bbpbuildbot/GitLab logs for bluebrain-coreneuron#844 Secret

## build-coreneuron-mod2c-intel-shared-debug.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427101:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427101:resolve_secrets
[0Ksection_start:1670427101: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor4117462792, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463631
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463631_PROD_P112_CP1_C14
Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055805
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G   --job-name=GL_J463631_PROD_P112_CP1_C14 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055805 --cpus-per-task=8 --mem=76G
section_end:1670427125:prepare_executor
[0Ksection_start:1670427125:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i5n25 via bbpv1.epfl.ch...
section_end:1670427129:prepare_script
[0Ksection_start:1670427129:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427130:get_sources
[0Ksection_start:1670427130:restore_cache
[0K[0K[36;1mRestoring cache[0;m[0;m
Using git from spack modules
[32;1mChecking cache for build:coreneuron:mod2c:intel:shared:debug-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=204807 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:1670427134:restore_cache
[0Ksection_start:1670427134:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for spack_setup (463628)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=205166 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463628 responseStatus[0;m=200 OK token[0;m=wRNM1AhA
section_end:1670427135:download_artifacts
[0Ksection_start:1670427135: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
Using git from spack modules
[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/P89228/J463631/spack-config/config.yaml:2                  build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463631/spack-config/config.yaml:3                  - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463631/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463631/spack-config/config.yaml:4                  source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463631/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Temporary locations Spack can try to use for builds.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Recommended options are given below.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Builds can be faster in temporary directories on some (e.g., HPC) systems.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Specifying `$tempdir` will ensure use of the default temporary directory
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # (i.e., ``$TMP` or ``$TMPDIR``).
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # to specify `$user_cache_path/stage`, which ensures each user builds in their
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # home directory.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # A more traditional path uses the value of `$spack/var/spack/stage`, which
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # pip installable.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # users in shared temporary spaces.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73     test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82     misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94     connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99     verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107    suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113    install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118    checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123    deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128    dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136    build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145    locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150    url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176    concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183    db_lock_timeout: 300
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191    package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197    shared_linking: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202    allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463631_local_config)
[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n  insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = git@bbpgitlab.epfl.ch:
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = ssh://git@bbpgitlab.epfl.ch/
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
Preparing to install coreneuron%intel +caliper~gpu~legacy-unit~nmodl~openmp+shared+tests~unified build_type=Debug ^hpe-mpi%gcc ^caliper%gcc+cuda cuda_arch=70
[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
==> Warning: Missing a source id for libsonata-report@1.1.1_lfp
[32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m
Determined its hash will be udoqinvar6cp75viyxkh44mgzbht4q76
[32;1m$ 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=${CCACHE_BASEDIR}[0;m
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228
[32;1m$ 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/bbpcihpcproj12/1055805/ccache
  Primary config:   /nvme/bbpcihpcproj12/1055805/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:    Wed Dec  7 16:32:47 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 (44.45 %)
  Files:            3200
[32;1m$ fi[0;m
[32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m
[32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m
==> Error: No installed spec matches the hash: 'udoqinvar6cp75viyxkh44mgzbht4q76'
[32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m
Input spec
--------------------------------
 -   coreneuron%intel+caliper~gpu~legacy-unit~nmodl~openmp+shared+tests~unified build_type=Debug
 -       ^caliper%gcc+cuda cuda_arch=70
 -       ^hpe-mpi%gcc

Concretized
--------------------------------
 -   udoqinv  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
[^]  rdrurry      ^boost@1.79.0%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
[^]  pfqy3p5      ^caliper@2.7.0%gcc@11.2.0+adiak+cuda~fortran+gotcha~ipo+libdw~libpfm+libunwind+mpi+papi+sampler+shared~sosflow build_type=RelWithDebInfo cuda_arch=70 arch=linux-rhel7-skylake
[^]  at3kmf2          ^adiak@0.2.1%gcc@11.2.0~ipo+mpi+shared build_type=RelWithDebInfo 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
[^]  hyunzkn              ^hpe-mpi@2.25.hmpt%gcc@11.2.0 arch=linux-rhel7-skylake
[^]  wu42aul          ^cuda@11.6.1%gcc@11.2.0~allow-unsupported-compilers~dev arch=linux-rhel7-skylake
[^]  p6adpyi          ^elfutils@0.186%gcc@11.2.0~bzip2~debuginfod+nls~xz 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
[^]  ihxi5rl                      ^pkgconf@1.8.0%gcc@11.2.0 arch=linux-rhel7-skylake
[^]  jzpqn5y                      ^xz@5.2.5%gcc@11.2.0~pic libs=shared,static arch=linux-rhel7-skylake
[^]  evtnqzd                      ^zlib@1.2.11%gcc@11.2.0+optimize+pic+shared 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
 -   bmpk6ez              ^m4@1.4.16%gcc@11.2.0+sigsegv arch=linux-rhel7-skylake
[^]  gc2ivgg          ^libunwind@1.5.0%gcc@11.2.0~block_signals~conservative_checks~cxx_exceptions~debug~debug_frame+docs~pic+tests+weak_backtrace~xz~zlib components=none libs=shared,static arch=linux-rhel7-skylake
[^]  vcit7s5          ^papi@6.0.0.1%gcc@11.2.0~cuda+example~infiniband~lmsensors~nvml~powercap~rapl~rocm~rocm_smi~sde+shared~static_tools amdgpu_target=none 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
 -   s4ueg72      ^flex@2.6.3%intel@2021.4.0+lex~nls arch=linux-rhel7-skylake
 -   za4z336      ^libsonata-report@1.1.1_lfp%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
[^]  r74vcyb          ^spdlog@1.9.2%gcc@11.2.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake
[^]  7lotjqk              ^fmt@8.1.1%gcc@11.2.0~ipo+pic~shared build_type=RelWithDebInfo cxxstd=11 arch=linux-rhel7-skylake
 -   6ggc5yr      ^ninja@1.10.2%intel@2021.4.0 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-1.79.0-zoxhho (external boost-1.79.0-rdrurryqe5eahijb4xf6mbqfryg7ezod)
==> 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)
==> 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)
==> cuda@11.6.1 : has external module in ['cuda/11.6.1']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cuda-11.6.1-ngetva (external cuda-11.6.1-wu42aulcivrayjquerqpqvvjeadgosp2)
[+] /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/pkgconf-1.8.0-ihxi5r
[+] /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/zlib-1.2.11-mswjss (external zlib-1.2.11-evtnqzdtuvprwnbd2nljimpzywrhw4uo)
[+] /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)
[+] /usr (external m4-1.4.16-bmpk6ezkxo3553jsm5thxh7ygtrom3dn)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libunwind-1.5.0-gc2ivg
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/papi-6.0.0.1-vcit7s
==> 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)
==> 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)
==> 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_applications/install_gcc-11.2.0-skylake/fmt-8.1.1-7lotjq
[+] /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/adiak-0.2.1-at3kmf
[+] /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/hdf5-1.10.7-utj47f
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/spdlog-1.9.2-r74vcy
[+] /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/elfutils-0.186-p6adpy
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/software/install_gcc-11.2.0-skylake/libsonata-report-1.1.1_lfp-za4z33
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/caliper-2.7.0-pfqy3p
==> Installing coreneuron-develop-udoqinvar6cp75viyxkh44mgzbht4q76
==> No binary for coreneuron-develop-udoqinvar6cp75viyxkh44mgzbht4q76 found: installing from source
==> Warning: Missing a source id for libsonata-report@1.1.1_lfp
==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228, but it is owned by 0
==> No patches needed for coreneuron
==> coreneuron: Executing phase: 'cmake'
==> coreneuron: Executing phase: 'build'
==> coreneuron: Executing phase: 'install'
==> coreneuron: Successfully installed coreneuron-develop-udoqinvar6cp75viyxkh44mgzbht4q76
  Fetch: 7.60s.  Build: 4m 11.40s.  Total: 4m 19.00s.
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/software/install_intel-2021.4.0-skylake/coreneuron-develop-udoqin
[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/bbpcihpcproj12/1055805/ccache
  Primary config:     /nvme/bbpcihpcproj12/1055805/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:      Wed Dec  7 16:38:26 2022
  Hits:                106 /  117 (90.60 %)
    Direct:             88 /  117 (75.21 %)
    Preprocessed:       18 /   29 (62.07 %)
  Misses:               11
    Direct:             29
    Preprocessed:       11
  Uncacheable:          23
Primary storage:
  Hits:                194 /  234 (82.91 %)
  Misses:               40
  Cache size (GB):    0.23 / 0.51 (44.54 %)
  Files:              3222
Uncacheable:
  Called for linking:   20
  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}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m
[32;1m$ SPACK_PACKAGE_SLUGIFY=$(echo -n ${SPACK_PACKAGE} | tr -c '[:alnum:]' '_' | tr '[:lower:]' '[:upper:]')[0;m
[32;1m$ echo "${SPACK_PACKAGE_SLUGIFY}_INSTALLED_HASH=${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 hpe-mpi/2.25.hmpt
[32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m
section_end:1670427509:step_script
[0Ksection_start:1670427509:archive_cache
[0K[0K[36;1mSaving cache for successful job[0;m[0;m
Using git from spack modules
[32;1mCreating cache build:coreneuron:mod2c:intel:shared:debug-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=216109 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%3Ashared%3Adebug-8-non_protected[0;m
[32;1mCreated cache[0;m
section_end:1670427521:archive_cache
[0Ksection_start:1670427521:upload_artifacts_on_success
[0K[0K[36;1mUploading artifacts for successful job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=216509 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=463631 responseStatus[0;m=201 Created token[0;m=wRNM1AhA
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=216566 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=463631 responseStatus[0;m=201 Created token[0;m=wRNM1AhA
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=216620 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=463631 responseStatus[0;m=201 Created token[0;m=wRNM1AhA
section_end:1670427523:upload_artifacts_on_success
[0Ksection_start:1670427523:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427524:cleanup_file_variables
[0K[32;1mJob succeeded[0;m

## build-coreneuron-mod2c-nvhpc-acc-debug-unified.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427102:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427102:resolve_secrets
[0Ksection_start:1670427102: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor1944787654, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463634
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463634_PROD_P112_CP2_C15
Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055806
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G   --job-name=GL_J463634_PROD_P112_CP2_C15 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055806 --cpus-per-task=8 --mem=76G
section_end:1670427125:prepare_executor
[0Ksection_start:1670427125:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i5n25 via bbpv1.epfl.ch...
section_end:1670427129:prepare_script
[0Ksection_start:1670427129:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427130:get_sources
[0Ksection_start:1670427130:restore_cache
[0K[0K[36;1mRestoring cache[0;m[0;m
Using git from spack modules
[32;1mChecking cache for build:coreneuron:mod2c:nvhpc:acc:debug:unified-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=204915 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:1670427135:restore_cache
[0Ksection_start:1670427135:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for spack_setup (463628)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=205411 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463628 responseStatus[0;m=200 OK token[0;m=xu2qu-qH
section_end:1670427136:download_artifacts
[0Ksection_start:1670427136: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
Using git from spack modules
[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/P89228/J463634/spack-config/config.yaml:2                  build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463634/spack-config/config.yaml:3                  - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463634/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463634/spack-config/config.yaml:4                  source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463634/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Temporary locations Spack can try to use for builds.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Recommended options are given below.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Builds can be faster in temporary directories on some (e.g., HPC) systems.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Specifying `$tempdir` will ensure use of the default temporary directory
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # (i.e., ``$TMP` or ``$TMPDIR``).
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # to specify `$user_cache_path/stage`, which ensures each user builds in their
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # home directory.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # A more traditional path uses the value of `$spack/var/spack/stage`, which
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # pip installable.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # users in shared temporary spaces.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73     test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82     misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94     connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99     verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107    suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113    install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118    checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123    deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128    dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136    build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145    locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150    url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176    concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183    db_lock_timeout: 300
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191    package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197    shared_linking: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202    allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463634_local_config)
[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n  insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = git@bbpgitlab.epfl.ch:
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = ssh://git@bbpgitlab.epfl.ch/
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
Preparing to install coreneuron%nvhpc +caliper+gpu~legacy-unit~nmodl+openmp~shared+tests+unified build_type=Debug ^hpe-mpi%gcc ^caliper%gcc+cuda cuda_arch=70
[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
==> Warning: Missing a source id for libsonata-report@1.1.1_lfp
[32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m
Determined its hash will be 2asi2me356b2upp2q2whulfko55yuxye
[32;1m$ 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=${CCACHE_BASEDIR}[0;m
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228
[32;1m$ 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/bbpcihpcproj12/1055806/ccache
  Primary config:   /nvme/bbpcihpcproj12/1055806/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:    Wed Dec  7 16:32:48 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):  0.24 / 0.51 (45.94 %)
  Files:            3122
[32;1m$ fi[0;m
[32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m
[32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m
==> Error: No installed spec matches the hash: '2asi2me356b2upp2q2whulfko55yuxye'
[32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m
Input spec
--------------------------------
 -   coreneuron%nvhpc+caliper+gpu~legacy-unit~nmodl+openmp~shared+tests+unified build_type=Debug
 -       ^caliper%gcc+cuda cuda_arch=70
 -       ^hpe-mpi%gcc

