1.7.1 | |
| Autoloading py-numpy/1.19.5 | |
| Autoloading py-mpi4py/3.1.2 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.4.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m | |
| section_end:1646914586:step_script [0Ksection_start:1646914586:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache build:coreneuron:mod2c:nvhpc:acc:unified-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=257327 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache.tar: found 1 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/build%3Acoreneuron%3Amod2c%3Anvhpc%3Aacc%3Aunified-8[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1646914595:archive_cache [0Ksection_start:1646914595: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=257405 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=181132 responseStatus[0;m=201 Created token[0;m=szuHHNTs | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=257446 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=181132 responseStatus[0;m=201 Created token[0;m=szuHHNTs | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=257485 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=181132 responseStatus[0;m=201 Created token[0;m=szuHHNTs | |
| section_end:1646914598:upload_artifacts_on_success [0Ksection_start:1646914598:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646914599: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:1646914431:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914431:resolve_secrets [0Ksection_start:1646914431: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-executor144965183, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181131 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=8 | |
| A slurm job will be created with name GL_J181131_PROD_P112_CP1_C2 | |
| Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321570 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J181131_PROD_P112_CP1_C2 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=2 --jobid=321570 --cpus-per-task=8 --mem=76G | |
| section_end:1646914457:prepare_executor [0Ksection_start:1646914457:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n7 via bbpv1.epfl.ch... | |
| section_end:1646914462:prepare_script [0Ksection_start:1646914462: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:1646914465:get_sources [0Ksection_start:1646914465:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for build:coreneuron:mod2c:nvhpc:acc-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=155243 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:1646914469:restore_cache [0Ksection_start:1646914469:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for spack_setup (181128)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=155357 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181128 responseStatus[0;m=200 OK token[0;m=kU5588jS | |
| section_end:1646914469:download_artifacts [0Ksection_start:1646914469: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$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181131/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181131/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181131/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181131/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181131/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/config.yaml:2 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:2 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:3 root: $user_cache_path/software | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:5 all: install_{compiler.name}-{compiler.version}-{target}/{name}-{version}-{hash:6} | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:6 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:7 tcl: $user_cache_path/modules | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 environments: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:10 root: $user_cache_path/environments | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:88 concretization: separately | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:12 build_jobs: 8 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # This is the path to the root of the Spack install tree. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # You can use $spack here to refer to the root of the spack instance. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``). | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Another option that prevents conflicts and potential permission issues is | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # home directory. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # builds directly inside Spack's instance without staging them in a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # temporary space. Problems with specifying a path inside a Spack instance | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # are that it precludes its use as a system package and its ability to be | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # pip installable. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # In any case, if the username is not already in the path, Spack will append | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # the value of `$user` in an attempt to avoid potential conflicts between | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # The build stage can be purged with `spack clean --stage` and | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # `spack clean -a`, so it is important that the specified directory uniquely | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # identifies Spack staging to avoid accidentally wiping out non-Spack work. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:118 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:123 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:128 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:136 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:145 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:207 terminal_title: False | |
| _builtin debug: False | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207/J181131_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install coreneuron%nvhpc +gpu+openmp+tests~legacy-unit build_type=RelWithDebInfo | |
| [32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(module load unstable python; echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][\"nodes\"][0][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be qvmfnnxhw57tyce665xfpgrivex6jdyr | |
| [32;1m$ 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=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /nvme/bbpcihpcproj12/321570/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321570/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:14:57 2022 | |
| 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): 0.20 / 0.51 (39.55 %) | |
| Files: 7633 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'qvmfnnxhw57tyce665xfpgrivex6jdyr' | |
| [32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - coreneuron%nvhpc+gpu~legacy-unit+openmp+tests build_type=RelWithDebInfo | |
| Concretized | |
| -------------------------------- | |
| - qvmfnnx coreneuron@develop%nvhpc@22.2~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi~nmodl+openmp~profile+report+shared~sympy~sympyopt+tests~unified build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - ocv5kkj ^bison@3.8.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] bfwiaoz ^boost@1.78.0%nvhpc@22.2+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 visibility=hidden arch=linux-rhel7-skylake | |
| - 55wtnz6 ^cmake@3.21.4%nvhpc@22.2~doc+ncurses+openssl+ownlibs~qt build_type=Release arch=linux-rhel7-skylake | |
| [^] wd5k5wi ^cuda@11.6.0%nvhpc@22.2~dev arch=linux-rhel7-skylake | |
| - xzdnug7 ^flex@2.6.3%nvhpc@22.2+lex~nls arch=linux-rhel7-skylake | |
| [^] yjmlhh2 ^hpe-mpi@2.25.hmpt%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] r5wt3dh ^libsonata-report@1.1%nvhpc@22.2~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ytku65t ^hdf5@1.10.7%nvhpc@22.2+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] kzqllej ^pkgconf@1.8.0%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] tayew4i ^zlib@1.2.11%nvhpc@22.2+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] 6bohspr ^spdlog@1.9.2%nvhpc@22.2~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - ij6isvr ^ninja@1.10.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] anlnosv ^python@3.9.7%nvhpc@22.2+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] 4mciih7 ^reportinglib@2.5.6%nvhpc@22.2~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} || install_failed=1[0;m | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bison-3.8.2-ej2cew (external bison-3.8.2-ocv5kkjjvqshvbpp4gh3xrg4aj3xxh2k) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/boost-1.78.0-hiorc7 (external boost-1.78.0-bfwiaozbrpjr7blzjkfcz67vabdnspxj) | |
| ==> cmake@3.21.4 : has external module in ['cmake/3.21.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cmake-3.21.4-cdyb7k (external cmake-3.21.4-55wtnz6tfxjhgdgfbzzwzuhyl746wv7j) | |
| ==> cuda@11.6.0 : has external module in ['cuda/11.6.0'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cuda-11.6.0-34qjta (external cuda-11.6.0-wd5k5wioelahwux72y3g3bytolebtkoh) | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/flex-2.6.3-3mtl7j (external flex-2.6.3-xzdnug7pkmqiem4ll6p4chgbnwyt7epd) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/hpe-mpi-2.25.hmpt-4ukyxt (external hpe-mpi-2.25.hmpt-yjmlhh2qrwgth4mrrn3f72mynalveqr5) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/pkgconf-1.8.0-kzqlle | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/zlib-1.2.11-mswjss (external zlib-1.2.11-tayew4indju53v3ylyin7shvfpp5genf) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ninja-1.10.2-eh33rh (external ninja-1.10.2-ij6isvr7fpc6nbooavdi3abtviuzpngb) | |
| ==> python@3.9.7 : has external module in ['python/3.9.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/python-3.9.7-yj5alh (external python-3.9.7-anlnosvxv5pmzlxnwx77gmjmmlsmov7b) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/spdlog-1.9.2-6bohsp | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/reportinglib-2.5.6-4mciih | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/hdf5-1.10.7-ytku65 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/libsonata-report-1.1-r5wt3d | |
| ==> Installing coreneuron-develop-qvmfnnxhw57tyce665xfpgrivex6jdyr | |
| ==> No binary for coreneuron-develop-qvmfnnxhw57tyce665xfpgrivex6jdyr found: installing from source | |
| ==> No patches needed for coreneuron | |
| ==> coreneuron: Executing phase: 'cmake' | |
| ==> coreneuron: Executing phase: 'build' | |
| ==> coreneuron: Executing phase: 'install' | |
| ==> coreneuron: Successfully installed coreneuron-develop-qvmfnnxhw57tyce665xfpgrivex6jdyr | |
| Fetch: 3.76s. Build: 54.23s. Total: 57.99s. | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_nvhpc-22.2-skylake/coreneuron-develop-qvmfnn | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| [32;1m$ 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: /nvme/bbpcihpcproj12/321570/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321570/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:16:45 2022 | |
| Hits: 109 / 118 (92.37 %) | |
| Direct: 90 / 118 (76.27 %) | |
| Preprocessed: 19 / 28 (67.86 %) | |
| Misses: 9 | |
| Direct: 28 | |
| Preprocessed: 9 | |
| Uncacheable: 19 | |
| Primary storage: | |
| Hits: 200 / 236 (84.75 %) | |
| Misses: 36 | |
| Cache size (GB): 0.20 / 0.51 (39.58 %) | |
| Files: 7651 | |
| Uncacheable: | |
| Called for linking: 16 | |
| No input file: 3 | |
| [32;1m$ tar -C "${CCACHE_DIR}" -cf "${CI_PROJECT_DIR}/ccache.tar" .[0;m | |
| [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 ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ 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_DEPENDENCY_ON_PREVIOUS_JOB=^/${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ 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/3.9.7 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-scipy/1.7.1 | |
| Autoloading py-numpy/1.19.5 | |
| Autoloading py-mpi4py/3.1.2 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.4.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m | |
| section_end:1646914607:step_script [0Ksection_start:1646914607:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache build:coreneuron:mod2c:nvhpc:acc-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=161573 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache.tar: found 1 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/build%3Acoreneuron%3Amod2c%3Anvhpc%3Aacc-8[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1646914617:archive_cache [0Ksection_start:1646914617: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=161682 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=181131 responseStatus[0;m=201 Created token[0;m=j7pQWG7G | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=161721 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=181131 responseStatus[0;m=201 Created token[0;m=j7pQWG7G | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=161764 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=181131 responseStatus[0;m=201 Created token[0;m=j7pQWG7G | |
| section_end:1646914619:upload_artifacts_on_success [0Ksection_start:1646914619:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646914621: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:1646914749:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914749:resolve_secrets [0Ksection_start:1646914749: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-executor849510238, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181136 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=8 | |
| A slurm job will be created with name GL_J181136_PROD_P112_CP5_C6 | |
| Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321585 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J181136_PROD_P112_CP5_C6 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=2 --jobid=321585 --cpus-per-task=8 --mem=76G | |
| section_end:1646914764:prepare_executor [0Ksection_start:1646914764:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n8 via bbpv1.epfl.ch... | |
| section_end:1646914766:prepare_script [0Ksection_start:1646914766: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:1646914767:get_sources [0Ksection_start:1646914767:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for build:coreneuron:nmodl:intel-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=259089 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:1646914770:restore_cache [0Ksection_start:1646914770:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:nmodl (181130)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=259517 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181130 responseStatus[0;m=200 OK token[0;m=Ly7CMUyn | |
| section_end:1646914771:download_artifacts [0Ksection_start:1646914771: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$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181136/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181136/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181136/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181136/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181136/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/config.yaml:2 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:2 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:3 root: $user_cache_path/software | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:5 all: install_{compiler.name}-{compiler.version}-{target}/{name}-{version}-{hash:6} | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:6 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:7 tcl: $user_cache_path/modules | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 environments: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:10 root: $user_cache_path/environments | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:88 concretization: separately | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:12 build_jobs: 8 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # This is the path to the root of the Spack install tree. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # You can use $spack here to refer to the root of the spack instance. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``). | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Another option that prevents conflicts and potential permission issues is | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # home directory. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # builds directly inside Spack's instance without staging them in a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # temporary space. Problems with specifying a path inside a Spack instance | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # are that it precludes its use as a system package and its ability to be | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # pip installable. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # In any case, if the username is not already in the path, Spack will append | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # the value of `$user` in an attempt to avoid potential conflicts between | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # The build stage can be purged with `spack clean --stage` and | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # `spack clean -a`, so it is important that the specified directory uniquely | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # identifies Spack staging to avoid accidentally wiping out non-Spack work. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:118 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:123 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:128 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:136 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:145 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:207 terminal_title: False | |
| _builtin debug: False | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207/J181136_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install coreneuron%intel +nmodl+tests~legacy-unit build_type=Debug ^hpe-mpi%gcc ^/cnhmkfzsucqnmy6dfxyfikno2yj57grf | |
| [32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(module load unstable python; echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][\"nodes\"][0][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be f2bfytl2xzstchvaem4gflxln4r6z4cz | |
| [32;1m$ 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=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /nvme/bbpcihpcproj12/321585/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321585/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:19:55 2022 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.32 / 0.51 (62.60 %) | |
| Files: 6908 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'f2bfytl2xzstchvaem4gflxln4r6z4cz' | |
| [32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - coreneuron%intel~legacy-unit+nmodl+tests build_type=Debug | |
| - ^hpe-mpi%gcc | |
| [+] ^nmodl@develop%gcc@11.2.0~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^py-jinja2@3.0.1%gcc@11.2.0~i18n arch=linux-rhel7-skylake | |
| [^] ^py-markupsafe@2.0.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^python@3.9.7%gcc@11.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] ^py-pytest@6.2.4%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-attrs@21.2.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-iniconfig@1.1.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-packaging@21.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pyparsing@2.4.7%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pluggy@0.13.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-py@1.9.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-setuptools@57.4.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-toml@0.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pyyaml@5.3.1%gcc@11.2.0+libyaml arch=linux-rhel7-skylake | |
| [^] ^libyaml@0.2.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-sympy@1.8%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| Concretized | |
| -------------------------------- | |
| - f2bfytl coreneuron@develop%intel@2021.4.0~caliper~codegenopt~gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl~openmp~profile+report+shared~sympy~sympyopt+tests~unified build_type=Debug arch=linux-rhel7-skylake | |
| - dwdch6b ^bison@3.8.2%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] dl7pfht ^boost@1.78.0%intel@2021.4.0+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 visibility=hidden arch=linux-rhel7-skylake | |
| [^] 2qmvlfy ^cmake@3.21.4%gcc@11.2.0~doc+ncurses+openssl+ownlibs~qt build_type=Release arch=linux-rhel7-skylake | |
| - s4ueg72 ^flex@2.6.3%intel@2021.4.0+lex~nls arch=linux-rhel7-skylake | |
| [^] hyunzkn ^hpe-mpi@2.25.hmpt%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] vutuzbn ^libsonata-report@1.1%gcc@11.2.0~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] utj47fz ^hdf5@1.10.7%gcc@11.2.0+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ihxi5rl ^pkgconf@1.8.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] evtnqzd ^zlib@1.2.11%gcc@11.2.0+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] x72vveu ^spdlog@1.9.2%gcc@11.2.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - 6ggc5yr ^ninja@1.10.2%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [+] cnhmkfz ^nmodl@develop%gcc@11.2.0~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] onq3mhg ^py-jinja2@3.0.1%gcc@11.2.0~i18n arch=linux-rhel7-skylake | |
| [^] 4ectow5 ^py-markupsafe@2.0.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 72xzp3v ^python@3.9.7%gcc@11.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] 22arfs4 ^py-pytest@6.2.4%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ascbeii ^py-attrs@21.2.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] kvw3vhm ^py-iniconfig@1.1.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 7iyiygo ^py-packaging@21.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] c7qvw2q ^py-pyparsing@2.4.7%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] mazoiox ^py-pluggy@0.13.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] y7rfzdj ^py-py@1.9.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] v4z3s5e ^py-setuptools@57.4.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] w4gddqx ^py-toml@0.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ci5oe5b ^py-pyyaml@5.3.1%gcc@11.2.0+libyaml arch=linux-rhel7-skylake | |
| [^] xj2wlac ^libyaml@0.2.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] xtett6q ^py-sympy@1.8%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] dzb2mfs ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 5fkun4i ^reportinglib@2.5.6%gcc@11.2.0~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} || install_failed=1[0;m | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bison-3.8.2-ej2cew (external bison-3.8.2-dwdch6bmdeclr2novthsywtrryotawwz) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/boost-1.78.0-hiorc7 (external boost-1.78.0-dl7pfhtsvyaq3273gr2g3l5vr37eeydc) | |
| ==> cmake@3.21.4 : has external module in ['cmake/3.21.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cmake-3.21.4-cdyb7k (external cmake-3.21.4-2qmvlfyylrv3t5ankluyr5cqey2nlfzd) | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/flex-2.6.3-3mtl7j (external flex-2.6.3-s4ueg72j7l6vkdyvfxj2tweo7v7s3otx) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/hpe-mpi-2.25.hmpt-4ukyxt (external hpe-mpi-2.25.hmpt-hyunzknktdzri34bx26bupkvapehonql) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/pkgconf-1.8.0-ihxi5r | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/zlib-1.2.11-mswjss (external zlib-1.2.11-evtnqzdtuvprwnbd2nljimpzywrhw4uo) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ninja-1.10.2-eh33rh (external ninja-1.10.2-6ggc5yre7qddwxdjmn7sfptpdoiy4dtp) | |
| ==> python@3.9.7 : has external module in ['python/3.9.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/python-3.9.7-yj5alh (external python-3.9.7-72xzp3vgzh5b424qevkfruhs3ajzqbiy) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libyaml-0.2.5-xj2wla | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/spdlog-1.9.2-x72vve | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/reportinglib-2.5.6-5fkun4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/hdf5-1.10.7-utj47f | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-py-1.9.0-y7rfzd | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-mpmath-1.1.0-dzb2mf | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-attrs-21.2.0-ascbei | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-setuptools-57.4.0-v4z3s5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-toml-0.10.2-w4gddq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-iniconfig-1.1.1-kvw3vh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pluggy-0.13.0-mazoio | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-markupsafe-2.0.1-4ectow | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyparsing-2.4.7-c7qvw2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyyaml-5.3.1-ci5oe5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libsonata-report-1.1-vutuzb | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-sympy-1.8-xtett6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-jinja2-3.0.1-onq3mh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-packaging-21.0-7iyiyg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pytest-6.2.4-22arfs | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_gcc-11.2.0-skylake/nmodl-develop-cnhmkf | |
| ==> Installing coreneuron-develop-f2bfytl2xzstchvaem4gflxln4r6z4cz | |
| ==> No binary for coreneuron-develop-f2bfytl2xzstchvaem4gflxln4r6z4cz found: installing from source | |
| ==> No patches needed for coreneuron | |
| ==> coreneuron: Executing phase: 'cmake' | |
| ==> coreneuron: Executing phase: 'build' | |
| ==> coreneuron: Executing phase: 'install' | |
| ==> coreneuron: Successfully installed coreneuron-develop-f2bfytl2xzstchvaem4gflxln4r6z4cz | |
| Fetch: 3.89s. Build: 39.73s. Total: 43.61s. | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_intel-2021.4.0-skylake/coreneuron-develop-f2bfyt | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| [32;1m$ 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: /nvme/bbpcihpcproj12/321585/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321585/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:21:26 2022 | |
| Hits: 88 / 94 (93.62 %) | |
| Direct: 79 / 95 (83.16 %) | |
| Preprocessed: 9 / 16 (56.25 %) | |
| Misses: 6 | |
| Direct: 16 | |
| Preprocessed: 7 | |
| Uncacheable: 16 | |
| Primary storage: | |
| Hits: 167 / 190 (87.89 %) | |
| Misses: 23 | |
| Cache size (GB): 0.32 / 0.51 (62.68 %) | |
| Files: 6928 | |
| Uncacheable: | |
| Called for linking: 12 | |
| Compiler produced no output: 1 | |
| No input file: 3 | |
| [32;1m$ tar -C "${CCACHE_DIR}" -cf "${CI_PROJECT_DIR}/ccache.tar" .[0;m | |
| [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 ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ 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_DEPENDENCY_ON_PREVIOUS_JOB=^/${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ 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/3.9.7 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-scipy/1.7.1 | |
| Autoloading py-numpy/1.19.5 | |
| Autoloading py-mpi4py/3.1.2 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.4.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m | |
| section_end:1646914887:step_script [0Ksection_start:1646914887:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache build:coreneuron:nmodl:intel-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=262722 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache.tar: found 1 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/build%3Acoreneuron%3Anmodl%3Aintel-8[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1646914902:archive_cache [0Ksection_start:1646914902: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=262808 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=181136 responseStatus[0;m=201 Created token[0;m=whUogRab | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=262847 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=181136 responseStatus[0;m=201 Created token[0;m=whUogRab | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=262890 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=181136 responseStatus[0;m=201 Created token[0;m=whUogRab | |
| section_end:1646914904:upload_artifacts_on_success [0Ksection_start:1646914904:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646914904: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:1646914748:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914748:resolve_secrets [0Ksection_start:1646914748: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-executor822796876, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181134 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=8 | |
| A slurm job will be created with name GL_J181134_PROD_P112_CP4_C5 | |
| Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321584 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J181134_PROD_P112_CP4_C5 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=2 --jobid=321584 --cpus-per-task=8 --mem=76G | |
| section_end:1646914763:prepare_executor [0Ksection_start:1646914763:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n8 via bbpv1.epfl.ch... | |
| section_end:1646914765:prepare_script [0Ksection_start:1646914765: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:1646914766:get_sources [0Ksection_start:1646914766:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for build:coreneuron:nmodl:nvhpc:acc-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=259001 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:1646914769:restore_cache [0Ksection_start:1646914769:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:nmodl (181130)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=259157 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181130 responseStatus[0;m=200 OK token[0;m=Ly7CMUyn | |
| section_end:1646914769:download_artifacts [0Ksection_start:1646914769: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$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181134/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181134/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181134/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181134/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181134/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/config.yaml:2 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:2 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:3 root: $user_cache_path/software | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:5 all: install_{compiler.name}-{compiler.version}-{target}/{name}-{version}-{hash:6} | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:6 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:7 tcl: $user_cache_path/modules | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 environments: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:10 root: $user_cache_path/environments | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:88 concretization: separately | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:12 build_jobs: 8 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # This is the path to the root of the Spack install tree. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # You can use $spack here to refer to the root of the spack instance. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``). | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Another option that prevents conflicts and potential permission issues is | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # home directory. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # builds directly inside Spack's instance without staging them in a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # temporary space. Problems with specifying a path inside a Spack instance | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # are that it precludes its use as a system package and its ability to be | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # pip installable. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # In any case, if the username is not already in the path, Spack will append | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # the value of `$user` in an attempt to avoid potential conflicts between | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # The build stage can be purged with `spack clean --stage` and | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # `spack clean -a`, so it is important that the specified directory uniquely | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # identifies Spack staging to avoid accidentally wiping out non-Spack work. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:118 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:123 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:128 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:136 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:145 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:207 terminal_title: False | |
| _builtin debug: False | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207/J181134_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install coreneuron%nvhpc +nmodl~openmp+gpu+tests~legacy-unit+sympy build_type=RelWithDebInfo ^hpe-mpi%gcc ^/cnhmkfzsucqnmy6dfxyfikno2yj57grf | |
| [32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(module load unstable python; echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][\"nodes\"][0][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be clohwtjjwrfpo4z4oreptyb2jbe3wrcs | |
| [32;1m$ 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=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /nvme/bbpcihpcproj12/321584/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321584/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:19:55 2022 | |
| 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): 0.23 / 0.51 (45.53 %) | |
| Files: 8234 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'clohwtjjwrfpo4z4oreptyb2jbe3wrcs' | |
| [32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - coreneuron%nvhpc+gpu~legacy-unit+nmodl~openmp+sympy+tests build_type=RelWithDebInfo | |
| - ^hpe-mpi%gcc | |
| [+] ^nmodl@develop%gcc@11.2.0~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^py-jinja2@3.0.1%gcc@11.2.0~i18n arch=linux-rhel7-skylake | |
| [^] ^py-markupsafe@2.0.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^python@3.9.7%gcc@11.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] ^py-pytest@6.2.4%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-attrs@21.2.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-iniconfig@1.1.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-packaging@21.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pyparsing@2.4.7%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pluggy@0.13.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-py@1.9.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-setuptools@57.4.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-toml@0.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pyyaml@5.3.1%gcc@11.2.0+libyaml arch=linux-rhel7-skylake | |
| [^] ^libyaml@0.2.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-sympy@1.8%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| Concretized | |
| -------------------------------- | |
| - clohwtj coreneuron@develop%nvhpc@22.2~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl~openmp~profile+report+shared+sympy~sympyopt+tests~unified build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - ocv5kkj ^bison@3.8.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] bfwiaoz ^boost@1.78.0%nvhpc@22.2+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 visibility=hidden arch=linux-rhel7-skylake | |
| [^] 2qmvlfy ^cmake@3.21.4%gcc@11.2.0~doc+ncurses+openssl+ownlibs~qt build_type=Release arch=linux-rhel7-skylake | |
| [^] wd5k5wi ^cuda@11.6.0%nvhpc@22.2~dev arch=linux-rhel7-skylake | |
| - xzdnug7 ^flex@2.6.3%nvhpc@22.2+lex~nls arch=linux-rhel7-skylake | |
| [^] hyunzkn ^hpe-mpi@2.25.hmpt%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] vutuzbn ^libsonata-report@1.1%gcc@11.2.0~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] utj47fz ^hdf5@1.10.7%gcc@11.2.0+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ihxi5rl ^pkgconf@1.8.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] evtnqzd ^zlib@1.2.11%gcc@11.2.0+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] x72vveu ^spdlog@1.9.2%gcc@11.2.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - ij6isvr ^ninja@1.10.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [+] cnhmkfz ^nmodl@develop%gcc@11.2.0~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] onq3mhg ^py-jinja2@3.0.1%gcc@11.2.0~i18n arch=linux-rhel7-skylake | |
| [^] 4ectow5 ^py-markupsafe@2.0.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 72xzp3v ^python@3.9.7%gcc@11.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] 22arfs4 ^py-pytest@6.2.4%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ascbeii ^py-attrs@21.2.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] kvw3vhm ^py-iniconfig@1.1.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 7iyiygo ^py-packaging@21.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] c7qvw2q ^py-pyparsing@2.4.7%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] mazoiox ^py-pluggy@0.13.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] y7rfzdj ^py-py@1.9.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] v4z3s5e ^py-setuptools@57.4.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] w4gddqx ^py-toml@0.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ci5oe5b ^py-pyyaml@5.3.1%gcc@11.2.0+libyaml arch=linux-rhel7-skylake | |
| [^] xj2wlac ^libyaml@0.2.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] xtett6q ^py-sympy@1.8%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] dzb2mfs ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 5fkun4i ^reportinglib@2.5.6%gcc@11.2.0~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} || install_failed=1[0;m | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bison-3.8.2-ej2cew (external bison-3.8.2-ocv5kkjjvqshvbpp4gh3xrg4aj3xxh2k) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/boost-1.78.0-hiorc7 (external boost-1.78.0-bfwiaozbrpjr7blzjkfcz67vabdnspxj) | |
| ==> cmake@3.21.4 : has external module in ['cmake/3.21.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cmake-3.21.4-cdyb7k (external cmake-3.21.4-2qmvlfyylrv3t5ankluyr5cqey2nlfzd) | |
| ==> cuda@11.6.0 : has external module in ['cuda/11.6.0'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cuda-11.6.0-34qjta (external cuda-11.6.0-wd5k5wioelahwux72y3g3bytolebtkoh) | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/flex-2.6.3-3mtl7j (external flex-2.6.3-xzdnug7pkmqiem4ll6p4chgbnwyt7epd) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/hpe-mpi-2.25.hmpt-4ukyxt (external hpe-mpi-2.25.hmpt-hyunzknktdzri34bx26bupkvapehonql) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/pkgconf-1.8.0-ihxi5r | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/zlib-1.2.11-mswjss (external zlib-1.2.11-evtnqzdtuvprwnbd2nljimpzywrhw4uo) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ninja-1.10.2-eh33rh (external ninja-1.10.2-ij6isvr7fpc6nbooavdi3abtviuzpngb) | |
| ==> python@3.9.7 : has external module in ['python/3.9.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/python-3.9.7-yj5alh (external python-3.9.7-72xzp3vgzh5b424qevkfruhs3ajzqbiy) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libyaml-0.2.5-xj2wla | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/spdlog-1.9.2-x72vve | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/reportinglib-2.5.6-5fkun4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/hdf5-1.10.7-utj47f | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-markupsafe-2.0.1-4ectow | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-mpmath-1.1.0-dzb2mf | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-toml-0.10.2-w4gddq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyparsing-2.4.7-c7qvw2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-py-1.9.0-y7rfzd | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-attrs-21.2.0-ascbei | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-setuptools-57.4.0-v4z3s5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-iniconfig-1.1.1-kvw3vh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pluggy-0.13.0-mazoio | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyyaml-5.3.1-ci5oe5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libsonata-report-1.1-vutuzb | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-jinja2-3.0.1-onq3mh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-sympy-1.8-xtett6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-packaging-21.0-7iyiyg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pytest-6.2.4-22arfs | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_gcc-11.2.0-skylake/nmodl-develop-cnhmkf | |