Concretized
--------------------------------
 -   2asi2me  coreneuron@develop%nvhpc@22.3+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
 -   6s6wcfe      ^bison@3.8.2%nvhpc@22.3 arch=linux-rhel7-skylake
[^]  fnw44jf      ^boost@1.79.0%nvhpc@22.3+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
[^]  pfqy3p5      ^caliper@2.7.0%gcc@11.2.0+adiak+cuda~fortran+gotcha~ipo+libdw~libpfm+libunwind+mpi+papi+sampler+shared~sosflow build_type=RelWithDebInfo cuda_arch=70 arch=linux-rhel7-skylake
[^]  at3kmf2          ^adiak@0.2.1%gcc@11.2.0~ipo+mpi+shared build_type=RelWithDebInfo 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
[^]  hyunzkn              ^hpe-mpi@2.25.hmpt%gcc@11.2.0 arch=linux-rhel7-skylake
[^]  wu42aul          ^cuda@11.6.1%gcc@11.2.0~allow-unsupported-compilers~dev arch=linux-rhel7-skylake
[^]  p6adpyi          ^elfutils@0.186%gcc@11.2.0~bzip2~debuginfod+nls~xz 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
[^]  ihxi5rl                      ^pkgconf@1.8.0%gcc@11.2.0 arch=linux-rhel7-skylake
[^]  jzpqn5y                      ^xz@5.2.5%gcc@11.2.0~pic libs=shared,static arch=linux-rhel7-skylake
[^]  evtnqzd                      ^zlib@1.2.11%gcc@11.2.0+optimize+pic+shared 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
 -   bmpk6ez              ^m4@1.4.16%gcc@11.2.0+sigsegv arch=linux-rhel7-skylake
[^]  gc2ivgg          ^libunwind@1.5.0%gcc@11.2.0~block_signals~conservative_checks~cxx_exceptions~debug~debug_frame+docs~pic+tests+weak_backtrace~xz~zlib components=none libs=shared,static arch=linux-rhel7-skylake
[^]  vcit7s5          ^papi@6.0.0.1%gcc@11.2.0~cuda+example~infiniband~lmsensors~nvml~powercap~rapl~rocm~rocm_smi~sde+shared~static_tools amdgpu_target=none 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
 -   ajxdymq      ^flex@2.6.3%nvhpc@22.3+lex~nls arch=linux-rhel7-skylake
 -   za4z336      ^libsonata-report@1.1.1_lfp%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
[^]  r74vcyb          ^spdlog@1.9.2%gcc@11.2.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake
[^]  7lotjqk              ^fmt@8.1.1%gcc@11.2.0~ipo+pic~shared build_type=RelWithDebInfo cxxstd=11 arch=linux-rhel7-skylake
 -   cp3ofsp      ^ninja@1.10.2%nvhpc@22.3 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-3.8.2-6s6wcfeanp2mkdib4c3n3ivkcuosopgm)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/boost-1.79.0-zoxhho (external boost-1.79.0-fnw44jfbxyivagsnavjnk6zdaghmffbt)
==> 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)
==> 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)
==> cuda@11.6.1 : has external module in ['cuda/11.6.1']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cuda-11.6.1-ngetva (external cuda-11.6.1-wu42aulcivrayjquerqpqvvjeadgosp2)
[+] /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/pkgconf-1.8.0-ihxi5r
[+] /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/zlib-1.2.11-mswjss (external zlib-1.2.11-evtnqzdtuvprwnbd2nljimpzywrhw4uo)
[+] /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)
[+] /usr (external m4-1.4.16-bmpk6ezkxo3553jsm5thxh7ygtrom3dn)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libunwind-1.5.0-gc2ivg
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/papi-6.0.0.1-vcit7s
==> 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)
==> 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-ajxdymqhnzqgeuhvk5nu5zfymzq35n6i)
==> 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-cp3ofspgkdqaqih5vrhotmdwvkozfswp)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/fmt-8.1.1-7lotjq
[+] /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/adiak-0.2.1-at3kmf
[+] /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/hdf5-1.10.7-utj47f
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/spdlog-1.9.2-r74vcy
[+] /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/gitlab_map_jobs/bbpcihpcproj12/P89228/software/install_gcc-11.2.0-skylake/libsonata-report-1.1.1_lfp-za4z33
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/elfutils-0.186-p6adpy
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/caliper-2.7.0-pfqy3p
==> Installing coreneuron-develop-2asi2me356b2upp2q2whulfko55yuxye
==> No binary for coreneuron-develop-2asi2me356b2upp2q2whulfko55yuxye found: installing from source
==> Warning: Missing a source id for libsonata-report@1.1.1_lfp
==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228, but it is owned by 0
==> No patches needed for coreneuron
==> coreneuron: Executing phase: 'cmake'
==> coreneuron: Executing phase: 'build'
==> coreneuron: Executing phase: 'install'
==> coreneuron: Successfully installed coreneuron-develop-2asi2me356b2upp2q2whulfko55yuxye
  Fetch: 7.06s.  Build: 5m 3.42s.  Total: 5m 10.48s.
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/software/install_nvhpc-22.3-skylake/coreneuron-develop-2asi2m
[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/bbpcihpcproj12/1055806/ccache
  Primary config:     /nvme/bbpcihpcproj12/1055806/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:      Wed Dec  7 16:39:19 2022
  Hits:                106 /  116 (91.38 %)
    Direct:             88 /  116 (75.86 %)
    Preprocessed:       18 /   28 (64.29 %)
  Misses:               10
    Direct:             28
    Preprocessed:       10
  Uncacheable:          21
Primary storage:
  Hits:                194 /  232 (83.62 %)
  Misses:               38
  Cache size (GB):    0.24 / 0.51 (46.06 %)
  Files:              3142
Uncacheable:
  Called for linking:   18
  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}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m
[32;1m$ SPACK_PACKAGE_SLUGIFY=$(echo -n ${SPACK_PACKAGE} | tr -c '[:alnum:]' '_' | tr '[:lower:]' '[:upper:]')[0;m
[32;1m$ echo "${SPACK_PACKAGE_SLUGIFY}_INSTALLED_HASH=${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 hpe-mpi/2.25.hmpt
[32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m
section_end:1670427560:step_script
[0Ksection_start:1670427560:archive_cache
[0K[0K[36;1mSaving cache for successful job[0;m[0;m
Using git from spack modules
[32;1mCreating cache build:coreneuron:mod2c:nvhpc:acc:debug:unified-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=219294 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%3Adebug%3Aunified-8-non_protected[0;m
[32;1mCreated cache[0;m
section_end:1670427573:archive_cache
[0Ksection_start:1670427573:upload_artifacts_on_success
[0K[0K[36;1mUploading artifacts for successful job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=219799 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=463634 responseStatus[0;m=201 Created token[0;m=xu2qu-qH
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=219860 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=463634 responseStatus[0;m=201 Created token[0;m=xu2qu-qH
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=219881 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=463634 responseStatus[0;m=201 Created token[0;m=xu2qu-qH
section_end:1670427575:upload_artifacts_on_success
[0Ksection_start:1670427575:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427576:cleanup_file_variables
[0K[32;1mJob succeeded[0;m

## build-coreneuron-mod2c-nvhpc-acc-shared.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427102:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427102:resolve_secrets
[0Ksection_start:1670427102: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor27787462, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463635
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463635_PROD_P112_CP3_C33
Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055807
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G   --job-name=GL_J463635_PROD_P112_CP3_C33 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055807 --cpus-per-task=8 --mem=76G
section_end:1670427125:prepare_executor
[0Ksection_start:1670427125:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i4n26 via bbpv1.epfl.ch...
section_end:1670427129:prepare_script
[0Ksection_start:1670427129:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427130:get_sources
[0Ksection_start:1670427130:restore_cache
[0K[0K[36;1mRestoring cache[0;m[0;m
Using git from spack modules
[32;1mChecking cache for build:coreneuron:mod2c:nvhpc:acc:shared-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=263909 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:1670427136:restore_cache
[0Ksection_start:1670427136:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for spack_setup (463628)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=264021 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463628 responseStatus[0;m=200 OK token[0;m=X3avrdsg
section_end:1670427137:download_artifacts
[0Ksection_start:1670427137: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
Using git from spack modules
[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/P89228/J463635/spack-config/config.yaml:2                  build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463635/spack-config/config.yaml:3                  - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463635/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463635/spack-config/config.yaml:4                  source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463635/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Temporary locations Spack can try to use for builds.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Recommended options are given below.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Builds can be faster in temporary directories on some (e.g., HPC) systems.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Specifying `$tempdir` will ensure use of the default temporary directory
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # (i.e., ``$TMP` or ``$TMPDIR``).
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # to specify `$user_cache_path/stage`, which ensures each user builds in their
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # home directory.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # A more traditional path uses the value of `$spack/var/spack/stage`, which
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # pip installable.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # users in shared temporary spaces.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73     test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82     misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94     connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99     verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107    suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113    install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118    checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123    deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128    dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136    build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145    locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150    url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176    concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183    db_lock_timeout: 300
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191    package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197    shared_linking: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202    allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463635_local_config)
[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n  insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = git@bbpgitlab.epfl.ch:
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = ssh://git@bbpgitlab.epfl.ch/
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
Preparing to install coreneuron%nvhpc +caliper+gpu~legacy-unit~nmodl~openmp+shared+tests~unified build_type=RelWithDebInfo ^hpe-mpi%gcc ^caliper%gcc+cuda cuda_arch=70
[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
==> Warning: Missing a source id for libsonata-report@1.1.1_lfp
[32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m
Determined its hash will be w2z6dfwdq6k5tkwudhpbj7owhrne5qzi
[32;1m$ 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=${CCACHE_BASEDIR}[0;m
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228
[32;1m$ 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/bbpcihpcproj12/1055807/ccache
  Primary config:   /nvme/bbpcihpcproj12/1055807/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:    Wed Dec  7 16:32:47 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):  0.36 / 0.51 (71.16 %)
  Files:            4610
[32;1m$ fi[0;m
[32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m
[32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m
==> Error: No installed spec matches the hash: 'w2z6dfwdq6k5tkwudhpbj7owhrne5qzi'
[32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m
Input spec
--------------------------------
 -   coreneuron%nvhpc+caliper+gpu~legacy-unit~nmodl~openmp+shared+tests~unified build_type=RelWithDebInfo
 -       ^caliper%gcc+cuda cuda_arch=70
 -       ^hpe-mpi%gcc

Concretized
--------------------------------
 -   w2z6dfw  coreneuron@develop%nvhpc@22.3+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
 -   6s6wcfe      ^bison@3.8.2%nvhpc@22.3 arch=linux-rhel7-skylake
[^]  fnw44jf      ^boost@1.79.0%nvhpc@22.3+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
[^]  pfqy3p5      ^caliper@2.7.0%gcc@11.2.0+adiak+cuda~fortran+gotcha~ipo+libdw~libpfm+libunwind+mpi+papi+sampler+shared~sosflow build_type=RelWithDebInfo cuda_arch=70 arch=linux-rhel7-skylake
[^]  at3kmf2          ^adiak@0.2.1%gcc@11.2.0~ipo+mpi+shared build_type=RelWithDebInfo 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
[^]  hyunzkn              ^hpe-mpi@2.25.hmpt%gcc@11.2.0 arch=linux-rhel7-skylake
[^]  wu42aul          ^cuda@11.6.1%gcc@11.2.0~allow-unsupported-compilers~dev arch=linux-rhel7-skylake
[^]  p6adpyi          ^elfutils@0.186%gcc@11.2.0~bzip2~debuginfod+nls~xz 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
[^]  ihxi5rl                      ^pkgconf@1.8.0%gcc@11.2.0 arch=linux-rhel7-skylake
[^]  jzpqn5y                      ^xz@5.2.5%gcc@11.2.0~pic libs=shared,static arch=linux-rhel7-skylake
[^]  evtnqzd                      ^zlib@1.2.11%gcc@11.2.0+optimize+pic+shared 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
 -   bmpk6ez              ^m4@1.4.16%gcc@11.2.0+sigsegv arch=linux-rhel7-skylake
[^]  gc2ivgg          ^libunwind@1.5.0%gcc@11.2.0~block_signals~conservative_checks~cxx_exceptions~debug~debug_frame+docs~pic+tests+weak_backtrace~xz~zlib components=none libs=shared,static arch=linux-rhel7-skylake
[^]  vcit7s5          ^papi@6.0.0.1%gcc@11.2.0~cuda+example~infiniband~lmsensors~nvml~powercap~rapl~rocm~rocm_smi~sde+shared~static_tools amdgpu_target=none 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
 -   ajxdymq      ^flex@2.6.3%nvhpc@22.3+lex~nls arch=linux-rhel7-skylake
 -   za4z336      ^libsonata-report@1.1.1_lfp%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
[^]  r74vcyb          ^spdlog@1.9.2%gcc@11.2.0~ipo+shared build_type=RelWithDebInfo arch=linux-rhel7-skylake
[^]  7lotjqk              ^fmt@8.1.1%gcc@11.2.0~ipo+pic~shared build_type=RelWithDebInfo cxxstd=11 arch=linux-rhel7-skylake
 -   cp3ofsp      ^ninja@1.10.2%nvhpc@22.3 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-3.8.2-6s6wcfeanp2mkdib4c3n3ivkcuosopgm)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/boost-1.79.0-zoxhho (external boost-1.79.0-fnw44jfbxyivagsnavjnk6zdaghmffbt)
==> 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)
==> 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)
==> cuda@11.6.1 : has external module in ['cuda/11.6.1']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_externals/install_gcc-11.2.0-skylake/cuda-11.6.1-ngetva (external cuda-11.6.1-wu42aulcivrayjquerqpqvvjeadgosp2)
[+] /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/pkgconf-1.8.0-ihxi5r
[+] /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/zlib-1.2.11-mswjss (external zlib-1.2.11-evtnqzdtuvprwnbd2nljimpzywrhw4uo)
[+] /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)
[+] /usr (external m4-1.4.16-bmpk6ezkxo3553jsm5thxh7ygtrom3dn)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/libunwind-1.5.0-gc2ivg
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/papi-6.0.0.1-vcit7s
==> 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)
==> 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-ajxdymqhnzqgeuhvk5nu5zfymzq35n6i)
==> 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-cp3ofspgkdqaqih5vrhotmdwvkozfswp)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/fmt-8.1.1-7lotjq
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/adiak-0.2.1-at3kmf
[+] /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/libxml2-2.9.12-dnxqn2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/spdlog-1.9.2-r74vcy
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/gettext-0.21-iu2b5h
==> Installing libsonata-report-1.1.1_lfp-za4z336pgqylgpjq4szfzmkquwej2xtz
==> No binary for libsonata-report-1.1.1_lfp-za4z336pgqylgpjq4szfzmkquwej2xtz found: installing from source
==> Warning: Missing a source id for libsonata-report@1.1.1_lfp
==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228, but it is owned by 0
==> No patches needed for libsonata-report
==> libsonata-report: Executing phase: 'cmake'
==> libsonata-report: Executing phase: 'build'
==> libsonata-report: Executing phase: 'install'
==> libsonata-report: Successfully installed libsonata-report-1.1.1_lfp-za4z336pgqylgpjq4szfzmkquwej2xtz
  Fetch: 2.59s.  Build: 4.69s.  Total: 7.28s.
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/software/install_gcc-11.2.0-skylake/libsonata-report-1.1.1_lfp-za4z33
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/elfutils-0.186-p6adpy
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/caliper-2.7.0-pfqy3p
==> Installing coreneuron-develop-w2z6dfwdq6k5tkwudhpbj7owhrne5qzi
==> No binary for coreneuron-develop-w2z6dfwdq6k5tkwudhpbj7owhrne5qzi 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-w2z6dfwdq6k5tkwudhpbj7owhrne5qzi
  Fetch: 4.74s.  Build: 57.64s.  Total: 1m 2.38s.
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/software/install_nvhpc-22.3-skylake/coreneuron-develop-w2z6df
[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/bbpcihpcproj12/1055807/ccache
  Primary config:     /nvme/bbpcihpcproj12/1055807/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:      Wed Dec  7 16:34:54 2022
  Hits:                126 /  135 (93.33 %)
    Direct:            108 /  135 (80.00 %)
    Preprocessed:       18 /   27 (66.67 %)
  Misses:                9
    Direct:             27
    Preprocessed:        9
  Uncacheable:          41
Primary storage:
  Hits:                234 /  270 (86.67 %)
  Misses:               36
  Cache size (GB):    0.36 / 0.51 (71.24 %)
  Files:              4628
Uncacheable:
  Called for linking:   30
  No input file:        11
[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}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m
[32;1m$ SPACK_PACKAGE_SLUGIFY=$(echo -n ${SPACK_PACKAGE} | tr -c '[:alnum:]' '_' | tr '[:lower:]' '[:upper:]')[0;m
[32;1m$ echo "${SPACK_PACKAGE_SLUGIFY}_INSTALLED_HASH=${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 hpe-mpi/2.25.hmpt
[32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m
section_end:1670427296:step_script
[0Ksection_start:1670427296:archive_cache
[0K[0K[36;1mSaving cache for successful job[0;m[0;m
Using git from spack modules
[32;1mCreating cache build:coreneuron:mod2c:nvhpc:acc:shared-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=268264 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%3Ashared-8-non_protected[0;m
[32;1mCreated cache[0;m
section_end:1670427314:archive_cache
[0Ksection_start:1670427314:upload_artifacts_on_success
[0K[0K[36;1mUploading artifacts for successful job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=268455 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=463635 responseStatus[0;m=201 Created token[0;m=X3avrdsg
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=268495 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=463635 responseStatus[0;m=201 Created token[0;m=X3avrdsg
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=268536 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=463635 responseStatus[0;m=201 Created token[0;m=X3avrdsg
section_end:1670427316:upload_artifacts_on_success
[0Ksection_start:1670427316:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427317:cleanup_file_variables
[0K[32;1mJob succeeded[0;m

## build-coreneuron-nmodl-intel-debug-legacy.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427554:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427554:resolve_secrets
[0Ksection_start:1670427554: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3671657283, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463632
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463632_PROD_P112_CP0_C10
Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055871
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G   --job-name=GL_J463632_PROD_P112_CP0_C10 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055871 --cpus-per-task=8 --mem=76G
section_end:1670427570:prepare_executor
[0Ksection_start:1670427570:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i5n25 via bbpv1.epfl.ch...
section_end:1670427573:prepare_script
[0Ksection_start:1670427573:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427574:get_sources
[0Ksection_start:1670427574:restore_cache
[0K[0K[36;1mRestoring cache[0;m[0;m
Using git from spack modules
[32;1mChecking cache for build:coreneuron:nmodl:intel:debug:legacy-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=220008 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:1670427577:restore_cache
[0Ksection_start:1670427577:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for build:nmodl (463630)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=220192 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463630 responseStatus[0;m=200 OK token[0;m=PeNHoazM
section_end:1670427578:download_artifacts
[0Ksection_start:1670427578: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
Using git from spack modules
[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/P89228/J463632/spack-config/config.yaml:2                  build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463632/spack-config/config.yaml:3                  - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463632/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463632/spack-config/config.yaml:4                  source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463632/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Temporary locations Spack can try to use for builds.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Recommended options are given below.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Builds can be faster in temporary directories on some (e.g., HPC) systems.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Specifying `$tempdir` will ensure use of the default temporary directory
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # (i.e., ``$TMP` or ``$TMPDIR``).
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # to specify `$user_cache_path/stage`, which ensures each user builds in their
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # home directory.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # A more traditional path uses the value of `$spack/var/spack/stage`, which
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # pip installable.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # users in shared temporary spaces.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73     test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82     misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94     connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99     verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107    suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113    install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118    checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123    deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128    dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136    build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145    locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150    url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176    concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183    db_lock_timeout: 300
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191    package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197    shared_linking: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202    allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463632_local_config)
[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n  insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = git@bbpgitlab.epfl.ch:
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = ssh://git@bbpgitlab.epfl.ch/
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
Preparing to install coreneuron%intel +caliper~gpu~legacy-unit+nmodl~openmp~shared~sympy+tests~unified build_type=Debug ^hpe-mpi%gcc ^caliper%gcc+cuda cuda_arch=70 ^/4dzxcpsuksxgtuoesheax4sf76wrhkqb
[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
==> Error: Package 'hdf5' not found in repository '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/bluebrain/repo-bluebrain'
srun: error: r1i5n25: task 0: Exited with exit code 1
section_end:1670427608:step_script
[0Ksection_start:1670427608:upload_artifacts_on_failure
[0K[0K[36;1mUploading artifacts for failed job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=223428 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=463632 responseStatus[0;m=201 Created token[0;m=PeNHoazM
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=223469 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=463632 responseStatus[0;m=201 Created token[0;m=PeNHoazM
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=223527 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=463632 responseStatus[0;m=201 Created token[0;m=PeNHoazM
section_end:1670427610:upload_artifacts_on_failure
[0Ksection_start:1670427610:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427611:cleanup_file_variables
[0K[31;1mERROR: Job failed: exit status 1
[0;m

## build-coreneuron-nmodl-intel-shared-debug.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427555:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427555:resolve_secrets
[0Ksection_start:1670427555: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3423088440, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463633
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463633_PROD_P112_CP4_C49
Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055872
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G   --job-name=GL_J463633_PROD_P112_CP4_C49 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055872 --cpus-per-task=8 --mem=76G
section_end:1670427570:prepare_executor
[0Ksection_start:1670427570:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i4n28 via bbpv1.epfl.ch...
section_end:1670427575:prepare_script
[0Ksection_start:1670427575:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427575:get_sources
[0Ksection_start:1670427575:restore_cache
[0K[0K[36;1mRestoring cache[0;m[0;m
Using git from spack modules
[32;1mChecking cache for build:coreneuron:nmodl:intel:shared:debug-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=69450 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:1670427578:restore_cache
[0Ksection_start:1670427578:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for build:nmodl (463630)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=69529 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463630 responseStatus[0;m=200 OK token[0;m=NSqpX62a
section_end:1670427579:download_artifacts
[0Ksection_start:1670427579: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
Using git from spack modules
[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/P89228/J463633/spack-config/config.yaml:2                  build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463633/spack-config/config.yaml:3                  - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463633/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463633/spack-config/config.yaml:4                  source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463633/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Temporary locations Spack can try to use for builds.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Recommended options are given below.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Builds can be faster in temporary directories on some (e.g., HPC) systems.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Specifying `$tempdir` will ensure use of the default temporary directory
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # (i.e., ``$TMP` or ``$TMPDIR``).
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # to specify `$user_cache_path/stage`, which ensures each user builds in their
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # home directory.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # A more traditional path uses the value of `$spack/var/spack/stage`, which
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # pip installable.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # users in shared temporary spaces.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73     test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82     misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94     connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99     verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107    suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113    install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118    checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123    deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128    dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136    build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145    locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150    url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176    concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183    db_lock_timeout: 300
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191    package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197    shared_linking: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202    allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463633_local_config)
[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n  insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = git@bbpgitlab.epfl.ch:
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = ssh://git@bbpgitlab.epfl.ch/
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
Preparing to install coreneuron%intel ~caliper~gpu~legacy-unit+nmodl~openmp+shared+sympy+tests~unified build_type=Debug ^hpe-mpi%gcc ^/4dzxcpsuksxgtuoesheax4sf76wrhkqb
[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
==> Error: Package 'hdf5' not found in repository '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/bluebrain/repo-bluebrain'
srun: error: r1i4n28: task 0: Exited with exit code 1
section_end:1670427636:step_script
[0Ksection_start:1670427636:upload_artifacts_on_failure
[0K[0K[36;1mUploading artifacts for failed job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=70863 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=463633 responseStatus[0;m=201 Created token[0;m=NSqpX62a
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=70948 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=463633 responseStatus[0;m=201 Created token[0;m=NSqpX62a
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=71025 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=463633 responseStatus[0;m=201 Created token[0;m=NSqpX62a
section_end:1670427637:upload_artifacts_on_failure
[0Ksection_start:1670427637:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427640:cleanup_file_variables
[0K[31;1mERROR: Job failed: exit status 1
[0;m

## build-coreneuron-nmodl-nvhpc-acc-debug-legacy.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427555:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427555:resolve_secrets
[0Ksection_start:1670427555: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor4087947506, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463636
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463636_PROD_P112_CP5_C50
Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055873
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G   --job-name=GL_J463636_PROD_P112_CP5_C50 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055873 --cpus-per-task=8 --mem=76G
section_end:1670427570:prepare_executor
[0Ksection_start:1670427570:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i4n28 via bbpv1.epfl.ch...
section_end:1670427574:prepare_script
[0Ksection_start:1670427574:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427575:get_sources
[0Ksection_start:1670427575:restore_cache
[0K[0K[36;1mRestoring cache[0;m[0;m
Using git from spack modules
[32;1mChecking cache for build:coreneuron:nmodl:nvhpc:acc:debug:legacy-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=69402 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:1670427580:restore_cache
[0Ksection_start:1670427580:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for build:nmodl (463630)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=69913 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463630 responseStatus[0;m=200 OK token[0;m=Rx13PUhR
section_end:1670427581:download_artifacts
[0Ksection_start:1670427581: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
Using git from spack modules
[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/P89228/J463636/spack-config/config.yaml:2                  build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463636/spack-config/config.yaml:3                  - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463636/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463636/spack-config/config.yaml:4                  source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463636/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Temporary locations Spack can try to use for builds.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Recommended options are given below.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Builds can be faster in temporary directories on some (e.g., HPC) systems.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Specifying `$tempdir` will ensure use of the default temporary directory
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # (i.e., ``$TMP` or ``$TMPDIR``).
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # to specify `$user_cache_path/stage`, which ensures each user builds in their
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # home directory.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # A more traditional path uses the value of `$spack/var/spack/stage`, which
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # pip installable.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # users in shared temporary spaces.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73     test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82     misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94     connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99     verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107    suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113    install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118    checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123    deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128    dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136    build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145    locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150    url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176    concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183    db_lock_timeout: 300
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191    package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197    shared_linking: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202    allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463636_local_config)
[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n  insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = git@bbpgitlab.epfl.ch:
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = ssh://git@bbpgitlab.epfl.ch/
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
Preparing to install coreneuron%nvhpc +caliper+gpu~legacy-unit+nmodl~openmp~shared~sympy+tests~unified build_type=Debug ^hpe-mpi%gcc ^caliper%gcc+cuda cuda_arch=70 ^/4dzxcpsuksxgtuoesheax4sf76wrhkqb
[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
==> Error: Package 'hdf5' not found in repository '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/bluebrain/repo-bluebrain'
srun: error: r1i4n28: task 0: Exited with exit code 1
section_end:1670427636:step_script
[0Ksection_start:1670427636:upload_artifacts_on_failure
[0K[0K[36;1mUploading artifacts for failed job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=70909 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=463636 responseStatus[0;m=201 Created token[0;m=Rx13PUhR
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=70988 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=463636 responseStatus[0;m=201 Created token[0;m=Rx13PUhR
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=71066 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=463636 responseStatus[0;m=201 Created token[0;m=Rx13PUhR
section_end:1670427637:upload_artifacts_on_failure
[0Ksection_start:1670427637:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427640:cleanup_file_variables
[0K[31;1mERROR: Job failed: exit status 1
[0;m

## build-coreneuron-nmodl-nvhpc-acc-shared.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427555:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427555:resolve_secrets
[0Ksection_start:1670427555: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor2501907027, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463637
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463637_PROD_P112_CP6_C52
Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055874
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G   --job-name=GL_J463637_PROD_P112_CP6_C52 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055874 --cpus-per-task=8 --mem=76G
section_end:1670427570:prepare_executor
[0Ksection_start:1670427570:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i4n29 via bbpv1.epfl.ch...
section_end:1670427575:prepare_script
[0Ksection_start:1670427575:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427575:get_sources
[0Ksection_start:1670427575:restore_cache
[0K[0K[36;1mRestoring cache[0;m[0;m
Using git from spack modules
[32;1mChecking cache for build:coreneuron:nmodl:nvhpc:acc:shared-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=123450 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:1670427581:restore_cache
[0Ksection_start:1670427581:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for build:nmodl (463630)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=123665 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463630 responseStatus[0;m=200 OK token[0;m=hcx2cv_1
section_end:1670427581:download_artifacts
[0Ksection_start:1670427581: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
Using git from spack modules
[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/P89228/J463637/spack-config/config.yaml:2                  build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463637/spack-config/config.yaml:3                  - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463637/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463637/spack-config/config.yaml:4                  source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463637/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Temporary locations Spack can try to use for builds.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Recommended options are given below.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Builds can be faster in temporary directories on some (e.g., HPC) systems.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Specifying `$tempdir` will ensure use of the default temporary directory
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # (i.e., ``$TMP` or ``$TMPDIR``).
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # to specify `$user_cache_path/stage`, which ensures each user builds in their
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # home directory.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # A more traditional path uses the value of `$spack/var/spack/stage`, which
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # pip installable.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # users in shared temporary spaces.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73     test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82     misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94     connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99     verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107    suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113    install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118    checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123    deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128    dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136    build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145    locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150    url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176    concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183    db_lock_timeout: 300
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191    package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197    shared_linking: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202    allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463637_local_config)
[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n  insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = git@bbpgitlab.epfl.ch:
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = ssh://git@bbpgitlab.epfl.ch/
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
Preparing to install coreneuron%nvhpc +caliper+gpu~legacy-unit+nmodl~openmp+shared+sympy+tests~unified build_type=RelWithDebInfo ^hpe-mpi%gcc ^caliper%gcc+cuda cuda_arch=70 ^/4dzxcpsuksxgtuoesheax4sf76wrhkqb
[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
==> Error: Package 'hdf5' not found in repository '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/bluebrain/repo-bluebrain'
srun: error: r1i4n29: task 0: Exited with exit code 1
section_end:1670427625:step_script
[0Ksection_start:1670427625:upload_artifacts_on_failure
[0K[0K[36;1mUploading artifacts for failed job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=125276 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=463637 responseStatus[0;m=201 Created token[0;m=hcx2cv_1
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=125356 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=463637 responseStatus[0;m=201 Created token[0;m=hcx2cv_1
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=125419 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=463637 responseStatus[0;m=201 Created token[0;m=hcx2cv_1
section_end:1670427627:upload_artifacts_on_failure
[0Ksection_start:1670427627:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427627:cleanup_file_variables
[0K[31;1mERROR: Job failed: exit status 1
[0;m