| ==> Installing coreneuron-develop-clohwtjjwrfpo4z4oreptyb2jbe3wrcs | |
| ==> No binary for coreneuron-develop-clohwtjjwrfpo4z4oreptyb2jbe3wrcs found: installing from source | |
| ==> No patches needed for coreneuron | |
| ==> coreneuron: Executing phase: 'cmake' | |
| ==> coreneuron: Executing phase: 'build' | |
| ==> coreneuron: Executing phase: 'install' | |
| ==> coreneuron: Successfully installed coreneuron-develop-clohwtjjwrfpo4z4oreptyb2jbe3wrcs | |
| Fetch: 3.79s. Build: 3m 11.62s. Total: 3m 15.41s. | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_nvhpc-22.2-skylake/coreneuron-develop-clohwt | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| [32;1m$ 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: /nvme/bbpcihpcproj12/321584/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321584/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:24:00 2022 | |
| Hits: 88 / 96 (91.67 %) | |
| Direct: 79 / 96 (82.29 %) | |
| Preprocessed: 9 / 17 (52.94 %) | |
| Misses: 8 | |
| Direct: 17 | |
| Preprocessed: 8 | |
| Uncacheable: 16 | |
| Primary storage: | |
| Hits: 167 / 192 (86.98 %) | |
| Misses: 25 | |
| Cache size (GB): 0.23 / 0.51 (45.58 %) | |
| Files: 8258 | |
| Uncacheable: | |
| Called for linking: 13 | |
| No input file: 3 | |
| [32;1m$ tar -C "${CCACHE_DIR}" -cf "${CI_PROJECT_DIR}/ccache.tar" .[0;m | |
| [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 ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ 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_DEPENDENCY_ON_PREVIOUS_JOB=^/${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ 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/3.9.7 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-scipy/1.7.1 | |
| Autoloading py-numpy/1.19.5 | |
| Autoloading py-mpi4py/3.1.2 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.4.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m | |
| section_end:1646915040:step_script [0Ksection_start:1646915040:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache build:coreneuron:nmodl:nvhpc:acc-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=263718 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache.tar: found 1 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/build%3Acoreneuron%3Anmodl%3Anvhpc%3Aacc-8[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1646915051:archive_cache [0Ksection_start:1646915051: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=263792 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=181134 responseStatus[0;m=201 Created token[0;m=kL7MzHyy | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=264020 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=181134 responseStatus[0;m=201 Created token[0;m=kL7MzHyy | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=264060 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=181134 responseStatus[0;m=201 Created token[0;m=kL7MzHyy | |
| section_end:1646915052:upload_artifacts_on_success [0Ksection_start:1646915052:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646915054: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:1646914748:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914748:resolve_secrets [0Ksection_start:1646914748: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-executor796415626, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181133 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=8 | |
| A slurm job will be created with name GL_J181133_PROD_P112_CP0_C0 | |
| Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321583 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J181133_PROD_P112_CP0_C0 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=2 --jobid=321583 --cpus-per-task=8 --mem=76G | |
| section_end:1646914763:prepare_executor [0Ksection_start:1646914763:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n7 via bbpv1.epfl.ch... | |
| section_end:1646914765:prepare_script [0Ksection_start:1646914765: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:1646914766:get_sources [0Ksection_start:1646914766:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for build:coreneuron:nmodl:nvhpc:omp-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=167369 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:1646914769:restore_cache [0Ksection_start:1646914769:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:nmodl (181130)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=167466 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181130 responseStatus[0;m=200 OK token[0;m=Ly7CMUyn | |
| section_end:1646914769:download_artifacts [0Ksection_start:1646914769: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$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181133/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181133/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181133/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181133/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181133/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/config.yaml:2 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:2 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:3 root: $user_cache_path/software | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:5 all: install_{compiler.name}-{compiler.version}-{target}/{name}-{version}-{hash:6} | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:6 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:7 tcl: $user_cache_path/modules | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 environments: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:10 root: $user_cache_path/environments | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:88 concretization: separately | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:12 build_jobs: 8 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # This is the path to the root of the Spack install tree. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # You can use $spack here to refer to the root of the spack instance. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``). | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Another option that prevents conflicts and potential permission issues is | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # home directory. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # builds directly inside Spack's instance without staging them in a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # temporary space. Problems with specifying a path inside a Spack instance | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # are that it precludes its use as a system package and its ability to be | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # pip installable. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # In any case, if the username is not already in the path, Spack will append | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # the value of `$user` in an attempt to avoid potential conflicts between | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # The build stage can be purged with `spack clean --stage` and | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # `spack clean -a`, so it is important that the specified directory uniquely | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # identifies Spack staging to avoid accidentally wiping out non-Spack work. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:118 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:123 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:128 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:136 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:145 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:207 terminal_title: False | |
| _builtin debug: False | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207/J181133_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install coreneuron%nvhpc +nmodl+openmp+gpu+tests~legacy-unit~sympy build_type=RelWithDebInfo ^hpe-mpi%gcc ^/cnhmkfzsucqnmy6dfxyfikno2yj57grf | |
| [32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(module load unstable python; echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][\"nodes\"][0][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be jnp6ftwa2yzkkhnwk6ebarxcp5sqkwtt | |
| [32;1m$ 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=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /nvme/bbpcihpcproj12/321583/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321583/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:19:54 2022 | |
| 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): 0.25 / 0.51 (47.88 %) | |
| Files: 8802 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'jnp6ftwa2yzkkhnwk6ebarxcp5sqkwtt' | |
| [32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - coreneuron%nvhpc+gpu~legacy-unit+nmodl+openmp~sympy+tests build_type=RelWithDebInfo | |
| - ^hpe-mpi%gcc | |
| [+] ^nmodl@develop%gcc@11.2.0~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^py-jinja2@3.0.1%gcc@11.2.0~i18n arch=linux-rhel7-skylake | |
| [^] ^py-markupsafe@2.0.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^python@3.9.7%gcc@11.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] ^py-pytest@6.2.4%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-attrs@21.2.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-iniconfig@1.1.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-packaging@21.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pyparsing@2.4.7%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pluggy@0.13.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-py@1.9.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-setuptools@57.4.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-toml@0.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pyyaml@5.3.1%gcc@11.2.0+libyaml arch=linux-rhel7-skylake | |
| [^] ^libyaml@0.2.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-sympy@1.8%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| Concretized | |
| -------------------------------- | |
| - jnp6ftw coreneuron@develop%nvhpc@22.2~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl+openmp~profile+report+shared~sympy~sympyopt+tests~unified build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - ocv5kkj ^bison@3.8.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] bfwiaoz ^boost@1.78.0%nvhpc@22.2+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 visibility=hidden arch=linux-rhel7-skylake | |
| [^] 2qmvlfy ^cmake@3.21.4%gcc@11.2.0~doc+ncurses+openssl+ownlibs~qt build_type=Release arch=linux-rhel7-skylake | |
| [^] wd5k5wi ^cuda@11.6.0%nvhpc@22.2~dev arch=linux-rhel7-skylake | |
| - xzdnug7 ^flex@2.6.3%nvhpc@22.2+lex~nls arch=linux-rhel7-skylake | |
| [^] hyunzkn ^hpe-mpi@2.25.hmpt%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] vutuzbn ^libsonata-report@1.1%gcc@11.2.0~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] utj47fz ^hdf5@1.10.7%gcc@11.2.0+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ihxi5rl ^pkgconf@1.8.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] evtnqzd ^zlib@1.2.11%gcc@11.2.0+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] x72vveu ^spdlog@1.9.2%gcc@11.2.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - ij6isvr ^ninja@1.10.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [+] cnhmkfz ^nmodl@develop%gcc@11.2.0~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] onq3mhg ^py-jinja2@3.0.1%gcc@11.2.0~i18n arch=linux-rhel7-skylake | |
| [^] 4ectow5 ^py-markupsafe@2.0.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 72xzp3v ^python@3.9.7%gcc@11.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] 22arfs4 ^py-pytest@6.2.4%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ascbeii ^py-attrs@21.2.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] kvw3vhm ^py-iniconfig@1.1.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 7iyiygo ^py-packaging@21.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] c7qvw2q ^py-pyparsing@2.4.7%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] mazoiox ^py-pluggy@0.13.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] y7rfzdj ^py-py@1.9.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] v4z3s5e ^py-setuptools@57.4.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] w4gddqx ^py-toml@0.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ci5oe5b ^py-pyyaml@5.3.1%gcc@11.2.0+libyaml arch=linux-rhel7-skylake | |
| [^] xj2wlac ^libyaml@0.2.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] xtett6q ^py-sympy@1.8%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] dzb2mfs ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 5fkun4i ^reportinglib@2.5.6%gcc@11.2.0~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} || install_failed=1[0;m | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bison-3.8.2-ej2cew (external bison-3.8.2-ocv5kkjjvqshvbpp4gh3xrg4aj3xxh2k) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/boost-1.78.0-hiorc7 (external boost-1.78.0-bfwiaozbrpjr7blzjkfcz67vabdnspxj) | |
| ==> cmake@3.21.4 : has external module in ['cmake/3.21.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cmake-3.21.4-cdyb7k (external cmake-3.21.4-2qmvlfyylrv3t5ankluyr5cqey2nlfzd) | |
| ==> cuda@11.6.0 : has external module in ['cuda/11.6.0'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cuda-11.6.0-34qjta (external cuda-11.6.0-wd5k5wioelahwux72y3g3bytolebtkoh) | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/flex-2.6.3-3mtl7j (external flex-2.6.3-xzdnug7pkmqiem4ll6p4chgbnwyt7epd) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/hpe-mpi-2.25.hmpt-4ukyxt (external hpe-mpi-2.25.hmpt-hyunzknktdzri34bx26bupkvapehonql) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/pkgconf-1.8.0-ihxi5r | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/zlib-1.2.11-mswjss (external zlib-1.2.11-evtnqzdtuvprwnbd2nljimpzywrhw4uo) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ninja-1.10.2-eh33rh (external ninja-1.10.2-ij6isvr7fpc6nbooavdi3abtviuzpngb) | |
| ==> python@3.9.7 : has external module in ['python/3.9.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/python-3.9.7-yj5alh (external python-3.9.7-72xzp3vgzh5b424qevkfruhs3ajzqbiy) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libyaml-0.2.5-xj2wla | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/spdlog-1.9.2-x72vve | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/reportinglib-2.5.6-5fkun4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/hdf5-1.10.7-utj47f | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pluggy-0.13.0-mazoio | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-iniconfig-1.1.1-kvw3vh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-toml-0.10.2-w4gddq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-attrs-21.2.0-ascbei | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-mpmath-1.1.0-dzb2mf | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyparsing-2.4.7-c7qvw2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-setuptools-57.4.0-v4z3s5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-py-1.9.0-y7rfzd | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-markupsafe-2.0.1-4ectow | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyyaml-5.3.1-ci5oe5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libsonata-report-1.1-vutuzb | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-sympy-1.8-xtett6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-packaging-21.0-7iyiyg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-jinja2-3.0.1-onq3mh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pytest-6.2.4-22arfs | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_gcc-11.2.0-skylake/nmodl-develop-cnhmkf | |
| ==> Installing coreneuron-develop-jnp6ftwa2yzkkhnwk6ebarxcp5sqkwtt | |
| ==> No binary for coreneuron-develop-jnp6ftwa2yzkkhnwk6ebarxcp5sqkwtt found: installing from source | |
| ==> No patches needed for coreneuron | |
| ==> coreneuron: Executing phase: 'cmake' | |
| ==> coreneuron: Executing phase: 'build' | |
| ==> coreneuron: Executing phase: 'install' | |
| ==> coreneuron: Successfully installed coreneuron-develop-jnp6ftwa2yzkkhnwk6ebarxcp5sqkwtt | |
| Fetch: 4.41s. Build: 3m 3.19s. Total: 3m 7.60s. | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_nvhpc-22.2-skylake/coreneuron-develop-jnp6ft | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| [32;1m$ 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: /nvme/bbpcihpcproj12/321583/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321583/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:23:50 2022 | |
| Hits: 89 / 98 (90.82 %) | |
| Direct: 80 / 98 (81.63 %) | |
| Preprocessed: 9 / 18 (50.00 %) | |
| Misses: 9 | |
| Direct: 18 | |
| Preprocessed: 9 | |
| Uncacheable: 17 | |
| Primary storage: | |
| Hits: 169 / 196 (86.22 %) | |
| Misses: 27 | |
| Cache size (GB): 0.25 / 0.51 (47.93 %) | |
| Files: 8828 | |
| Uncacheable: | |
| Called for linking: 14 | |
| No input file: 3 | |
| [32;1m$ tar -C "${CCACHE_DIR}" -cf "${CI_PROJECT_DIR}/ccache.tar" .[0;m | |
| [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 ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ 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_DEPENDENCY_ON_PREVIOUS_JOB=^/${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ 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/3.9.7 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-scipy/1.7.1 | |
| Autoloading py-numpy/1.19.5 | |
| Autoloading py-mpi4py/3.1.2 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.4.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m | |
| section_end:1646915031:step_script [0Ksection_start:1646915031:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache build:coreneuron:nmodl:nvhpc:omp-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=173462 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache.tar: found 1 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/build%3Acoreneuron%3Anmodl%3Anvhpc%3Aomp-8[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1646915042:archive_cache [0Ksection_start:1646915042: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=173941 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=181133 responseStatus[0;m=201 Created token[0;m=zzgmsMFS | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=173983 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=181133 responseStatus[0;m=201 Created token[0;m=zzgmsMFS | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=174038 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=181133 responseStatus[0;m=201 Created token[0;m=zzgmsMFS | |
| section_end:1646915043:upload_artifacts_on_success [0Ksection_start:1646915043:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646915044: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:1646914601:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914601:resolve_secrets [0Ksection_start:1646914601: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-executor053961040, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181140 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=8 | |
| A slurm job will be created with name GL_J181140_PROD_P112_CP2_C3 | |
| Job parameters: memory=76G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321575 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J181140_PROD_P112_CP2_C3 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=2:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=2 --jobid=321575 --cpus-per-task=8 --mem=76G | |
| section_end:1646914623:prepare_executor [0Ksection_start:1646914623:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n7 via bbpv1.epfl.ch... | |
| section_end:1646914627:prepare_script [0Ksection_start:1646914627: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:1646914627:get_sources [0Ksection_start:1646914627:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for build:neuron:mod2c:intel-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=162386 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:1646914633:restore_cache [0Ksection_start:1646914633:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:mod2c:intel (181135)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=163128 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181135 responseStatus[0;m=200 OK token[0;m=Wt4nrJzM | |
| section_end:1646914634:download_artifacts [0Ksection_start:1646914634: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$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181140/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181140/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181140/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181140/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181140/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/config.yaml:2 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:2 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:3 root: $user_cache_path/software | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:5 all: install_{compiler.name}-{compiler.version}-{target}/{name}-{version}-{hash:6} | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:6 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:7 tcl: $user_cache_path/modules | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 environments: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:10 root: $user_cache_path/environments | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:88 concretization: separately | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:12 build_jobs: 8 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # This is the path to the root of the Spack install tree. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # You can use $spack here to refer to the root of the spack instance. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``). | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Another option that prevents conflicts and potential permission issues is | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # home directory. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # builds directly inside Spack's instance without staging them in a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # temporary space. Problems with specifying a path inside a Spack instance | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # are that it precludes its use as a system package and its ability to be | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # pip installable. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # In any case, if the username is not already in the path, Spack will append | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # the value of `$user` in an attempt to avoid potential conflicts between | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # The build stage can be purged with `spack clean --stage` and | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # `spack clean -a`, so it is important that the specified directory uniquely | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # identifies Spack staging to avoid accidentally wiping out non-Spack work. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:118 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:123 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:128 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:136 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:145 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:207 terminal_title: False | |
| _builtin debug: False | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207/J181140_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron%intel +coreneuron+debug+tests~legacy-unit~rx3d model_tests=channel-benchmark,olfactory,tqperf-heavy ^/hsyhen5wbojr4dsx5rf32wndj3dpm5nb | |
| [32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(module load unstable python; echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][\"nodes\"][0][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be 47kwkdqbfahzhd6mgo3d7lvidjenlcwo | |
| [32;1m$ 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=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /nvme/bbpcihpcproj12/321575/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321575/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:17:52 2022 | |
| 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): 0.45 / 0.51 (88.58 %) | |
| Files: 28225 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: '47kwkdqbfahzhd6mgo3d7lvidjenlcwo' | |
| [32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron%intel+coreneuron+debug~legacy-unit~rx3d+tests model_tests=channel-benchmark,olfactory,tqperf-heavy | |
| [+] ^coreneuron@develop%intel@2021.4.0~caliper~codegenopt~gpu~ipo~ispc~knl~legacy-unit+mpi~nmodl~openmp~profile+report+shared~sympy~sympyopt+tests~unified build_type=Debug arch=linux-rhel7-skylake | |
| [^] ^boost@1.78.0%intel@2021.4.0+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 visibility=hidden arch=linux-rhel7-skylake | |
| [^] ^hpe-mpi@2.25.hmpt%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] ^libsonata-report@1.1%intel@2021.4.0~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^hdf5@1.10.7%intel@2021.4.0+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^pkgconf@1.8.0%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] ^zlib@1.2.11%intel@2021.4.0+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] ^spdlog@1.9.2%intel@2021.4.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^python@3.9.7%intel@2021.4.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] ^reportinglib@2.5.6%intel@2021.4.0~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| Concretized | |
| -------------------------------- | |
| - 47kwkdq neuron@develop%intel@2021.4.0+binary~caliper+cmake~codechecks+coreneuron~cross-compile+debug~interviews~ipo+legacy-fr~legacy-unit+memacs+mod-compatibility+mpi+multisend~profile+pysetup+python~rx3d+shared+tests build_type=RelWithDebInfo model_tests=channel-benchmark,olfactory,tqperf-heavy patches=708cb04826b394a858069d93e8c08e1e81e914c23e1ef3da0486e8233834ff6c arch=linux-rhel7-skylake | |
| - dwdch6b ^bison@3.8.2%intel@2021.4.0 arch=linux-rhel7-skylake | |
| - z3q5f3x ^cmake@3.21.4%intel@2021.4.0~doc+ncurses+openssl+ownlibs~qt build_type=Release arch=linux-rhel7-skylake | |
| [+] hsyhen5 ^coreneuron@develop%intel@2021.4.0~caliper~codegenopt~gpu~ipo~ispc~knl~legacy-unit+mpi~nmodl~openmp~profile+report+shared~sympy~sympyopt+tests~unified build_type=Debug arch=linux-rhel7-skylake | |
| [^] dl7pfht ^boost@1.78.0%intel@2021.4.0+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 visibility=hidden arch=linux-rhel7-skylake | |
| [^] 3narjkw ^hpe-mpi@2.25.hmpt%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] nfrzrlo ^libsonata-report@1.1%intel@2021.4.0~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ofveh3j ^hdf5@1.10.7%intel@2021.4.0+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] xys6npz ^pkgconf@1.8.0%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] e7w5nez ^zlib@1.2.11%intel@2021.4.0+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] wk3uenv ^spdlog@1.9.2%intel@2021.4.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] f27a7nn ^python@3.9.7%intel@2021.4.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] gdhqypa ^reportinglib@2.5.6%intel@2021.4.0~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - s4ueg72 ^flex@2.6.3%intel@2021.4.0+lex~nls arch=linux-rhel7-skylake | |
| [^] bjxwlfq ^gettext@0.21%intel@2021.4.0+bzip2+curses+git~libunistring+libxml2+tar+xz arch=linux-rhel7-skylake | |
| [^] dvyfbbf ^bzip2@1.0.8%intel@2021.4.0~debug~pic+shared arch=linux-rhel7-skylake | |
| [^] ka2cfu4 ^libiconv@1.16%intel@2021.4.0 libs=shared,static arch=linux-rhel7-skylake | |
| [^] w3ob7m2 ^libxml2@2.9.12%intel@2021.4.0~python arch=linux-rhel7-skylake | |
| [^] ahg6hq4 ^xz@5.2.5%intel@2021.4.0~pic libs=shared,static arch=linux-rhel7-skylake | |
| [^] q3rwuez ^ncurses@6.2%intel@2021.4.0~symlinks+termlib abi=none arch=linux-rhel7-skylake | |
| [^] 2fli66n ^tar@1.28%intel@2021.4.0 patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-skylake | |
| - 6ggc5yr ^ninja@1.10.2%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] qj3vvxk ^py-mpi4py@3.1.2%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] 5flpilw ^py-setuptools@57.4.0%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] ipsbwzp ^py-numpy@1.19.5%intel@2021.4.0+blas+lapack patches=8a9d5d1b3f145c043b8b04869e7d46c6ff95c3f486d84f69693017c7e6190c7d arch=linux-rhel7-skylake | |
| [^] rl5ojfn ^intel-mkl@2020.4.304%intel@2021.4.0~ilp64+shared threads=none arch=linux-rhel7-skylake | |
| [^] taxuisw ^py-cython@0.29.24%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] tzmlo5v ^py-pytest@6.2.4%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] d5szgli ^py-attrs@21.2.0%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] huky5p4 ^py-iniconfig@1.1.1%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] wli7caj ^py-packaging@21.0%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] 3a3ralt ^py-pyparsing@2.4.7%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] rh6zvev ^py-pluggy@0.13.0%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] kpwupa3 ^py-setuptools-scm@6.3.2%intel@2021.4.0+toml arch=linux-rhel7-skylake | |
| [^] apu667d ^py-tomli@1.2.1%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] jesa65u ^py-pip@21.1.2%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] skrpmyr ^py-py@1.9.0%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] ktthpzx ^py-toml@0.10.2%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] tzl5sq5 ^py-pytest-cov@2.8.1%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] zkd7o6d ^py-coverage@5.5%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] 5abs2t7 ^readline@8.1%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} || install_failed=1[0;m | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bison-3.8.2-ej2cew (external bison-3.8.2-dwdch6bmdeclr2novthsywtrryotawwz) | |
| ==> cmake@3.21.4 : has external module in ['cmake/3.21.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cmake-3.21.4-cdyb7k (external cmake-3.21.4-z3q5f3xwpuibd3qbgdscqmu3efarbu42) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/boost-1.78.0-hiorc7 (external boost-1.78.0-dl7pfhtsvyaq3273gr2g3l5vr37eeydc) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/hpe-mpi-2.25.hmpt-4ukyxt (external hpe-mpi-2.25.hmpt-3narjkwjh6i2jr3zl3g5wdjlqi52hkwh) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/pkgconf-1.8.0-xys6np | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/zlib-1.2.11-mswjss (external zlib-1.2.11-e7w5nezpwf572epfhbosqfzboztysout) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/spdlog-1.9.2-wk3uen | |
| ==> python@3.9.7 : has external module in ['python/3.9.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/python-3.9.7-yj5alh (external python-3.9.7-f27a7nnhppeztxijpispnaedcfo2vjxi) | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/flex-2.6.3-3mtl7j (external flex-2.6.3-s4ueg72j7l6vkdyvfxj2tweo7v7s3otx) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bzip2-1.0.8-eu2d6e (external bzip2-1.0.8-dvyfbbfdan33i7wyydyeskb3legztopm) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/libiconv-1.16-ka2cfu | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/xz-5.2.5-ahg6hq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ncurses-6.2-nsve5x (external ncurses-6.2-q3rwuezhc2j56kexunypjpejzketozmc) | |
| [+] /usr (external tar-1.28-2fli66nkkv35g34exwd2xifp5w3gtgo6) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ninja-1.10.2-eh33rh (external ninja-1.10.2-6ggc5yre7qddwxdjmn7sfptpdoiy4dtp) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/intel-mkl-2020.4.304-rzr3hj (external intel-mkl-2020.4.304-rl5ojfngtc7sffwyz7v6ek6eceq53wed) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/readline-8.1-we2frg (external readline-8.1-5abs2t7f6dtgbejv6kjzd4gjwhdlr7qr) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/reportinglib-2.5.6-gdhqyp | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/hdf5-1.10.7-ofveh3 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-setuptools-57.4.0-5flpil | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/libxml2-2.9.12-w3ob7m | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/libsonata-report-1.1-nfrzrl | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-pyparsing-2.4.7-3a3ral | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-cython-0.29.24-taxuis | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-iniconfig-1.1.1-huky5p | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-coverage-5.5-zkd7o6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-toml-0.10.2-ktthpz | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-attrs-21.2.0-d5szgl | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-mpi4py-3.1.2-qj3vvx | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-pip-21.1.2-jesa65 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/gettext-0.21-bjxwlf | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_intel-2021.4.0-skylake/coreneuron-develop-hsyhen | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-packaging-21.0-wli7ca | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-numpy-1.19.5-ipsbwz | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-tomli-1.2.1-apu667 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-setuptools-scm-6.3.2-kpwupa | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-py-1.9.0-skrpmy | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-pluggy-0.13.0-rh6zve | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-pytest-6.2.4-tzmlo5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_intel-2021.4.0-skylake/py-pytest-cov-2.8.1-tzl5sq | |
| ==> Installing neuron-develop-47kwkdqbfahzhd6mgo3d7lvidjenlcwo | |
| ==> No binary for neuron-develop-47kwkdqbfahzhd6mgo3d7lvidjenlcwo found: installing from source | |
| /bin/tar: nrn/.git/objects/pack/pack-f05c63d7904d0b9630dbd50d6262aebaa28d46ac.pack: file changed as we read it | |
| /bin/tar: nrn/.git/objects/pack: file changed as we read it | |
| /bin/tar: nrn/.git/objects: file changed as we read it | |
| /bin/tar: nrn/.git: file changed as we read it | |
| /bin/tar: nrn/src: file changed as we read it | |
| /bin/tar: nrn: file changed as we read it | |
| ==> Error: ProcessError: Command exited with status 1: | |
| '/bin/tar' '-czf' '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181140/spack-source-cache/_source-cache/git//neuronsimulator/nrn/70c9569f319268e2a20847eceac6304cdf985013.tar.gz' 'nrn' | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| srun: error: r1i4n7: task 0: Exited with exit code 1 | |
| section_end:1646914761:step_script [0Ksection_start:1646914761: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=166874 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=181140 responseStatus[0;m=201 Created token[0;m=JAWpmRJ6 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=166914 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=181140 responseStatus[0;m=201 Created token[0;m=JAWpmRJ6 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=166955 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=181140 responseStatus[0;m=201 Created token[0;m=JAWpmRJ6 | |
| section_end:1646914763:upload_artifacts_on_failure [0Ksection_start:1646914763:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646914764: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:1646914625:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914625:resolve_secrets [0Ksection_start:1646914625: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-executor808898988, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181137 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=8 | |
| A slurm job will be created with name GL_J181137_PROD_P112_CP1_C2 | |
| Job parameters: memory=76G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321578 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J181137_PROD_P112_CP1_C2 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=2:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=2 --jobid=321578 --cpus-per-task=8 --mem=76G | |
| section_end:1646914630:prepare_executor [0Ksection_start:1646914630:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n7 via bbpv1.epfl.ch... | |
| section_end:1646914633:prepare_script [0Ksection_start:1646914633: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:1646914633:get_sources [0Ksection_start:1646914633:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for build:neuron:mod2c:nvhpc:acc-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=163163 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:1646914639:restore_cache [0Ksection_start:1646914639:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:mod2c:nvhpc:acc (181131)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=163666 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181131 responseStatus[0;m=200 OK token[0;m=j7pQWG7G | |
| section_end:1646914640:download_artifacts [0Ksection_start:1646914640: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$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181137/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181137/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181137/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181137/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181137/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/config.yaml:2 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:2 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:3 root: $user_cache_path/software | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:5 all: install_{compiler.name}-{compiler.version}-{target}/{name}-{version}-{hash:6} | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:6 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:7 tcl: $user_cache_path/modules | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 environments: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:10 root: $user_cache_path/environments | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:88 concretization: separately | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:12 build_jobs: 8 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # This is the path to the root of the Spack install tree. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # You can use $spack here to refer to the root of the spack instance. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``). | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Another option that prevents conflicts and potential permission issues is | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # home directory. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # builds directly inside Spack's instance without staging them in a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # temporary space. Problems with specifying a path inside a Spack instance | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # are that it precludes its use as a system package and its ability to be | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # pip installable. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # In any case, if the username is not already in the path, Spack will append | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # the value of `$user` in an attempt to avoid potential conflicts between | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # The build stage can be purged with `spack clean --stage` and | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # `spack clean -a`, so it is important that the specified directory uniquely | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # identifies Spack staging to avoid accidentally wiping out non-Spack work. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:118 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:123 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:128 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:136 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:145 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:207 terminal_title: False | |
| _builtin debug: False | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207/J181137_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron%nvhpc +coreneuron+debug+tests~legacy-unit~rx3d model_tests=channel-benchmark,olfactory,tqperf-heavy ^/qvmfnnxhw57tyce665xfpgrivex6jdyr | |
| [32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(module load unstable python; echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][\"nodes\"][0][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be b3uxm6bweygovmzordzjkevzwfwfbb7k | |
| [32;1m$ 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=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /nvme/bbpcihpcproj12/321578/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321578/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:17:58 2022 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.46 / 0.51 (90.38 %) | |
| Files: 34581 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'b3uxm6bweygovmzordzjkevzwfwfbb7k' | |
| [32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron%nvhpc+coreneuron+debug~legacy-unit~rx3d+tests model_tests=channel-benchmark,olfactory,tqperf-heavy | |
| [+] ^coreneuron@develop%nvhpc@22.2~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi~nmodl+openmp~profile+report+shared~sympy~sympyopt+tests~unified build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^boost@1.78.0%nvhpc@22.2+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 visibility=hidden arch=linux-rhel7-skylake | |
| [^] ^cuda@11.6.0%nvhpc@22.2~dev arch=linux-rhel7-skylake | |
| [^] ^hpe-mpi@2.25.hmpt%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] ^libsonata-report@1.1%nvhpc@22.2~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^hdf5@1.10.7%nvhpc@22.2+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^pkgconf@1.8.0%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] ^zlib@1.2.11%nvhpc@22.2+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] ^spdlog@1.9.2%nvhpc@22.2~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^python@3.9.7%nvhpc@22.2+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] ^reportinglib@2.5.6%nvhpc@22.2~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| Concretized | |
| -------------------------------- | |
| - b3uxm6b neuron@develop%nvhpc@22.2+binary~caliper+cmake~codechecks+coreneuron~cross-compile+debug~interviews~ipo+legacy-fr~legacy-unit+memacs+mod-compatibility+mpi+multisend~profile+pysetup+python~rx3d+shared+tests build_type=RelWithDebInfo model_tests=channel-benchmark,olfactory,tqperf-heavy patches=708cb04826b394a858069d93e8c08e1e81e914c23e1ef3da0486e8233834ff6c arch=linux-rhel7-skylake | |
| - ocv5kkj ^bison@3.8.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| - 55wtnz6 ^cmake@3.21.4%nvhpc@22.2~doc+ncurses+openssl+ownlibs~qt build_type=Release arch=linux-rhel7-skylake | |
| [+] qvmfnnx ^coreneuron@develop%nvhpc@22.2~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi~nmodl+openmp~profile+report+shared~sympy~sympyopt+tests~unified build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] bfwiaoz ^boost@1.78.0%nvhpc@22.2+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 visibility=hidden arch=linux-rhel7-skylake | |
| [^] wd5k5wi ^cuda@11.6.0%nvhpc@22.2~dev arch=linux-rhel7-skylake | |
| [^] yjmlhh2 ^hpe-mpi@2.25.hmpt%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] r5wt3dh ^libsonata-report@1.1%nvhpc@22.2~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ytku65t ^hdf5@1.10.7%nvhpc@22.2+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] kzqllej ^pkgconf@1.8.0%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] tayew4i ^zlib@1.2.11%nvhpc@22.2+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] 6bohspr ^spdlog@1.9.2%nvhpc@22.2~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] anlnosv ^python@3.9.7%nvhpc@22.2+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] 4mciih7 ^reportinglib@2.5.6%nvhpc@22.2~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - xzdnug7 ^flex@2.6.3%nvhpc@22.2+lex~nls arch=linux-rhel7-skylake | |
| [^] sr4zfin ^gettext@0.21%nvhpc@22.2+bzip2+curses+git~libunistring+libxml2+tar+xz patches=6e530daaae14725d578d6cafbf7d523accc9ed29fd817bd421cf98a5f51e9e1b,bbe9f0539aa504966ac104224d25a9260faa1015ed3adda936467be9c7de4eae,fb27a3fb5e414bdc50ffebbbe2da986473df70a493caa4396226f51a67c55424 arch=linux-rhel7-skylake | |
| [^] ajb4w4f ^bzip2@1.0.8%nvhpc@22.2~debug~pic+shared arch=linux-rhel7-skylake | |
| [^] 4twyk6r ^libiconv@1.16%nvhpc@22.2 libs=shared,static arch=linux-rhel7-skylake | |
| [^] fpazbku ^libxml2@2.9.12%nvhpc@22.2~python patches=05ff238cf435825ef835c7ae39376b52dc83d8caf19e962f0766c841386a305a,10a88ad47f9797cf7cf2d7d07241f665a3b6d1f31fa026728c8c2ae93e1664e9 arch=linux-rhel7-skylake | |
| [^] qzjkqgu ^xz@5.2.5%nvhpc@22.2~pic libs=shared,static arch=linux-rhel7-skylake | |
| [^] w5fylgg ^ncurses@6.2%nvhpc@22.2~symlinks+termlib abi=none arch=linux-rhel7-skylake | |
| [^] rbb3dop ^tar@1.28%nvhpc@22.2 patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-skylake | |
| - ij6isvr ^ninja@1.10.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] lpmwkvu ^py-mpi4py@3.1.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] pa37ni6 ^py-setuptools@57.4.0%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] nlsjsjj ^py-numpy@1.17.5%gcc@11.2.0+blas+lapack patches=cf407c1024b0878c4222dd352aa9dece412073bb15b138243a2893725434c7b6 arch=linux-rhel7-skylake | |
| [^] r5cvgru ^intel-mkl@2020.4.304%gcc@11.2.0~ilp64+shared threads=none arch=linux-rhel7-skylake | |
| [^] gabxpj6 ^py-pytest@6.2.4%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] sqvzpxf ^py-attrs@21.2.0%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] lzjp5na ^py-iniconfig@1.1.1%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] qg4saj7 ^py-packaging@21.0%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] dqjk4r6 ^py-pyparsing@2.4.7%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] e75mnog ^py-pluggy@0.13.0%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] rotu6n4 ^py-setuptools-scm@6.3.2%nvhpc@22.2+toml arch=linux-rhel7-skylake | |
| [^] uf52c5s ^py-tomli@1.2.1%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] mj6gtgm ^py-pip@21.1.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] f3hqsi6 ^py-py@1.9.0%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] fto3mxh ^py-toml@0.10.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] aoyvjwm ^py-pytest-cov@2.8.1%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] yyszraq ^py-coverage@5.5%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] vwedalx ^readline@8.1%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} || install_failed=1[0;m | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bison-3.8.2-ej2cew (external bison-3.8.2-ocv5kkjjvqshvbpp4gh3xrg4aj3xxh2k) | |
| ==> cmake@3.21.4 : has external module in ['cmake/3.21.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cmake-3.21.4-cdyb7k (external cmake-3.21.4-55wtnz6tfxjhgdgfbzzwzuhyl746wv7j) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/boost-1.78.0-hiorc7 (external boost-1.78.0-bfwiaozbrpjr7blzjkfcz67vabdnspxj) | |
| ==> cuda@11.6.0 : has external module in ['cuda/11.6.0'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cuda-11.6.0-34qjta (external cuda-11.6.0-wd5k5wioelahwux72y3g3bytolebtkoh) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/hpe-mpi-2.25.hmpt-4ukyxt (external hpe-mpi-2.25.hmpt-yjmlhh2qrwgth4mrrn3f72mynalveqr5) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/pkgconf-1.8.0-kzqlle | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/zlib-1.2.11-mswjss (external zlib-1.2.11-tayew4indju53v3ylyin7shvfpp5genf) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/spdlog-1.9.2-6bohsp | |
| ==> python@3.9.7 : has external module in ['python/3.9.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/python-3.9.7-yj5alh (external python-3.9.7-anlnosvxv5pmzlxnwx77gmjmmlsmov7b) | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/flex-2.6.3-3mtl7j (external flex-2.6.3-xzdnug7pkmqiem4ll6p4chgbnwyt7epd) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bzip2-1.0.8-eu2d6e (external bzip2-1.0.8-ajb4w4fal7ri67giif6kgx5ks4ammoe3) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/libiconv-1.16-4twyk6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/xz-5.2.5-qzjkqg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ncurses-6.2-nsve5x (external ncurses-6.2-w5fylggejc6gf75pltr5gsjdjsthzt3w) | |
| [+] /usr (external tar-1.28-rbb3dopg6uj5eje6nc6qjoywga4vn23d) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ninja-1.10.2-eh33rh (external ninja-1.10.2-ij6isvr7fpc6nbooavdi3abtviuzpngb) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/intel-mkl-2020.4.304-rzr3hj (external intel-mkl-2020.4.304-r5cvgrurdnt6y267arsmmmgqi75ouxd2) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/readline-8.1-we2frg (external readline-8.1-vwedalxfrcxjaatlnup77gynyx6weav5) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/reportinglib-2.5.6-4mciih | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/hdf5-1.10.7-ytku65 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-setuptools-57.4.0-pa37ni | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/libxml2-2.9.12-fpazbk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/libsonata-report-1.1-r5wt3d | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-iniconfig-1.1.1-lzjp5n | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-pyparsing-2.4.7-dqjk4r | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-pip-21.1.2-mj6gtg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-numpy-1.17.5-nlsjsj | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-toml-0.10.2-fto3mx | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-coverage-5.5-yyszra | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-attrs-21.2.0-sqvzpx | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-mpi4py-3.1.2-lpmwkv | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/gettext-0.21-sr4zfi | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_nvhpc-22.2-skylake/coreneuron-develop-qvmfnn | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-packaging-21.0-qg4saj | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-tomli-1.2.1-uf52c5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-setuptools-scm-6.3.2-rotu6n | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-pluggy-0.13.0-e75mno | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-py-1.9.0-f3hqsi | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-pytest-6.2.4-gabxpj | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_nvhpc-22.2-skylake/py-pytest-cov-2.8.1-aoyvjw | |
| ==> Installing neuron-develop-b3uxm6bweygovmzordzjkevzwfwfbb7k | |
| ==> No binary for neuron-develop-b3uxm6bweygovmzordzjkevzwfwfbb7k found: installing from source | |
| /bin/tar: nrn/.git/objects/pack/pack-f05c63d7904d0b9630dbd50d6262aebaa28d46ac.pack: file changed as we read it | |
| /bin/tar: nrn/.git/objects/pack: file changed as we read it | |
| /bin/tar: nrn/.git/objects: file changed as we read it | |
| /bin/tar: nrn/.git: file changed as we read it | |
| /bin/tar: nrn: file changed as we read it | |
| ==> Error: ProcessError: Command exited with status 1: | |
| '/bin/tar' '-czf' '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181137/spack-source-cache/_source-cache/git//neuronsimulator/nrn/70c9569f319268e2a20847eceac6304cdf985013.tar.gz' 'nrn' | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| srun: error: r1i4n7: task 0: Exited with exit code 1 | |
| section_end:1646914764:step_script [0Ksection_start:1646914764: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=167210 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=181137 responseStatus[0;m=201 Created token[0;m=MvoLd1ED | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=167245 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=181137 responseStatus[0;m=201 Created token[0;m=MvoLd1ED | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=167296 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=181137 responseStatus[0;m=201 Created token[0;m=MvoLd1ED | |
| section_end:1646914766:upload_artifacts_on_failure [0Ksection_start:1646914766:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646914766: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:1646914907:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914907:resolve_secrets [0Ksection_start:1646914907: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-executor296426646, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181141 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=8 | |
| A slurm job will be created with name GL_J181141_PROD_P112_CP1_C2 | |
| Job parameters: memory=76G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321587 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J181141_PROD_P112_CP1_C2 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=2:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=2 --jobid=321587 --cpus-per-task=8 --mem=76G | |
| section_end:1646914922:prepare_executor [0Ksection_start:1646914922:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n7 via bbpv1.epfl.ch... | |
| section_end:1646914925:prepare_script [0Ksection_start:1646914925: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:1646914926:get_sources [0Ksection_start:1646914926:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for build:neuron:nmodl:intel-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=170098 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:1646914932:restore_cache [0Ksection_start:1646914932:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:nmodl:intel (181136)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=170630 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181136 responseStatus[0;m=200 OK token[0;m=whUogRab | |
| section_end:1646914933:download_artifacts [0Ksection_start:1646914933: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$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181141/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181141/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181141/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181141/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181141/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/config.yaml:2 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:2 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:3 root: $user_cache_path/software | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:5 all: install_{compiler.name}-{compiler.version}-{target}/{name}-{version}-{hash:6} | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:6 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:7 tcl: $user_cache_path/modules | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 environments: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:10 root: $user_cache_path/environments | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:88 concretization: separately | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:12 build_jobs: 8 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # This is the path to the root of the Spack install tree. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # You can use $spack here to refer to the root of the spack instance. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``). | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Another option that prevents conflicts and potential permission issues is | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # home directory. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # builds directly inside Spack's instance without staging them in a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # temporary space. Problems with specifying a path inside a Spack instance | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # are that it precludes its use as a system package and its ability to be | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # pip installable. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # In any case, if the username is not already in the path, Spack will append | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # the value of `$user` in an attempt to avoid potential conflicts between | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # The build stage can be purged with `spack clean --stage` and | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # `spack clean -a`, so it is important that the specified directory uniquely | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # identifies Spack staging to avoid accidentally wiping out non-Spack work. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:118 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:123 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:128 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:136 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:145 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:207 terminal_title: False | |
| _builtin debug: False | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207/J181141_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron%intel +coreneuron+debug+tests~legacy-unit~rx3d model_tests=channel-benchmark,olfactory,tqperf-heavy ^/f2bfytl2xzstchvaem4gflxln4r6z4cz | |
| [32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(module load unstable python; echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][\"nodes\"][0][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be 7vuuxvdwm3mams7szrb4snbsppttef4h | |
| [32;1m$ 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=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /nvme/bbpcihpcproj12/321587/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321587/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:22:35 2022 | |
| 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): 0.45 / 0.51 (88.61 %) | |
| Files: 25615 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: '7vuuxvdwm3mams7szrb4snbsppttef4h' | |
| [32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron%intel+coreneuron+debug~legacy-unit~rx3d+tests model_tests=channel-benchmark,olfactory,tqperf-heavy | |
| [+] ^coreneuron@develop%intel@2021.4.0~caliper~codegenopt~gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl~openmp~profile+report+shared~sympy~sympyopt+tests~unified build_type=Debug arch=linux-rhel7-skylake | |
| [^] ^boost@1.78.0%intel@2021.4.0+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 visibility=hidden arch=linux-rhel7-skylake | |
| [^] ^hpe-mpi@2.25.hmpt%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^libsonata-report@1.1%gcc@11.2.0~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^hdf5@1.10.7%gcc@11.2.0+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^pkgconf@1.8.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^zlib@1.2.11%gcc@11.2.0+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] ^spdlog@1.9.2%gcc@11.2.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [+] ^nmodl@develop%gcc@11.2.0~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^py-jinja2@3.0.1%gcc@11.2.0~i18n arch=linux-rhel7-skylake | |
| [^] ^py-markupsafe@2.0.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^python@3.9.7%gcc@11.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] ^py-pytest@6.2.4%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-attrs@21.2.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-iniconfig@1.1.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-packaging@21.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pyparsing@2.4.7%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pluggy@0.13.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-py@1.9.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-setuptools@57.4.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-toml@0.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pyyaml@5.3.1%gcc@11.2.0+libyaml arch=linux-rhel7-skylake | |
| [^] ^libyaml@0.2.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-sympy@1.8%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^reportinglib@2.5.6%gcc@11.2.0~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| Concretized | |
| -------------------------------- | |
| - 7vuuxvd neuron@develop%intel@2021.4.0+binary~caliper+cmake~codechecks+coreneuron~cross-compile+debug~interviews~ipo+legacy-fr~legacy-unit+memacs+mod-compatibility+mpi+multisend~profile+pysetup+python~rx3d+shared+tests build_type=RelWithDebInfo model_tests=channel-benchmark,olfactory,tqperf-heavy patches=708cb04826b394a858069d93e8c08e1e81e914c23e1ef3da0486e8233834ff6c arch=linux-rhel7-skylake | |
| - dwdch6b ^bison@3.8.2%intel@2021.4.0 arch=linux-rhel7-skylake | |
| - z3q5f3x ^cmake@3.21.4%intel@2021.4.0~doc+ncurses+openssl+ownlibs~qt build_type=Release arch=linux-rhel7-skylake | |
| [+] f2bfytl ^coreneuron@develop%intel@2021.4.0~caliper~codegenopt~gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl~openmp~profile+report+shared~sympy~sympyopt+tests~unified build_type=Debug arch=linux-rhel7-skylake | |
| [^] dl7pfht ^boost@1.78.0%intel@2021.4.0+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 visibility=hidden arch=linux-rhel7-skylake | |
| [^] hyunzkn ^hpe-mpi@2.25.hmpt%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] vutuzbn ^libsonata-report@1.1%gcc@11.2.0~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] utj47fz ^hdf5@1.10.7%gcc@11.2.0+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ihxi5rl ^pkgconf@1.8.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] evtnqzd ^zlib@1.2.11%gcc@11.2.0+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] x72vveu ^spdlog@1.9.2%gcc@11.2.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [+] cnhmkfz ^nmodl@develop%gcc@11.2.0~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] onq3mhg ^py-jinja2@3.0.1%gcc@11.2.0~i18n arch=linux-rhel7-skylake | |
| [^] 4ectow5 ^py-markupsafe@2.0.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 72xzp3v ^python@3.9.7%gcc@11.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] 22arfs4 ^py-pytest@6.2.4%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ascbeii ^py-attrs@21.2.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] kvw3vhm ^py-iniconfig@1.1.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 7iyiygo ^py-packaging@21.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] c7qvw2q ^py-pyparsing@2.4.7%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] mazoiox ^py-pluggy@0.13.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] y7rfzdj ^py-py@1.9.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] v4z3s5e ^py-setuptools@57.4.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] w4gddqx ^py-toml@0.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ci5oe5b ^py-pyyaml@5.3.1%gcc@11.2.0+libyaml arch=linux-rhel7-skylake | |
| [^] xj2wlac ^libyaml@0.2.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] xtett6q ^py-sympy@1.8%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] dzb2mfs ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 5fkun4i ^reportinglib@2.5.6%gcc@11.2.0~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - s4ueg72 ^flex@2.6.3%intel@2021.4.0+lex~nls arch=linux-rhel7-skylake | |
| [^] iu2b5hx ^gettext@0.21%gcc@11.2.0+bzip2+curses+git~libunistring+libxml2+tar+xz arch=linux-rhel7-skylake | |
| [^] 3rmq3zx ^bzip2@1.0.8%gcc@11.2.0~debug~pic+shared arch=linux-rhel7-skylake | |
| [^] hxxlexb ^libiconv@1.16%gcc@11.2.0 libs=shared,static arch=linux-rhel7-skylake | |
| [^] dnxqn2k ^libxml2@2.9.12%gcc@11.2.0~python arch=linux-rhel7-skylake | |
| [^] jzpqn5y ^xz@5.2.5%gcc@11.2.0~pic libs=shared,static arch=linux-rhel7-skylake | |
| [^] ams67cx ^ncurses@6.2%gcc@11.2.0~symlinks+termlib abi=none arch=linux-rhel7-skylake | |
| [^] ir7xtbl ^tar@1.28%gcc@11.2.0 patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-skylake | |
| - 6ggc5yr ^ninja@1.10.2%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [^] n6q4vfz ^py-mpi4py@3.1.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] gjm7kkq ^py-numpy@1.19.5%gcc@11.2.0+blas+lapack patches=8a9d5d1b3f145c043b8b04869e7d46c6ff95c3f486d84f69693017c7e6190c7d arch=linux-rhel7-skylake | |
| [^] r5cvgru ^intel-mkl@2020.4.304%gcc@11.2.0~ilp64+shared threads=none arch=linux-rhel7-skylake | |
| [^] h2fsi6i ^py-cython@0.29.24%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] q5n7ofc ^py-pytest-cov@2.8.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] fudvy5v ^py-coverage@5.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 5abs2t7 ^readline@8.1%intel@2021.4.0 arch=linux-rhel7-skylake | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} || install_failed=1[0;m | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bison-3.8.2-ej2cew (external bison-3.8.2-dwdch6bmdeclr2novthsywtrryotawwz) | |
| ==> cmake@3.21.4 : has external module in ['cmake/3.21.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cmake-3.21.4-cdyb7k (external cmake-3.21.4-z3q5f3xwpuibd3qbgdscqmu3efarbu42) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/boost-1.78.0-hiorc7 (external boost-1.78.0-dl7pfhtsvyaq3273gr2g3l5vr37eeydc) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/hpe-mpi-2.25.hmpt-4ukyxt (external hpe-mpi-2.25.hmpt-hyunzknktdzri34bx26bupkvapehonql) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/pkgconf-1.8.0-ihxi5r | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/zlib-1.2.11-mswjss (external zlib-1.2.11-evtnqzdtuvprwnbd2nljimpzywrhw4uo) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/spdlog-1.9.2-x72vve | |
| ==> python@3.9.7 : has external module in ['python/3.9.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/python-3.9.7-yj5alh (external python-3.9.7-72xzp3vgzh5b424qevkfruhs3ajzqbiy) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libyaml-0.2.5-xj2wla | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/flex-2.6.3-3mtl7j (external flex-2.6.3-s4ueg72j7l6vkdyvfxj2tweo7v7s3otx) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bzip2-1.0.8-eu2d6e (external bzip2-1.0.8-3rmq3zxuntsiphthnvty6gtydbmbkwr5) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libiconv-1.16-hxxlex | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/xz-5.2.5-jzpqn5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ncurses-6.2-nsve5x (external ncurses-6.2-ams67cxbq5vc7wiay2ndr2ksce2igbfw) | |
| [+] /usr (external tar-1.28-ir7xtblauhq3vtkpjrl7ou3nzevcsi3u) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ninja-1.10.2-eh33rh (external ninja-1.10.2-6ggc5yre7qddwxdjmn7sfptpdoiy4dtp) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/intel-mkl-2020.4.304-rzr3hj (external intel-mkl-2020.4.304-r5cvgrurdnt6y267arsmmmgqi75ouxd2) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/readline-8.1-we2frg (external readline-8.1-5abs2t7f6dtgbejv6kjzd4gjwhdlr7qr) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/reportinglib-2.5.6-5fkun4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/hdf5-1.10.7-utj47f | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-toml-0.10.2-w4gddq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-markupsafe-2.0.1-4ectow | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyparsing-2.4.7-c7qvw2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-setuptools-57.4.0-v4z3s5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pluggy-0.13.0-mazoio | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-py-1.9.0-y7rfzd | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-mpmath-1.1.0-dzb2mf | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-iniconfig-1.1.1-kvw3vh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-attrs-21.2.0-ascbei | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyyaml-5.3.1-ci5oe5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libxml2-2.9.12-dnxqn2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libsonata-report-1.1-vutuzb | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-jinja2-3.0.1-onq3mh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-packaging-21.0-7iyiyg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-cython-0.29.24-h2fsi6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-mpi4py-3.1.2-n6q4vf | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-coverage-5.5-fudvy5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-sympy-1.8-xtett6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/gettext-0.21-iu2b5h | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pytest-6.2.4-22arfs | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-numpy-1.19.5-gjm7kk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pytest-cov-2.8.1-q5n7of | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_gcc-11.2.0-skylake/nmodl-develop-cnhmkf | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_intel-2021.4.0-skylake/coreneuron-develop-f2bfyt | |
| ==> Installing neuron-develop-7vuuxvdwm3mams7szrb4snbsppttef4h | |
| ==> No binary for neuron-develop-7vuuxvdwm3mams7szrb4snbsppttef4h found: installing from source | |
| ==> Applied patch /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/bluebrain/repo-patches/packages/neuron/revert_Import3d_numerical_format.master.patch | |
| ==> neuron: Executing phase: 'cmake' | |
| ==> neuron: Executing phase: 'build' | |
| ==> neuron: Executing phase: 'install' | |
| ==> neuron: Successfully installed neuron-develop-7vuuxvdwm3mams7szrb4snbsppttef4h | |
| Fetch: 12.49s. Build: 11m 7.19s. Total: 11m 19.68s. | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_intel-2021.4.0-skylake/neuron-develop-7vuuxv | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| [32;1m$ 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: /nvme/bbpcihpcproj12/321587/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321587/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:34:45 2022 | |
| Hits: 712 / 810 (87.90 %) | |
| Direct: 170 / 819 (20.76 %) | |
| Preprocessed: 542 / 643 (84.29 %) | |
| Misses: 98 | |
| Direct: 649 | |
| Preprocessed: 101 | |
| Uncacheable: 128 | |
| Primary storage: | |
| Hits: 1186 / 1632 (72.67 %) | |
| Misses: 446 | |
| Cache size (GB): 0.46 / 0.51 (89.20 %) | |
| Files: 25953 | |
| Cleanups: 1 | |
| Uncacheable: | |
| Autoconf compile/link: 7 | |
| Called for linking: 105 | |
| Called for preprocessing: 1 | |
| Compilation failed: 3 | |
| No input file: 6 | |
| Preprocessing failed: 6 | |
| [32;1m$ tar -C "${CCACHE_DIR}" -cf "${CI_PROJECT_DIR}/ccache.tar" .[0;m | |
| [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 ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ 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_DEPENDENCY_ON_PREVIOUS_JOB=^/${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ 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/3.9.7 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-scipy/1.7.1 | |
| Autoloading py-numpy/1.19.5 | |
| Autoloading py-mpi4py/3.1.2 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.4.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m | |
| section_end:1646915686:step_script [0Ksection_start:1646915686:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache build:neuron:nmodl:intel-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=194411 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache.tar: found 1 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/build%3Aneuron%3Anmodl%3Aintel-8[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1646915709:archive_cache [0Ksection_start:1646915709: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=194982 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=181141 responseStatus[0;m=201 Created token[0;m=xfC1C5yz | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=195030 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=181141 responseStatus[0;m=201 Created token[0;m=xfC1C5yz | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=195076 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=181141 responseStatus[0;m=201 Created token[0;m=xfC1C5yz | |
| section_end:1646915711:upload_artifacts_on_success [0Ksection_start:1646915711:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646915711: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:1646915060:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646915060:resolve_secrets [0Ksection_start:1646915060: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-executor283327183, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181139 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=8 | |
| A slurm job will be created with name GL_J181139_PROD_P112_CP3_C4 | |
| Job parameters: memory=76G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321592 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J181139_PROD_P112_CP3_C4 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=2:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=2 --jobid=321592 --cpus-per-task=8 --mem=76G | |
| section_end:1646915069:prepare_executor [0Ksection_start:1646915069:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n7 via bbpv1.epfl.ch... | |
| section_end:1646915071:prepare_script [0Ksection_start:1646915071: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:1646915072:get_sources [0Ksection_start:1646915072:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for build:neuron:nmodl:nvhpc:acc-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=175500 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:1646915078:restore_cache [0Ksection_start:1646915078:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:nmodl:nvhpc:acc (181134)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=176271 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181134 responseStatus[0;m=200 OK token[0;m=kL7MzHyy | |
| section_end:1646915081:download_artifacts [0Ksection_start:1646915081: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$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181139/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181139/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181139/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181139/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181139/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/config.yaml:2 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:2 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:3 root: $user_cache_path/software | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:5 all: install_{compiler.name}-{compiler.version}-{target}/{name}-{version}-{hash:6} | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:6 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:7 tcl: $user_cache_path/modules | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 environments: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:10 root: $user_cache_path/environments | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:88 concretization: separately | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:12 build_jobs: 8 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # This is the path to the root of the Spack install tree. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # You can use $spack here to refer to the root of the spack instance. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``). | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Another option that prevents conflicts and potential permission issues is | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # home directory. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # builds directly inside Spack's instance without staging them in a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # temporary space. Problems with specifying a path inside a Spack instance | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # are that it precludes its use as a system package and its ability to be | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # pip installable. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # In any case, if the username is not already in the path, Spack will append | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # the value of `$user` in an attempt to avoid potential conflicts between | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # The build stage can be purged with `spack clean --stage` and | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # `spack clean -a`, so it is important that the specified directory uniquely | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # identifies Spack staging to avoid accidentally wiping out non-Spack work. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:118 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:123 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:128 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:136 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:145 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:207 terminal_title: False | |
| _builtin debug: False | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207/J181139_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron%nvhpc +coreneuron+debug+tests~legacy-unit~rx3d model_tests=channel-benchmark,olfactory,tqperf-heavy ^/clohwtjjwrfpo4z4oreptyb2jbe3wrcs | |
| [32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(module load unstable python; echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][\"nodes\"][0][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be dwkjkuknoiprgdt5yhhj7uooz4rce2vl | |
| [32;1m$ 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=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /nvme/bbpcihpcproj12/321592/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321592/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:25:06 2022 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.47 / 0.51 (92.32 %) | |
| Files: 30012 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'dwkjkuknoiprgdt5yhhj7uooz4rce2vl' | |
| [32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron%nvhpc+coreneuron+debug~legacy-unit~rx3d+tests model_tests=channel-benchmark,olfactory,tqperf-heavy | |
| [+] ^coreneuron@develop%nvhpc@22.2~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl~openmp~profile+report+shared+sympy~sympyopt+tests~unified build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^boost@1.78.0%nvhpc@22.2+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 visibility=hidden arch=linux-rhel7-skylake | |
| [^] ^cuda@11.6.0%nvhpc@22.2~dev arch=linux-rhel7-skylake | |
| [^] ^hpe-mpi@2.25.hmpt%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^libsonata-report@1.1%gcc@11.2.0~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^hdf5@1.10.7%gcc@11.2.0+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^pkgconf@1.8.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^zlib@1.2.11%gcc@11.2.0+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] ^spdlog@1.9.2%gcc@11.2.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [+] ^nmodl@develop%gcc@11.2.0~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^py-jinja2@3.0.1%gcc@11.2.0~i18n arch=linux-rhel7-skylake | |
| [^] ^py-markupsafe@2.0.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^python@3.9.7%gcc@11.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] ^py-pytest@6.2.4%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-attrs@21.2.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-iniconfig@1.1.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-packaging@21.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pyparsing@2.4.7%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pluggy@0.13.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-py@1.9.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-setuptools@57.4.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-toml@0.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pyyaml@5.3.1%gcc@11.2.0+libyaml arch=linux-rhel7-skylake | |
| [^] ^libyaml@0.2.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-sympy@1.8%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^reportinglib@2.5.6%gcc@11.2.0~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| Concretized | |
| -------------------------------- | |
| - dwkjkuk neuron@develop%nvhpc@22.2+binary~caliper+cmake~codechecks+coreneuron~cross-compile+debug~interviews~ipo+legacy-fr~legacy-unit+memacs+mod-compatibility+mpi+multisend~profile+pysetup+python~rx3d+shared+tests build_type=RelWithDebInfo model_tests=channel-benchmark,olfactory,tqperf-heavy patches=708cb04826b394a858069d93e8c08e1e81e914c23e1ef3da0486e8233834ff6c arch=linux-rhel7-skylake | |
| - ocv5kkj ^bison@3.8.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| - 55wtnz6 ^cmake@3.21.4%nvhpc@22.2~doc+ncurses+openssl+ownlibs~qt build_type=Release arch=linux-rhel7-skylake | |
| [+] clohwtj ^coreneuron@develop%nvhpc@22.2~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl~openmp~profile+report+shared+sympy~sympyopt+tests~unified build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] bfwiaoz ^boost@1.78.0%nvhpc@22.2+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 visibility=hidden arch=linux-rhel7-skylake | |
| [^] wd5k5wi ^cuda@11.6.0%nvhpc@22.2~dev arch=linux-rhel7-skylake | |
| [^] hyunzkn ^hpe-mpi@2.25.hmpt%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] vutuzbn ^libsonata-report@1.1%gcc@11.2.0~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] utj47fz ^hdf5@1.10.7%gcc@11.2.0+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ihxi5rl ^pkgconf@1.8.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] evtnqzd ^zlib@1.2.11%gcc@11.2.0+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] x72vveu ^spdlog@1.9.2%gcc@11.2.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [+] cnhmkfz ^nmodl@develop%gcc@11.2.0~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] onq3mhg ^py-jinja2@3.0.1%gcc@11.2.0~i18n arch=linux-rhel7-skylake | |
| [^] 4ectow5 ^py-markupsafe@2.0.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 72xzp3v ^python@3.9.7%gcc@11.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] 22arfs4 ^py-pytest@6.2.4%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ascbeii ^py-attrs@21.2.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] kvw3vhm ^py-iniconfig@1.1.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 7iyiygo ^py-packaging@21.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] c7qvw2q ^py-pyparsing@2.4.7%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] mazoiox ^py-pluggy@0.13.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] y7rfzdj ^py-py@1.9.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] v4z3s5e ^py-setuptools@57.4.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] w4gddqx ^py-toml@0.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ci5oe5b ^py-pyyaml@5.3.1%gcc@11.2.0+libyaml arch=linux-rhel7-skylake | |
| [^] xj2wlac ^libyaml@0.2.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] xtett6q ^py-sympy@1.8%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] dzb2mfs ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 5fkun4i ^reportinglib@2.5.6%gcc@11.2.0~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - xzdnug7 ^flex@2.6.3%nvhpc@22.2+lex~nls arch=linux-rhel7-skylake | |