## build-coreneuron-nmodl-nvhpc-omp-debug.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427556:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427556:resolve_secrets
[0Ksection_start:1670427556: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3919396526, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463639
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463639_PROD_P112_CP8_C54
Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055876
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G   --job-name=GL_J463639_PROD_P112_CP8_C54 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055876 --cpus-per-task=8 --mem=76G
section_end:1670427570:prepare_executor
[0Ksection_start:1670427570:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i4n23 via bbpv1.epfl.ch...
section_end:1670427573:prepare_script
[0Ksection_start:1670427573:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427574:get_sources
[0Ksection_start:1670427574:restore_cache
[0K[0K[36;1mRestoring cache[0;m[0;m
Using git from spack modules
[32;1mChecking cache for build:coreneuron:nmodl:nvhpc:omp:debug-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=88135 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:1670427579:restore_cache
[0Ksection_start:1670427579:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for build:nmodl (463630)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=88207 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463630 responseStatus[0;m=200 OK token[0;m=o3LykApy
section_end:1670427580:download_artifacts
[0Ksection_start:1670427580: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
Using git from spack modules
[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/P89228/J463639/spack-config/config.yaml:2                  build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463639/spack-config/config.yaml:3                  - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463639/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463639/spack-config/config.yaml:4                  source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463639/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Temporary locations Spack can try to use for builds.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Recommended options are given below.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Builds can be faster in temporary directories on some (e.g., HPC) systems.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Specifying `$tempdir` will ensure use of the default temporary directory
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # (i.e., ``$TMP` or ``$TMPDIR``).
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # to specify `$user_cache_path/stage`, which ensures each user builds in their
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # home directory.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # A more traditional path uses the value of `$spack/var/spack/stage`, which
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # pip installable.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # users in shared temporary spaces.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73     test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82     misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94     connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99     verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107    suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113    install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118    checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123    deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128    dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136    build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145    locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150    url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176    concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183    db_lock_timeout: 300
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191    package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197    shared_linking: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202    allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463639_local_config)
[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n  insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = git@bbpgitlab.epfl.ch:
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = ssh://git@bbpgitlab.epfl.ch/
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
Preparing to install coreneuron%nvhpc +caliper+gpu~legacy-unit+nmodl+openmp~shared+sympy+tests~unified build_type=Debug ^hpe-mpi%gcc ^caliper%gcc+cuda cuda_arch=70 ^/4dzxcpsuksxgtuoesheax4sf76wrhkqb
[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
==> Error: Package 'hdf5' not found in repository '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/bluebrain/repo-bluebrain'
srun: error: r1i4n23: task 0: Exited with exit code 1
section_end:1670427606:step_script
[0Ksection_start:1670427606:upload_artifacts_on_failure
[0K[0K[36;1mUploading artifacts for failed job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=88747 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=463639 responseStatus[0;m=201 Created token[0;m=o3LykApy
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=88789 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=463639 responseStatus[0;m=201 Created token[0;m=o3LykApy
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=88829 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=463639 responseStatus[0;m=201 Created token[0;m=o3LykApy
section_end:1670427607:upload_artifacts_on_failure
[0Ksection_start:1670427607:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427608:cleanup_file_variables
[0K[31;1mERROR: Job failed: exit status 1
[0;m

## build-coreneuron-nmodl-nvhpc-omp-legacy.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427556:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427556:resolve_secrets
[0Ksection_start:1670427556: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor2622504313, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463638
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463638_PROD_P112_CP7_C53
Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055875
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G   --job-name=GL_J463638_PROD_P112_CP7_C53 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055875 --cpus-per-task=8 --mem=76G
section_end:1670427570:prepare_executor
[0Ksection_start:1670427570:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i4n29 via bbpv1.epfl.ch...
section_end:1670427574:prepare_script
[0Ksection_start:1670427574:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427575:get_sources
[0Ksection_start:1670427575:restore_cache
[0K[0K[36;1mRestoring cache[0;m[0;m
Using git from spack modules
[32;1mChecking cache for build:coreneuron:nmodl:nvhpc:omp:legacy-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=123402 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:1670427581:restore_cache
[0Ksection_start:1670427581:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for build:nmodl (463630)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=123726 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463630 responseStatus[0;m=200 OK token[0;m=ZqxdzfQp
section_end:1670427582:download_artifacts
[0Ksection_start:1670427582: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
Using git from spack modules
[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/P89228/J463638/spack-config/config.yaml:2                  build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463638/spack-config/config.yaml:3                  - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463638/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463638/spack-config/config.yaml:4                  source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463638/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Temporary locations Spack can try to use for builds.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Recommended options are given below.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Builds can be faster in temporary directories on some (e.g., HPC) systems.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Specifying `$tempdir` will ensure use of the default temporary directory
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # (i.e., ``$TMP` or ``$TMPDIR``).
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # to specify `$user_cache_path/stage`, which ensures each user builds in their
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # home directory.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # A more traditional path uses the value of `$spack/var/spack/stage`, which
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # pip installable.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # users in shared temporary spaces.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73     test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82     misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94     connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99     verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107    suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113    install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118    checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123    deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128    dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136    build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145    locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150    url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176    concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183    db_lock_timeout: 300
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191    package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197    shared_linking: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202    allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463638_local_config)
[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n  insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = git@bbpgitlab.epfl.ch:
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = ssh://git@bbpgitlab.epfl.ch/
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
Preparing to install coreneuron%nvhpc +caliper+gpu~legacy-unit+nmodl+openmp~shared~sympy+tests~unified build_type=RelWithDebInfo ^hpe-mpi%gcc ^caliper%gcc+cuda cuda_arch=70 ^/4dzxcpsuksxgtuoesheax4sf76wrhkqb
[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
==> Error: Package 'hdf5' not found in repository '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/bluebrain/repo-bluebrain'
srun: error: r1i4n29: task 0: Exited with exit code 1
section_end:1670427625:step_script
[0Ksection_start:1670427625:upload_artifacts_on_failure
[0K[0K[36;1mUploading artifacts for failed job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=125232 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=463638 responseStatus[0;m=201 Created token[0;m=ZqxdzfQp
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=125316 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=463638 responseStatus[0;m=201 Created token[0;m=ZqxdzfQp
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=125387 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=463638 responseStatus[0;m=201 Created token[0;m=ZqxdzfQp
section_end:1670427627:upload_artifacts_on_failure
[0Ksection_start:1670427627:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427627:cleanup_file_variables
[0K[31;1mERROR: Job failed: exit status 1
[0;m

## build-neuron-mod2c-intel-shared-debug.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427527:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427527:resolve_secrets
[0Ksection_start:1670427527: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor4093376776, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463640
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463640_PROD_P112_CP1_C14
Job parameters: memory=76G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055852
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G   --job-name=GL_J463640_PROD_P112_CP1_C14 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=2:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055852 --cpus-per-task=8 --mem=76G
section_end:1670427549:prepare_executor
[0Ksection_start:1670427549:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i4n15 via bbpv1.epfl.ch...
section_end:1670427552:prepare_script
[0Ksection_start:1670427552:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427553:get_sources
[0Ksection_start:1670427553:restore_cache
[0K[0K[36;1mRestoring cache[0;m[0;m
Using git from spack modules
[32;1mChecking cache for build:neuron:mod2c:intel:shared:debug-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=153367 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:1670427558:restore_cache
[0Ksection_start:1670427558:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for build:coreneuron:mod2c:intel:shared:debug (463631)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=153587 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463631 responseStatus[0;m=200 OK token[0;m=THxs_Kmz
section_end:1670427559:download_artifacts
[0Ksection_start:1670427559: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
Using git from spack modules
[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/P89228/J463640/spack-config/config.yaml:2                  build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463640/spack-config/config.yaml:3                  - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463640/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463640/spack-config/config.yaml:4                  source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463640/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Temporary locations Spack can try to use for builds.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Recommended options are given below.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Builds can be faster in temporary directories on some (e.g., HPC) systems.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Specifying `$tempdir` will ensure use of the default temporary directory
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # (i.e., ``$TMP` or ``$TMPDIR``).
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # to specify `$user_cache_path/stage`, which ensures each user builds in their
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # home directory.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # A more traditional path uses the value of `$spack/var/spack/stage`, which
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # pip installable.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # users in shared temporary spaces.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73     test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82     misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94     connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99     verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107    suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113    install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118    checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123    deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128    dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136    build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145    locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150    url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176    concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183    db_lock_timeout: 300
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191    package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197    shared_linking: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202    allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463640_local_config)
[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n  insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = git@bbpgitlab.epfl.ch:
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = ssh://git@bbpgitlab.epfl.ch/
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
Preparing to install neuron%intel +coreneuron+debug+tests~legacy-unit~rx3d model_tests=channel-benchmark,olfactory,tqperf-heavy  ^/udoqinvar6cp75viyxkh44mgzbht4q76
[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
==> Error: Package 'hdf5' not found in repository '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/bluebrain/repo-bluebrain'
srun: error: r1i4n15: task 0: Exited with exit code 1
section_end:1670427619:step_script
[0Ksection_start:1670427619:upload_artifacts_on_failure
[0K[0K[36;1mUploading artifacts for failed job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=155418 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=463640 responseStatus[0;m=201 Created token[0;m=THxs_Kmz
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=155463 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=463640 responseStatus[0;m=201 Created token[0;m=THxs_Kmz
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=155506 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=463640 responseStatus[0;m=201 Created token[0;m=THxs_Kmz
section_end:1670427621:upload_artifacts_on_failure
[0Ksection_start:1670427621:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427622:cleanup_file_variables
[0K[31;1mERROR: Job failed: exit status 1
[0;m

## build-neuron-mod2c-nvhpc-acc-shared.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427318:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427318:resolve_secrets
[0Ksection_start:1670427318: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor961870602, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463643
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463643_PROD_P112_CP3_C6
Job parameters: memory=76G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055824
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G   --job-name=GL_J463643_PROD_P112_CP3_C6 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=2:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055824 --cpus-per-task=8 --mem=76G
section_end:1670427327:prepare_executor
[0Ksection_start:1670427327:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i4n15 via bbpv1.epfl.ch...
section_end:1670427329:prepare_script
[0Ksection_start:1670427329:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427330:get_sources
[0Ksection_start:1670427330:restore_cache
[0K[0K[36;1mRestoring cache[0;m[0;m
Using git from spack modules
[32;1mChecking cache for build:neuron:mod2c:nvhpc:acc:shared-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=149049 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:1670427336:restore_cache
[0Ksection_start:1670427336:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for build:coreneuron:mod2c:nvhpc:acc:shared (463635)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=149191 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463635 responseStatus[0;m=200 OK token[0;m=s7fsEeXJ
section_end:1670427337:download_artifacts
[0Ksection_start:1670427337: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
Using git from spack modules
[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/P89228/J463643/spack-config/config.yaml:2                  build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463643/spack-config/config.yaml:3                  - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463643/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463643/spack-config/config.yaml:4                  source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463643/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Temporary locations Spack can try to use for builds.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Recommended options are given below.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Builds can be faster in temporary directories on some (e.g., HPC) systems.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Specifying `$tempdir` will ensure use of the default temporary directory
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # (i.e., ``$TMP` or ``$TMPDIR``).
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # to specify `$user_cache_path/stage`, which ensures each user builds in their
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # home directory.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # A more traditional path uses the value of `$spack/var/spack/stage`, which
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # pip installable.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # users in shared temporary spaces.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73     test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82     misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94     connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99     verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107    suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113    install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118    checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123    deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128    dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136    build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145    locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150    url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176    concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183    db_lock_timeout: 300
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191    package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197    shared_linking: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202    allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463643_local_config)
[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n  insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = git@bbpgitlab.epfl.ch:
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = ssh://git@bbpgitlab.epfl.ch/
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
Preparing to install neuron%nvhpc +coreneuron+debug+tests~legacy-unit~rx3d model_tests=channel-benchmark,olfactory,tqperf-heavy  ^/w2z6dfwdq6k5tkwudhpbj7owhrne5qzi
[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
==> Error: Package 'hdf5' not found in repository '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/bluebrain/repo-bluebrain'
srun: error: r1i4n15: task 0: Exited with exit code 1
section_end:1670427380:step_script
[0Ksection_start:1670427380:upload_artifacts_on_failure
[0K[0K[36;1mUploading artifacts for failed job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=150351 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=463643 responseStatus[0;m=201 Created token[0;m=s7fsEeXJ
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=150394 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=463643 responseStatus[0;m=201 Created token[0;m=s7fsEeXJ
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=150434 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=463643 responseStatus[0;m=201 Created token[0;m=s7fsEeXJ
section_end:1670427382:upload_artifacts_on_failure
[0Ksection_start:1670427382:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427383:cleanup_file_variables
[0K[31;1mERROR: Job failed: exit status 1
[0;m