| [^] iu2b5hx ^gettext@0.21%gcc@11.2.0+bzip2+curses+git~libunistring+libxml2+tar+xz arch=linux-rhel7-skylake | |
| [^] 3rmq3zx ^bzip2@1.0.8%gcc@11.2.0~debug~pic+shared arch=linux-rhel7-skylake | |
| [^] hxxlexb ^libiconv@1.16%gcc@11.2.0 libs=shared,static arch=linux-rhel7-skylake | |
| [^] dnxqn2k ^libxml2@2.9.12%gcc@11.2.0~python arch=linux-rhel7-skylake | |
| [^] jzpqn5y ^xz@5.2.5%gcc@11.2.0~pic libs=shared,static arch=linux-rhel7-skylake | |
| [^] ams67cx ^ncurses@6.2%gcc@11.2.0~symlinks+termlib abi=none arch=linux-rhel7-skylake | |
| [^] ir7xtbl ^tar@1.28%gcc@11.2.0 patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-skylake | |
| - ij6isvr ^ninja@1.10.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] n6q4vfz ^py-mpi4py@3.1.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] gjm7kkq ^py-numpy@1.19.5%gcc@11.2.0+blas+lapack patches=8a9d5d1b3f145c043b8b04869e7d46c6ff95c3f486d84f69693017c7e6190c7d arch=linux-rhel7-skylake | |
| [^] r5cvgru ^intel-mkl@2020.4.304%gcc@11.2.0~ilp64+shared threads=none arch=linux-rhel7-skylake | |
| [^] h2fsi6i ^py-cython@0.29.24%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] q5n7ofc ^py-pytest-cov@2.8.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] fudvy5v ^py-coverage@5.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] vwedalx ^readline@8.1%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} || install_failed=1[0;m | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bison-3.8.2-ej2cew (external bison-3.8.2-ocv5kkjjvqshvbpp4gh3xrg4aj3xxh2k) | |
| ==> cmake@3.21.4 : has external module in ['cmake/3.21.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cmake-3.21.4-cdyb7k (external cmake-3.21.4-55wtnz6tfxjhgdgfbzzwzuhyl746wv7j) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/boost-1.78.0-hiorc7 (external boost-1.78.0-bfwiaozbrpjr7blzjkfcz67vabdnspxj) | |
| ==> cuda@11.6.0 : has external module in ['cuda/11.6.0'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cuda-11.6.0-34qjta (external cuda-11.6.0-wd5k5wioelahwux72y3g3bytolebtkoh) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/hpe-mpi-2.25.hmpt-4ukyxt (external hpe-mpi-2.25.hmpt-hyunzknktdzri34bx26bupkvapehonql) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/pkgconf-1.8.0-ihxi5r | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/zlib-1.2.11-mswjss (external zlib-1.2.11-evtnqzdtuvprwnbd2nljimpzywrhw4uo) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/spdlog-1.9.2-x72vve | |
| ==> python@3.9.7 : has external module in ['python/3.9.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/python-3.9.7-yj5alh (external python-3.9.7-72xzp3vgzh5b424qevkfruhs3ajzqbiy) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libyaml-0.2.5-xj2wla | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/flex-2.6.3-3mtl7j (external flex-2.6.3-xzdnug7pkmqiem4ll6p4chgbnwyt7epd) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bzip2-1.0.8-eu2d6e (external bzip2-1.0.8-3rmq3zxuntsiphthnvty6gtydbmbkwr5) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libiconv-1.16-hxxlex | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/xz-5.2.5-jzpqn5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ncurses-6.2-nsve5x (external ncurses-6.2-ams67cxbq5vc7wiay2ndr2ksce2igbfw) | |
| [+] /usr (external tar-1.28-ir7xtblauhq3vtkpjrl7ou3nzevcsi3u) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ninja-1.10.2-eh33rh (external ninja-1.10.2-ij6isvr7fpc6nbooavdi3abtviuzpngb) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/intel-mkl-2020.4.304-rzr3hj (external intel-mkl-2020.4.304-r5cvgrurdnt6y267arsmmmgqi75ouxd2) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/readline-8.1-we2frg (external readline-8.1-vwedalxfrcxjaatlnup77gynyx6weav5) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/reportinglib-2.5.6-5fkun4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/hdf5-1.10.7-utj47f | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pluggy-0.13.0-mazoio | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-setuptools-57.4.0-v4z3s5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-markupsafe-2.0.1-4ectow | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-py-1.9.0-y7rfzd | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-toml-0.10.2-w4gddq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyparsing-2.4.7-c7qvw2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-iniconfig-1.1.1-kvw3vh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-mpmath-1.1.0-dzb2mf | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-attrs-21.2.0-ascbei | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyyaml-5.3.1-ci5oe5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libxml2-2.9.12-dnxqn2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libsonata-report-1.1-vutuzb | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-coverage-5.5-fudvy5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-mpi4py-3.1.2-n6q4vf | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-cython-0.29.24-h2fsi6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-jinja2-3.0.1-onq3mh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-packaging-21.0-7iyiyg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-sympy-1.8-xtett6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/gettext-0.21-iu2b5h | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-numpy-1.19.5-gjm7kk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pytest-6.2.4-22arfs | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_gcc-11.2.0-skylake/nmodl-develop-cnhmkf | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pytest-cov-2.8.1-q5n7of | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_nvhpc-22.2-skylake/coreneuron-develop-clohwt | |
| ==> Installing neuron-develop-dwkjkuknoiprgdt5yhhj7uooz4rce2vl | |
| ==> No binary for neuron-develop-dwkjkuknoiprgdt5yhhj7uooz4rce2vl found: installing from source | |
| ==> Applied patch /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/bluebrain/repo-patches/packages/neuron/revert_Import3d_numerical_format.master.patch | |
| ==> neuron: Executing phase: 'cmake' | |
| ==> neuron: Executing phase: 'build' | |
| ==> neuron: Executing phase: 'install' | |
| ==> neuron: Successfully installed neuron-develop-dwkjkuknoiprgdt5yhhj7uooz4rce2vl | |
| Fetch: 22.19s. Build: 27m 26.15s. Total: 27m 48.34s. | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_nvhpc-22.2-skylake/neuron-develop-dwkjku | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| [32;1m$ 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: /nvme/bbpcihpcproj12/321592/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321592/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:54:14 2022 | |
| Hits: 705 / 807 (87.36 %) | |
| Direct: 169 / 816 (20.71 %) | |
| Preprocessed: 536 / 641 (83.62 %) | |
| Misses: 102 | |
| Direct: 647 | |
| Preprocessed: 105 | |
| Uncacheable: 120 | |
| Primary storage: | |
| Hits: 1178 / 1626 (72.45 %) | |
| Misses: 448 | |
| Cache size (GB): 0.47 / 0.51 (91.93 %) | |
| Files: 29879 | |
| Cleanups: 1 | |
| Uncacheable: | |
| Autoconf compile/link: 7 | |
| Called for linking: 97 | |
| Called for preprocessing: 1 | |
| Compilation failed: 3 | |
| No input file: 6 | |
| Preprocessing failed: 6 | |
| [32;1m$ tar -C "${CCACHE_DIR}" -cf "${CI_PROJECT_DIR}/ccache.tar" .[0;m | |
| [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 ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ 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_DEPENDENCY_ON_PREVIOUS_JOB=^/${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ 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/3.9.7 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-scipy/1.7.1 | |
| Autoloading py-numpy/1.19.5 | |
| Autoloading py-mpi4py/3.1.2 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.4.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m | |
| section_end:1646916855:step_script [0Ksection_start:1646916855:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache build:neuron:nmodl:nvhpc:acc-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=221174 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache.tar: found 1 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/build%3Aneuron%3Anmodl%3Anvhpc%3Aacc-8[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1646916877:archive_cache [0Ksection_start:1646916877: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=221666 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=181139 responseStatus[0;m=201 Created token[0;m=1n6ssYaZ | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=221709 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=181139 responseStatus[0;m=201 Created token[0;m=1n6ssYaZ | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=221744 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=181139 responseStatus[0;m=201 Created token[0;m=1n6ssYaZ | |
| section_end:1646916879:upload_artifacts_on_success [0Ksection_start:1646916879:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646916879: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:1646915045:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646915045:resolve_secrets [0Ksection_start:1646915045: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-executor859444241, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181138 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=8 | |
| A slurm job will be created with name GL_J181138_PROD_P112_CP0_C0 | |
| Job parameters: memory=76G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321590 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J181138_PROD_P112_CP0_C0 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=2:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=2 --jobid=321590 --cpus-per-task=8 --mem=76G | |
| section_end:1646915063:prepare_executor [0Ksection_start:1646915063:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n7 via bbpv1.epfl.ch... | |
| section_end:1646915065:prepare_script [0Ksection_start:1646915065: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:1646915066:get_sources [0Ksection_start:1646915066:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for build:neuron:nmodl:nvhpc:omp-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=175021 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:1646915072:restore_cache [0Ksection_start:1646915072:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:nmodl:nvhpc:omp (181133)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=175460 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181133 responseStatus[0;m=200 OK token[0;m=zzgmsMFS | |
| section_end:1646915073:download_artifacts [0Ksection_start:1646915073: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$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181138/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181138/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181138/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181138/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181138/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/config.yaml:2 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:2 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:3 root: $user_cache_path/software | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:5 all: install_{compiler.name}-{compiler.version}-{target}/{name}-{version}-{hash:6} | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:6 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:7 tcl: $user_cache_path/modules | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 environments: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:10 root: $user_cache_path/environments | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:88 concretization: separately | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:12 build_jobs: 8 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # This is the path to the root of the Spack install tree. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # You can use $spack here to refer to the root of the spack instance. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``). | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Another option that prevents conflicts and potential permission issues is | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # home directory. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # builds directly inside Spack's instance without staging them in a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # temporary space. Problems with specifying a path inside a Spack instance | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # are that it precludes its use as a system package and its ability to be | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # pip installable. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # In any case, if the username is not already in the path, Spack will append | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # the value of `$user` in an attempt to avoid potential conflicts between | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # The build stage can be purged with `spack clean --stage` and | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # `spack clean -a`, so it is important that the specified directory uniquely | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # identifies Spack staging to avoid accidentally wiping out non-Spack work. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:118 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:123 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:128 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:136 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:145 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:207 terminal_title: False | |
| _builtin debug: False | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207/J181138_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron%nvhpc +coreneuron+debug+tests~legacy-unit~rx3d model_tests=channel-benchmark,olfactory,tqperf-heavy ^/jnp6ftwa2yzkkhnwk6ebarxcp5sqkwtt | |
| [32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(module load unstable python; echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][\"nodes\"][0][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be ik54mlr5japlprt37kesnyjymcdgaqgh | |
| [32;1m$ 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=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /nvme/bbpcihpcproj12/321590/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321590/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:24:58 2022 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.47 / 0.51 (92.58 %) | |
| Files: 32409 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'ik54mlr5japlprt37kesnyjymcdgaqgh' | |
| [32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron%nvhpc+coreneuron+debug~legacy-unit~rx3d+tests model_tests=channel-benchmark,olfactory,tqperf-heavy | |
| [+] ^coreneuron@develop%nvhpc@22.2~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl+openmp~profile+report+shared~sympy~sympyopt+tests~unified build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^boost@1.78.0%nvhpc@22.2+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 visibility=hidden arch=linux-rhel7-skylake | |
| [^] ^cuda@11.6.0%nvhpc@22.2~dev arch=linux-rhel7-skylake | |
| [^] ^hpe-mpi@2.25.hmpt%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^libsonata-report@1.1%gcc@11.2.0~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^hdf5@1.10.7%gcc@11.2.0+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^pkgconf@1.8.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^zlib@1.2.11%gcc@11.2.0+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] ^spdlog@1.9.2%gcc@11.2.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [+] ^nmodl@develop%gcc@11.2.0~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ^py-jinja2@3.0.1%gcc@11.2.0~i18n arch=linux-rhel7-skylake | |
| [^] ^py-markupsafe@2.0.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^python@3.9.7%gcc@11.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] ^py-pytest@6.2.4%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-attrs@21.2.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-iniconfig@1.1.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-packaging@21.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pyparsing@2.4.7%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pluggy@0.13.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-py@1.9.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-setuptools@57.4.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-toml@0.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-pyyaml@5.3.1%gcc@11.2.0+libyaml arch=linux-rhel7-skylake | |
| [^] ^libyaml@0.2.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-sympy@1.8%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ^reportinglib@2.5.6%gcc@11.2.0~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| Concretized | |
| -------------------------------- | |
| - ik54mlr neuron@develop%nvhpc@22.2+binary~caliper+cmake~codechecks+coreneuron~cross-compile+debug~interviews~ipo+legacy-fr~legacy-unit+memacs+mod-compatibility+mpi+multisend~profile+pysetup+python~rx3d+shared+tests build_type=RelWithDebInfo model_tests=channel-benchmark,olfactory,tqperf-heavy patches=708cb04826b394a858069d93e8c08e1e81e914c23e1ef3da0486e8233834ff6c arch=linux-rhel7-skylake | |
| - ocv5kkj ^bison@3.8.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| - 55wtnz6 ^cmake@3.21.4%nvhpc@22.2~doc+ncurses+openssl+ownlibs~qt build_type=Release arch=linux-rhel7-skylake | |
| [+] jnp6ftw ^coreneuron@develop%nvhpc@22.2~caliper~codegenopt+gpu~ipo~ispc~knl~legacy-unit+mpi+nmodl+openmp~profile+report+shared~sympy~sympyopt+tests~unified build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] bfwiaoz ^boost@1.78.0%nvhpc@22.2+atomic+chrono~clanglibcpp~container~context~coroutine+date_time~debug+exception~fiber+filesystem+graph~icu+iostreams+locale+log+math~mpi+multithreaded~numpy+pic+program_options~python+random+regex+serialization+shared+signals~singlethreaded+system~taggedlayout+test+thread+timer~versionedlayout+wave cxxstd=98 visibility=hidden arch=linux-rhel7-skylake | |
| [^] wd5k5wi ^cuda@11.6.0%nvhpc@22.2~dev arch=linux-rhel7-skylake | |
| [^] hyunzkn ^hpe-mpi@2.25.hmpt%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] vutuzbn ^libsonata-report@1.1%gcc@11.2.0~ipo+mpi build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] utj47fz ^hdf5@1.10.7%gcc@11.2.0+cxx~fortran+hl~ipo~java+mpi+shared~szip~threadsafe+tools api=default build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] ihxi5rl ^pkgconf@1.8.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] evtnqzd ^zlib@1.2.11%gcc@11.2.0+optimize+pic+shared arch=linux-rhel7-skylake | |
| [^] x72vveu ^spdlog@1.9.2%gcc@11.2.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [+] cnhmkfz ^nmodl@develop%gcc@11.2.0~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| [^] onq3mhg ^py-jinja2@3.0.1%gcc@11.2.0~i18n arch=linux-rhel7-skylake | |
| [^] 4ectow5 ^py-markupsafe@2.0.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 72xzp3v ^python@3.9.7%gcc@11.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] 22arfs4 ^py-pytest@6.2.4%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ascbeii ^py-attrs@21.2.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] kvw3vhm ^py-iniconfig@1.1.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 7iyiygo ^py-packaging@21.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] c7qvw2q ^py-pyparsing@2.4.7%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] mazoiox ^py-pluggy@0.13.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] y7rfzdj ^py-py@1.9.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] v4z3s5e ^py-setuptools@57.4.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] w4gddqx ^py-toml@0.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ci5oe5b ^py-pyyaml@5.3.1%gcc@11.2.0+libyaml arch=linux-rhel7-skylake | |
| [^] xj2wlac ^libyaml@0.2.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] xtett6q ^py-sympy@1.8%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] dzb2mfs ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 5fkun4i ^reportinglib@2.5.6%gcc@11.2.0~ipo~profile+shared~tests build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - xzdnug7 ^flex@2.6.3%nvhpc@22.2+lex~nls arch=linux-rhel7-skylake | |
| [^] iu2b5hx ^gettext@0.21%gcc@11.2.0+bzip2+curses+git~libunistring+libxml2+tar+xz arch=linux-rhel7-skylake | |
| [^] 3rmq3zx ^bzip2@1.0.8%gcc@11.2.0~debug~pic+shared arch=linux-rhel7-skylake | |
| [^] hxxlexb ^libiconv@1.16%gcc@11.2.0 libs=shared,static arch=linux-rhel7-skylake | |
| [^] dnxqn2k ^libxml2@2.9.12%gcc@11.2.0~python arch=linux-rhel7-skylake | |
| [^] jzpqn5y ^xz@5.2.5%gcc@11.2.0~pic libs=shared,static arch=linux-rhel7-skylake | |
| [^] ams67cx ^ncurses@6.2%gcc@11.2.0~symlinks+termlib abi=none arch=linux-rhel7-skylake | |
| [^] ir7xtbl ^tar@1.28%gcc@11.2.0 patches=08921fcbd732050c74ddf1de7d8ad95ffdbc09f8b4342456fa2f6a0dd02a957c,125cd6142fac2cc339e9aebfe79e40f90766022b8e8401532b1729e84fc148c2,5c314db58d005043bf407abaf25eb9823b9032a22fd12a0b142d4bf548130fa4,d428578be7fb99b831eb61e53b8d88a859afe08b479a21238180899707d79ce4 arch=linux-rhel7-skylake | |
| - ij6isvr ^ninja@1.10.2%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [^] n6q4vfz ^py-mpi4py@3.1.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] gjm7kkq ^py-numpy@1.19.5%gcc@11.2.0+blas+lapack patches=8a9d5d1b3f145c043b8b04869e7d46c6ff95c3f486d84f69693017c7e6190c7d arch=linux-rhel7-skylake | |
| [^] r5cvgru ^intel-mkl@2020.4.304%gcc@11.2.0~ilp64+shared threads=none arch=linux-rhel7-skylake | |
| [^] h2fsi6i ^py-cython@0.29.24%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] q5n7ofc ^py-pytest-cov@2.8.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] fudvy5v ^py-coverage@5.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] vwedalx ^readline@8.1%nvhpc@22.2 arch=linux-rhel7-skylake | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} || install_failed=1[0;m | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bison-3.8.2-ej2cew (external bison-3.8.2-ocv5kkjjvqshvbpp4gh3xrg4aj3xxh2k) | |
| ==> cmake@3.21.4 : has external module in ['cmake/3.21.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cmake-3.21.4-cdyb7k (external cmake-3.21.4-55wtnz6tfxjhgdgfbzzwzuhyl746wv7j) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/boost-1.78.0-hiorc7 (external boost-1.78.0-bfwiaozbrpjr7blzjkfcz67vabdnspxj) | |
| ==> cuda@11.6.0 : has external module in ['cuda/11.6.0'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cuda-11.6.0-34qjta (external cuda-11.6.0-wd5k5wioelahwux72y3g3bytolebtkoh) | |
| ==> hpe-mpi@2.25.hmpt : has external module in ['hpe-mpi/2.25.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/hpe-mpi-2.25.hmpt-4ukyxt (external hpe-mpi-2.25.hmpt-hyunzknktdzri34bx26bupkvapehonql) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/pkgconf-1.8.0-ihxi5r | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/zlib-1.2.11-mswjss (external zlib-1.2.11-evtnqzdtuvprwnbd2nljimpzywrhw4uo) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/spdlog-1.9.2-x72vve | |
| ==> python@3.9.7 : has external module in ['python/3.9.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/python-3.9.7-yj5alh (external python-3.9.7-72xzp3vgzh5b424qevkfruhs3ajzqbiy) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libyaml-0.2.5-xj2wla | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/flex-2.6.3-3mtl7j (external flex-2.6.3-xzdnug7pkmqiem4ll6p4chgbnwyt7epd) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bzip2-1.0.8-eu2d6e (external bzip2-1.0.8-3rmq3zxuntsiphthnvty6gtydbmbkwr5) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libiconv-1.16-hxxlex | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/xz-5.2.5-jzpqn5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ncurses-6.2-nsve5x (external ncurses-6.2-ams67cxbq5vc7wiay2ndr2ksce2igbfw) | |
| [+] /usr (external tar-1.28-ir7xtblauhq3vtkpjrl7ou3nzevcsi3u) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ninja-1.10.2-eh33rh (external ninja-1.10.2-ij6isvr7fpc6nbooavdi3abtviuzpngb) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/intel-mkl-2020.4.304-rzr3hj (external intel-mkl-2020.4.304-r5cvgrurdnt6y267arsmmmgqi75ouxd2) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/readline-8.1-we2frg (external readline-8.1-vwedalxfrcxjaatlnup77gynyx6weav5) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/reportinglib-2.5.6-5fkun4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/hdf5-1.10.7-utj47f | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-markupsafe-2.0.1-4ectow | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-setuptools-57.4.0-v4z3s5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-iniconfig-1.1.1-kvw3vh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-py-1.9.0-y7rfzd | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-attrs-21.2.0-ascbei | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-toml-0.10.2-w4gddq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-mpmath-1.1.0-dzb2mf | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pluggy-0.13.0-mazoio | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyparsing-2.4.7-c7qvw2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyyaml-5.3.1-ci5oe5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libxml2-2.9.12-dnxqn2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libsonata-report-1.1-vutuzb | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-jinja2-3.0.1-onq3mh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-coverage-5.5-fudvy5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-cython-0.29.24-h2fsi6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-mpi4py-3.1.2-n6q4vf | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-sympy-1.8-xtett6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-packaging-21.0-7iyiyg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/gettext-0.21-iu2b5h | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-numpy-1.19.5-gjm7kk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pytest-6.2.4-22arfs | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pytest-cov-2.8.1-q5n7of | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_gcc-11.2.0-skylake/nmodl-develop-cnhmkf | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_nvhpc-22.2-skylake/coreneuron-develop-jnp6ft | |
| ==> Installing neuron-develop-ik54mlr5japlprt37kesnyjymcdgaqgh | |
| ==> No binary for neuron-develop-ik54mlr5japlprt37kesnyjymcdgaqgh found: installing from source | |
| ==> Applied patch /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/bluebrain/repo-patches/packages/neuron/revert_Import3d_numerical_format.master.patch | |
| ==> neuron: Executing phase: 'cmake' | |
| ==> neuron: Executing phase: 'build' | |
| ==> neuron: Executing phase: 'install' | |
| ==> neuron: Successfully installed neuron-develop-ik54mlr5japlprt37kesnyjymcdgaqgh | |
| Fetch: 25.20s. Build: 27m 54.57s. Total: 28m 19.77s. | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_nvhpc-22.2-skylake/neuron-develop-ik54ml | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| [32;1m$ 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: /nvme/bbpcihpcproj12/321590/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321590/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:54:38 2022 | |
| Hits: 710 / 807 (87.98 %) | |
| Direct: 169 / 816 (20.71 %) | |
| Preprocessed: 541 / 641 (84.40 %) | |
| Misses: 97 | |
| Direct: 647 | |
| Preprocessed: 100 | |
| Uncacheable: 120 | |
| Primary storage: | |
| Hits: 1183 / 1626 (72.76 %) | |
| Misses: 443 | |
| Cache size (GB): 0.45 / 0.51 (88.25 %) | |
| Files: 30843 | |
| Cleanups: 4 | |
| Uncacheable: | |
| Autoconf compile/link: 7 | |
| Called for linking: 97 | |
| Called for preprocessing: 1 | |
| Compilation failed: 3 | |
| No input file: 6 | |
| Preprocessing failed: 6 | |
| [32;1m$ tar -C "${CCACHE_DIR}" -cf "${CI_PROJECT_DIR}/ccache.tar" .[0;m | |
| [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 ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ 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_DEPENDENCY_ON_PREVIOUS_JOB=^/${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ 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/3.9.7 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-scipy/1.7.1 | |
| Autoloading py-numpy/1.19.5 | |
| Autoloading py-mpi4py/3.1.2 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.4.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m | |
| section_end:1646916879:step_script [0Ksection_start:1646916879:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache build:neuron:nmodl:nvhpc:omp-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=221861 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache.tar: found 1 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/build%3Aneuron%3Anmodl%3Anvhpc%3Aomp-8[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1646916896:archive_cache [0Ksection_start:1646916896: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=221942 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=181138 responseStatus[0;m=201 Created token[0;m=5LrWirnh | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=221980 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=181138 responseStatus[0;m=201 Created token[0;m=5LrWirnh | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=222022 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=181138 responseStatus[0;m=201 Created token[0;m=5LrWirnh | |
| section_end:1646916899:upload_artifacts_on_success [0Ksection_start:1646916899:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646916900: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:1646914430:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914430:resolve_secrets [0Ksection_start:1646914430: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-executor198553541, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181130 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=8 | |
| A slurm job will be created with name GL_J181130_PROD_P112_CP0_C0 | |
| Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321571 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J181130_PROD_P112_CP0_C0 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=2 --jobid=321571 --cpus-per-task=8 --mem=76G | |
| section_end:1646914457:prepare_executor [0Ksection_start:1646914457:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n7 via bbpv1.epfl.ch... | |
| section_end:1646914462:prepare_script [0Ksection_start:1646914462: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:1646914465:get_sources [0Ksection_start:1646914465:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for build:nmodl-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=155193 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading cache.zip from https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/build%3Anmodl-8[0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1646914473:restore_cache [0Ksection_start:1646914473:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for spack_setup (181128)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=156302 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181128 responseStatus[0;m=200 OK token[0;m=kU5588jS | |
| section_end:1646914473:download_artifacts [0Ksection_start:1646914473: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$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181130/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181130/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181130/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181130/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181130/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/config.yaml:2 ccache: True | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:2 install_tree: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:3 root: $user_cache_path/software | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:4 projections: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:5 all: install_{compiler.name}-{compiler.version}-{target}/{name}-{version}-{hash:6} | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:6 module_roots: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:7 tcl: $user_cache_path/modules | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 environments: | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:10 root: $user_cache_path/environments | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:88 concretization: separately | |
| /gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:12 build_jobs: 8 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # This is the path to the root of the Spack install tree. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:19 # You can use $spack here to refer to the root of the spack instance. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``). | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # Another option that prevents conflicts and potential permission issues is | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # home directory. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # builds directly inside Spack's instance without staging them in a | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # temporary space. Problems with specifying a path inside a Spack instance | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # are that it precludes its use as a system package and its ability to be | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # pip installable. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # In any case, if the username is not already in the path, Spack will append | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # the value of `$user` in an attempt to avoid potential conflicts between | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # The build stage can be purged with `spack clean --stage` and | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # `spack clean -a`, so it is important that the specified directory uniquely | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:38 # identifies Spack staging to avoid accidentally wiping out non-Spack work. | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:118 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:123 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:128 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:136 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:145 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128/spack/etc/spack/defaults/config.yaml:207 terminal_title: False | |
| _builtin debug: False | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207/J181130_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install nmodl%gcc ~legacy-unit | |
| [32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(module load unstable python; echo "${JSON_SPEC}" | python -c "import json, sys; print(json.loads(sys.stdin.read())[\"spec\"][\"nodes\"][0][\"hash\"])")[0;m | |
| [32;1m$ echo "Determined its hash will be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined its hash will be cnhmkfzsucqnmy6dfxyfikno2yj57grf | |
| [32;1m$ 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=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Summary: | |
| Cache directory: /nvme/bbpcihpcproj12/321571/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321571/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:14:54 2022 | |
| Hits: 0 / 0 | |
| Direct: 0 / 0 | |
| Preprocessed: 0 / 0 | |
| Misses: 0 | |
| Direct: 0 | |
| Preprocessed: 0 | |
| Primary storage: | |
| Hits: 0 / 0 | |
| Misses: 0 | |
| Cache size (GB): 0.46 / 0.51 (89.58 %) | |
| Files: 1441 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m | |
| ==> Error: No installed spec matches the hash: 'cnhmkfzsucqnmy6dfxyfikno2yj57grf' | |
| [32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - nmodl%gcc~legacy-unit | |
| Concretized | |
| -------------------------------- | |
| - cnhmkfz nmodl@develop%gcc@11.2.0~ipo~legacy-unit~python build_type=RelWithDebInfo arch=linux-rhel7-skylake | |
| - cppb7al ^bison@3.8.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 2qmvlfy ^cmake@3.21.4%gcc@11.2.0~doc+ncurses+openssl+ownlibs~qt build_type=Release arch=linux-rhel7-skylake | |
| - 4bt76dp ^flex@2.6.3%gcc@11.2.0+lex~nls arch=linux-rhel7-skylake | |
| - utrxbc3 ^ninja@1.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] onq3mhg ^py-jinja2@3.0.1%gcc@11.2.0~i18n arch=linux-rhel7-skylake | |
| [^] 4ectow5 ^py-markupsafe@2.0.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] v4z3s5e ^py-setuptools@57.4.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 72xzp3v ^python@3.9.7%gcc@11.2.0+bz2+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tix~tkinter~ucs4+uuid+zlib patches=0d98e93189bc278fbc37a50ed7f183bd8aaf249a8e1670a465f0db6bb4f8cf87,4c2457325f2b608b1b6a2c63087df8c26e07db3e3d493caf36a56f0ecf6fb768,f2fd060afc4b4618fe8104c4c5d771f36dc55b1db5a4623785a4ea707ec72fb4 arch=linux-rhel7-skylake | |
| [^] 22arfs4 ^py-pytest@6.2.4%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ascbeii ^py-attrs@21.2.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] kvw3vhm ^py-iniconfig@1.1.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] 7iyiygo ^py-packaging@21.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] c7qvw2q ^py-pyparsing@2.4.7%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] mazoiox ^py-pluggy@0.13.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ciusbmc ^py-setuptools-scm@6.3.2%gcc@11.2.0+toml arch=linux-rhel7-skylake | |
| [^] hmcew6w ^py-tomli@1.2.1%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] sxd7srs ^py-pip@21.1.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] y7rfzdj ^py-py@1.9.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] w4gddqx ^py-toml@0.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] ci5oe5b ^py-pyyaml@5.3.1%gcc@11.2.0+libyaml arch=linux-rhel7-skylake | |
| [^] xj2wlac ^libyaml@0.2.5%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] xtett6q ^py-sympy@1.8%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [^] dzb2mfs ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [32;1m$ spack ${SPACK_INSTALL_EXTRA_FLAGS} install -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} || install_failed=1[0;m | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/bison-3.8.2-ej2cew (external bison-3.8.2-cppb7alftvhxbedsuxqv72z2thjuoizw) | |
| ==> cmake@3.21.4 : has external module in ['cmake/3.21.4'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cmake-3.21.4-cdyb7k (external cmake-3.21.4-2qmvlfyylrv3t5ankluyr5cqey2nlfzd) | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/flex-2.6.3-3mtl7j (external flex-2.6.3-4bt76dpxbix6ep4qtz3mv5i2iddilv53) | |
| ==> ninja@1.10.2 : has external module in ['ninja/1.10.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ninja-1.10.2-eh33rh (external ninja-1.10.2-utrxbc3aohnru5eynalc3hyv4ca4jqte) | |
| ==> python@3.9.7 : has external module in ['python/3.9.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/python-3.9.7-yj5alh (external python-3.9.7-72xzp3vgzh5b424qevkfruhs3ajzqbiy) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libyaml-0.2.5-xj2wla | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-setuptools-57.4.0-v4z3s5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-mpmath-1.1.0-dzb2mf | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyyaml-5.3.1-ci5oe5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-markupsafe-2.0.1-4ectow | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-attrs-21.2.0-ascbei | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-toml-0.10.2-w4gddq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-iniconfig-1.1.1-kvw3vh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pip-21.1.2-sxd7sr | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pyparsing-2.4.7-c7qvw2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-sympy-1.8-xtett6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-jinja2-3.0.1-onq3mh | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-tomli-1.2.1-hmcew6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-packaging-21.0-7iyiyg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-setuptools-scm-6.3.2-ciusbm | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-py-1.9.0-y7rfzd | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pluggy-0.13.0-mazoio | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pytest-6.2.4-22arfs | |
| ==> Installing nmodl-develop-cnhmkfzsucqnmy6dfxyfikno2yj57grf | |
| ==> No binary for nmodl-develop-cnhmkfzsucqnmy6dfxyfikno2yj57grf found: installing from source | |
| ==> No patches needed for nmodl | |
| ==> nmodl: Executing phase: 'cmake' | |
| ==> nmodl: Executing phase: 'build' | |
| ==> nmodl: Executing phase: 'install' | |
| ==> nmodl: Successfully installed nmodl-develop-cnhmkfzsucqnmy6dfxyfikno2yj57grf | |
| Fetch: 49.43s. Build: 2m 11.71s. Total: 3m 1.14s. | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/software/install_gcc-11.2.0-skylake/nmodl-develop-cnhmkf | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| [32;1m$ 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: /nvme/bbpcihpcproj12/321571/ccache | |
| Primary config: /nvme/bbpcihpcproj12/321571/ccache/ccache.conf | |
| Secondary config: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/ccache-4.4.2-6qbndl/etc/ccache.conf | |
| Stats updated: Thu Mar 10 13:18:40 2022 | |
| Hits: 133 / 135 (98.52 %) | |
| Direct: 31 / 135 (22.96 %) | |
| Preprocessed: 102 / 104 (98.08 %) | |
| Misses: 2 | |
| Direct: 104 | |
| Preprocessed: 2 | |
| Uncacheable: 27 | |
| Primary storage: | |
| Hits: 164 / 270 (60.74 %) | |
| Misses: 106 | |
| Cache size (GB): 0.46 / 0.51 (89.60 %) | |
| Files: 1445 | |
| Uncacheable: | |
| Called for linking: 26 | |
| No input file: 1 | |
| [32;1m$ tar -C "${CCACHE_DIR}" -cf "${CI_PROJECT_DIR}/ccache.tar" .[0;m | |
| [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 ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ 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_DEPENDENCY_ON_PREVIOUS_JOB=^/${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ 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/3.9.7 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-scipy/1.7.1 | |
| Autoloading py-numpy/1.19.5 | |
| Autoloading py-mpi4py/3.1.2 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.4.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m | |
| section_end:1646914721:step_script [0Ksection_start:1646914721:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| [32;1mCreating cache build:nmodl-8...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=165949 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache.tar: found 1 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/112/build%3Anmodl-8[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1646914742:archive_cache [0Ksection_start:1646914742: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=166510 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=181130 responseStatus[0;m=201 Created token[0;m=Ly7CMUyn | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=166575 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=181130 responseStatus[0;m=201 Created token[0;m=Ly7CMUyn | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=166635 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=181130 responseStatus[0;m=201 Created token[0;m=Ly7CMUyn | |
| section_end:1646914743:upload_artifacts_on_success [0Ksection_start:1646914743:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646914744: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:1646914343:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914343:resolve_secrets [0Ksection_start:1646914343: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-executor935069624, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181128 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=6 | |
| A slurm job will be created with name GL_J181128_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 specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321567 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=1 --cpus-per-task=6 --mem=30750M --job-name=GL_J181128_PROD_P112_CP0_C0 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=1 --jobid=321567 --cpus-per-task=6 --mem=30750M | |
| section_end:1646914344:prepare_executor [0Ksection_start:1646914344:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i5n32 via bbpv1.epfl.ch... | |
| section_end:1646914346:prepare_script [0Ksection_start:1646914346: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:1646914347:get_sources [0Ksection_start:1646914347: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$ if [[ -n "${SPACK_ENV_FILE_URL}" && "${PARSE_GITHUB_PR_DESCRIPTIONS,,}" == "true" ]]; 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 | |
| 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\-\_\/\+]+)$', re.IGNORECASE) | |
| def parse_term(m): | |
| ref_type = m.group(2).lower() | |
| if ref_type not in {'branch', 'tag', 'ref'}: return | |
| print(m.group(1).upper() + '_' + ref_type.upper() + '=' + m.group(3)) | |
| if pr_body is not None: | |
| for pr_body_line in pr_body.splitlines(): | |
| if not pr_body_line.startswith('CI_BRANCHES:'): continue | |
| for config_term in pr_body_line[12:].split(','): | |
| pat.sub(parse_term, config_term) | |
| [32;1m$ (module load unstable python-dev; python parse_description.py) > input_variables.env[0;m | |
| Autoloading python/3.9.7 | |
| Autoloading py-virtualenv/16.7.6 | |
| Autoloading py-scipy/1.7.1 | |
| Autoloading py-numpy/1.19.5 | |
| Autoloading py-mpi4py/3.1.2 | |
| Autoloading hpe-mpi/2.25.hmpt | |
| Autoloading py-h5py/3.4.0 | |
| Autoloading hdf5/1.10.7 | |
| [32;1m$ else[0;m | |
| [32;1m$ cat input_variables.env[0;m | |
| NEURON_BRANCH=hines/POINTER-to-RANGE | |
| [32;1m$ for var_to_unset in $(sed 's/^\(.*\?\)_\(BRANCH\|COMMIT\|TAG\)=.*$/\1_BRANCH\n\1_COMMIT\n\1_TAG/' input_variables.env); do # collapsed multi-line command[0;m | |
| Unsetting NEURON_BRANCH | |
| [32;1m$ set -o allexport[0;m | |
| [32;1m$ . input_variables.env[0;m | |
| [32;1m$ set +o allexport[0;m | |
| [32;1m$ unset MODULEPATH[0;m | |
| [32;1m$ . /gpfs/bbp.cscs.ch/ssd/apps/bsd/${SPACK_DEPLOYMENT_SUFFIX}/config/modules.sh[0;m | |
| [32;1m$ echo "MODULEPATH=${MODULEPATH}" > spack_clone_variables.env[0;m | |
| [32;1m$ echo Preparing to clone Spack into ${PWD}[0;m | |
| Preparing to clone Spack into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181128 | |
| [32;1m$ if [[ -z "${SPACK_BRANCH}" && ( -n "${SPACK_COMMIT}" || -n "${SPACK_TAG}" ) ]]; then[0;m | |
| [32;1m$ echo Checking out the ${SPACK_BRANCH} of Spack...[0;m | |
| Checking out the develop of Spack... | |
| [32;1m$ module load unstable git[0;m | |
| [32;1m$ git clone -c feature.manyFiles=true --depth 1 --single-branch --branch ${SPACK_BRANCH} ${SPACK_URL} spack[0;m | |
| Cloning into 'spack'... | |
| Updating files: 19% (1782/9132) Updating files: 20% (1827/9132) Updating files: 21% (1918/9132) Updating files: 22% (2010/9132) Updating files: 23% (2101/9132) Updating files: 24% (2192/9132) Updating files: 25% (2283/9132) Updating files: 26% (2375/9132) Updating files: 27% (2466/9132) Updating files: 28% (2557/9132) Updating files: 29% (2649/9132) Updating files: 30% (2740/9132) Updating files: 31% (2831/9132) Updating files: 32% (2923/9132) Updating files: 33% (3014/9132) Updating files: 34% (3105/9132) Updating files: 34% (3116/9132) Updating files: 35% (3197/9132) Updating files: 36% (3288/9132) Updating files: 37% (3379/9132) Updating files: 38% (3471/9132) Updating files: 39% (3562/9132) Updating files: 40% (3653/9132) Updating files: 41% (3745/9132) Updating files: 42% (3836/9132) Updating files: 43% (3927/9132) Updating files: 44% (4019/9132) Updating files: 45% (4110/9132) Updating files: 46% (4201/9132) Updating files: 47% (4293/9132) Updating files: 47% (4361/9132) Updating files: 48% (4384/9132) Updating files: 49% (4475/9132) Updating files: 50% (4566/9132) Updating files: 51% (4658/9132) Updating files: 52% (4749/9132) Updating files: 53% (4840/9132) Updating files: 54% (4932/9132) Updating files: 55% (5023/9132) Updating files: 56% (5114/9132) Updating files: 57% (5206/9132) Updating files: 58% (5297/9132) Updating files: 59% (5388/9132) Updating files: 60% (5480/9132) Updating files: 61% (5571/9132) Updating files: 61% (5631/9132) Updating files: 62% (5662/9132) Updating files: 63% (5754/9132) Updating files: 64% (5845/9132) Updating files: 65% (5936/9132) Updating files: 66% (6028/9132) Updating files: 67% (6119/9132) Updating files: 68% (6210/9132) Updating files: 69% (6302/9132) Updating files: 70% (6393/9132) Updating files: 71% (6484/9132) Updating files: 72% (6576/9132) Updating files: 73% (6667/9132) Updating files: 74% (6758/9132) Updating files: 75% (6849/9132) Updating files: 75% (6925/9132) Updating files: 76% (6941/9132) Updating files: 77% (7032/9132) Updating files: 78% (7123/9132) Updating files: 79% (7215/9132) Updating files: 80% (7306/9132) Updating files: 81% (7397/9132) Updating files: 81% (7467/9132) Updating files: 82% (7489/9132) Updating files: 83% (7580/9132) Updating files: 84% (7671/9132) Updating files: 85% (7763/9132) Updating files: 86% (7854/9132) Updating files: 87% (7945/9132) Updating files: 88% (8037/9132) Updating files: 89% (8128/9132) Updating files: 90% (8219/9132) Updating files: 91% (8311/9132) Updating files: 92% (8402/9132) Updating files: 93% (8493/9132) Updating files: 94% (8585/9132) Updating files: 94% (8626/9132) Updating files: 95% (8676/9132) Updating files: 96% (8767/9132) Updating files: 97% (8859/9132) Updating files: 98% (8950/9132) Updating files: 99% (9041/9132) Updating files: 100% (9132/9132) Updating files: 100% (9132/9132), done. | |
| [32;1m$ export SPACK_ROOT=${PWD}/spack[0;m | |
| [32;1m$ export SPACK_USER_CACHE_PATH="${CI_BUILDS_DIR}"[0;m | |
| [32;1m$ export SPACK_SYSTEM_CONFIG_PATH="/gpfs/bbp.cscs.ch/ssd/apps/bsd/${SPACK_DEPLOYMENT_SUFFIX}/config"[0;m | |
| [32;1m$ echo "SPACK_ROOT=${SPACK_ROOT}" >> spack_clone_variables.env[0;m | |
| [32;1m$ echo "SPACK_USER_CACHE_PATH=${SPACK_USER_CACHE_PATH}" >> spack_clone_variables.env[0;m | |
| [32;1m$ echo "SPACK_SYSTEM_CONFIG_PATH=${SPACK_SYSTEM_CONFIG_PATH}" >> spack_clone_variables.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207/J181128_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [32;1m$ env -0 | sed -nz '/^CUSTOM_ENV_/d;/^[^=]\+_\(BRANCH\|COMMIT\|TAG\)=.\+/p' | xargs -0t spack configure-pipeline --ignore-packages CI_COMMIT CI_DEFAULT GITLAB_PIPELINES SPACK ${SPACK_SETUP_IGNORE_PACKAGE_VARIABLES} --write-commit-file=commit-mapping.env[0;m | |
| spack configure-pipeline --ignore-packages CI_COMMIT CI_DEFAULT GITLAB_PIPELINES SPACK --write-commit-file=commit-mapping.env CI_COMMIT_BRANCH=hines/POINTER-to-RANGE GITLAB_PIPELINES_BRANCH=main NEURON_BRANCH=hines/POINTER-to-RANGE NMODL_BRANCH=master SPACK_BRANCH=develop CI_DEFAULT_BRANCH=master CORENEURON_COMMIT=18093c48a1fd1b81473d5720ff7117dc85a3fa79 | |
| ==> CI_COMMIT: ignoring CI_COMMIT_BRANCH=hines/POINTER-to-RANGE | |
| ==> GITLAB_PIPELINES: ignoring GITLAB_PIPELINES_BRANCH=main | |
| ==> SPACK: ignoring SPACK_BRANCH=develop | |
| ==> CI_DEFAULT: ignoring CI_DEFAULT_BRANCH=master | |
| ==> neuron: resolved branch hines/POINTER-to-RANGE to 70c9569f319268e2a20847eceac6304cdf985013 | |
| ==> nmodl: resolved branch master to d8166392d370c9cd1b78a0a3bfa2dacda5e40596 | |
| ==> neuron@develop: remove branch/commit/tag | |
| ==> neuron@develop: use commit="70c9569f319268e2a20847eceac6304cdf985013" | |
| ==> neuron@develop: add preferred=True | |
| ==> nmodl@develop: remove branch/commit/tag | |
| ==> nmodl@develop: use commit="d8166392d370c9cd1b78a0a3bfa2dacda5e40596" | |
| ==> nmodl@develop: add preferred=True | |
| ==> coreneuron@develop: remove branch/commit/tag | |
| ==> coreneuron@develop: use commit="18093c48a1fd1b81473d5720ff7117dc85a3fa79" | |
| ==> coreneuron@develop: add preferred=True | |
| [32;1m$ (cd "${SPACK_ROOT}" && git diff)[0;m | |
| diff --git a/bluebrain/repo-bluebrain/packages/coreneuron/package.py b/bluebrain/repo-bluebrain/packages/coreneuron/package.py | |
| index 88e0cc5..0530355 100644 | |
| --- a/bluebrain/repo-bluebrain/packages/coreneuron/package.py | |
| +++ b/bluebrain/repo-bluebrain/packages/coreneuron/package.py | |
| @@ -20,7 +20,7 @@ class Coreneuron(CMakePackage): | |
| # This simplifies testing the gitlab-pipelines repository: | |
| git = "git@bbpgitlab.epfl.ch:hpc/coreneuron.git" | |
| - version('develop', branch='master') | |
| + version('develop', preferred=True, commit='18093c48a1fd1b81473d5720ff7117dc85a3fa79') # old: branch='master' | |
| # 1.0.1 > 1.0.0.20210519 > 1.0 as far as Spack is concerned | |
| version('1.0.0.20220304', commit='2d08705') | |
| version('1.0.0.20220218', commit='102ebde') | |
| diff --git a/bluebrain/repo-bluebrain/packages/nmodl/package.py b/bluebrain/repo-bluebrain/packages/nmodl/package.py | |
| index 2baf3d1..1a586a1 100644 | |
| --- a/bluebrain/repo-bluebrain/packages/nmodl/package.py | |
| +++ b/bluebrain/repo-bluebrain/packages/nmodl/package.py | |
| @@ -14,7 +14,7 @@ class Nmodl(CMakePackage): | |
| git = "https://github.com/BlueBrain/nmodl.git" | |
| # 0.3.1 > 0.3.0.20220110 > 0.3.0 > 0.3b > 0.3 to Spack | |
| - version('develop', branch='master', submodules=True) | |
| + version('develop', preferred=True, commit='d8166392d370c9cd1b78a0a3bfa2dacda5e40596', submodules=True) # old: branch='master' | |
| # For deployment; nmodl@0.3.0%nvhpc@21.11 doesn't build with eigen/intrinsics errors | |
| version('0.3.0.20220110', commit='9e0a6f260ac2e6fad068a39ea3bdf7aa7a6f4ee0') | |
| version('0.3.0', tag='0.3') | |
| diff --git a/bluebrain/repo-patches/packages/neuron/package.py b/bluebrain/repo-patches/packages/neuron/package.py | |
| index 3f44d8c..2b5251c 100644 | |
| --- a/bluebrain/repo-patches/packages/neuron/package.py | |
| +++ b/bluebrain/repo-patches/packages/neuron/package.py | |
| @@ -34,7 +34,7 @@ class Neuron(CMakePackage): | |
| # Patch for recent CMake versions that don't identify NVHPC as PGI | |
| patch("patch-v800-cmake-nvhpc.patch", when="@8.0.0%nvhpc^cmake@3.20:") | |
| - version("develop", branch="master") | |
| + version('develop', preferred=True, commit='70c9569f319268e2a20847eceac6304cdf985013') # old: branch="master" | |
| version("8.0.2", tag="8.0.2") | |
| version("8.0.1", tag="8.0.1") | |
| version("8.0.0", tag="8.0.0") | |
| [32;1m$ cat commit-mapping.env[0;m | |
| NEURON_COMMIT=70c9569f319268e2a20847eceac6304cdf985013 | |
| NMODL_COMMIT=d8166392d370c9cd1b78a0a3bfa2dacda5e40596 | |
| CORENEURON_COMMIT=18093c48a1fd1b81473d5720ff7117dc85a3fa79 | |
| [32;1m$ echo "SPACK_BRANCH=${SPACK_BRANCH}" >> commit-mapping.env[0;m | |
| [32;1m$ echo "SPACK_DEPLOYMENT_SUFFIX=${SPACK_DEPLOYMENT_SUFFIX}" >> commit-mapping.env[0;m | |
| [32;1m$ cat commit-mapping.env >> spack_clone_variables.env[0;m | |
| [32;1m$ spack spec -IL ninja[0;m | |
| Input spec | |
| -------------------------------- | |
| - ninja | |
| Concretized | |
| -------------------------------- | |
| ==> Bootstrapping clingo from pre-built binaries | |
| - utrxbc3aohnru5eynalc3hyv4ca4jqte ninja@1.10.2%gcc@11.2.0 arch=linux-rhel7-skylake | |
| [32;1m$ echo "SPACK_SETUP_COMMIT_MAPPING_URL=${CI_API_V4_URL}/projects/${CI_PROJECT_ID}/jobs/${CI_JOB_ID}/artifacts/commit-mapping.env" >> spack_clone_variables.env[0;m | |
| [32;1m$ spack config --scope site add "config:ccache:true"[0;m | |
| [32;1m$ echo "SPACK_USE_CCACHE=true" >> spack_clone_variables.env[0;m | |
| section_end:1646914424:step_script [0Ksection_start:1646914424: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=129193 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| commit-mapping.env: found 1 matching files and directories[0;m | |
| input_variables.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=181128 responseStatus[0;m=201 Created token[0;m=kU5588jS | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=129216 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=181128 responseStatus[0;m=201 Created token[0;m=kU5588jS | |
| section_end:1646914425:upload_artifacts_on_success [0Ksection_start:1646914425:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646914425: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:1646914602:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914602:resolve_secrets [0Ksection_start:1646914602: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-executor291682180, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181146 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=1 | |
| A slurm job will be created with name GL_J181146_PROD_P112_CP4_C5 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=cpu ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321576 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=8 --cpus-per-task=1 --mem=30750M --job-name=GL_J181146_PROD_P112_CP4_C5 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=8 --jobid=321576 --cpus-per-task=1 --mem=30750M | |
| section_end:1646914623:prepare_executor [0Ksection_start:1646914623:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n7 via bbpv1.epfl.ch... | |
| section_end:1646914627:prepare_script [0Ksection_start:1646914627: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:1646914628:get_sources [0Ksection_start:1646914628:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:mod2c:intel (181135)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=162463 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181135 responseStatus[0;m=200 OK token[0;m=Wt4nrJzM | |
| section_end:1646914629:download_artifacts [0Ksection_start:1646914629: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: r1i4n7 | |
| Build name: Linux-icpc | |
| Create new tag: 20220310-1218 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181135/spack-build/spack-stage-coreneuron-develop-hsyhen5wbojr4dsx5rf32wndj3dpm5nb/spack-build-hsyhen5 | |
| 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 #4: queuing_test ....................... Passed 3.73 sec | |
| 2/17 Test #1: cmd_interface_test ................. Passed 3.88 sec | |
| Start 7: ring_binqueue_TEST | |
| 3/17 Test #17: reporting_1 ........................ Passed 4.08 sec | |
| 4/17 Test #6: ring_TEST .......................... Passed 4.08 sec | |
| Start 8: ring_multisend_TEST | |
| 5/17 Test #3: alignment_test ..................... Passed 4.16 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 6/17 Test #2: interleave_info_constructor_test ... Passed 4.18 sec | |
| 7/17 Test #5: lfp_test ........................... Passed 4.33 sec | |
| Start 10: ring_permute1_TEST | |
| 8/17 Test #7: ring_binqueue_TEST ................. Passed 2.37 sec | |
| Start 11: ring_permute2_TEST | |
| 9/17 Test #8: ring_multisend_TEST ................ Passed 3.81 sec | |
| Start 12: ring_gap_TEST | |
| 10/17 Test #9: ring_spike_buffer_TEST ............. Passed 3.82 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 11/17 Test #10: ring_permute1_TEST ................. Passed 3.64 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 12/17 Test #11: ring_permute2_TEST ................. Passed 2.51 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 13/17 Test #12: ring_gap_TEST ...................... Passed 4.07 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 14/17 Test #15: ring_gap_permute1_TEST ............. Passed 3.73 sec | |
| 15/17 Test #13: ring_gap_binqueue_TEST ............. Passed 4.53 sec | |
| 16/17 Test #14: ring_gap_multisend_TEST ............ Passed 4.54 sec | |
| 17/17 Test #16: ring_gap_permute2_TEST ............. Passed 2.13 sec | |
| 100% tests passed, 0 tests failed out of 17 | |
| Total Test time (real) = 14.19 sec | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.9.7 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| section_end:1646914698:step_script [0Ksection_start:1646914698: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=165611 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=181146 responseStatus[0;m=201 Created token[0;m=7JFoLffL | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=165647 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=181146 responseStatus[0;m=201 Created token[0;m=7JFoLffL | |
| section_end:1646914699:upload_artifacts_on_success [0Ksection_start:1646914699:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646914701: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:1646914601:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914601:resolve_secrets [0Ksection_start:1646914601: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-executor152267522, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181143 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=1 | |
| A slurm job will be created with name GL_J181143_PROD_P112_CP3_C4 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| Submitted batch job 321577 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=8 --cpus-per-task=1 --mem=30750M --job-name=GL_J181143_PROD_P112_CP3_C4 -C volta --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=8 --jobid=321577 --cpus-per-task=1 --mem=30750M | |
| section_end:1646914623:prepare_executor [0Ksection_start:1646914623:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on ldir01u09.bbp.epfl.ch via bbpv1.epfl.ch... | |
| section_end:1646914630:prepare_script [0Ksection_start:1646914630: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:1646914631:get_sources [0Ksection_start:1646914631:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:mod2c:nvhpc:acc:unified (181132)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=55208 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181132 responseStatus[0;m=200 OK token[0;m=szuHHNTs | |
| section_end:1646914632:download_artifacts [0Ksection_start:1646914632: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: r1i4n8 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20220310-1217 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181132/spack-build/spack-stage-coreneuron-develop-5u3hb5563fiewjkvz6z6mzftkoy4lmwk/spack-build-5u3hb55 | |
| 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 19: reporting_1 | |
| 1/19 Test #1: cmd_interface_test ..................... Passed 3.23 sec | |
| 2/19 Test #4: queuing_test ........................... Passed 3.40 sec | |
| Start 7: ring_binqueue_TEST | |
| 3/19 Test #5: lfp_test ............................... Passed 3.95 sec | |
| 4/19 Test #3: alignment_test ......................... Passed 12.05 sec | |
| Start 8: ring_multisend_TEST | |
| 5/19 Test #2: interleave_info_constructor_test ....... Passed 12.17 sec | |
| 6/19 Test #19: reporting_1 ............................ Passed 12.74 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 7/19 Test #6: ring_TEST .............................. Passed 12.85 sec | |
| Start 10: ring_permute1_TEST | |
| 8/19 Test #7: ring_binqueue_TEST ..................... Passed 23.68 sec | |
| Start 11: ring_permute2_TEST | |
| 9/19 Test #9: ring_spike_buffer_TEST ................. Passed 22.77 sec | |
| Start 12: ring_gap_TEST | |
| 10/19 Test #8: ring_multisend_TEST .................... Passed 26.42 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 11/19 Test #10: ring_permute1_TEST ..................... Passed 29.74 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 12/19 Test #11: ring_permute2_TEST ..................... Passed 22.60 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 13/19 Test #12: ring_gap_TEST .......................... Passed 308.17 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 14/19 Test #14: ring_gap_multisend_TEST ................ Passed 310.76 sec | |
| Start 17: ring_permute2_cudaInterface_TEST | |
| 15/19 Test #13: ring_gap_binqueue_TEST ................. Passed 317.61 sec | |
| Start 18: ring_gap_permute2_cudaInterface_TEST | |
| 16/19 Test #15: ring_gap_permute1_TEST ................. Passed 307.80 sec | |
| 17/19 Test #16: ring_gap_permute2_TEST ................. Passed 14.35 sec | |
| 18/19 Test #17: ring_permute2_cudaInterface_TEST ....... Passed 11.10 sec | |
| 19/19 Test #18: ring_gap_permute2_cudaInterface_TEST ... Passed 9.74 sec | |
| 100% tests passed, 0 tests failed out of 19 | |
| Total Test time (real) = 365.84 sec | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.9.7 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| section_end:1646915027:step_script [0Ksection_start:1646915027: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=59958 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=181143 responseStatus[0;m=201 Created token[0;m=h4YD9rJL | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=59989 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=181143 responseStatus[0;m=201 Created token[0;m=h4YD9rJL | |
| section_end:1646915028:upload_artifacts_on_success [0Ksection_start:1646915028:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646915030: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:1646914625:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914625:resolve_secrets [0Ksection_start:1646914625: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-executor647683518, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181142 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=1 | |
| A slurm job will be created with name GL_J181142_PROD_P112_CP5_C6 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| Submitted batch job 321579 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=8 --cpus-per-task=1 --mem=30750M --job-name=GL_J181142_PROD_P112_CP5_C6 -C volta --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=8 --jobid=321579 --cpus-per-task=1 --mem=30750M | |
| section_end:1646914630:prepare_executor [0Ksection_start:1646914630:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on ldir01u09.bbp.epfl.ch via bbpv1.epfl.ch... | |
| section_end:1646914637:prepare_script [0Ksection_start:1646914637: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:1646914638:get_sources [0Ksection_start:1646914638:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:mod2c:nvhpc:acc (181131)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=55876 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181131 responseStatus[0;m=200 OK token[0;m=j7pQWG7G | |
| section_end:1646914639:download_artifacts [0Ksection_start:1646914639: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: r1i4n7 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20220310-1217 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181131/spack-build/spack-stage-coreneuron-develop-qvmfnnxhw57tyce665xfpgrivex6jdyr/spack-build-qvmfnnx | |
| 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 19: reporting_1 | |
| 1/19 Test #4: queuing_test ........................... Passed 2.81 sec | |
| 2/19 Test #1: cmd_interface_test ..................... Passed 3.23 sec | |
| Start 7: ring_binqueue_TEST | |
| 3/19 Test #3: alignment_test ......................... Passed 3.46 sec | |
| 4/19 Test #2: interleave_info_constructor_test ....... Passed 3.48 sec | |
| Start 8: ring_multisend_TEST | |
| 5/19 Test #5: lfp_test ............................... Passed 3.60 sec | |
| 6/19 Test #6: ring_TEST .............................. Passed 10.59 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 7/19 Test #19: reporting_1 ............................ Passed 11.32 sec | |
| Start 10: ring_permute1_TEST | |
| 8/19 Test #8: ring_multisend_TEST .................... Passed 20.08 sec | |
| Start 11: ring_permute2_TEST | |
| 9/19 Test #7: ring_binqueue_TEST ..................... Passed 21.57 sec | |
| Start 12: ring_gap_TEST | |
| 10/19 Test #10: ring_permute1_TEST ..................... Passed 27.15 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 11/19 Test #9: ring_spike_buffer_TEST ................. Passed 29.94 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 12/19 Test #11: ring_permute2_TEST ..................... Passed 24.53 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 13/19 Test #12: ring_gap_TEST .......................... Passed 23.46 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 14/19 Test #13: ring_gap_binqueue_TEST ................. Passed 20.86 sec | |
| Start 17: ring_permute2_cudaInterface_TEST | |
| 15/19 Test #14: ring_gap_multisend_TEST ................ Passed 19.39 sec | |
| Start 18: ring_gap_permute2_cudaInterface_TEST | |
| 16/19 Test #15: ring_gap_permute1_TEST ................. Passed 17.88 sec | |
| 17/19 Test #16: ring_gap_permute2_TEST ................. Passed 17.81 sec | |
| 18/19 Test #17: ring_permute2_cudaInterface_TEST ....... Passed 9.92 sec | |
| 19/19 Test #18: ring_gap_permute2_cudaInterface_TEST ... Passed 9.43 sec | |
| 100% tests passed, 0 tests failed out of 19 | |
| Total Test time (real) = 69.38 sec | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.9.7 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| section_end:1646914732:step_script [0Ksection_start:1646914732: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=58922 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=181142 responseStatus[0;m=201 Created token[0;m=QDDWSsCg | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=58954 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=181142 responseStatus[0;m=201 Created token[0;m=QDDWSsCg | |
| section_end:1646914733:upload_artifacts_on_success [0Ksection_start:1646914733:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646914734:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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Learn more about bidirectional Unicode characters
| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1646914907:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646914907:resolve_secrets [0Ksection_start:1646914907: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-executor411598904, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181147 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=1 | |
| A slurm job will be created with name GL_J181147_PROD_P112_CP2_C3 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=cpu ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321588 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=8 --cpus-per-task=1 --mem=30750M --job-name=GL_J181147_PROD_P112_CP2_C3 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=8 --jobid=321588 --cpus-per-task=1 --mem=30750M | |
| section_end:1646914922:prepare_executor [0Ksection_start:1646914922:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r1i4n7 via bbpv1.epfl.ch... | |
| section_end:1646914926:prepare_script [0Ksection_start:1646914926: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:1646914927:get_sources [0Ksection_start:1646914927:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:nmodl:intel (181136)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=170172 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181136 responseStatus[0;m=200 OK token[0;m=whUogRab | |
| section_end:1646914928:download_artifacts [0Ksection_start:1646914928: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: r1i4n8 | |
| Build name: Linux-icpc | |
| Create new tag: 20220310-1222 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181136/spack-build/spack-stage-coreneuron-develop-f2bfytl2xzstchvaem4gflxln4r6z4cz/spack-build-f2bfytl | |
| 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 2.52 sec | |
| 2/17 Test #6: ring_TEST .......................... Passed 2.57 sec | |
| Start 7: ring_binqueue_TEST | |
| 3/17 Test #1: cmd_interface_test ................. Passed 2.70 sec | |
| Start 8: ring_multisend_TEST | |
| 4/17 Test #3: alignment_test ..................... Passed 2.86 sec | |
| 5/17 Test #4: queuing_test ....................... Passed 3.12 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 6/17 Test #2: interleave_info_constructor_test ... Passed 3.14 sec | |
| 7/17 Test #5: lfp_test ........................... Passed 3.32 sec | |
| Start 10: ring_permute1_TEST | |
| 8/17 Test #8: ring_multisend_TEST ................ Passed 3.90 sec | |
| Start 11: ring_permute2_TEST | |
| 9/17 Test #9: ring_spike_buffer_TEST ............. Passed 3.91 sec | |
| Start 12: ring_gap_TEST | |
| 10/17 Test #7: ring_binqueue_TEST ................. Passed 4.53 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 11/17 Test #10: ring_permute1_TEST ................. Passed 3.83 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 12/17 Test #11: ring_permute2_TEST ................. Passed 0.94 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 13/17 Test #12: ring_gap_TEST ...................... Passed 1.48 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 14/17 Test #14: ring_gap_multisend_TEST ............ Passed 3.81 sec | |
| 15/17 Test #15: ring_gap_permute1_TEST ............. Passed 3.49 sec | |
| 16/17 Test #13: ring_gap_binqueue_TEST ............. Passed 4.12 sec | |
| 17/17 Test #16: ring_gap_permute2_TEST ............. Passed 2.79 sec | |
| 100% tests passed, 0 tests failed out of 17 | |
| Total Test time (real) = 11.32 sec | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.9.7 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| section_end:1646914966:step_script [0Ksection_start:1646914966: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=172217 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=181147 responseStatus[0;m=201 Created token[0;m=8U8UactV | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=172250 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=181147 responseStatus[0;m=201 Created token[0;m=8U8UactV | |
| section_end:1646914970:upload_artifacts_on_success [0Ksection_start:1646914970:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646914972: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:1646915060:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646915060:resolve_secrets [0Ksection_start:1646915060: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-executor763016665, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181145 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=1 | |
| A slurm job will be created with name GL_J181145_PROD_P112_CP4_C5 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| Submitted batch job 321593 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=8 --cpus-per-task=1 --mem=30750M --job-name=GL_J181145_PROD_P112_CP4_C5 -C volta --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=8 --jobid=321593 --cpus-per-task=1 --mem=30750M | |
| section_end:1646915069:prepare_executor [0Ksection_start:1646915069:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on ldir01u09.bbp.epfl.ch via bbpv1.epfl.ch... | |
| section_end:1646915076:prepare_script [0Ksection_start:1646915076: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:1646915077:get_sources [0Ksection_start:1646915077:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:nmodl:nvhpc:acc (181134)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=61036 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181134 responseStatus[0;m=200 OK token[0;m=kL7MzHyy | |
| section_end:1646915077:download_artifacts [0Ksection_start:1646915077: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: r1i4n8 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20220310-1225 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181134/spack-build/spack-stage-coreneuron-develop-clohwtjjwrfpo4z4oreptyb2jbe3wrcs/spack-build-clohwtj | |
| 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 19: reporting_1 | |
| 1/19 Test #3: alignment_test ......................... Passed 2.46 sec | |
| 2/19 Test #1: cmd_interface_test ..................... Passed 3.18 sec | |
| Start 7: ring_binqueue_TEST | |
| 3/19 Test #2: interleave_info_constructor_test ....... Passed 3.31 sec | |
| 4/19 Test #4: queuing_test ........................... Passed 3.41 sec | |
| Start 8: ring_multisend_TEST | |
| 5/19 Test #5: lfp_test ............................... Passed 3.56 sec | |
| 6/19 Test #19: reporting_1 ............................ Passed 12.63 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 7/19 Test #6: ring_TEST .............................. Passed 12.67 sec | |
| Start 10: ring_permute1_TEST | |
| 8/19 Test #7: ring_binqueue_TEST ..................... Passed 20.49 sec | |
| Start 11: ring_permute2_TEST | |
| 9/19 Test #8: ring_multisend_TEST .................... Passed 20.73 sec | |
| Start 12: ring_gap_TEST | |
| 10/19 Test #9: ring_spike_buffer_TEST ................. Passed 27.85 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 11/19 Test #10: ring_permute1_TEST ..................... Passed 30.87 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 12/19 Test #11: ring_permute2_TEST ..................... Passed 20.21 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 13/19 Test #12: ring_gap_TEST .......................... Passed 19.84 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 14/19 Test #13: ring_gap_binqueue_TEST ................. Passed 6.82 sec | |
| Start 17: ring_permute2_cudaInterface_TEST | |
| 15/19 Test #14: ring_gap_multisend_TEST ................ Passed 14.81 sec | |
| Start 18: ring_gap_permute2_cudaInterface_TEST | |
| 16/19 Test #17: ring_permute2_cudaInterface_TEST ....... Passed 21.67 sec | |
| 17/19 Test #15: ring_gap_permute1_TEST ................. Passed 26.16 sec | |
| 18/19 Test #16: ring_gap_permute2_TEST ................. Passed 26.29 sec | |
| 19/19 Test #18: ring_gap_permute2_cudaInterface_TEST ... Passed 14.73 sec | |
| 100% tests passed, 0 tests failed out of 19 | |
| Total Test time (real) = 73.10 sec | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.9.7 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| section_end:1646915174:step_script [0Ksection_start:1646915174: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=63936 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=181145 responseStatus[0;m=201 Created token[0;m=nrhGgwUs | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=63968 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=181145 responseStatus[0;m=201 Created token[0;m=nrhGgwUs | |
| section_end:1646915175:upload_artifacts_on_success [0Ksection_start:1646915175:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646915176: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:1646915045:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646915045:resolve_secrets [0Ksection_start:1646915045: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-executor609273963, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181144 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=1 | |
| A slurm job will be created with name GL_J181144_PROD_P112_CP2_C3 | |
| Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| Submitted batch job 321591 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=8 --cpus-per-task=1 --mem=30750M --job-name=GL_J181144_PROD_P112_CP2_C3 -C volta --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=8 --jobid=321591 --cpus-per-task=1 --mem=30750M | |
| section_end:1646915063:prepare_executor [0Ksection_start:1646915063:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on ldir01u09.bbp.epfl.ch via bbpv1.epfl.ch... | |
| section_end:1646915070:prepare_script [0Ksection_start:1646915070: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:1646915071:get_sources [0Ksection_start:1646915071:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:coreneuron:nmodl:nvhpc:omp (181133)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=60454 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181133 responseStatus[0;m=200 OK token[0;m=zzgmsMFS | |
| section_end:1646915071:download_artifacts [0Ksection_start:1646915071: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: r1i4n7 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20220310-1224 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181133/spack-build/spack-stage-coreneuron-develop-jnp6ftwa2yzkkhnwk6ebarxcp5sqkwtt/spack-build-jnp6ftw | |
| 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 19: reporting_1 | |
| 1/19 Test #1: cmd_interface_test ..................... Passed 3.59 sec | |
| 2/19 Test #2: interleave_info_constructor_test ....... Passed 3.77 sec | |
| Start 7: ring_binqueue_TEST | |
| 3/19 Test #3: alignment_test ......................... Passed 3.84 sec | |
| 4/19 Test #5: lfp_test ............................... Passed 4.22 sec | |
| Start 8: ring_multisend_TEST | |
| 5/19 Test #4: queuing_test ........................... Passed 4.27 sec | |
| 6/19 Test #19: reporting_1 ............................ Passed 6.58 sec | |
| Start 9: ring_spike_buffer_TEST | |
| 7/19 Test #6: ring_TEST .............................. Passed 10.71 sec | |
| Start 10: ring_permute1_TEST | |
| 8/19 Test #7: ring_binqueue_TEST ..................... Passed 38.42 sec | |
| Start 11: ring_permute2_TEST | |
| 9/19 Test #8: ring_multisend_TEST .................... Passed 41.21 sec | |
| Start 12: ring_gap_TEST | |
| 10/19 Test #10: ring_permute1_TEST ..................... Passed 35.00 sec | |
| Start 13: ring_gap_binqueue_TEST | |
| 11/19 Test #9: ring_spike_buffer_TEST ................. Passed 39.24 sec | |
| Start 14: ring_gap_multisend_TEST | |
| 12/19 Test #11: ring_permute2_TEST ..................... Passed 10.69 sec | |
| Start 15: ring_gap_permute1_TEST | |
| 13/19 Test #12: ring_gap_TEST .......................... Passed 12.53 sec | |
| Start 16: ring_gap_permute2_TEST | |
| 14/19 Test #14: ring_gap_multisend_TEST ................ Passed 138.06 sec | |
| Start 17: ring_permute2_cudaInterface_TEST | |
| 15/19 Test #17: ring_permute2_cudaInterface_TEST ....... Passed 17.33 sec | |
| Start 18: ring_gap_permute2_cudaInterface_TEST | |
| 16/19 Test #13: ring_gap_binqueue_TEST ................. Passed 156.87 sec | |
| 17/19 Test #15: ring_gap_permute1_TEST ................. Passed 151.56 sec | |
| 18/19 Test #16: ring_gap_permute2_TEST ................. Passed 146.52 sec | |
| 19/19 Test #18: ring_gap_permute2_cudaInterface_TEST ... Passed 6.46 sec | |
| 100% tests passed, 0 tests failed out of 19 | |
| Total Test time (real) = 207.70 sec | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.9.7 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| section_end:1646915307:step_script [0Ksection_start:1646915307: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=64603 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=181144 responseStatus[0;m=201 Created token[0;m=6sM7LY2J | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=64633 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=181144 responseStatus[0;m=201 Created token[0;m=6sM7LY2J | |
| section_end:1646915308:upload_artifacts_on_success [0Ksection_start:1646915308:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646915309:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| Log was not fetched because job had status: skipped |
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| Log was not fetched because job had status: skipped |
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.