## build-neuron-nmodl-intel-debug-legacy.txt
Log was not fetched because job had status: skipped

## build-neuron-nmodl-intel-shared-debug.txt
Log was not fetched because job had status: skipped

## build-neuron-nmodl-nvhpc-acc-debug-legacy.txt
Log was not fetched because job had status: skipped

## build-neuron-nmodl-nvhpc-acc-shared.txt
Log was not fetched because job had status: skipped

## build-neuron-nmodl-nvhpc-omp-debug.txt
Log was not fetched because job had status: skipped

## build-neuron-nmodl-nvhpc-omp-legacy.txt
Log was not fetched because job had status: skipped

## build-nmodl.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427101:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427101:resolve_secrets
[0Ksection_start:1670427101: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor541089817, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463630
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463630_PROD_P112_CP0_C10
Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055804
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G   --job-name=GL_J463630_PROD_P112_CP0_C10 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055804 --cpus-per-task=8 --mem=76G
section_end:1670427125:prepare_executor
[0Ksection_start:1670427125:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i5n25 via bbpv1.epfl.ch...
section_end:1670427129:prepare_script
[0Ksection_start:1670427129:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427130:get_sources
[0Ksection_start:1670427130:restore_cache
[0K[0K[36;1mRestoring cache[0;m[0;m
Using git from spack modules
[32;1mChecking cache for build:nmodl-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=204869 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:1670427136:restore_cache
[0Ksection_start:1670427136:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for spack_setup (463628)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=206040 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463628 responseStatus[0;m=200 OK token[0;m=eC_5iMiU
section_end:1670427137:download_artifacts
[0Ksection_start:1670427137: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
Using git from spack modules
[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/P89228/J463630/spack-config/config.yaml:2                  build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463630/spack-config/config.yaml:3                  - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463630/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463630/spack-config/config.yaml:4                  source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463630/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18     - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37     - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Temporary locations Spack can try to use for builds.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Recommended options are given below.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Builds can be faster in temporary directories on some (e.g., HPC) systems.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # Specifying `$tempdir` will ensure use of the default temporary directory
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # (i.e., ``$TMP` or ``$TMPDIR``).
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # to specify `$user_cache_path/stage`, which ensures each user builds in their
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # home directory.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # A more traditional path uses the value of `$spack/var/spack/stage`, which
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # pip installable.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     # users in shared temporary spaces.
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38     #
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73     test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82     misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94     connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99     verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107    suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113    install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118    checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123    deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128    dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136    build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145    locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150    url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176    concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183    db_lock_timeout: 300
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191    package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197    shared_linking: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202    allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463630_local_config)
[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n  insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = git@bbpgitlab.epfl.ch:
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = ssh://git@bbpgitlab.epfl.ch/
[32;1m$ 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 ${SPACK_INSTALLED_HASH}"[0;m
Determined its hash will be 4dzxcpsuksxgtuoesheax4sf76wrhkqb
[32;1m$ 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=${CCACHE_BASEDIR}[0;m
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228
[32;1m$ 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/bbpcihpcproj12/1055804/ccache
  Primary config:   /nvme/bbpcihpcproj12/1055804/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:    Wed Dec  7 16:32:44 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):  0.43 / 0.51 (84.16 %)
  Files:             495
[32;1m$ fi[0;m
[32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m
[32;1m$ spack uninstall -y --dependents /${SPACK_INSTALLED_HASH} || true[0;m
==> Error: No installed spec matches the hash: '4dzxcpsuksxgtuoesheax4sf76wrhkqb'
[32;1m$ spack spec -Il ${SPACK_FULL_SPEC}[0;m
Input spec
--------------------------------
 -   nmodl%gcc~legacy-unit

Concretized
--------------------------------
 -   4dzxcps  nmodl@develop%gcc@11.2.0~ipo~legacy-unit~llvm~llvm_cuda~python build_type=RelWithDebInfo arch=linux-rhel7-skylake
 -   cppb7al      ^bison@3.8.2%gcc@11.2.0 arch=linux-rhel7-skylake
[^]  atktt2p      ^catch2@2.13.8%gcc@11.2.0~ipo build_type=RelWithDebInfo 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
[^]  e5qqxxq      ^cli11@2.1.1%gcc@11.2.0~ipo build_type=RelWithDebInfo arch=linux-rhel7-skylake
 -   4bt76dp      ^flex@2.6.3%gcc@11.2.0+lex~nls arch=linux-rhel7-skylake
[^]  7lotjqk      ^fmt@8.1.1%gcc@11.2.0~ipo+pic~shared build_type=RelWithDebInfo cxxstd=11 arch=linux-rhel7-skylake
 -   utrxbc3      ^ninja@1.10.2%gcc@11.2.0 arch=linux-rhel7-skylake
[^]  jjl6cjc      ^nlohmann-json@3.10.4%gcc@11.2.0~ipo~multiple_headers 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
[^]  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
[^]  z5kzef6      ^py-pybind11@2.9.1%gcc@11.2.0~ipo build_type=RelWithDebInfo 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
[^]  vt2or7v      ^py-sympy@1.9%gcc@11.2.0 arch=linux-rhel7-skylake
[^]  dzb2mfs          ^py-mpmath@1.1.0%gcc@11.2.0 arch=linux-rhel7-skylake
[^]  r74vcyb      ^spdlog@1.9.2%gcc@11.2.0~ipo+shared 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-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/catch2-2.13.8-atktt2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/fmt-8.1.1-7lotjq
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/cli11-2.1.1-e5qqxx
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/nlohmann-json-3.10.4-jjl6cj
[+] /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-setuptools-57.4.0-v4z3s5
[+] /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/spdlog-1.9.2-r74vcy
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-sympy-1.9-vt2or7
[+] /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-iniconfig-1.1.1-kvw3vh
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2022-01-10/stage_applications/install_gcc-11.2.0-skylake/py-pybind11-2.9.1-z5kzef
[+] /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-attrs-21.2.0-ascbei
[+] /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-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-tomli-1.2.1-hmcew6
[+] /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-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-pytest-6.2.4-22arfs
==> Installing nmodl-develop-4dzxcpsuksxgtuoesheax4sf76wrhkqb
==> No binary for nmodl-develop-4dzxcpsuksxgtuoesheax4sf76wrhkqb found: installing from source
==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228, but it is owned by 0
==> No patches needed for nmodl
==> nmodl: Executing phase: 'cmake'
==> nmodl: Executing phase: 'build'
==> nmodl: Executing phase: 'install'
==> nmodl: Successfully installed nmodl-develop-4dzxcpsuksxgtuoesheax4sf76wrhkqb
  Fetch: 1m 43.94s.  Build: 3m 18.34s.  Total: 5m 2.28s.
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/software/install_gcc-11.2.0-skylake/nmodl-develop-4dzxcp
[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/bbpcihpcproj12/1055804/ccache
  Primary config:     /nvme/bbpcihpcproj12/1055804/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:      Wed Dec  7 16:38:43 2022
  Hits:                130 /  132 (98.48 %)
    Direct:             29 /  132 (21.97 %)
    Preprocessed:      101 /  103 (98.06 %)
  Misses:                2
    Direct:            103
    Preprocessed:        2
  Uncacheable:          27
Primary storage:
  Hits:                159 /  264 (60.23 %)
  Misses:              105
  Cache size (GB):    0.43 / 0.51 (84.18 %)
  Files:               499
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}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m
[32;1m$ SPACK_PACKAGE_SLUGIFY=$(echo -n ${SPACK_PACKAGE} | tr -c '[:alnum:]' '_' | tr '[:lower:]' '[:upper:]')[0;m
[32;1m$ echo "${SPACK_PACKAGE_SLUGIFY}_INSTALLED_HASH=${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 hpe-mpi/2.25.hmpt
[32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m
section_end:1670427526:step_script
[0Ksection_start:1670427526:archive_cache
[0K[0K[36;1mSaving cache for successful job[0;m[0;m
Using git from spack modules
[32;1mCreating cache build:nmodl-8-non_protected...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=217019 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-non_protected[0;m
[32;1mCreated cache[0;m
section_end:1670427548:archive_cache
[0Ksection_start:1670427548:upload_artifacts_on_success
[0K[0K[36;1mUploading artifacts for successful job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=217991 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=463630 responseStatus[0;m=201 Created token[0;m=eC_5iMiU
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=218033 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=463630 responseStatus[0;m=201 Created token[0;m=eC_5iMiU
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=218075 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=463630 responseStatus[0;m=201 Created token[0;m=eC_5iMiU
section_end:1670427550:upload_artifacts_on_success
[0Ksection_start:1670427550:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427551:cleanup_file_variables
[0K[32;1mJob succeeded[0;m

## GitLab logs for bluebrain-coreneuron#844
!

## spack-setup.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670426789:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670426789:resolve_secrets
[0Ksection_start:1670426789: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3004857985, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463628
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=6, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463628_PROD_P112_CP0_C34
Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055725
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=1 --cpus-per-task=6 --mem=30750M   --job-name=GL_J463628_PROD_P112_CP0_C34 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=1 --jobid=1055725 --cpus-per-task=6 --mem=30750M
section_end:1670426837:prepare_executor
[0Ksection_start:1670426837:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i7n22 via bbpv1.epfl.ch...
section_end:1670426840:prepare_script
[0Ksection_start:1670426840:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670426840:get_sources
[0Ksection_start:1670426840: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
Using git from spack modules
[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 hpe-mpi/2.25.hmpt
[32;1m$ else[0;m
[32;1m$ cat input_variables.env[0;m
NEURON_BRANCH=sandbox/jblanco/lfp
NMODL_BRANCH=master
SPACK_BRANCH=sandbox/jblanco/lfp
[32;1m$ for var_to_unset in $(sed 's/^\(.*\?\)_\(BRANCH\|COMMIT\|TAG\)=.*$/\1_BRANCH\n\1_COMMIT\n\1_TAG/' input_variables.env); do # collapsed multi-line command[0;m
Unsetting NEURON_BRANCH
Unsetting NMODL_BRANCH
Unsetting SPACK_BRANCH
[32;1m$ 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 ${PWD}[0;m
Preparing to clone Spack into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628
[32;1m$ if [[ -z "${SPACK_BRANCH}" && ( -n "${SPACK_COMMIT}" || -n "${SPACK_TAG}" ) ]]; then[0;m
[32;1m$ echo Checking out the ${SPACK_BRANCH} of Spack...[0;m
Checking out the sandbox/jblanco/lfp of Spack...
[32;1m$ module load unstable git[0;m
[32;1m$ git clone -c feature.manyFiles=true --depth 1 --single-branch --branch ${SPACK_BRANCH} ${SPACK_URL} spack[0;m
Cloning into 'spack'...
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[32;1m$ 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 (${XDG_CONFIG_HOME})"[0;m
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463628_local_config)
[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n  insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = git@bbpgitlab.epfl.ch:
[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
  insteadOf = ssh://git@bbpgitlab.epfl.ch/
[32;1m$ env -0 | sed -nz '/^CUSTOM_ENV_/d;/^[^=]\+_\(BRANCH\|COMMIT\|TAG\)=.\+/p' | xargs -0t spack configure-pipeline --ignore-packages CI_BUILD CI_COMMIT CI_DEFAULT GITLAB_PIPELINES SPACK ${SPACK_SETUP_IGNORE_PACKAGE_VARIABLES} --write-commit-file=commit-mapping.env[0;m
spack configure-pipeline --ignore-packages CI_BUILD CI_COMMIT CI_DEFAULT GITLAB_PIPELINES SPACK --write-commit-file=commit-mapping.env CI_COMMIT_BRANCH=sandbox/jblanco/lfp GITLAB_PIPELINES_BRANCH=main NEURON_BRANCH=sandbox/jblanco/lfp NMODL_BRANCH=master SPACK_BRANCH=sandbox/jblanco/lfp CI_DEFAULT_BRANCH=master CORENEURON_COMMIT=8f27b92ff41054643c2d05571e9854847f1e3a46
==> CI_COMMIT: ignoring CI_COMMIT_BRANCH=sandbox/jblanco/lfp
==> GITLAB_PIPELINES: ignoring GITLAB_PIPELINES_BRANCH=main
==> SPACK: ignoring SPACK_BRANCH=sandbox/jblanco/lfp
==> CI_DEFAULT: ignoring CI_DEFAULT_BRANCH=master
==> neuron: resolved branch sandbox/jblanco/lfp to 9228f80b89b8bf01d65d61bf1aeacad4f193b0c1
==> nmodl: resolved branch master to 7cf95511a804590681e1a5b9f9088b7860baca5d
==> neuron@develop: remove branch/commit/tag
==> neuron@develop: use commit="9228f80b89b8bf01d65d61bf1aeacad4f193b0c1"
==> neuron@develop: add preferred=True
==> nmodl@develop: remove branch/commit/tag
==> nmodl@develop: use commit="7cf95511a804590681e1a5b9f9088b7860baca5d"
==> nmodl@develop: add preferred=True
==> coreneuron@develop: remove branch/commit/tag
==> coreneuron@develop: use commit="8f27b92ff41054643c2d05571e9854847f1e3a46"
==> coreneuron@develop: add preferred=True
[32;1m$ (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 1061e40..f068055 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='8f27b92ff41054643c2d05571e9854847f1e3a46') # old: branch='master'
     version('8.2.1.2022.03.10_lfp', branch='sandbox/jblanco/lfp')
     version('8.2.1_lfp', branch='sandbox/jblanco/lfp')
     version('8.2.1', tag='8.2.1')
diff --git a/bluebrain/repo-bluebrain/packages/nmodl/package.py b/bluebrain/repo-bluebrain/packages/nmodl/package.py
index a79f28b..e210189 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='7cf95511a804590681e1a5b9f9088b7860baca5d', submodules=True) # old: branch="master"
     version("llvm", branch="llvm", submodules=True)
     version("0.4.0", tag="0.4")
     # This is the merge commit of #875, which allows catch2 etc. to be dependencies
diff --git a/bluebrain/repo-patches/packages/neuron/package.py b/bluebrain/repo-patches/packages/neuron/package.py
index 5092190..bc3c831 100644
--- a/bluebrain/repo-patches/packages/neuron/package.py
+++ b/bluebrain/repo-patches/packages/neuron/package.py
@@ -30,7 +30,7 @@ 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='9228f80b89b8bf01d65d61bf1aeacad4f193b0c1') # old: branch="master"
     version("8.2.1.2022.03.10_lfp", branch="sandbox/jblanco/lfp")
     version("8.2.1_lfp", branch="sandbox/jblanco/lfp")
     version("8.2.1", tag="8.2.1")
[32;1m$ cat commit-mapping.env[0;m
NEURON_COMMIT=9228f80b89b8bf01d65d61bf1aeacad4f193b0c1
NMODL_COMMIT=7cf95511a804590681e1a5b9f9088b7860baca5d
CORENEURON_COMMIT=8f27b92ff41054643c2d05571e9854847f1e3a46
[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:1670427096:step_script
[0Ksection_start:1670427096:upload_artifacts_on_success
[0K[0K[36;1mUploading artifacts for successful job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=99383 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=463628 responseStatus[0;m=201 Created token[0;m=ajydHPW1
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=99408 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=463628 responseStatus[0;m=201 Created token[0;m=ajydHPW1
section_end:1670427097:upload_artifacts_on_success
[0Ksection_start:1670427097:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427098:cleanup_file_variables
[0K[32;1mJob succeeded[0;m