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| [0KRunning with gitlab-runner 14.3.2 (e0218c92)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1646915714:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646915714:resolve_secrets [0Ksection_start:1646915714: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-executor225255489, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181152 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=1 | |
| A slurm job will be created with name GL_J181152_PROD_P112_CP1_C2 | |
| Job parameters: memory=76G, cpus_per_task=1, duration=1:00:00, constraint=cpu ntasks=16 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 321679 | |
| job state: PD | |
| job state: PD | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=16 --cpus-per-task=1 --mem=76G --job-name=GL_J181152_PROD_P112_CP1_C2 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=16 --jobid=321679 --cpus-per-task=1 --mem=76G | |
| section_end:1646915758:prepare_executor [0Ksection_start:1646915758:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on r3i1n34 via bbpv1.epfl.ch... | |
| section_end:1646915760:prepare_script [0Ksection_start:1646915760: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:1646915762:get_sources [0Ksection_start:1646915762:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:neuron:nmodl:intel (181141)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=255720 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181141 responseStatus[0;m=200 OK token[0;m=xfC1C5yz | |
| section_end:1646915764:download_artifacts [0Ksection_start:1646915764: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: r1i4n7 | |
| Build name: Linux-icpc | |
| Create new tag: 20220310-1236 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181141/spack-build/spack-stage-neuron-develop-7vuuxvdwm3mams7szrb4snbsppttef4h/spack-build-7vuuxvd | |
| Start 43: external_ringtest::coreneuron_cpu_mpi_offline::preparation | |
| Start 50: testcorenrn_bbcore::coreneuron_cpu_offline::preparation | |
| Start 56: testcorenrn_deriv::coreneuron_cpu_offline::preparation | |
| Start 62: testcorenrn_gf::coreneuron_cpu_offline::preparation | |
| Start 67: testcorenrn_patstim::coreneuron_cpu_offline::preparation | |
| Start 73: testcorenrn_vecplay::coreneuron_cpu_offline::preparation | |
| Start 79: testcorenrn_vecevent::coreneuron_cpu_offline::preparation | |
| Start 85: testcorenrn_watch::coreneuron_cpu_offline::preparation | |
| 1/114 Test #50: testcorenrn_bbcore::coreneuron_cpu_offline::preparation ............ Passed 3.51 sec | |
| Start 91: testcorenrn_conc::coreneuron_cpu_offline::preparation | |
| 2/114 Test #62: testcorenrn_gf::coreneuron_cpu_offline::preparation ................ Passed 3.72 sec | |
| Start 97: testcorenrn_kin::coreneuron_cpu_offline::preparation | |
| Start 38: external_ringtest::neuron | |
| 3/114 Test #73: testcorenrn_vecplay::coreneuron_cpu_offline::preparation ........... Passed 3.94 sec | |
| Start 39: external_ringtest::neuron_mpi | |
| 4/114 Test #56: testcorenrn_deriv::coreneuron_cpu_offline::preparation ............. Passed 4.45 sec | |
| Start 46: testcorenrn_bbcore::neuron | |
| 5/114 Test #67: testcorenrn_patstim::coreneuron_cpu_offline::preparation ........... Passed 4.82 sec | |
| Start 40: external_ringtest::coreneuron_cpu_mpi_offline_saverestore | |
| 6/114 Test #85: testcorenrn_watch::coreneuron_cpu_offline::preparation ............. Passed 4.91 sec | |
| Start 41: external_ringtest::coreneuron_cpu_mpi | |
| 7/114 Test #79: testcorenrn_vecevent::coreneuron_cpu_offline::preparation .......... Passed 5.09 sec | |
| Start 111: olfactory-bulb-3d::neuron::preparation | |
| 8/114 Test #111: olfactory-bulb-3d::neuron::preparation ............................. Passed 0.11 sec | |
| Start 113: olfactory-bulb-3d::coreneuron_cpu_online::preparation | |
| 9/114 Test #113: olfactory-bulb-3d::coreneuron_cpu_online::preparation .............. Passed 0.03 sec | |
| Start 35: reduced_dentate::neuron | |
| 10/114 Test #91: testcorenrn_conc::coreneuron_cpu_offline::preparation .............. Passed 1.91 sec | |
| Start 47: testcorenrn_bbcore::coreneuron_cpu_online | |
| 11/114 Test #97: testcorenrn_kin::coreneuron_cpu_offline::preparation ............... Passed 1.80 sec | |
| Start 48: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate | |
| 12/114 Test #43: external_ringtest::coreneuron_cpu_mpi_offline::preparation ......... Passed 5.59 sec | |
| Start 42: external_ringtest::coreneuron_cpu_mpi_offline | |
| 13/114 Test #38: external_ringtest::neuron .......................................... Passed 1.94 sec | |
| Start 49: testcorenrn_bbcore::coreneuron_cpu_offline | |
| 14/114 Test #46: testcorenrn_bbcore::neuron ......................................... Passed 2.04 sec | |
| Start 52: testcorenrn_deriv::neuron | |
| 15/114 Test #39: external_ringtest::neuron_mpi ...................................... Passed 3.10 sec | |
| Start 53: testcorenrn_deriv::coreneuron_cpu_online | |
| Start 54: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate | |
| 16/114 Test #49: testcorenrn_bbcore::coreneuron_cpu_offline ......................... Passed 2.40 sec | |
| Start 55: testcorenrn_deriv::coreneuron_cpu_offline | |
| 17/114 Test #52: testcorenrn_deriv::neuron .......................................... Passed 3.09 sec | |
| Start 87: testcorenrn_conc::neuron | |
| 18/114 Test #55: testcorenrn_deriv::coreneuron_cpu_offline .......................... Passed 1.74 sec | |
| Start 88: testcorenrn_conc::coreneuron_cpu_online | |
| 19/114 Test #47: testcorenrn_bbcore::coreneuron_cpu_online .......................... Passed 5.09 sec | |
| Start 89: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate | |
| 20/114 Test #48: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate ......... Passed 5.36 sec | |
| Start 90: testcorenrn_conc::coreneuron_cpu_offline | |
| 21/114 Test #53: testcorenrn_deriv::coreneuron_cpu_online ........................... Passed 3.89 sec | |
| Start 93: testcorenrn_kin::neuron | |
| 22/114 Test #54: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate .......... Passed 4.36 sec | |
| Start 94: testcorenrn_kin::coreneuron_cpu_online | |
| 23/114 Test #87: testcorenrn_conc::neuron ........................................... Passed 1.88 sec | |
| Start 95: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate | |
| 24/114 Test #90: testcorenrn_conc::coreneuron_cpu_offline ........................... Passed 1.68 sec | |
| Start 96: testcorenrn_kin::coreneuron_cpu_offline | |
| 25/114 Test #88: testcorenrn_conc::coreneuron_cpu_online ............................ Passed 2.91 sec | |
| Start 102: channel_benchmark_hippo::neuron | |
| 26/114 Test #93: testcorenrn_kin::neuron ............................................ Passed 1.89 sec | |
| Start 103: channel_benchmark_hippo::coreneuron_cpu_online | |
| 27/114 Test #42: external_ringtest::coreneuron_cpu_mpi_offline ...................... Passed 9.63 sec | |
| Start 58: testcorenrn_gf::neuron | |
| 28/114 Test #94: testcorenrn_kin::coreneuron_cpu_online ............................. Passed 4.14 sec | |
| Start 104: channel_benchmark_hippo::coreneuron_cpu_filemode | |
| 29/114 Test #96: testcorenrn_kin::coreneuron_cpu_offline ............................ Passed 3.15 sec | |
| Start 106: channel_benchmark_sscx::neuron | |
| 30/114 Test #58: testcorenrn_gf::neuron ............................................. Passed 6.63 sec | |
| Start 59: testcorenrn_gf::coreneuron_cpu_online | |
| 31/114 Test #59: testcorenrn_gf::coreneuron_cpu_online .............................. Passed 11.14 sec | |
| Start 60: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate | |
| 32/114 Test #40: external_ringtest::coreneuron_cpu_mpi_offline_saverestore .......... Passed 40.69 sec | |
| Start 61: testcorenrn_gf::coreneuron_cpu_offline | |
| 33/114 Test #89: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate ........... Passed 35.26 sec | |
| Start 107: channel_benchmark_sscx::coreneuron_cpu_online | |
| 34/114 Test #41: external_ringtest::coreneuron_cpu_mpi .............................. Passed 41.00 sec | |
| Start 64: testcorenrn_patstim::neuron | |
| 35/114 Test #60: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate ............. Passed 13.43 sec | |
| Start 65: testcorenrn_patstim::coreneuron_cpu_offline_saverestore | |
| 36/114 Test #95: testcorenrn_kin::coreneuron_cpu_online_psolve_alternate ............ Passed 38.37 sec | |
| Start 108: channel_benchmark_sscx::coreneuron_cpu_filemode | |
| 37/114 Test #64: testcorenrn_patstim::neuron ........................................ Passed 4.26 sec | |
| Start 66: testcorenrn_patstim::coreneuron_cpu_offline | |
| 38/114 Test #66: testcorenrn_patstim::coreneuron_cpu_offline ........................ Passed 4.72 sec | |
| Start 69: testcorenrn_vecplay::neuron | |
| 39/114 Test #61: testcorenrn_gf::coreneuron_cpu_offline ............................. Passed 9.44 sec | |
| Start 70: testcorenrn_vecplay::coreneuron_cpu_online | |
| 40/114 Test #65: testcorenrn_patstim::coreneuron_cpu_offline_saverestore ............ Passed 12.86 sec | |
| Start 71: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate | |
| 41/114 Test #69: testcorenrn_vecplay::neuron ........................................ Passed 6.87 sec | |
| Start 72: testcorenrn_vecplay::coreneuron_cpu_offline | |
| 42/114 Test #70: testcorenrn_vecplay::coreneuron_cpu_online ......................... Passed 11.14 sec | |
| Start 81: testcorenrn_watch::neuron | |
| 43/114 Test #72: testcorenrn_vecplay::coreneuron_cpu_offline ........................ Passed 4.69 sec | |
| Start 82: testcorenrn_watch::coreneuron_cpu_online | |
| 44/114 Test #81: testcorenrn_watch::neuron .......................................... Passed 4.22 sec | |
| Start 83: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate | |
| 45/114 Test #71: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate ........ Passed 11.79 sec | |
| Start 84: testcorenrn_watch::coreneuron_cpu_offline | |
| 46/114 Test #82: testcorenrn_watch::coreneuron_cpu_online ........................... Passed 7.71 sec | |
| Start 99: testcorenrn_netstimdirect::direct_netstimdirect | |
| 47/114 Test #84: testcorenrn_watch::coreneuron_cpu_offline .......................... Passed 4.35 sec | |
| Start 100: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate | |
| 48/114 Test #83: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate .......... Passed 11.28 sec | |
| Start 1: testneuron | |
| Start 2: ringtest | |
| 49/114 Test #1: testneuron ......................................................... Passed 0.06 sec | |
| Start 3: connect_dend | |
| 50/114 Test #3: connect_dend ....................................................... Passed 0.15 sec | |
| Start 4: mpi_init::nrniv_mpiopt | |
| 51/114 Test #2: ringtest ........................................................... Passed 0.32 sec | |
| Start 5: mpi_init::nrniv_nrnmpi_init | |
| 52/114 Test #5: mpi_init::nrniv_nrnmpi_init ........................................ Passed 0.37 sec | |
| Start 6: mpi_init::python_nrnmpi_init | |
| 53/114 Test #99: testcorenrn_netstimdirect::direct_netstimdirect .................... Passed 8.21 sec | |
| Start 7: mpi_init::python_mpienv | |
| Start 8: mpi_init::nrniv_mpiexec_mpiopt | |
| 54/114 Test #4: mpi_init::nrniv_mpiopt ............................................. Passed 0.67 sec | |
| Start 9: mpi_init::nrniv_mpiexec_nrnmpi_init | |
| 55/114 Test #6: mpi_init::python_nrnmpi_init ....................................... Passed 1.30 sec | |
| Start 10: mpi_init::python_mpiexec_nrnmpi_init | |
| 56/114 Test #9: mpi_init::nrniv_mpiexec_nrnmpi_init ................................ Passed 1.47 sec | |
| Start 11: mpi_init::python_mpiexec_mpienv | |
| 57/114 Test #8: mpi_init::nrniv_mpiexec_mpiopt ..................................... Passed 1.86 sec | |
| Start 12: pynrn_tests::basic_tests | |
| 58/114 Test #100: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate ... Passed 9.96 sec | |
| Start 13: parallel_tests | |
| Start 14: parallel_partrans | |
| 59/114 Test #10: mpi_init::python_mpiexec_nrnmpi_init ............................... Passed 3.82 sec | |
| Start 15: parallel_netpar | |
| 60/114 Test #11: mpi_init::python_mpiexec_mpienv .................................... Passed 4.90 sec | |
| Start 16: parallel_bas | |
| 61/114 Test #7: mpi_init::python_mpienv ............................................ Passed 6.68 sec | |
| Start 17: coreneuron_modtests::fornetcon_py_cpu | |
| 62/114 Test #14: parallel_partrans .................................................. Passed 14.83 sec | |
| Start 18: coreneuron_modtests::direct_py_cpu | |
| 63/114 Test #15: parallel_netpar .................................................... Passed 13.40 sec | |
| Start 19: coreneuron_modtests::direct_hoc_cpu | |
| 64/114 Test #12: pynrn_tests::basic_tests ........................................... Passed 19.37 sec | |
| Start 20: coreneuron_modtests::spikes_py_cpu | |
| 65/114 Test #13: parallel_tests ..................................................... Passed 24.28 sec | |
| Start 21: coreneuron_modtests::spikes_file_mode_py_cpu | |
| 66/114 Test #19: coreneuron_modtests::direct_hoc_cpu ................................ Passed 10.27 sec | |
| Start 22: coreneuron_modtests::fast_imem_py_cpu | |
| 67/114 Test #16: parallel_bas ....................................................... Passed 32.18 sec | |
| Start 23: coreneuron_modtests::datareturn_py_cpu | |
| 68/114 Test #35: reduced_dentate::neuron ............................................ Passed 145.55 sec | |
| Start 36: reduced_dentate::coreneuron_cpu | |
| 69/114 Test #17: coreneuron_modtests::fornetcon_py_cpu .............................. Passed 69.50 sec | |
| Start 24: coreneuron_modtests::test_units_py_cpu | |
| 70/114 Test #103: channel_benchmark_hippo::coreneuron_cpu_online ..................... Passed 150.93 sec | |
| Start 25: coreneuron_modtests::test_netmove_py_cpu | |
| 71/114 Test #106: channel_benchmark_sscx::neuron ..................................... Passed 148.54 sec | |
| Start 26: coreneuron_modtests::test_pointer_py_cpu | |
| 72/114 Test #102: channel_benchmark_hippo::neuron .................................... Passed 152.86 sec | |
| Start 27: coreneuron_modtests::test_watchrange_py_cpu | |
| 73/114 Test #104: channel_benchmark_hippo::coreneuron_cpu_filemode ................... Passed 152.47 sec | |
| Start 28: coreneuron_modtests::test_psolve_py_cpu | |
| 74/114 Test #20: coreneuron_modtests::spikes_py_cpu ................................. Passed 66.68 sec | |
| Start 29: coreneuron_modtests::test_ba_py_cpu | |
| 75/114 Test #21: coreneuron_modtests::spikes_file_mode_py_cpu ....................... Passed 65.82 sec | |
| Start 30: coreneuron_modtests::test_natrans_py_cpu | |
| 76/114 Test #18: coreneuron_modtests::direct_py_cpu ................................. Passed 76.45 sec | |
| Start 34: external_nrntest | |
| 77/114 Test #22: coreneuron_modtests::fast_imem_py_cpu .............................. Passed 66.53 sec | |
| Start 51: testcorenrn_bbcore::compare_results | |
| 78/114 Test #51: testcorenrn_bbcore::compare_results ................................ Passed 0.07 sec | |
| Start 57: testcorenrn_deriv::compare_results | |
| 79/114 Test #57: testcorenrn_deriv::compare_results ................................. Passed 0.09 sec | |
| Start 63: testcorenrn_gf::compare_results | |
| 80/114 Test #63: testcorenrn_gf::compare_results .................................... Passed 0.06 sec | |
| Start 68: testcorenrn_patstim::compare_results | |
| 81/114 Test #68: testcorenrn_patstim::compare_results ............................... Passed 0.06 sec | |
| Start 74: testcorenrn_vecplay::compare_results | |
| 82/114 Test #74: testcorenrn_vecplay::compare_results ............................... Passed 0.06 sec | |
| Start 86: testcorenrn_watch::compare_results | |
| 83/114 Test #86: testcorenrn_watch::compare_results ................................. Passed 0.06 sec | |
| Start 92: testcorenrn_conc::compare_results | |
| 84/114 Test #92: testcorenrn_conc::compare_results .................................. Passed 0.06 sec | |
| Start 98: testcorenrn_kin::compare_results | |
| 85/114 Test #98: testcorenrn_kin::compare_results ................................... Passed 0.06 sec | |
| Start 101: testcorenrn_netstimdirect::compare_results | |
| 86/114 Test #101: testcorenrn_netstimdirect::compare_results ......................... Passed 0.12 sec | |
| Start 105: channel_benchmark_hippo::compare_results | |
| 87/114 Test #105: channel_benchmark_hippo::compare_results ........................... Passed 0.06 sec | |
| 88/114 Test #107: channel_benchmark_sscx::coreneuron_cpu_online ...................... Passed 137.64 sec | |
| Start 31: coreneuron_modtests::spikes_mpi_py_cpu | |
| 89/114 Test #108: channel_benchmark_sscx::coreneuron_cpu_filemode .................... Passed 135.43 sec | |
| Start 109: channel_benchmark_sscx::compare_results | |
| 90/114 Test #23: coreneuron_modtests::datareturn_py_cpu ............................. Passed 64.54 sec | |
| 91/114 Test #109: channel_benchmark_sscx::compare_results ............................ Passed 1.85 sec | |
| Start 32: coreneuron_modtests::spikes_mpi_file_mode_py_cpu | |
| 92/114 Test #24: coreneuron_modtests::test_units_py_cpu ............................. Passed 31.88 sec | |
| 93/114 Test #27: coreneuron_modtests::test_watchrange_py_cpu ........................ Passed 25.73 sec | |
| Start 33: coreneuron_modtests::inputpresyn_py_cpu | |
| 94/114 Test #28: coreneuron_modtests::test_psolve_py_cpu ............................ Passed 25.67 sec | |
| 95/114 Test #29: coreneuron_modtests::test_ba_py_cpu ................................ Passed 24.56 sec | |
| 96/114 Test #30: coreneuron_modtests::test_natrans_py_cpu ........................... Passed 20.73 sec | |
| 97/114 Test #25: coreneuron_modtests::test_netmove_py_cpu ........................... Passed 34.01 sec | |
| Start 75: testcorenrn_vecevent::neuron | |
| 98/114 Test #31: coreneuron_modtests::spikes_mpi_py_cpu ............................. Passed 16.26 sec | |
| 99/114 Test #32: coreneuron_modtests::spikes_mpi_file_mode_py_cpu ................... Passed 13.73 sec | |
| Start 76: testcorenrn_vecevent::coreneuron_cpu_online | |
| 100/114 Test #26: coreneuron_modtests::test_pointer_py_cpu ........................... Passed 38.31 sec | |
| 101/114 Test #33: coreneuron_modtests::inputpresyn_py_cpu ............................ Passed 11.29 sec | |
| 102/114 Test #75: testcorenrn_vecevent::neuron ....................................... Passed 6.45 sec | |
| Start 44: external_ringtest::coreneuron_cpu_mpi_threads | |
| 103/114 Test #36: reduced_dentate::coreneuron_cpu .................................... Passed 59.83 sec | |
| Start 77: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate | |
| Start 37: reduced_dentate::compare_results | |
| 104/114 Test #37: reduced_dentate::compare_results ................................... Passed 0.06 sec | |
| 105/114 Test #76: testcorenrn_vecevent::coreneuron_cpu_online ........................ Passed 9.93 sec | |
| Start 78: testcorenrn_vecevent::coreneuron_cpu_offline | |
| 106/114 Test #44: external_ringtest::coreneuron_cpu_mpi_threads ...................... Passed 7.66 sec | |
| Start 110: olfactory-bulb-3d::neuron | |
| Start 45: external_ringtest::compare_results | |
| 107/114 Test #45: external_ringtest::compare_results ................................. Passed 0.36 sec | |
| 108/114 Test #78: testcorenrn_vecevent::coreneuron_cpu_offline ....................... Passed 2.48 sec | |
| Start 112: olfactory-bulb-3d::coreneuron_cpu_online | |
| 109/114 Test #77: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate ....... Passed 4.19 sec | |
| Start 80: testcorenrn_vecevent::compare_results | |
| 110/114 Test #80: testcorenrn_vecevent::compare_results .............................. Passed 0.32 sec | |
| 111/114 Test #34: external_nrntest ................................................... Passed 177.09 sec | |
| 112/114 Test #110: olfactory-bulb-3d::neuron .......................................... Passed 158.30 sec | |
| 113/114 Test #112: olfactory-bulb-3d::coreneuron_cpu_online ........................... Passed 156.99 sec | |
| Start 114: olfactory-bulb-3d::compare_results | |
| 114/114 Test #114: olfactory-bulb-3d::compare_results ................................. Passed 0.17 sec | |
| 100% tests passed, 0 tests failed out of 114 | |
| Total Test time (real) = 370.49 sec | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.9.7 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| section_end:1646916165:step_script [0Ksection_start:1646916165: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=263932 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=181152 responseStatus[0;m=201 Created token[0;m=BWCie_pL | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=263987 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=181152 responseStatus[0;m=201 Created token[0;m=BWCie_pL | |
| section_end:1646916166:upload_artifacts_on_success [0Ksection_start:1646916166:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646916167: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:1646916881:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646916881:resolve_secrets [0Ksection_start:1646916881: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-executor572386089, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181150 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=1 | |
| A slurm job will be created with name GL_J181150_PROD_P112_CP1_C1 | |
| Job parameters: memory=76G, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=16 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| Submitted batch job 321697 | |
| job state: PD | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=16 --cpus-per-task=1 --mem=76G --job-name=GL_J181150_PROD_P112_CP1_C1 -C volta --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=16 --jobid=321697 --cpus-per-task=1 --mem=76G | |
| section_end:1646916927:prepare_executor [0Ksection_start:1646916927:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on ldir01u09.bbp.epfl.ch via bbpv1.epfl.ch... | |
| section_end:1646916935:prepare_script [0Ksection_start:1646916935: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:1646916935:get_sources [0Ksection_start:1646916935:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:neuron:nmodl:nvhpc:acc (181139)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=69234 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181139 responseStatus[0;m=200 OK token[0;m=1n6ssYaZ | |
| section_end:1646916936:download_artifacts [0Ksection_start:1646916936: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: r1i4n7 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20220310-1256 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181139/spack-build/spack-stage-neuron-develop-dwkjkuknoiprgdt5yhhj7uooz4rce2vl/spack-build-dwkjkuk | |
| Start 61: external_ringtest::coreneuron_cpu_mpi_offline::preparation | |
| Start 66: external_ringtest::coreneuron_gpu_mpi_offline::preparation | |
| Start 73: testcorenrn_bbcore::coreneuron_gpu_offline::preparation | |
| Start 77: testcorenrn_bbcore::coreneuron_cpu_offline::preparation | |
| Start 83: testcorenrn_deriv::coreneuron_gpu_offline::preparation | |
| Start 87: testcorenrn_deriv::coreneuron_cpu_offline::preparation | |
| Start 93: testcorenrn_gf::coreneuron_gpu_offline::preparation | |
| Start 97: testcorenrn_gf::coreneuron_cpu_offline::preparation | |
| Start 102: testcorenrn_patstim::coreneuron_gpu_offline::preparation | |
| Start 105: testcorenrn_patstim::coreneuron_cpu_offline::preparation | |
| Start 56: external_ringtest::neuron | |
| 1/158 Test #77: testcorenrn_bbcore::coreneuron_cpu_offline::preparation ............ Passed 3.82 sec | |
| Start 69: testcorenrn_bbcore::neuron | |
| 2/158 Test #73: testcorenrn_bbcore::coreneuron_gpu_offline::preparation ............ Passed 3.85 sec | |
| Start 70: testcorenrn_bbcore::coreneuron_gpu_online | |
| 3/158 Test #102: testcorenrn_patstim::coreneuron_gpu_offline::preparation ........... Passed 5.00 sec | |
| Start 71: testcorenrn_bbcore::coreneuron_gpu_online_psolve_alternate | |
| 4/158 Test #93: testcorenrn_gf::coreneuron_gpu_offline::preparation ................ Passed 8.37 sec | |
| Start 111: testcorenrn_vecplay::coreneuron_gpu_offline::preparation | |
| 5/158 Test #56: external_ringtest::neuron .......................................... Passed 11.86 sec | |
| Start 72: testcorenrn_bbcore::coreneuron_gpu_offline | |
| 6/158 Test #87: testcorenrn_deriv::coreneuron_cpu_offline::preparation ............. Passed 15.67 sec | |
| Start 74: testcorenrn_bbcore::coreneuron_cpu_online | |
| 7/158 Test #97: testcorenrn_gf::coreneuron_cpu_offline::preparation ................ Passed 16.60 sec | |
| Start 115: testcorenrn_vecplay::coreneuron_cpu_offline::preparation | |
| 8/158 Test #83: testcorenrn_deriv::coreneuron_gpu_offline::preparation ............. Passed 17.16 sec | |
| Start 75: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate | |
| 9/158 Test #105: testcorenrn_patstim::coreneuron_cpu_offline::preparation ........... Passed 18.47 sec | |
| Start 131: testcorenrn_watch::coreneuron_gpu_offline::preparation | |
| 10/158 Test #69: testcorenrn_bbcore::neuron ......................................... Passed 14.69 sec | |
| Start 76: testcorenrn_bbcore::coreneuron_cpu_offline | |
| 11/158 Test #111: testcorenrn_vecplay::coreneuron_gpu_offline::preparation ........... Passed 10.75 sec | |
| Start 135: testcorenrn_watch::coreneuron_cpu_offline::preparation | |
| 12/158 Test #115: testcorenrn_vecplay::coreneuron_cpu_offline::preparation ........... Passed 5.80 sec | |
| Start 57: external_ringtest::neuron_mpi | |
| 13/158 Test #135: testcorenrn_watch::coreneuron_cpu_offline::preparation ............. Passed 3.15 sec | |
| Start 58: external_ringtest::coreneuron_cpu_mpi_offline_saverestore | |
| 14/158 Test #131: testcorenrn_watch::coreneuron_gpu_offline::preparation ............. Passed 3.99 sec | |
| Start 59: external_ringtest::coreneuron_cpu_mpi | |
| 15/158 Test #57: external_ringtest::neuron_mpi ...................................... Passed 5.43 sec | |
| Start 63: external_ringtest::coreneuron_gpu_mpi_offline_saverestore | |
| 16/158 Test #61: external_ringtest::coreneuron_cpu_mpi_offline::preparation ......... Passed 28.60 sec | |
| Start 60: external_ringtest::coreneuron_cpu_mpi_offline | |