## test-coreneuron-mod2c-intel-shared-debug.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427527:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427527:resolve_secrets
[0Ksection_start:1670427527: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor1413265498, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463648
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=1, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463648_PROD_P112_CP3_C18
Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=cpu ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
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 1055853
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=8 --cpus-per-task=1 --mem=30750M   --job-name=GL_J463648_PROD_P112_CP3_C18 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=8 --jobid=1055853 --cpus-per-task=1 --mem=30750M
section_end:1670427549:prepare_executor
[0Ksection_start:1670427549:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on r1i7n22 via bbpv1.epfl.ch...
section_end:1670427553:prepare_script
[0Ksection_start:1670427553:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427554:get_sources
[0Ksection_start:1670427554:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for build:coreneuron:mod2c:intel:shared:debug (463631)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=105934 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463631 responseStatus[0;m=200 OK token[0;m=6zRmGtyV
section_end:1670427555:download_artifacts
[0Ksection_start:1670427555: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
Using git from spack modules
[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: r1i5n25
   Build name: Linux-icpc
Create new tag: 20221207-1540 - Experimental
Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463631/spack-build/spack-stage-coreneuron-develop-udoqinvar6cp75viyxkh44mgzbht4q76/spack-build-udoqinv
      Start  1: cmd_interface_test
      Start  2: interleave_info_constructor_test
      Start  3: alignment_test
      Start  4: queuing_test
      Start  5: test-solver
      Start  6: lfp_test
      Start  7: ring_TEST
 1/18 Test  #3: alignment_test .....................   Passed    0.54 sec
      Start 18: reporting_1
 2/18 Test  #1: cmd_interface_test .................   Passed    0.56 sec
 3/18 Test  #2: interleave_info_constructor_test ...   Passed    0.55 sec
      Start  8: ring_binqueue_TEST
 4/18 Test  #4: queuing_test .......................   Passed    0.54 sec
 5/18 Test  #6: lfp_test ...........................   Passed    0.55 sec
      Start  9: ring_multisend_TEST
 6/18 Test  #5: test-solver ........................   Passed    1.31 sec
 7/18 Test  #7: ring_TEST ..........................   Passed    2.10 sec
      Start 10: ring_spike_buffer_TEST
 8/18 Test #18: reporting_1 ........................   Passed    1.89 sec
      Start 11: ring_gap_TEST
 9/18 Test  #8: ring_binqueue_TEST .................   Passed    2.01 sec
      Start 12: ring_gap_binqueue_TEST
10/18 Test  #9: ring_multisend_TEST ................   Passed    2.18 sec
      Start 13: ring_gap_multisend_TEST
11/18 Test #10: ring_spike_buffer_TEST .............   Passed    2.23 sec
      Start 14: ring_permute0_TEST
12/18 Test #11: ring_gap_TEST ......................   Passed    2.36 sec
      Start 15: ring_gap_permute0_TEST
13/18 Test #12: ring_gap_binqueue_TEST .............   Passed    2.44 sec
      Start 16: ring_permute1_TEST
14/18 Test #13: ring_gap_multisend_TEST ............   Passed    2.43 sec
      Start 17: ring_gap_permute1_TEST
15/18 Test #14: ring_permute0_TEST .................   Passed    2.32 sec
16/18 Test #15: ring_gap_permute0_TEST .............   Passed    2.40 sec
17/18 Test #16: ring_permute1_TEST .................   Passed    2.37 sec
18/18 Test #17: ring_gap_permute1_TEST .............   Passed    2.33 sec

100% tests passed, 0 tests failed out of 18

Total Test time (real) =   7.61 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:1670427616:step_script
[0Ksection_start:1670427616:upload_artifacts_on_success
[0K[0K[36;1mUploading artifacts for successful job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=108230 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=463648 responseStatus[0;m=201 Created token[0;m=6zRmGtyV
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=108264 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=463648 responseStatus[0;m=201 Created token[0;m=6zRmGtyV
section_end:1670427618:upload_artifacts_on_success
[0Ksection_start:1670427618:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427619:cleanup_file_variables
[0K[32;1mJob succeeded[0;m

## test-coreneuron-mod2c-nvhpc-acc-debug-unified.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427578:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427578:resolve_secrets
[0Ksection_start:1670427578: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3215246520, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463651
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=1, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463651_PROD_P112_CP2_C15
Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS
Submitted batch job 1055894
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=8 --cpus-per-task=1 --mem=30750M   --job-name=GL_J463651_PROD_P112_CP2_C15 -C volta --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=8 --jobid=1055894 --cpus-per-task=1 --mem=30750M
section_end:1670427580:prepare_executor
[0Ksection_start:1670427580:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on ldir01u09.bbp.epfl.ch via bbpv1.epfl.ch...
section_end:1670427587:prepare_script
[0Ksection_start:1670427587:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427588:get_sources
[0Ksection_start:1670427588:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for build:coreneuron:mod2c:nvhpc:acc:debug:unified (463634)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=39757 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463634 responseStatus[0;m=200 OK token[0;m=iTEUyfk2
section_end:1670427589:download_artifacts
[0Ksection_start:1670427589: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
Using git from spack modules
[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: r1i5n25
   Build name: Linux-nvc++
Create new tag: 20221207-1540 - Experimental
Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463634/spack-build/spack-stage-coreneuron-develop-2asi2me356b2upp2q2whulfko55yuxye/spack-build-2asi2me
      Start  1: cmd_interface_test
      Start  2: interleave_info_constructor_test
      Start  3: alignment_test
      Start  4: queuing_test
      Start  5: test-solver
      Start  6: lfp_test
      Start  7: ring_TEST
 1/20 Test  #1: cmd_interface_test .....................   Passed    0.22 sec
      Start 20: reporting_1
 2/20 Test  #4: queuing_test ...........................   Passed    0.18 sec
 3/20 Test  #6: lfp_test ...............................   Passed    0.19 sec
      Start  8: ring_binqueue_TEST
 4/20 Test  #3: alignment_test .........................   Passed    4.84 sec
 5/20 Test  #2: interleave_info_constructor_test .......   Passed    4.96 sec
      Start  9: ring_multisend_TEST
 6/20 Test #20: reporting_1 ............................   Passed    5.45 sec
 7/20 Test  #5: test-solver ............................   Passed    7.00 sec
      Start 10: ring_spike_buffer_TEST
 8/20 Test  #8: ring_binqueue_TEST .....................   Passed   27.74 sec
      Start 11: ring_gap_TEST
 9/20 Test  #7: ring_TEST ..............................   Passed   28.27 sec
      Start 12: ring_gap_binqueue_TEST
10/20 Test  #9: ring_multisend_TEST ....................   Passed   24.80 sec
      Start 13: ring_gap_multisend_TEST
11/20 Test #10: ring_spike_buffer_TEST .................   Passed   24.27 sec
      Start 14: ring_permute1_TEST
12/20 Test #14: ring_permute1_TEST .....................   Passed   24.75 sec
      Start 15: ring_gap_permute1_TEST
13/20 Test #11: ring_gap_TEST ..........................   Passed   29.71 sec
      Start 16: ring_permute2_TEST
14/20 Test #12: ring_gap_binqueue_TEST .................   Passed   29.52 sec
      Start 17: ring_gap_permute2_TEST
15/20 Test #13: ring_gap_multisend_TEST ................   Passed   29.25 sec
      Start 18: ring_permute2_cudaInterface_TEST
16/20 Test #16: ring_permute2_TEST .....................   Passed   20.90 sec
      Start 19: ring_gap_permute2_cudaInterface_TEST
17/20 Test #15: ring_gap_permute1_TEST .................   Passed   23.98 sec
18/20 Test #18: ring_permute2_cudaInterface_TEST .......   Passed   21.17 sec
19/20 Test #17: ring_gap_permute2_TEST .................   Passed   24.34 sec
20/20 Test #19: ring_gap_permute2_cudaInterface_TEST ...   Passed    7.55 sec

100% tests passed, 0 tests failed out of 20

Total Test time (real) =  86.17 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:1670427702:step_script
[0Ksection_start:1670427702:upload_artifacts_on_success
[0K[0K[36;1mUploading artifacts for successful job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=42111 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=463651 responseStatus[0;m=201 Created token[0;m=iTEUyfk2
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=42178 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=463651 responseStatus[0;m=201 Created token[0;m=iTEUyfk2
section_end:1670427704:upload_artifacts_on_success
[0Ksection_start:1670427704:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427704:cleanup_file_variables
[0K[32;1mJob succeeded[0;m

## test-coreneuron-mod2c-nvhpc-acc-shared.txt
[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
[0K  on BB5 map runner pnPo3yJy[0;m
section_start:1670427318:resolve_secrets
[0K[0K[36;1mResolving secrets[0;m[0;m
section_end:1670427318:resolve_secrets
[0Ksection_start:1670427318: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 15.5.0, user
TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3471559108, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
Runner ID 29, project root hpc, project name coreneuron
Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463652
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=1, optional qos flag
CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
uid=0(root) gid=0(root) groups=0(root)
root
UID is 0
A slurm job will be created with name GL_J463652_PROD_P112_CP4_C16
Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
Not executing the chown -R
sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS
Submitted batch job 1055825
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=8 --cpus-per-task=1 --mem=30750M   --job-name=GL_J463652_PROD_P112_CP4_C16 -C volta --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=8 --jobid=1055825 --cpus-per-task=1 --mem=30750M
section_end:1670427319:prepare_executor
[0Ksection_start:1670427319:prepare_script
[0K[0K[36;1mPreparing environment[0;m[0;m
Using git from spack modules
Running on ldir01u09.bbp.epfl.ch via bbpv1.epfl.ch...
section_end:1670427326:prepare_script
[0Ksection_start:1670427326:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m[0;m
Using git from spack modules
[32;1mSkipping Git repository setup[0;m
[32;1mSkipping Git checkout[0;m
[32;1mSkipping Git submodules setup[0;m
section_end:1670427328:get_sources
[0Ksection_start:1670427328:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m[0;m
Using git from spack modules
[32;1mDownloading artifacts for build:coreneuron:mod2c:nvhpc:acc:shared (463635)...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=35875 revision[0;m=58ba2b95 version[0;m=14.2.0
Downloading artifacts from coordinator... ok      [0;m  id[0;m=463635 responseStatus[0;m=200 OK token[0;m=TgAtAvXy
section_end:1670427329:download_artifacts
[0Ksection_start:1670427329: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
Using git from spack modules
[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: r1i4n26
   Build name: Linux-nvc++
Create new tag: 20221207-1535 - Experimental
Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463635/spack-build/spack-stage-coreneuron-develop-w2z6dfwdq6k5tkwudhpbj7owhrne5qzi/spack-build-w2z6dfw
      Start  1: cmd_interface_test
      Start  2: interleave_info_constructor_test
      Start  3: alignment_test
      Start  4: queuing_test
      Start  5: test-solver
      Start  6: lfp_test
      Start  7: ring_TEST
 1/20 Test  #4: queuing_test ...........................   Passed    0.22 sec
      Start 20: reporting_1
 2/20 Test  #1: cmd_interface_test .....................   Passed    0.51 sec
 3/20 Test  #2: interleave_info_constructor_test .......   Passed    0.36 sec
      Start  8: ring_binqueue_TEST
 4/20 Test  #3: alignment_test .........................   Passed    0.35 sec
 5/20 Test  #6: lfp_test ...............................   Passed    0.20 sec
      Start  9: ring_multisend_TEST
 6/20 Test  #5: test-solver ............................   Passed    5.69 sec
 7/20 Test #20: reporting_1 ............................   Passed    5.63 sec
      Start 10: ring_spike_buffer_TEST
 8/20 Test  #7: ring_TEST ..............................   Passed   16.00 sec
      Start 11: ring_gap_TEST
 9/20 Test  #8: ring_binqueue_TEST .....................   Passed   16.24 sec
      Start 12: ring_gap_binqueue_TEST
10/20 Test  #9: ring_multisend_TEST ....................   Passed   16.93 sec
      Start 13: ring_gap_multisend_TEST
11/20 Test #10: ring_spike_buffer_TEST .................   Passed   11.67 sec
      Start 14: ring_permute1_TEST
12/20 Test #14: ring_permute1_TEST .....................   Passed   14.48 sec
      Start 15: ring_gap_permute1_TEST
13/20 Test #11: ring_gap_TEST ..........................   Passed   16.65 sec
      Start 16: ring_permute2_TEST
14/20 Test #12: ring_gap_binqueue_TEST .................   Passed   17.19 sec
      Start 17: ring_gap_permute2_TEST
15/20 Test #13: ring_gap_multisend_TEST ................   Passed   16.61 sec
      Start 18: ring_permute2_cudaInterface_TEST
16/20 Test #16: ring_permute2_TEST .....................   Passed    9.02 sec
      Start 19: ring_gap_permute2_cudaInterface_TEST
17/20 Test #15: ring_gap_permute1_TEST .................   Passed   11.45 sec
18/20 Test #18: ring_permute2_cudaInterface_TEST .......   Passed   10.76 sec
19/20 Test #17: ring_gap_permute2_TEST .................   Passed   14.13 sec
20/20 Test #19: ring_gap_permute2_cudaInterface_TEST ...   Passed    7.70 sec