| 17/158 Test #72: testcorenrn_bbcore::coreneuron_gpu_offline ......................... Passed 22.38 sec | |
| Start 79: testcorenrn_deriv::neuron | |
| 18/158 Test #66: external_ringtest::coreneuron_gpu_mpi_offline::preparation ......... Passed 34.50 sec | |
| Start 64: external_ringtest::coreneuron_gpu_mpi | |
| 19/158 Test #79: testcorenrn_deriv::neuron .......................................... Passed 1.56 sec | |
| Start 80: testcorenrn_deriv::coreneuron_gpu_online | |
| 20/158 Test #74: testcorenrn_bbcore::coreneuron_cpu_online .......................... Passed 23.48 sec | |
| Start 81: testcorenrn_deriv::coreneuron_gpu_online_psolve_alternate | |
| 21/158 Test #70: testcorenrn_bbcore::coreneuron_gpu_online .......................... Passed 35.41 sec | |
| Start 82: testcorenrn_deriv::coreneuron_gpu_offline | |
| 22/158 Test #71: testcorenrn_bbcore::coreneuron_gpu_online_psolve_alternate ......... Passed 34.32 sec | |
| Start 84: testcorenrn_deriv::coreneuron_cpu_online | |
| 23/158 Test #76: testcorenrn_bbcore::coreneuron_cpu_offline ......................... Passed 22.91 sec | |
| Start 85: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate | |
| 24/158 Test #75: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate ......... Passed 24.81 sec | |
| Start 86: testcorenrn_deriv::coreneuron_cpu_offline | |
| 25/158 Test #59: external_ringtest::coreneuron_cpu_mpi .............................. Passed 25.94 sec | |
| Start 65: external_ringtest::coreneuron_gpu_mpi_offline | |
| 26/158 Test #60: external_ringtest::coreneuron_cpu_mpi_offline ...................... Passed 20.06 sec | |
| Start 89: testcorenrn_gf::neuron | |
| 27/158 Test #89: testcorenrn_gf::neuron ............................................. Passed 4.81 sec | |
| Start 90: testcorenrn_gf::coreneuron_gpu_online | |
| 28/158 Test #80: testcorenrn_deriv::coreneuron_gpu_online ........................... Passed 19.42 sec | |
| Start 100: testcorenrn_patstim::coreneuron_gpu_offline_saverestore | |
| 29/158 Test #64: external_ringtest::coreneuron_gpu_mpi .............................. Passed 20.80 sec | |
| Start 91: testcorenrn_gf::coreneuron_gpu_online_psolve_alternate | |
| 30/158 Test #84: testcorenrn_deriv::coreneuron_cpu_online ........................... Passed 21.21 sec | |
| Start 101: testcorenrn_patstim::coreneuron_gpu_offline | |
| 31/158 Test #85: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate .......... Passed 20.83 sec | |
| Start 140: channel_benchmark_hippo::neuron | |
| 32/158 Test #86: testcorenrn_deriv::coreneuron_cpu_offline .......................... Passed 24.07 sec | |
| Start 141: channel_benchmark_hippo::coreneuron_gpu_online | |
| 33/158 Test #82: testcorenrn_deriv::coreneuron_gpu_offline .......................... Passed 28.87 sec | |
| Start 142: channel_benchmark_hippo::coreneuron_gpu_filemode | |
| 34/158 Test #65: external_ringtest::coreneuron_gpu_mpi_offline ...................... Passed 52.09 sec | |
| Start 92: testcorenrn_gf::coreneuron_gpu_offline | |
| 35/158 Test #81: testcorenrn_deriv::coreneuron_gpu_online_psolve_alternate .......... Passed 61.67 sec | |
| Start 143: channel_benchmark_hippo::coreneuron_cpu_online | |
| 36/158 Test #140: channel_benchmark_hippo::neuron .................................... Passed 69.03 sec | |
| Start 144: channel_benchmark_hippo::coreneuron_cpu_filemode | |
| 37/158 Test #90: testcorenrn_gf::coreneuron_gpu_online .............................. Passed 86.60 sec | |
| Start 94: testcorenrn_gf::coreneuron_cpu_online | |
| 38/158 Test #101: testcorenrn_patstim::coreneuron_gpu_offline ........................ Passed 117.53 sec | |
| Start 146: channel_benchmark_sscx::neuron | |
| 39/158 Test #91: testcorenrn_gf::coreneuron_gpu_online_psolve_alternate ............. Passed 123.04 sec | |
| Start 95: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate | |
| 40/158 Test #146: channel_benchmark_sscx::neuron ..................................... Passed 26.17 sec | |
| Start 147: channel_benchmark_sscx::coreneuron_gpu_online | |
| 41/158 Test #94: testcorenrn_gf::coreneuron_cpu_online .............................. Passed 73.43 sec | |
| Start 96: testcorenrn_gf::coreneuron_cpu_offline | |
| 42/158 Test #92: testcorenrn_gf::coreneuron_gpu_offline ............................. Passed 113.01 sec | |
| Start 99: testcorenrn_patstim::neuron | |
| 43/158 Test #99: testcorenrn_patstim::neuron ........................................ Passed 4.12 sec | |
| Start 103: testcorenrn_patstim::coreneuron_cpu_offline_saverestore | |
| 44/158 Test #141: channel_benchmark_hippo::coreneuron_gpu_online ..................... Passed 153.15 sec | |
| Start 148: channel_benchmark_sscx::coreneuron_gpu_filemode | |
| 45/158 Test #142: channel_benchmark_hippo::coreneuron_gpu_filemode ................... Passed 153.49 sec | |
| Start 149: channel_benchmark_sscx::coreneuron_cpu_online | |
| 46/158 Test #144: channel_benchmark_hippo::coreneuron_cpu_filemode ................... Passed 90.76 sec | |
| Start 150: channel_benchmark_sscx::coreneuron_cpu_filemode | |
| 47/158 Test #58: external_ringtest::coreneuron_cpu_mpi_offline_saverestore .......... Passed 208.74 sec | |
| Start 104: testcorenrn_patstim::coreneuron_cpu_offline | |
| 48/158 Test #143: channel_benchmark_hippo::coreneuron_cpu_online ..................... Passed 130.83 sec | |
| Start 1: testneuron | |
| 49/158 Test #1: testneuron ......................................................... Passed 0.06 sec | |
| Start 2: ringtest | |
| 50/158 Test #2: ringtest ........................................................... Passed 0.23 sec | |
| Start 3: connect_dend | |
| 51/158 Test #3: connect_dend ....................................................... Passed 0.13 sec | |
| Start 4: mpi_init::nrniv_mpiopt | |
| 52/158 Test #4: mpi_init::nrniv_mpiopt ............................................. Passed 0.37 sec | |
| Start 5: mpi_init::nrniv_nrnmpi_init | |
| 53/158 Test #5: mpi_init::nrniv_nrnmpi_init ........................................ Passed 0.18 sec | |
| Start 6: mpi_init::python_nrnmpi_init | |
| 54/158 Test #6: mpi_init::python_nrnmpi_init ....................................... Passed 0.64 sec | |
| Start 7: mpi_init::python_mpienv | |
| 55/158 Test #7: mpi_init::python_mpienv ............................................ Passed 1.89 sec | |
| Start 8: mpi_init::nrniv_mpiexec_mpiopt | |
| 56/158 Test #8: mpi_init::nrniv_mpiexec_mpiopt ..................................... Passed 1.80 sec | |
| Start 9: mpi_init::nrniv_mpiexec_nrnmpi_init | |
| 57/158 Test #9: mpi_init::nrniv_mpiexec_nrnmpi_init ................................ Passed 1.37 sec | |
| Start 10: mpi_init::python_mpiexec_nrnmpi_init | |
| 58/158 Test #10: mpi_init::python_mpiexec_nrnmpi_init ............................... Passed 1.92 sec | |
| Start 11: mpi_init::python_mpiexec_mpienv | |
| 59/158 Test #11: mpi_init::python_mpiexec_mpienv .................................... Passed 3.07 sec | |
| Start 12: pynrn_tests::basic_tests | |
| 60/158 Test #12: pynrn_tests::basic_tests ........................................... Passed 4.12 sec | |
| Start 13: parallel_tests | |
| 61/158 Test #13: parallel_tests ..................................................... Passed 7.86 sec | |
| Start 14: parallel_partrans | |
| 62/158 Test #14: parallel_partrans .................................................. Passed 4.92 sec | |
| Start 15: parallel_netpar | |
| 63/158 Test #100: testcorenrn_patstim::coreneuron_gpu_offline_saverestore ............ Passed 206.92 sec | |
| Start 16: parallel_bas | |
| 64/158 Test #15: parallel_netpar .................................................... Passed 5.51 sec | |
| Start 17: coreneuron_modtests::fornetcon_py_cpu | |
| 65/158 Test #16: parallel_bas ....................................................... Passed 19.77 sec | |
| Start 18: coreneuron_modtests::direct_py_cpu | |
| 66/158 Test #95: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate ............. Passed 106.46 sec | |
| Start 107: testcorenrn_vecplay::neuron | |
| 67/158 Test #107: testcorenrn_vecplay::neuron ........................................ Passed 4.88 sec | |
| Start 108: testcorenrn_vecplay::coreneuron_gpu_online | |
| 68/158 Test #96: testcorenrn_gf::coreneuron_cpu_offline ............................. Passed 84.92 sec | |
| Start 109: testcorenrn_vecplay::coreneuron_gpu_online_psolve_alternate | |
| 69/158 Test #63: external_ringtest::coreneuron_gpu_mpi_offline_saverestore .......... Passed 270.75 sec | |
| Start 110: testcorenrn_vecplay::coreneuron_gpu_offline | |
| 70/158 Test #104: testcorenrn_patstim::coreneuron_cpu_offline ........................ Passed 67.49 sec | |
| Start 112: testcorenrn_vecplay::coreneuron_cpu_online | |
| 71/158 Test #147: channel_benchmark_sscx::coreneuron_gpu_online ...................... Passed 98.53 sec | |
| Start 19: coreneuron_modtests::direct_hoc_cpu | |
| 72/158 Test #148: channel_benchmark_sscx::coreneuron_gpu_filemode .................... Passed 94.72 sec | |
| Start 20: coreneuron_modtests::spikes_py_cpu | |
| 73/158 Test #17: coreneuron_modtests::fornetcon_py_cpu .............................. Passed 51.04 sec | |
| Start 21: coreneuron_modtests::spikes_file_mode_py_cpu | |
| 74/158 Test #18: coreneuron_modtests::direct_py_cpu ................................. Passed 34.98 sec | |
| Start 22: coreneuron_modtests::fast_imem_py_cpu | |
| 75/158 Test #22: coreneuron_modtests::fast_imem_py_cpu .............................. Passed 0.74 sec | |
| Start 23: coreneuron_modtests::datareturn_py_cpu | |
| 76/158 Test #150: channel_benchmark_sscx::coreneuron_cpu_filemode .................... Passed 96.07 sec | |
| Start 24: coreneuron_modtests::test_units_py_cpu | |
| 77/158 Test #149: channel_benchmark_sscx::coreneuron_cpu_online ...................... Passed 96.52 sec | |
| Start 25: coreneuron_modtests::test_netmove_py_cpu | |
| 78/158 Test #108: testcorenrn_vecplay::coreneuron_gpu_online ......................... Passed 28.71 sec | |
| Start 113: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate | |
| 79/158 Test #103: testcorenrn_patstim::coreneuron_cpu_offline_saverestore ............ Passed 112.84 sec | |
| Start 114: testcorenrn_vecplay::coreneuron_cpu_offline | |
| 80/158 Test #19: coreneuron_modtests::direct_hoc_cpu ................................ Passed 29.25 sec | |
| Start 26: coreneuron_modtests::test_pointer_py_cpu | |
| 81/158 Test #112: testcorenrn_vecplay::coreneuron_cpu_online ......................... Passed 36.84 sec | |
| Start 127: testcorenrn_watch::neuron | |
| 82/158 Test #110: testcorenrn_vecplay::coreneuron_gpu_offline ........................ Passed 38.33 sec | |
| Start 128: testcorenrn_watch::coreneuron_gpu_online | |
| 83/158 Test #127: testcorenrn_watch::neuron .......................................... Passed 2.24 sec | |
| Start 129: testcorenrn_watch::coreneuron_gpu_online_psolve_alternate | |
| 84/158 Test #20: coreneuron_modtests::spikes_py_cpu ................................. Passed 27.73 sec | |
| Start 27: coreneuron_modtests::test_watchrange_py_cpu | |
| 85/158 Test #21: coreneuron_modtests::spikes_file_mode_py_cpu ....................... Passed 33.66 sec | |
| Start 28: coreneuron_modtests::test_psolve_py_cpu | |
| 86/158 Test #23: coreneuron_modtests::datareturn_py_cpu ............................. Passed 32.93 sec | |
| Start 29: coreneuron_modtests::test_ba_py_cpu | |
| 87/158 Test #24: coreneuron_modtests::test_units_py_cpu ............................. Passed 36.76 sec | |
| Start 30: coreneuron_modtests::test_natrans_py_cpu | |
| 88/158 Test #25: coreneuron_modtests::test_netmove_py_cpu ........................... Passed 39.41 sec | |
| Start 34: coreneuron_modtests::fornetcon_py_gpu | |
| 89/158 Test #109: testcorenrn_vecplay::coreneuron_gpu_online_psolve_alternate ........ Passed 61.22 sec | |
| Start 130: testcorenrn_watch::coreneuron_gpu_offline | |
| 90/158 Test #113: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate ........ Passed 46.03 sec | |
| Start 132: testcorenrn_watch::coreneuron_cpu_online | |
| 91/158 Test #27: coreneuron_modtests::test_watchrange_py_cpu ........................ Passed 57.46 sec | |
| Start 35: coreneuron_modtests::direct_py_gpu | |
| 92/158 Test #114: testcorenrn_vecplay::coreneuron_cpu_offline ........................ Passed 69.05 sec | |
| Start 133: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate | |
| 93/158 Test #30: coreneuron_modtests::test_natrans_py_cpu ........................... Passed 47.55 sec | |
| Start 36: coreneuron_modtests::direct_hoc_gpu | |
| 94/158 Test #29: coreneuron_modtests::test_ba_py_cpu ................................ Passed 51.96 sec | |
| Start 37: coreneuron_modtests::spikes_py_gpu | |
| 95/158 Test #28: coreneuron_modtests::test_psolve_py_cpu ............................ Passed 52.17 sec | |
| Start 38: coreneuron_modtests::spikes_file_mode_py_gpu | |
| 96/158 Test #34: coreneuron_modtests::fornetcon_py_gpu .............................. Passed 52.10 sec | |
| Start 39: coreneuron_modtests::fast_imem_py_gpu | |
| 97/158 Test #39: coreneuron_modtests::fast_imem_py_gpu .............................. Passed 0.37 sec | |
| Start 40: coreneuron_modtests::datareturn_py_gpu | |
| 98/158 Test #130: testcorenrn_watch::coreneuron_gpu_offline .......................... Passed 58.92 sec | |
| Start 134: testcorenrn_watch::coreneuron_cpu_offline | |
| 99/158 Test #132: testcorenrn_watch::coreneuron_cpu_online ........................... Passed 54.25 sec | |
| Start 137: testcorenrn_netstimdirect::direct_netstimdirect | |
| 100/158 Test #35: coreneuron_modtests::direct_py_gpu ................................. Passed 27.02 sec | |
| Start 41: coreneuron_modtests::test_units_py_gpu | |
| 101/158 Test #133: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate .......... Passed 33.67 sec | |
| Start 138: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate | |
| 102/158 Test #38: coreneuron_modtests::spikes_file_mode_py_gpu ....................... Passed 30.70 sec | |
| Start 42: coreneuron_modtests::test_netmove_py_gpu | |
| 103/158 Test #37: coreneuron_modtests::spikes_py_gpu ................................. Passed 35.22 sec | |
| Start 43: coreneuron_modtests::test_pointer_py_gpu | |
| 104/158 Test #36: coreneuron_modtests::direct_hoc_gpu ................................ Passed 35.69 sec | |
| Start 44: coreneuron_modtests::test_watchrange_py_gpu | |
| 105/158 Test #40: coreneuron_modtests::datareturn_py_gpu ............................. Passed 28.26 sec | |
| Start 45: coreneuron_modtests::test_psolve_py_gpu | |
| 106/158 Test #128: testcorenrn_watch::coreneuron_gpu_online ........................... Passed 102.33 sec | |
| Start 31: coreneuron_modtests::spikes_mpi_py_cpu | |
| 107/158 Test #129: testcorenrn_watch::coreneuron_gpu_online_psolve_alternate .......... Passed 101.60 sec | |
| Start 32: coreneuron_modtests::spikes_mpi_file_mode_py_cpu | |
| 108/158 Test #41: coreneuron_modtests::test_units_py_gpu ............................. Passed 25.61 sec | |
| Start 46: coreneuron_modtests::test_ba_py_gpu | |
| 109/158 Test #137: testcorenrn_netstimdirect::direct_netstimdirect .................... Passed 34.65 sec | |
| Start 33: coreneuron_modtests::inputpresyn_py_cpu | |
| 110/158 Test #42: coreneuron_modtests::test_netmove_py_gpu ........................... Passed 24.04 sec | |
| Start 47: coreneuron_modtests::test_natrans_py_gpu | |
| 111/158 Test #134: testcorenrn_watch::coreneuron_cpu_offline .......................... Passed 39.77 sec | |
| Start 48: coreneuron_modtests::spikes_mpi_py_gpu | |
| 112/158 Test #138: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate ... Passed 25.28 sec | |
| Start 49: coreneuron_modtests::spikes_mpi_file_mode_py_gpu | |
| 113/158 Test #45: coreneuron_modtests::test_psolve_py_gpu ............................ Passed 22.33 sec | |
| Start 51: external_nrntest | |
| 114/158 Test #44: coreneuron_modtests::test_watchrange_py_gpu ........................ Passed 22.53 sec | |
| Start 78: testcorenrn_bbcore::compare_results | |
| 115/158 Test #46: coreneuron_modtests::test_ba_py_gpu ................................ Passed 9.46 sec | |
| Start 88: testcorenrn_deriv::compare_results | |
| 116/158 Test #78: testcorenrn_bbcore::compare_results ................................ Passed 0.84 sec | |
| Start 98: testcorenrn_gf::compare_results | |
| 117/158 Test #88: testcorenrn_deriv::compare_results ................................. Passed 1.30 sec | |
| Start 106: testcorenrn_patstim::compare_results | |
| 118/158 Test #98: testcorenrn_gf::compare_results .................................... Passed 1.10 sec | |
| Start 116: testcorenrn_vecplay::compare_results | |
| 119/158 Test #32: coreneuron_modtests::spikes_mpi_file_mode_py_cpu ................... Passed 23.31 sec | |
| Start 50: coreneuron_modtests::inputpresyn_py_gpu | |
| 120/158 Test #31: coreneuron_modtests::spikes_mpi_py_cpu ............................. Passed 23.46 sec | |
| Start 136: testcorenrn_watch::compare_results | |
| Start 139: testcorenrn_netstimdirect::compare_results | |
| 121/158 Test #116: testcorenrn_vecplay::compare_results ............................... Passed 0.60 sec | |
| Start 145: channel_benchmark_hippo::compare_results | |
| 122/158 Test #139: testcorenrn_netstimdirect::compare_results ......................... Passed 0.72 sec | |
| Start 151: channel_benchmark_sscx::compare_results | |
| 123/158 Test #106: testcorenrn_patstim::compare_results ............................... Passed 1.13 sec | |
| 124/158 Test #145: channel_benchmark_hippo::compare_results ........................... Passed 0.62 sec | |
| 125/158 Test #136: testcorenrn_watch::compare_results ................................. Passed 1.75 sec | |
| 126/158 Test #151: channel_benchmark_sscx::compare_results ............................ Passed 1.86 sec | |
| Start 121: testcorenrn_vecevent::coreneuron_gpu_offline::preparation | |
| 127/158 Test #33: coreneuron_modtests::inputpresyn_py_cpu ............................ Passed 13.59 sec | |
| 128/158 Test #47: coreneuron_modtests::test_natrans_py_gpu ........................... Passed 10.41 sec | |
| 129/158 Test #121: testcorenrn_vecevent::coreneuron_gpu_offline::preparation .......... Passed 5.81 sec | |
| Start 125: testcorenrn_vecevent::coreneuron_cpu_offline::preparation | |
| 130/158 Test #48: coreneuron_modtests::spikes_mpi_py_gpu ............................. Passed 15.32 sec | |
| Start 153: olfactory-bulb-3d::neuron::preparation | |
| 131/158 Test #49: coreneuron_modtests::spikes_mpi_file_mode_py_gpu ................... Passed 15.22 sec | |
| 132/158 Test #153: olfactory-bulb-3d::neuron::preparation ............................. Passed 0.24 sec | |
| Start 155: olfactory-bulb-3d::coreneuron_gpu_online::preparation | |
| 133/158 Test #155: olfactory-bulb-3d::coreneuron_gpu_online::preparation .............. Passed 0.20 sec | |
| Start 157: olfactory-bulb-3d::coreneuron_cpu_online::preparation | |
| 134/158 Test #157: olfactory-bulb-3d::coreneuron_cpu_online::preparation .............. Passed 0.48 sec | |
| Start 52: reduced_dentate::neuron | |
| 135/158 Test #50: coreneuron_modtests::inputpresyn_py_gpu ............................ Passed 13.38 sec | |
| Start 53: reduced_dentate::coreneuron_cpu | |
| 136/158 Test #125: testcorenrn_vecevent::coreneuron_cpu_offline::preparation .......... Passed 7.44 sec | |
| Start 54: reduced_dentate::coreneuron_gpu | |
| 137/158 Test #26: coreneuron_modtests::test_pointer_py_cpu ........................... Passed 151.45 sec | |
| 138/158 Test #52: reduced_dentate::neuron ............................................ Passed 17.36 sec | |
| Start 62: external_ringtest::coreneuron_cpu_mpi_threads | |
| 139/158 Test #43: coreneuron_modtests::test_pointer_py_gpu ........................... Passed 54.69 sec | |
| 140/158 Test #62: external_ringtest::coreneuron_cpu_mpi_threads ...................... Passed 21.24 sec | |
| Start 67: external_ringtest::coreneuron_gpu_mpi_threads | |
| 141/158 Test #53: reduced_dentate::coreneuron_cpu .................................... Passed 47.62 sec | |
| Start 117: testcorenrn_vecevent::neuron | |
| 142/158 Test #117: testcorenrn_vecevent::neuron ....................................... Passed 3.46 sec | |
| Start 118: testcorenrn_vecevent::coreneuron_gpu_online | |
| 143/158 Test #54: reduced_dentate::coreneuron_gpu .................................... Passed 49.19 sec | |
| Start 119: testcorenrn_vecevent::coreneuron_gpu_online_psolve_alternate | |
| Start 55: reduced_dentate::compare_results | |
| 144/158 Test #55: reduced_dentate::compare_results ................................... Passed 0.28 sec | |
| 145/158 Test #67: external_ringtest::coreneuron_gpu_mpi_threads ...................... Passed 22.59 sec | |
| Start 120: testcorenrn_vecevent::coreneuron_gpu_offline | |
| Start 68: external_ringtest::compare_results | |
| 146/158 Test #68: external_ringtest::compare_results ................................. Passed 2.68 sec | |
| 147/158 Test #118: testcorenrn_vecevent::coreneuron_gpu_online ........................ Passed 33.19 sec | |
| Start 122: testcorenrn_vecevent::coreneuron_cpu_online | |
| 148/158 Test #120: testcorenrn_vecevent::coreneuron_gpu_offline ....................... Passed 25.52 sec | |
| Start 123: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate | |
| 149/158 Test #119: testcorenrn_vecevent::coreneuron_gpu_online_psolve_alternate ....... Passed 44.10 sec | |
| Start 124: testcorenrn_vecevent::coreneuron_cpu_offline | |
| 150/158 Test #122: testcorenrn_vecevent::coreneuron_cpu_online ........................ Passed 20.73 sec | |
| Start 152: olfactory-bulb-3d::neuron | |
| 151/158 Test #123: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate ....... Passed 20.02 sec | |
| Start 154: olfactory-bulb-3d::coreneuron_gpu_online | |
| 152/158 Test #124: testcorenrn_vecevent::coreneuron_cpu_offline ....................... Passed 13.29 sec | |
| Start 156: olfactory-bulb-3d::coreneuron_cpu_online | |
| Start 126: testcorenrn_vecevent::compare_results | |
| 153/158 Test #126: testcorenrn_vecevent::compare_results .............................. Passed 0.86 sec | |
| 154/158 Test #51: external_nrntest ................................................... Passed 191.37 sec | |
| 155/158 Test #154: olfactory-bulb-3d::coreneuron_gpu_online ........................... Passed 131.11 sec | |
| 156/158 Test #152: olfactory-bulb-3d::neuron .......................................... Passed 159.97 sec | |
| 157/158 Test #156: olfactory-bulb-3d::coreneuron_cpu_online ........................... Passed 158.38 sec | |
| Start 158: olfactory-bulb-3d::compare_results | |
| 158/158 Test #158: olfactory-bulb-3d::compare_results ................................. Passed 0.23 sec | |
| 100% tests passed, 0 tests failed out of 158 | |
| Total Test time (real) = 743.93 sec | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.9.7 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| section_end:1646917713:step_script [0Ksection_start:1646917713: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=8730 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=181150 responseStatus[0;m=201 Created token[0;m=acsnMW1T | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=8783 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=181150 responseStatus[0;m=201 Created token[0;m=acsnMW1T | |
| section_end:1646917715:upload_artifacts_on_success [0Ksection_start:1646917715:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646917716: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:1646916902:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1646916902:resolve_secrets [0Ksection_start:1646916902: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-executor331020397, slurm job id | |
| Runner ID 29, project root hpc, project name coreneuron | |
| Pipeline ID 42207, build ref 18093c48a1fd1b81473d5720ff7117dc85a3fa79, job ID 181149 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207, optional exclusive flag , optional cpus per task flag --cpus-per-task=1 | |
| A slurm job will be created with name GL_J181149_PROD_P112_CP0_C0 | |
| Job parameters: memory=76G, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=16 account=proj9998 user=bbpcihpcproj12 partition=prod | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| Submitted batch job 321698 | |
| job state: PD | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=16 --cpus-per-task=1 --mem=76G --job-name=GL_J181149_PROD_P112_CP0_C0 -C volta --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P42207 --ntasks=16 --jobid=321698 --cpus-per-task=1 --mem=76G | |
| section_end:1646916927:prepare_executor [0Ksection_start:1646916927:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on ldir01u09.bbp.epfl.ch via bbpv1.epfl.ch... | |
| section_end:1646916935:prepare_script [0Ksection_start:1646916935: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:1646916936:get_sources [0Ksection_start:1646916936:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| [32;1mDownloading artifacts for build:neuron:nmodl:nvhpc:omp (181138)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=69326 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=181138 responseStatus[0;m=200 OK token[0;m=5LrWirnh | |
| section_end:1646916937:download_artifacts [0Ksection_start:1646916937: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: r1i4n7 | |
| Build name: Linux-nvc++ | |
| Create new tag: 20220310-1256 - Experimental | |
| Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P42207/J181138/spack-build/spack-stage-neuron-develop-ik54mlr5japlprt37kesnyjymcdgaqgh/spack-build-ik54mlr | |
| Start 61: external_ringtest::coreneuron_cpu_mpi_offline::preparation | |
| Start 66: external_ringtest::coreneuron_gpu_mpi_offline::preparation | |
| Start 73: testcorenrn_bbcore::coreneuron_gpu_offline::preparation | |
| Start 77: testcorenrn_bbcore::coreneuron_cpu_offline::preparation | |
| Start 83: testcorenrn_deriv::coreneuron_gpu_offline::preparation | |
| Start 87: testcorenrn_deriv::coreneuron_cpu_offline::preparation | |
| Start 93: testcorenrn_gf::coreneuron_gpu_offline::preparation | |
| Start 97: testcorenrn_gf::coreneuron_cpu_offline::preparation | |
| Start 102: testcorenrn_patstim::coreneuron_gpu_offline::preparation | |
| Start 105: testcorenrn_patstim::coreneuron_cpu_offline::preparation | |
| Start 56: external_ringtest::neuron | |
| 1/158 Test #73: testcorenrn_bbcore::coreneuron_gpu_offline::preparation ............ Passed 6.82 sec | |