100% tests passed, 0 tests failed out of 20

Total Test time (real) =  49.83 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:1670427407:step_script
[0Ksection_start:1670427407:upload_artifacts_on_success
[0K[0K[36;1mUploading artifacts for successful job[0;m[0;m
Using git from spack modules
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=37411 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=463652 responseStatus[0;m=201 Created token[0;m=TgAtAvXy
[32;1mUploading artifacts...[0;m
Runtime platform                                  [0;m  arch[0;m=amd64 os[0;m=linux pid[0;m=37441 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=463652 responseStatus[0;m=201 Created token[0;m=TgAtAvXy
section_end:1670427408:upload_artifacts_on_success
[0Ksection_start:1670427408:cleanup_file_variables
[0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
Using git from spack modules
section_end:1670427409:cleanup_file_variables
[0K[32;1mJob succeeded[0;m

## test-coreneuron-nmodl-intel-debug-legacy.txt
Log was not fetched because job had status: skipped

## test-coreneuron-nmodl-intel-shared-debug.txt
Log was not fetched because job had status: skipped

## test-coreneuron-nmodl-nvhpc-acc-debug-legacy.txt
Log was not fetched because job had status: skipped

## test-coreneuron-nmodl-nvhpc-acc-shared.txt
Log was not fetched because job had status: skipped

## test-coreneuron-nmodl-nvhpc-omp-debug.txt
Log was not fetched because job had status: skipped

## test-coreneuron-nmodl-nvhpc-omp-legacy.txt
Log was not fetched because job had status: skipped

## test-neuron-mod2c-intel-shared-debug.txt
Log was not fetched because job had status: skipped

## test-neuron-mod2c-nvhpc-acc-shared.txt
Log was not fetched because job had status: skipped

## test-neuron-nmodl-intel-debug-legacy.txt
Log was not fetched because job had status: skipped

## test-neuron-nmodl-intel-shared-debug.txt
Log was not fetched because job had status: skipped

## test-neuron-nmodl-nvhpc-acc-debug-legacy.txt
Log was not fetched because job had status: skipped

## test-neuron-nmodl-nvhpc-acc-shared.txt
Log was not fetched because job had status: skipped

## test-neuron-nmodl-nvhpc-omp-debug.txt
Log was not fetched because job had status: skipped

## test-neuron-nmodl-nvhpc-omp-legacy.txt
Log was not fetched because job had status: skipped
	[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
	[0K on BB5 map runner pnPo3yJy[0;m
	section_start:1670427554:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m
	section_end:1670427554:resolve_secrets [0Ksection_start:1670427554: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 15.5.0, user
	TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3671657283, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	Runner ID 29, project root hpc, project name coreneuron
	Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463632
	Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
	CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	A slurm job will be created with name GL_J463632_PROD_P112_CP0_C10
	Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
	Not executing the chown -R
	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 1055871
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: R
	sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J463632_PROD_P112_CP0_C10 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
	srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055871 --cpus-per-task=8 --mem=76G
	section_end:1670427570:prepare_executor [0Ksection_start:1670427570:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m
	Using git from spack modules
	Running on r1i5n25 via bbpv1.epfl.ch...
	section_end:1670427573:prepare_script [0Ksection_start:1670427573:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m
	Using git from spack modules
	[32;1mSkipping Git repository setup[0;m
	[32;1mSkipping Git checkout[0;m
	[32;1mSkipping Git submodules setup[0;m
	section_end:1670427574:get_sources [0Ksection_start:1670427574:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m
	Using git from spack modules
	[32;1mChecking cache for build:coreneuron:nmodl:intel:debug:legacy-8-non_protected...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=220008 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:1670427577:restore_cache [0Ksection_start:1670427577:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m
	Using git from spack modules
	[32;1mDownloading artifacts for build:nmodl (463630)...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=220192 revision[0;m=58ba2b95 version[0;m=14.2.0
	Downloading artifacts from coordinator... ok [0;m id[0;m=463630 responseStatus[0;m=200 OK token[0;m=PeNHoazM
	section_end:1670427578:download_artifacts [0Ksection_start:1670427578: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
	Using git from spack modules
	[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/P89228/J463632/spack-config/config.yaml:2 build_stage:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463632/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463632/spack-build
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463632/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463632/spack-source-cache
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18 extensions:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37 template_dirs:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``).
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # home directory.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # pip installable.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118 checksum: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123 deprecated: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128 dirty: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136 build_language: C
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145 locks: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
	Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463632_local_config)
	[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
	[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
	[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
	insteadOf = git@bbpgitlab.epfl.ch:
	[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
	insteadOf = ssh://git@bbpgitlab.epfl.ch/
	[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
	Preparing to install coreneuron%intel +caliper~gpu~legacy-unit+nmodl~openmp~shared~sympy+tests~unified build_type=Debug ^hpe-mpi%gcc ^caliper%gcc+cuda cuda_arch=70 ^/4dzxcpsuksxgtuoesheax4sf76wrhkqb
	[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
	==> Error: Package 'hdf5' not found in repository '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/bluebrain/repo-bluebrain'
	srun: error: r1i5n25: task 0: Exited with exit code 1
	section_end:1670427608:step_script [0Ksection_start:1670427608:upload_artifacts_on_failure [0K[0K[36;1mUploading artifacts for failed job[0;m[0;m
	Using git from spack modules
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=223428 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=463632 responseStatus[0;m=201 Created token[0;m=PeNHoazM
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=223469 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=463632 responseStatus[0;m=201 Created token[0;m=PeNHoazM
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=223527 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=463632 responseStatus[0;m=201 Created token[0;m=PeNHoazM
	section_end:1670427610:upload_artifacts_on_failure [0Ksection_start:1670427610:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
	Using git from spack modules
	section_end:1670427611:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1
	[0;m
	[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
	[0K on BB5 map runner pnPo3yJy[0;m
	section_start:1670427555:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m
	section_end:1670427555:resolve_secrets [0Ksection_start:1670427555: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 15.5.0, user
	TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3423088440, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	Runner ID 29, project root hpc, project name coreneuron
	Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463633
	Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
	CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	A slurm job will be created with name GL_J463633_PROD_P112_CP4_C49
	Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
	Not executing the chown -R
	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 1055872
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: R
	sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J463633_PROD_P112_CP4_C49 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
	srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055872 --cpus-per-task=8 --mem=76G
	section_end:1670427570:prepare_executor [0Ksection_start:1670427570:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m
	Using git from spack modules
	Running on r1i4n28 via bbpv1.epfl.ch...
	section_end:1670427575:prepare_script [0Ksection_start:1670427575:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m
	Using git from spack modules
	[32;1mSkipping Git repository setup[0;m
	[32;1mSkipping Git checkout[0;m
	[32;1mSkipping Git submodules setup[0;m
	section_end:1670427575:get_sources [0Ksection_start:1670427575:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m
	Using git from spack modules
	[32;1mChecking cache for build:coreneuron:nmodl:intel:shared:debug-8-non_protected...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=69450 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:1670427578:restore_cache [0Ksection_start:1670427578:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m
	Using git from spack modules
	[32;1mDownloading artifacts for build:nmodl (463630)...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=69529 revision[0;m=58ba2b95 version[0;m=14.2.0
	Downloading artifacts from coordinator... ok [0;m id[0;m=463630 responseStatus[0;m=200 OK token[0;m=NSqpX62a
	section_end:1670427579:download_artifacts [0Ksection_start:1670427579: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
	Using git from spack modules
	[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/P89228/J463633/spack-config/config.yaml:2 build_stage:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463633/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463633/spack-build
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463633/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463633/spack-source-cache
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18 extensions:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37 template_dirs:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``).
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # home directory.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # pip installable.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118 checksum: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123 deprecated: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128 dirty: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136 build_language: C
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145 locks: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
	Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463633_local_config)
	[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
	[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
	[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
	insteadOf = git@bbpgitlab.epfl.ch:
	[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
	insteadOf = ssh://git@bbpgitlab.epfl.ch/
	[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
	Preparing to install coreneuron%intel ~caliper~gpu~legacy-unit+nmodl~openmp+shared+sympy+tests~unified build_type=Debug ^hpe-mpi%gcc ^/4dzxcpsuksxgtuoesheax4sf76wrhkqb
	[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
	==> Error: Package 'hdf5' not found in repository '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/bluebrain/repo-bluebrain'
	srun: error: r1i4n28: task 0: Exited with exit code 1
	section_end:1670427636:step_script [0Ksection_start:1670427636:upload_artifacts_on_failure [0K[0K[36;1mUploading artifacts for failed job[0;m[0;m
	Using git from spack modules
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=70863 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=463633 responseStatus[0;m=201 Created token[0;m=NSqpX62a
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=70948 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=463633 responseStatus[0;m=201 Created token[0;m=NSqpX62a
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=71025 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=463633 responseStatus[0;m=201 Created token[0;m=NSqpX62a
	section_end:1670427637:upload_artifacts_on_failure [0Ksection_start:1670427637:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
	Using git from spack modules
	section_end:1670427640:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1
	[0;m
	[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
	[0K on BB5 map runner pnPo3yJy[0;m
	section_start:1670427556:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m
	section_end:1670427556:resolve_secrets [0Ksection_start:1670427556: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 15.5.0, user
	TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3919396526, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	Runner ID 29, project root hpc, project name coreneuron
	Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463639
	Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
	CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	A slurm job will be created with name GL_J463639_PROD_P112_CP8_C54
	Job parameters: memory=76G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
	Not executing the chown -R
	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 1055876
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: R
	sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J463639_PROD_P112_CP8_C54 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
	srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055876 --cpus-per-task=8 --mem=76G
	section_end:1670427570:prepare_executor [0Ksection_start:1670427570:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m
	Using git from spack modules
	Running on r1i4n23 via bbpv1.epfl.ch...
	section_end:1670427573:prepare_script [0Ksection_start:1670427573:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m
	Using git from spack modules
	[32;1mSkipping Git repository setup[0;m
	[32;1mSkipping Git checkout[0;m
	[32;1mSkipping Git submodules setup[0;m
	section_end:1670427574:get_sources [0Ksection_start:1670427574:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m
	Using git from spack modules
	[32;1mChecking cache for build:coreneuron:nmodl:nvhpc:omp:debug-8-non_protected...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=88135 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:1670427579:restore_cache [0Ksection_start:1670427579:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m
	Using git from spack modules
	[32;1mDownloading artifacts for build:nmodl (463630)...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=88207 revision[0;m=58ba2b95 version[0;m=14.2.0
	Downloading artifacts from coordinator... ok [0;m id[0;m=463630 responseStatus[0;m=200 OK token[0;m=o3LykApy
	section_end:1670427580:download_artifacts [0Ksection_start:1670427580: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
	Using git from spack modules
	[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/P89228/J463639/spack-config/config.yaml:2 build_stage:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463639/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463639/spack-build
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463639/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463639/spack-source-cache
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18 extensions:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37 template_dirs:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``).
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # home directory.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # pip installable.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118 checksum: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123 deprecated: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128 dirty: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136 build_language: C
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145 locks: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
	Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463639_local_config)
	[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
	[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
	[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
	insteadOf = git@bbpgitlab.epfl.ch:
	[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
	insteadOf = ssh://git@bbpgitlab.epfl.ch/
	[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
	Preparing to install coreneuron%nvhpc +caliper+gpu~legacy-unit+nmodl+openmp~shared+sympy+tests~unified build_type=Debug ^hpe-mpi%gcc ^caliper%gcc+cuda cuda_arch=70 ^/4dzxcpsuksxgtuoesheax4sf76wrhkqb
	[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
	==> Error: Package 'hdf5' not found in repository '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/bluebrain/repo-bluebrain'
	srun: error: r1i4n23: task 0: Exited with exit code 1
	section_end:1670427606:step_script [0Ksection_start:1670427606:upload_artifacts_on_failure [0K[0K[36;1mUploading artifacts for failed job[0;m[0;m
	Using git from spack modules
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=88747 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=463639 responseStatus[0;m=201 Created token[0;m=o3LykApy
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=88789 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=463639 responseStatus[0;m=201 Created token[0;m=o3LykApy
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=88829 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=463639 responseStatus[0;m=201 Created token[0;m=o3LykApy
	section_end:1670427607:upload_artifacts_on_failure [0Ksection_start:1670427607:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
	Using git from spack modules
	section_end:1670427608:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1
	[0;m
	[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
	[0K on BB5 map runner pnPo3yJy[0;m
	section_start:1670427527:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m
	section_end:1670427527:resolve_secrets [0Ksection_start:1670427527: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 15.5.0, user
	TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor4093376776, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	Runner ID 29, project root hpc, project name coreneuron
	Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463640
	Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
	CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	A slurm job will be created with name GL_J463640_PROD_P112_CP1_C14
	Job parameters: memory=76G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
	Not executing the chown -R
	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 1055852
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: R
	sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J463640_PROD_P112_CP1_C14 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=2:00:00 --wrap="sleep infinity"
	srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055852 --cpus-per-task=8 --mem=76G
	section_end:1670427549:prepare_executor [0Ksection_start:1670427549:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m
	Using git from spack modules