| Start 69: testcorenrn_bbcore::neuron | |
| 2/158 Test #102: testcorenrn_patstim::coreneuron_gpu_offline::preparation ........... Passed 7.24 sec | |
| Start 70: testcorenrn_bbcore::coreneuron_gpu_online | |
| 3/158 Test #77: testcorenrn_bbcore::coreneuron_cpu_offline::preparation ............ Passed 7.73 sec | |
| Start 71: testcorenrn_bbcore::coreneuron_gpu_online_psolve_alternate | |
| 4/158 Test #83: testcorenrn_deriv::coreneuron_gpu_offline::preparation ............. Passed 7.85 sec | |
| Start 72: testcorenrn_bbcore::coreneuron_gpu_offline | |
| 5/158 Test #56: external_ringtest::neuron .......................................... Passed 12.13 sec | |
| Start 74: testcorenrn_bbcore::coreneuron_cpu_online | |
| 6/158 Test #105: testcorenrn_patstim::coreneuron_cpu_offline::preparation ........... Passed 12.37 sec | |
| Start 111: testcorenrn_vecplay::coreneuron_gpu_offline::preparation | |
| 7/158 Test #93: testcorenrn_gf::coreneuron_gpu_offline::preparation ................ Passed 14.42 sec | |
| Start 115: testcorenrn_vecplay::coreneuron_cpu_offline::preparation | |
| 8/158 Test #87: testcorenrn_deriv::coreneuron_cpu_offline::preparation ............. Passed 16.82 sec | |
| Start 75: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate | |
| 9/158 Test #97: testcorenrn_gf::coreneuron_cpu_offline::preparation ................ Passed 17.31 sec | |
| Start 131: testcorenrn_watch::coreneuron_gpu_offline::preparation | |
| 10/158 Test #69: testcorenrn_bbcore::neuron ......................................... Passed 10.63 sec | |
| Start 76: testcorenrn_bbcore::coreneuron_cpu_offline | |
| 11/158 Test #72: testcorenrn_bbcore::coreneuron_gpu_offline ......................... Passed 10.43 sec | |
| Start 79: testcorenrn_deriv::neuron | |
| 12/158 Test #115: testcorenrn_vecplay::coreneuron_cpu_offline::preparation ........... Passed 5.13 sec | |
| Start 135: testcorenrn_watch::coreneuron_cpu_offline::preparation | |
| 13/158 Test #111: testcorenrn_vecplay::coreneuron_gpu_offline::preparation ........... Passed 7.27 sec | |
| Start 57: external_ringtest::neuron_mpi | |
| 14/158 Test #131: testcorenrn_watch::coreneuron_gpu_offline::preparation ............. Passed 4.45 sec | |
| Start 58: external_ringtest::coreneuron_cpu_mpi_offline_saverestore | |
| 15/158 Test #79: testcorenrn_deriv::neuron .......................................... Passed 3.53 sec | |
| Start 80: testcorenrn_deriv::coreneuron_gpu_online | |
| 16/158 Test #135: testcorenrn_watch::coreneuron_cpu_offline::preparation ............. Passed 3.76 sec | |
| Start 59: external_ringtest::coreneuron_cpu_mpi | |
| 17/158 Test #57: external_ringtest::neuron_mpi ...................................... Passed 5.25 sec | |
| Start 63: external_ringtest::coreneuron_gpu_mpi_offline_saverestore | |
| 18/158 Test #61: external_ringtest::coreneuron_cpu_mpi_offline::preparation ......... Passed 33.66 sec | |
| Start 60: external_ringtest::coreneuron_cpu_mpi_offline | |
| 19/158 Test #66: external_ringtest::coreneuron_gpu_mpi_offline::preparation ......... Passed 34.34 sec | |
| Start 64: external_ringtest::coreneuron_gpu_mpi | |
| 20/158 Test #70: testcorenrn_bbcore::coreneuron_gpu_online .......................... Passed 31.92 sec | |
| Start 81: testcorenrn_deriv::coreneuron_gpu_online_psolve_alternate | |
| 21/158 Test #71: testcorenrn_bbcore::coreneuron_gpu_online_psolve_alternate ......... Passed 31.59 sec | |
| Start 82: testcorenrn_deriv::coreneuron_gpu_offline | |
| 22/158 Test #74: testcorenrn_bbcore::coreneuron_cpu_online .......................... Passed 27.19 sec | |
| Start 84: testcorenrn_deriv::coreneuron_cpu_online | |
| 23/158 Test #76: testcorenrn_bbcore::coreneuron_cpu_offline ......................... Passed 23.16 sec | |
| Start 85: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate | |
| 24/158 Test #75: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate ......... Passed 25.30 sec | |
| Start 86: testcorenrn_deriv::coreneuron_cpu_offline | |
| 25/158 Test #80: testcorenrn_deriv::coreneuron_gpu_online ........................... Passed 32.91 sec | |
| Start 100: testcorenrn_patstim::coreneuron_gpu_offline_saverestore | |
| 26/158 Test #59: external_ringtest::coreneuron_cpu_mpi .............................. Passed 31.73 sec | |
| Start 65: external_ringtest::coreneuron_gpu_mpi_offline | |
| 27/158 Test #64: external_ringtest::coreneuron_gpu_mpi .............................. Passed 20.87 sec | |
| Start 89: testcorenrn_gf::neuron | |
| 28/158 Test #60: external_ringtest::coreneuron_cpu_mpi_offline ...................... Passed 21.57 sec | |
| Start 90: testcorenrn_gf::coreneuron_gpu_online | |
| 29/158 Test #89: testcorenrn_gf::neuron ............................................. Passed 4.60 sec | |
| Start 91: testcorenrn_gf::coreneuron_gpu_online_psolve_alternate | |
| 30/158 Test #86: testcorenrn_deriv::coreneuron_cpu_offline .......................... Passed 19.32 sec | |
| Start 101: testcorenrn_patstim::coreneuron_gpu_offline | |
| 31/158 Test #84: testcorenrn_deriv::coreneuron_cpu_online ........................... Passed 22.71 sec | |
| Start 140: channel_benchmark_hippo::neuron | |
| 32/158 Test #85: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate .......... Passed 22.78 sec | |
| Start 141: channel_benchmark_hippo::coreneuron_gpu_online | |
| 33/158 Test #82: testcorenrn_deriv::coreneuron_gpu_offline .......................... Passed 29.26 sec | |
| Start 142: channel_benchmark_hippo::coreneuron_gpu_filemode | |
| 34/158 Test #81: testcorenrn_deriv::coreneuron_gpu_online_psolve_alternate .......... Passed 61.61 sec | |
| Start 143: channel_benchmark_hippo::coreneuron_cpu_online | |
| 35/158 Test #140: channel_benchmark_hippo::neuron .................................... Passed 73.81 sec | |
| Start 144: channel_benchmark_hippo::coreneuron_cpu_filemode | |
| 36/158 Test #101: testcorenrn_patstim::coreneuron_gpu_offline ........................ Passed 96.57 sec | |
| Start 146: channel_benchmark_sscx::neuron | |
| 37/158 Test #65: external_ringtest::coreneuron_gpu_mpi_offline ...................... Passed 103.59 sec | |
| Start 92: testcorenrn_gf::coreneuron_gpu_offline | |
| 38/158 Test #90: testcorenrn_gf::coreneuron_gpu_online .............................. Passed 122.65 sec | |
| Start 94: testcorenrn_gf::coreneuron_cpu_online | |
| 39/158 Test #146: channel_benchmark_sscx::neuron ..................................... Passed 33.54 sec | |
| Start 147: channel_benchmark_sscx::coreneuron_gpu_online | |
| 40/158 Test #91: testcorenrn_gf::coreneuron_gpu_online_psolve_alternate ............. Passed 137.78 sec | |
| Start 95: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate | |
| 41/158 Test #141: channel_benchmark_hippo::coreneuron_gpu_online ..................... Passed 150.39 sec | |
| Start 148: channel_benchmark_sscx::coreneuron_gpu_filemode | |
| 42/158 Test #142: channel_benchmark_hippo::coreneuron_gpu_filemode ................... Passed 153.02 sec | |
| Start 149: channel_benchmark_sscx::coreneuron_cpu_online | |
| 43/158 Test #63: external_ringtest::coreneuron_gpu_mpi_offline_saverestore .......... Passed 210.82 sec | |
| Start 96: testcorenrn_gf::coreneuron_cpu_offline | |
| 44/158 Test #143: channel_benchmark_hippo::coreneuron_cpu_online ..................... Passed 161.00 sec | |
| Start 150: channel_benchmark_sscx::coreneuron_cpu_filemode | |
| 45/158 Test #92: testcorenrn_gf::coreneuron_gpu_offline ............................. Passed 103.37 sec | |
| Start 99: testcorenrn_patstim::neuron | |
| 46/158 Test #100: testcorenrn_patstim::coreneuron_gpu_offline_saverestore ............ Passed 207.40 sec | |
| Start 1: testneuron | |
| 47/158 Test #1: testneuron ......................................................... Passed 0.09 sec | |
| Start 2: ringtest | |
| 48/158 Test #144: channel_benchmark_hippo::coreneuron_cpu_filemode ................... Passed 126.57 sec | |
| Start 3: connect_dend | |
| 49/158 Test #3: connect_dend ....................................................... Passed 0.32 sec | |
| Start 4: mpi_init::nrniv_mpiopt | |
| 50/158 Test #2: ringtest ........................................................... Passed 1.02 sec | |
| Start 5: mpi_init::nrniv_nrnmpi_init | |
| 51/158 Test #4: mpi_init::nrniv_mpiopt ............................................. Passed 0.73 sec | |
| Start 6: mpi_init::python_nrnmpi_init | |
| 52/158 Test #5: mpi_init::nrniv_nrnmpi_init ........................................ Passed 0.40 sec | |
| Start 7: mpi_init::python_mpienv | |
| 53/158 Test #6: mpi_init::python_nrnmpi_init ....................................... Passed 1.26 sec | |
| Start 8: mpi_init::nrniv_mpiexec_mpiopt | |
| 54/158 Test #7: mpi_init::python_mpienv ............................................ Passed 1.74 sec | |
| Start 9: mpi_init::nrniv_mpiexec_nrnmpi_init | |
| 55/158 Test #99: testcorenrn_patstim::neuron ........................................ Passed 3.62 sec | |
| Start 103: testcorenrn_patstim::coreneuron_cpu_offline_saverestore | |
| 56/158 Test #8: mpi_init::nrniv_mpiexec_mpiopt ..................................... Passed 1.50 sec | |
| Start 10: mpi_init::python_mpiexec_nrnmpi_init | |
| 57/158 Test #9: mpi_init::nrniv_mpiexec_nrnmpi_init ................................ Passed 1.38 sec | |
| Start 11: mpi_init::python_mpiexec_mpienv | |
| 58/158 Test #10: mpi_init::python_mpiexec_nrnmpi_init ............................... Passed 1.85 sec | |
| Start 12: pynrn_tests::basic_tests | |
| 59/158 Test #11: mpi_init::python_mpiexec_mpienv .................................... Passed 2.84 sec | |
| Start 13: parallel_tests | |
| 60/158 Test #12: pynrn_tests::basic_tests ........................................... Passed 6.20 sec | |
| Start 14: parallel_partrans | |
| 61/158 Test #13: parallel_tests ..................................................... Passed 6.63 sec | |
| Start 15: parallel_netpar | |
| 62/158 Test #15: parallel_netpar .................................................... Passed 4.28 sec | |
| Start 16: parallel_bas | |
| 63/158 Test #14: parallel_partrans .................................................. Passed 8.39 sec | |
| Start 17: coreneuron_modtests::fornetcon_py_cpu | |
| 64/158 Test #94: testcorenrn_gf::coreneuron_cpu_online .............................. Passed 107.00 sec | |
| Start 104: testcorenrn_patstim::coreneuron_cpu_offline | |
| 65/158 Test #16: parallel_bas ....................................................... Passed 5.01 sec | |
| Start 18: coreneuron_modtests::direct_py_cpu | |
| 66/158 Test #95: testcorenrn_gf::coreneuron_cpu_online_psolve_alternate ............. Passed 88.12 sec | |
| Start 107: testcorenrn_vecplay::neuron | |
| 67/158 Test #107: testcorenrn_vecplay::neuron ........................................ Passed 3.95 sec | |
| Start 108: testcorenrn_vecplay::coreneuron_gpu_online | |
| 68/158 Test #147: channel_benchmark_sscx::coreneuron_gpu_online ...................... Passed 107.11 sec | |
| Start 19: coreneuron_modtests::direct_hoc_cpu | |
| 69/158 Test #58: external_ringtest::coreneuron_cpu_mpi_offline_saverestore .......... Passed 276.92 sec | |
| Start 109: testcorenrn_vecplay::coreneuron_gpu_online_psolve_alternate | |
| 70/158 Test #96: testcorenrn_gf::coreneuron_cpu_offline ............................. Passed 62.97 sec | |
| Start 110: testcorenrn_vecplay::coreneuron_gpu_offline | |
| 71/158 Test #148: channel_benchmark_sscx::coreneuron_gpu_filemode .................... Passed 92.84 sec | |
| Start 20: coreneuron_modtests::spikes_py_cpu | |
| 72/158 Test #17: coreneuron_modtests::fornetcon_py_cpu .............................. Passed 34.10 sec | |
| Start 21: coreneuron_modtests::spikes_file_mode_py_cpu | |
| 73/158 Test #18: coreneuron_modtests::direct_py_cpu ................................. Passed 31.41 sec | |
| Start 22: coreneuron_modtests::fast_imem_py_cpu | |
| 74/158 Test #22: coreneuron_modtests::fast_imem_py_cpu .............................. Passed 1.04 sec | |
| Start 23: coreneuron_modtests::datareturn_py_cpu | |
| 75/158 Test #149: channel_benchmark_sscx::coreneuron_cpu_online ...................... Passed 96.64 sec | |
| Start 24: coreneuron_modtests::test_units_py_cpu | |
| 76/158 Test #104: testcorenrn_patstim::coreneuron_cpu_offline ........................ Passed 33.39 sec | |
| Start 112: testcorenrn_vecplay::coreneuron_cpu_online | |
| 77/158 Test #150: channel_benchmark_sscx::coreneuron_cpu_filemode .................... Passed 56.46 sec | |
| Start 25: coreneuron_modtests::test_netmove_py_cpu | |
| 78/158 Test #108: testcorenrn_vecplay::coreneuron_gpu_online ......................... Passed 33.74 sec | |
| Start 113: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate | |
| 79/158 Test #19: coreneuron_modtests::direct_hoc_cpu ................................ Passed 35.59 sec | |
| Start 26: coreneuron_modtests::test_pointer_py_cpu | |
| 80/158 Test #20: coreneuron_modtests::spikes_py_cpu ................................. Passed 35.03 sec | |
| Start 27: coreneuron_modtests::test_watchrange_py_cpu | |
| 81/158 Test #110: testcorenrn_vecplay::coreneuron_gpu_offline ........................ Passed 44.03 sec | |
| Start 114: testcorenrn_vecplay::coreneuron_cpu_offline | |
| 82/158 Test #21: coreneuron_modtests::spikes_file_mode_py_cpu ....................... Passed 33.61 sec | |
| Start 28: coreneuron_modtests::test_psolve_py_cpu | |
| 83/158 Test #24: coreneuron_modtests::test_units_py_cpu ............................. Passed 35.15 sec | |
| Start 29: coreneuron_modtests::test_ba_py_cpu | |
| 84/158 Test #25: coreneuron_modtests::test_netmove_py_cpu ........................... Passed 39.30 sec | |
| Start 30: coreneuron_modtests::test_natrans_py_cpu | |
| 85/158 Test #23: coreneuron_modtests::datareturn_py_cpu ............................. Passed 40.29 sec | |
| Start 34: coreneuron_modtests::fornetcon_py_gpu | |
| 86/158 Test #112: testcorenrn_vecplay::coreneuron_cpu_online ......................... Passed 40.42 sec | |
| Start 127: testcorenrn_watch::neuron | |
| 87/158 Test #109: testcorenrn_vecplay::coreneuron_gpu_online_psolve_alternate ........ Passed 60.71 sec | |
| Start 128: testcorenrn_watch::coreneuron_gpu_online | |
| 88/158 Test #103: testcorenrn_patstim::coreneuron_cpu_offline_saverestore ............ Passed 93.90 sec | |
| Start 129: testcorenrn_watch::coreneuron_gpu_online_psolve_alternate | |
| 89/158 Test #127: testcorenrn_watch::neuron .......................................... Passed 1.53 sec | |
| Start 130: testcorenrn_watch::coreneuron_gpu_offline | |
| 90/158 Test #113: testcorenrn_vecplay::coreneuron_cpu_online_psolve_alternate ........ Passed 69.55 sec | |
| Start 132: testcorenrn_watch::coreneuron_cpu_online | |
| 91/158 Test #27: coreneuron_modtests::test_watchrange_py_cpu ........................ Passed 57.48 sec | |
| Start 35: coreneuron_modtests::direct_py_gpu | |
| 92/158 Test #29: coreneuron_modtests::test_ba_py_cpu ................................ Passed 48.67 sec | |
| Start 36: coreneuron_modtests::direct_hoc_gpu | |
| 93/158 Test #28: coreneuron_modtests::test_psolve_py_cpu ............................ Passed 51.99 sec | |
| Start 37: coreneuron_modtests::spikes_py_gpu | |
| 94/158 Test #30: coreneuron_modtests::test_natrans_py_cpu ........................... Passed 45.19 sec | |
| Start 38: coreneuron_modtests::spikes_file_mode_py_gpu | |
| 95/158 Test #114: testcorenrn_vecplay::coreneuron_cpu_offline ........................ Passed 60.65 sec | |
| Start 133: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate | |
| 96/158 Test #34: coreneuron_modtests::fornetcon_py_gpu .............................. Passed 50.37 sec | |
| Start 39: coreneuron_modtests::fast_imem_py_gpu | |
| 97/158 Test #39: coreneuron_modtests::fast_imem_py_gpu .............................. Passed 0.67 sec | |
| Start 40: coreneuron_modtests::datareturn_py_gpu | |
| 98/158 Test #130: testcorenrn_watch::coreneuron_gpu_offline .......................... Passed 58.40 sec | |
| Start 134: testcorenrn_watch::coreneuron_cpu_offline | |
| 99/158 Test #128: testcorenrn_watch::coreneuron_gpu_online ........................... Passed 59.29 sec | |
| Start 137: testcorenrn_netstimdirect::direct_netstimdirect | |
| 100/158 Test #129: testcorenrn_watch::coreneuron_gpu_online_psolve_alternate .......... Passed 59.14 sec | |
| Start 138: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate | |
| 101/158 Test #35: coreneuron_modtests::direct_py_gpu ................................. Passed 25.44 sec | |
| Start 41: coreneuron_modtests::test_units_py_gpu | |
| 102/158 Test #132: testcorenrn_watch::coreneuron_cpu_online ........................... Passed 32.21 sec | |
| Start 31: coreneuron_modtests::spikes_mpi_py_cpu | |
| 103/158 Test #37: coreneuron_modtests::spikes_py_gpu ................................. Passed 29.79 sec | |
| Start 42: coreneuron_modtests::test_netmove_py_gpu | |
| 104/158 Test #38: coreneuron_modtests::spikes_file_mode_py_gpu ....................... Passed 30.00 sec | |
| Start 43: coreneuron_modtests::test_pointer_py_gpu | |
| 105/158 Test #133: testcorenrn_watch::coreneuron_cpu_online_psolve_alternate .......... Passed 32.18 sec | |
| Start 32: coreneuron_modtests::spikes_mpi_file_mode_py_cpu | |
| 106/158 Test #36: coreneuron_modtests::direct_hoc_gpu ................................ Passed 35.93 sec | |
| Start 44: coreneuron_modtests::test_watchrange_py_gpu | |
| 107/158 Test #40: coreneuron_modtests::datareturn_py_gpu ............................. Passed 28.73 sec | |
| Start 45: coreneuron_modtests::test_psolve_py_gpu | |
| 108/158 Test #138: testcorenrn_netstimdirect::direct_netstimdirect_psolve_alternate ... Passed 33.74 sec | |
| Start 33: coreneuron_modtests::inputpresyn_py_cpu | |
| 109/158 Test #134: testcorenrn_watch::coreneuron_cpu_offline .......................... Passed 34.97 sec | |
| Start 46: coreneuron_modtests::test_ba_py_gpu | |
| Start 47: coreneuron_modtests::test_natrans_py_gpu | |
| 110/158 Test #137: testcorenrn_netstimdirect::direct_netstimdirect .................... Passed 35.02 sec | |
| Start 48: coreneuron_modtests::spikes_mpi_py_gpu | |
| 111/158 Test #42: coreneuron_modtests::test_netmove_py_gpu ........................... Passed 25.09 sec | |
| Start 51: external_nrntest | |
| 112/158 Test #41: coreneuron_modtests::test_units_py_gpu ............................. Passed 32.73 sec | |
| Start 78: testcorenrn_bbcore::compare_results | |
| 113/158 Test #78: testcorenrn_bbcore::compare_results ................................ Passed 0.07 sec | |
| Start 88: testcorenrn_deriv::compare_results | |
| 114/158 Test #88: testcorenrn_deriv::compare_results ................................. Passed 0.06 sec | |
| Start 98: testcorenrn_gf::compare_results | |
| 115/158 Test #98: testcorenrn_gf::compare_results .................................... Passed 0.07 sec | |
| Start 106: testcorenrn_patstim::compare_results | |
| 116/158 Test #106: testcorenrn_patstim::compare_results ............................... Passed 0.19 sec | |
| Start 116: testcorenrn_vecplay::compare_results | |
| 117/158 Test #116: testcorenrn_vecplay::compare_results ............................... Passed 0.07 sec | |
| Start 136: testcorenrn_watch::compare_results | |
| 118/158 Test #136: testcorenrn_watch::compare_results ................................. Passed 0.07 sec | |
| Start 139: testcorenrn_netstimdirect::compare_results | |
| 119/158 Test #139: testcorenrn_netstimdirect::compare_results ......................... Passed 0.07 sec | |
| Start 145: channel_benchmark_hippo::compare_results | |
| 120/158 Test #145: channel_benchmark_hippo::compare_results ........................... Passed 0.11 sec | |
| Start 151: channel_benchmark_sscx::compare_results | |
| 121/158 Test #151: channel_benchmark_sscx::compare_results ............................ Passed 0.18 sec | |
| 122/158 Test #31: coreneuron_modtests::spikes_mpi_py_cpu ............................. Passed 33.41 sec | |
| Start 49: coreneuron_modtests::spikes_mpi_file_mode_py_gpu | |
| 123/158 Test #45: coreneuron_modtests::test_psolve_py_gpu ............................ Passed 22.66 sec | |
| Start 50: coreneuron_modtests::inputpresyn_py_gpu | |
| 124/158 Test #44: coreneuron_modtests::test_watchrange_py_gpu ........................ Passed 22.81 sec | |
| 125/158 Test #32: coreneuron_modtests::spikes_mpi_file_mode_py_cpu ................... Passed 26.46 sec | |
| 126/158 Test #46: coreneuron_modtests::test_ba_py_gpu ................................ Passed 11.50 sec | |
| Start 121: testcorenrn_vecevent::coreneuron_gpu_offline::preparation | |
| 127/158 Test #47: coreneuron_modtests::test_natrans_py_gpu ........................... Passed 11.94 sec | |
| 128/158 Test #33: coreneuron_modtests::inputpresyn_py_cpu ............................ Passed 14.29 sec | |
| 129/158 Test #48: coreneuron_modtests::spikes_mpi_py_gpu ............................. Passed 15.25 sec | |
| Start 125: testcorenrn_vecevent::coreneuron_cpu_offline::preparation | |
| 130/158 Test #121: testcorenrn_vecevent::coreneuron_gpu_offline::preparation .......... Passed 5.70 sec | |
| Start 153: olfactory-bulb-3d::neuron::preparation | |
| 131/158 Test #153: olfactory-bulb-3d::neuron::preparation ............................. Passed 0.16 sec | |
| Start 155: olfactory-bulb-3d::coreneuron_gpu_online::preparation | |
| 132/158 Test #155: olfactory-bulb-3d::coreneuron_gpu_online::preparation .............. Passed 0.23 sec | |
| Start 157: olfactory-bulb-3d::coreneuron_cpu_online::preparation | |
| 133/158 Test #157: olfactory-bulb-3d::coreneuron_cpu_online::preparation .............. Passed 0.42 sec | |
| Start 52: reduced_dentate::neuron | |
| 134/158 Test #49: coreneuron_modtests::spikes_mpi_file_mode_py_gpu ................... Passed 15.34 sec | |
| 135/158 Test #125: testcorenrn_vecevent::coreneuron_cpu_offline::preparation .......... Passed 5.28 sec | |
| Start 53: reduced_dentate::coreneuron_cpu | |
| 136/158 Test #50: coreneuron_modtests::inputpresyn_py_gpu ............................ Passed 15.24 sec | |
| Start 54: reduced_dentate::coreneuron_gpu | |
| 137/158 Test #26: coreneuron_modtests::test_pointer_py_cpu ........................... Passed 147.80 sec | |
| 138/158 Test #52: reduced_dentate::neuron ............................................ Passed 12.78 sec | |
| Start 62: external_ringtest::coreneuron_cpu_mpi_threads | |
| 139/158 Test #43: coreneuron_modtests::test_pointer_py_gpu ........................... Passed 55.80 sec | |
| 140/158 Test #62: external_ringtest::coreneuron_cpu_mpi_threads ...................... Passed 35.56 sec | |
| Start 67: external_ringtest::coreneuron_gpu_mpi_threads | |
| 141/158 Test #53: reduced_dentate::coreneuron_cpu .................................... Passed 53.42 sec | |
| Start 117: testcorenrn_vecevent::neuron | |
| 142/158 Test #54: reduced_dentate::coreneuron_gpu .................................... Passed 52.20 sec | |
| Start 118: testcorenrn_vecevent::coreneuron_gpu_online | |
| Start 55: reduced_dentate::compare_results | |
| 143/158 Test #55: reduced_dentate::compare_results ................................... Passed 1.72 sec | |
| 144/158 Test #117: testcorenrn_vecevent::neuron ....................................... Passed 7.65 sec | |
| Start 119: testcorenrn_vecevent::coreneuron_gpu_online_psolve_alternate | |
| 145/158 Test #67: external_ringtest::coreneuron_gpu_mpi_threads ...................... Passed 26.96 sec | |
| Start 120: testcorenrn_vecevent::coreneuron_gpu_offline | |
| Start 68: external_ringtest::compare_results | |
| 146/158 Test #68: external_ringtest::compare_results ................................. Passed 0.07 sec | |
| 147/158 Test #118: testcorenrn_vecevent::coreneuron_gpu_online ........................ Passed 32.99 sec | |
| Start 122: testcorenrn_vecevent::coreneuron_cpu_online | |
| 148/158 Test #120: testcorenrn_vecevent::coreneuron_gpu_offline ....................... Passed 27.79 sec | |
| Start 123: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate | |
| 149/158 Test #119: testcorenrn_vecevent::coreneuron_gpu_online_psolve_alternate ....... Passed 39.73 sec | |
| Start 124: testcorenrn_vecevent::coreneuron_cpu_offline | |
| 150/158 Test #124: testcorenrn_vecevent::coreneuron_cpu_offline ....................... Passed 15.31 sec | |
| Start 152: olfactory-bulb-3d::neuron | |
| 151/158 Test #122: testcorenrn_vecevent::coreneuron_cpu_online ........................ Passed 29.46 sec | |
| Start 154: olfactory-bulb-3d::coreneuron_gpu_online | |
| 152/158 Test #123: testcorenrn_vecevent::coreneuron_cpu_online_psolve_alternate ....... Passed 17.49 sec | |
| Start 156: olfactory-bulb-3d::coreneuron_cpu_online | |
| Start 126: testcorenrn_vecevent::compare_results | |
| 153/158 Test #126: testcorenrn_vecevent::compare_results .............................. Passed 5.25 sec | |
| 154/158 Test #51: external_nrntest ................................................... Passed 166.46 sec | |
| 155/158 Test #152: olfactory-bulb-3d::neuron .......................................... Passed 130.00 sec | |
| 156/158 Test #154: olfactory-bulb-3d::coreneuron_gpu_online ........................... Passed 172.26 sec | |
| 157/158 Test #156: olfactory-bulb-3d::coreneuron_cpu_online ........................... Passed 175.33 sec | |
| Start 158: olfactory-bulb-3d::compare_results | |
| 158/158 Test #158: olfactory-bulb-3d::compare_results ................................. Passed 0.23 sec | |
| 100% tests passed, 0 tests failed out of 158 | |
| Total Test time (real) = 767.99 sec | |
| [32;1m$ cp -r Testing/ ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ module load unstable unit-test-translator[0;m | |
| Autoloading python/3.9.7 | |
| [32;1m$ cmake2junit > ${CI_PROJECT_DIR}/ctest.xml[0;m | |
| [32;1m$ exit ${i_am_a_failure}[0;m | |
| section_end:1646917737:step_script [0Ksection_start:1646917737: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=9067 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=181149 responseStatus[0;m=201 Created token[0;m=XFDRzmJj | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=9119 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=181149 responseStatus[0;m=201 Created token[0;m=XFDRzmJj | |
| section_end:1646917738:upload_artifacts_on_success [0Ksection_start:1646917738:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1646917739:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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