	Running on r1i4n15 via bbpv1.epfl.ch...
	section_end:1670427552:prepare_script [0Ksection_start:1670427552:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m
	Using git from spack modules
	[32;1mSkipping Git repository setup[0;m
	[32;1mSkipping Git checkout[0;m
	[32;1mSkipping Git submodules setup[0;m
	section_end:1670427553:get_sources [0Ksection_start:1670427553:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m
	Using git from spack modules
	[32;1mChecking cache for build:neuron:mod2c:intel:shared:debug-8-non_protected...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=153367 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:1670427558:restore_cache [0Ksection_start:1670427558:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m
	Using git from spack modules
	[32;1mDownloading artifacts for build:coreneuron:mod2c:intel:shared:debug (463631)...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=153587 revision[0;m=58ba2b95 version[0;m=14.2.0
	Downloading artifacts from coordinator... ok [0;m id[0;m=463631 responseStatus[0;m=200 OK token[0;m=THxs_Kmz
	section_end:1670427559:download_artifacts [0Ksection_start:1670427559: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
	Using git from spack modules
	[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/P89228/J463640/spack-config/config.yaml:2 build_stage:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463640/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463640/spack-build
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463640/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463640/spack-source-cache
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18 extensions:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37 template_dirs:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``).
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # home directory.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # pip installable.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118 checksum: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123 deprecated: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128 dirty: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136 build_language: C
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145 locks: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
	Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463640_local_config)
	[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
	[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
	[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
	insteadOf = git@bbpgitlab.epfl.ch:
	[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
	insteadOf = ssh://git@bbpgitlab.epfl.ch/
	[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
	Preparing to install neuron%intel +coreneuron+debug+tests~legacy-unit~rx3d model_tests=channel-benchmark,olfactory,tqperf-heavy ^/udoqinvar6cp75viyxkh44mgzbht4q76
	[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
	==> Error: Package 'hdf5' not found in repository '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/bluebrain/repo-bluebrain'
	srun: error: r1i4n15: task 0: Exited with exit code 1
	section_end:1670427619:step_script [0Ksection_start:1670427619:upload_artifacts_on_failure [0K[0K[36;1mUploading artifacts for failed job[0;m[0;m
	Using git from spack modules
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=155418 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=463640 responseStatus[0;m=201 Created token[0;m=THxs_Kmz
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=155463 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=463640 responseStatus[0;m=201 Created token[0;m=THxs_Kmz
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=155506 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=463640 responseStatus[0;m=201 Created token[0;m=THxs_Kmz
	section_end:1670427621:upload_artifacts_on_failure [0Ksection_start:1670427621:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
	Using git from spack modules
	section_end:1670427622:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1
	[0;m
	[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
	[0K on BB5 map runner pnPo3yJy[0;m
	section_start:1670427318:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m
	section_end:1670427318:resolve_secrets [0Ksection_start:1670427318: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 15.5.0, user
	TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor961870602, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	Runner ID 29, project root hpc, project name coreneuron
	Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463643
	Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag
	CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	A slurm job will be created with name GL_J463643_PROD_P112_CP3_C6
	Job parameters: memory=76G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
	Not executing the chown -R
	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 1055824
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: R
	sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=76G --job-name=GL_J463643_PROD_P112_CP3_C6 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=2:00:00 --wrap="sleep infinity"
	srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=2 --jobid=1055824 --cpus-per-task=8 --mem=76G
	section_end:1670427327:prepare_executor [0Ksection_start:1670427327:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m
	Using git from spack modules
	Running on r1i4n15 via bbpv1.epfl.ch...
	section_end:1670427329:prepare_script [0Ksection_start:1670427329:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m
	Using git from spack modules
	[32;1mSkipping Git repository setup[0;m
	[32;1mSkipping Git checkout[0;m
	[32;1mSkipping Git submodules setup[0;m
	section_end:1670427330:get_sources [0Ksection_start:1670427330:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m
	Using git from spack modules
	[32;1mChecking cache for build:neuron:mod2c:nvhpc:acc:shared-8-non_protected...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=149049 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:1670427336:restore_cache [0Ksection_start:1670427336:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m
	Using git from spack modules
	[32;1mDownloading artifacts for build:coreneuron:mod2c:nvhpc:acc:shared (463635)...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=149191 revision[0;m=58ba2b95 version[0;m=14.2.0
	Downloading artifacts from coordinator... ok [0;m id[0;m=463635 responseStatus[0;m=200 OK token[0;m=s7fsEeXJ
	section_end:1670427337:download_artifacts [0Ksection_start:1670427337: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
	Using git from spack modules
	[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/P89228/J463643/spack-config/config.yaml:2 build_stage:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463643/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463643/spack-build
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463643/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463643/spack-source-cache
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:18 extensions:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:18 - $spack/bluebrain/spack-scripting
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:37 template_dirs:
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:37 - $spack/share/spack/templates
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Temporary locations Spack can try to use for builds.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Recommended options are given below.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Builds can be faster in temporary directories on some (e.g., HPC) systems.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # Specifying `$tempdir` will ensure use of the default temporary directory
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # (i.e., ``$TMP` or ``$TMPDIR``).
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # to specify `$user_cache_path/stage`, which ensures each user builds in their
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # home directory.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # A more traditional path uses the value of `$spack/var/spack/stage`, which
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # pip installable.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 # users in shared temporary spaces.
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:38 #
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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/P89228/J463628/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/P89228/J463628/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/P89228/J463628/spack/etc/spack/defaults/config.yaml:73 test_stage: $user_cache_path/test
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:82 misc_cache: $user_cache_path/cache
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:94 connect_timeout: 10
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:99 verify_ssl: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:107 suppress_gpg_warnings: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:113 install_missing_compilers: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:118 checksum: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:123 deprecated: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:128 dirty: False
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:136 build_language: C
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:145 locks: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:150 url_fetch_method: urllib
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:176 concretizer: clingo
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:183 db_lock_timeout: 300
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:191 package_lock_timeout: null
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:197 shared_linking: rpath
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/etc/spack/defaults/config.yaml:202 allow_sgid: True
	/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/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 (${XDG_CONFIG_HOME})"[0;m
	Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463643_local_config)
	[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
	[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
	[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
	insteadOf = git@bbpgitlab.epfl.ch:
	[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
	insteadOf = ssh://git@bbpgitlab.epfl.ch/
	[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m
	Preparing to install neuron%nvhpc +coreneuron+debug+tests~legacy-unit~rx3d model_tests=channel-benchmark,olfactory,tqperf-heavy ^/w2z6dfwdq6k5tkwudhpbj7owhrne5qzi
	[32;1m$ JSON_SPEC=$(spack spec --json ${SPACK_FULL_SPEC})[0;m
	==> Error: Package 'hdf5' not found in repository '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628/spack/bluebrain/repo-bluebrain'
	srun: error: r1i4n15: task 0: Exited with exit code 1
	section_end:1670427380:step_script [0Ksection_start:1670427380:upload_artifacts_on_failure [0K[0K[36;1mUploading artifacts for failed job[0;m[0;m
	Using git from spack modules
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=150351 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=463643 responseStatus[0;m=201 Created token[0;m=s7fsEeXJ
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=150394 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=463643 responseStatus[0;m=201 Created token[0;m=s7fsEeXJ
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=150434 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=463643 responseStatus[0;m=201 Created token[0;m=s7fsEeXJ
	section_end:1670427382:upload_artifacts_on_failure [0Ksection_start:1670427382:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
	Using git from spack modules
	section_end:1670427383:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1
	[0;m
	[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
	[0K on BB5 map runner pnPo3yJy[0;m
	section_start:1670426789:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m
	section_end:1670426789:resolve_secrets [0Ksection_start:1670426789: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 15.5.0, user
	TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3004857985, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	Runner ID 29, project root hpc, project name coreneuron
	Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463628
	Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=6, optional qos flag
	CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	A slurm job will be created with name GL_J463628_PROD_P112_CP0_C34
	Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
	Not executing the chown -R
	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 1055725
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: PD
	job state: R
	sbatch: sbatch -p prod -A proj9998 --ntasks=1 --cpus-per-task=6 --mem=30750M --job-name=GL_J463628_PROD_P112_CP0_C34 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
	srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=1 --jobid=1055725 --cpus-per-task=6 --mem=30750M
	section_end:1670426837:prepare_executor [0Ksection_start:1670426837:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m
	Using git from spack modules
	Running on r1i7n22 via bbpv1.epfl.ch...
	section_end:1670426840:prepare_script [0Ksection_start:1670426840:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m
	Using git from spack modules
	[32;1mSkipping Git repository setup[0;m
	[32;1mSkipping Git checkout[0;m
	[32;1mSkipping Git submodules setup[0;m
	section_end:1670426840:get_sources [0Ksection_start:1670426840: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
	Using git from spack modules
	[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 hpe-mpi/2.25.hmpt
	[32;1m$ else[0;m
	[32;1m$ cat input_variables.env[0;m
	NEURON_BRANCH=sandbox/jblanco/lfp
	NMODL_BRANCH=master
	SPACK_BRANCH=sandbox/jblanco/lfp
	[32;1m$ for var_to_unset in $(sed 's/^\(.\?\)_\(BRANCH\\|COMMIT\\|TAG\)=.$/\1_BRANCH\n\1_COMMIT\n\1_TAG/' input_variables.env); do # collapsed multi-line command[0;m
	Unsetting NEURON_BRANCH
	Unsetting NMODL_BRANCH
	Unsetting SPACK_BRANCH
	[32;1m$ 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 ${PWD}[0;m
	Preparing to clone Spack into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463628
	[32;1m$ if [[ -z "${SPACK_BRANCH}" && ( -n "${SPACK_COMMIT}" \|\| -n "${SPACK_TAG}" ) ]]; then[0;m
	[32;1m$ echo Checking out the ${SPACK_BRANCH} of Spack...[0;m
	Checking out the sandbox/jblanco/lfp of Spack...
	[32;1m$ 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: 3% (320/9134) Updating files: 4% (366/9134) Updating files: 5% (457/9134) Updating files: 6% (549/9134) Updating files: 7% (640/9134) Updating files: 8% (731/9134) Updating files: 8% (735/9134) Updating files: 9% (823/9134) Updating files: 10% (914/9134) Updating files: 11% (1005/9134) Updating files: 12% (1097/9134) Updating files: 13% (1188/9134) Updating files: 13% (1199/9134) Updating files: 14% (1279/9134) Updating files: 15% (1371/9134) Updating files: 16% (1462/9134) Updating files: 16% (1520/9134) Updating files: 17% (1553/9134) Updating files: 18% (1645/9134) Updating files: 19% (1736/9134) Updating files: 20% (1827/9134) Updating files: 21% (1919/9134) Updating files: 21% (1985/9134) Updating files: 22% (2010/9134) Updating files: 23% (2101/9134) Updating files: 24% (2193/9134) Updating files: 24% (2246/9134) Updating files: 25% (2284/9134) Updating files: 26% (2375/9134) Updating files: 27% (2467/9134) Updating files: 28% (2558/9134) Updating files: 29% (2649/9134) Updating files: 29% (2710/9134) Updating files: 30% (2741/9134) Updating files: 31% (2832/9134) Updating files: 32% (2923/9134) Updating files: 32% (2954/9134) Updating files: 33% (3015/9134) Updating files: 34% (3106/9134) Updating files: 35% (3197/9134) Updating files: 35% (3235/9134) Updating files: 36% (3289/9134) Updating files: 37% (3380/9134) Updating files: 38% (3471/9134) Updating files: 38% (3524/9134) Updating files: 39% (3563/9134) Updating files: 39% (3594/9134) Updating files: 40% (3654/9134) Updating files: 41% (3745/9134) Updating files: 41% (3769/9134) Updating files: 41% (3834/9134) Updating files: 42% (3837/9134) Updating files: 42% (3884/9134) Updating files: 43% (3928/9134) Updating files: 44% (4019/9134) Updating files: 45% (4111/9134) Updating files: 45% (4186/9134) Updating files: 46% (4202/9134) Updating files: 47% (4293/9134) Updating files: 48% (4385/9134) Updating files: 48% (4405/9134) Updating files: 49% (4476/9134) Updating files: 49% (4510/9134) Updating files: 50% (4567/9134) Updating files: 51% (4659/9134) Updating files: 52% (4750/9134) Updating files: 52% (4760/9134) Updating files: 52% (4840/9134) Updating files: 53% (4842/9134) Updating files: 53% (4864/9134) Updating files: 54% (4933/9134) Updating files: 55% (5024/9134) Updating files: 55% (5036/9134) Updating files: 56% (5116/9134) Updating files: 57% (5207/9134) Updating files: 58% (5298/9134) Updating files: 59% (5390/9134) Updating files: 59% (5414/9134) Updating files: 60% (5481/9134) Updating files: 61% (5572/9134) Updating files: 61% (5632/9134) Updating files: 62% (5664/9134) Updating files: 63% (5755/9134) Updating files: 64% (5846/9134) Updating files: 64% (5927/9134) Updating files: 65% (5938/9134) Updating files: 66% (6029/9134) Updating files: 66% (6040/9134) Updating files: 67% (6120/9134) Updating files: 67% (6121/9134) Updating files: 68% (6212/9134) Updating files: 69% (6303/9134) Updating files: 69% (6388/9134) Updating files: 70% (6394/9134) Updating files: 71% (6486/9134) Updating files: 72% (6577/9134) Updating files: 72% (6623/9134) Updating files: 73% (6668/9134) Updating files: 74% (6760/9134) Updating files: 75% (6851/9134) Updating files: 75% (6864/9134) Updating files: 76% (6942/9134) Updating files: 77% (7034/9134) Updating files: 78% (7125/9134) Updating files: 78% (7138/9134) Updating files: 79% (7216/9134) Updating files: 80% (7308/9134) Updating files: 80% (7373/9134) Updating files: 81% (7399/9134) Updating files: 82% (7490/9134) Updating files: 83% (7582/9134) Updating files: 83% (7621/9134) Updating files: 84% (7673/9134) Updating files: 85% (7764/9134) Updating files: 86% (7856/9134) Updating files: 86% (7857/9134) Updating files: 87% (7947/9134) Updating files: 88% (8038/9134) Updating files: 88% (8100/9134) Updating files: 89% (8130/9134) Updating files: 90% (8221/9134) Updating files: 91% (8312/9134) Updating files: 91% (8377/9134) Updating files: 92% (8404/9134) Updating files: 93% (8495/9134) Updating files: 94% (8586/9134) Updating files: 94% (8641/9134) Updating files: 95% (8678/9134) Updating files: 96% (8769/9134) Updating files: 97% (8860/9134) Updating files: 97% (8880/9134) Updating files: 98% (8952/9134) Updating files: 99% (9043/9134) Updating files: 100% (9134/9134) Updating files: 100% (9134/9134), 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 (${XDG_CONFIG_HOME})"[0;m
	Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228/J463628_local_config)
	[32;1m$ 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$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m
	[32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m
	[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
	insteadOf = git@bbpgitlab.epfl.ch:
	[url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"]
	insteadOf = ssh://git@bbpgitlab.epfl.ch/
	[32;1m$ env -0 \| sed -nz '/^CUSTOM_ENV_/d;/^[^=]\+_\(BRANCH\\|COMMIT\\|TAG\)=.\+/p' \| xargs -0t spack configure-pipeline --ignore-packages CI_BUILD CI_COMMIT CI_DEFAULT GITLAB_PIPELINES SPACK ${SPACK_SETUP_IGNORE_PACKAGE_VARIABLES} --write-commit-file=commit-mapping.env[0;m
	spack configure-pipeline --ignore-packages CI_BUILD CI_COMMIT CI_DEFAULT GITLAB_PIPELINES SPACK --write-commit-file=commit-mapping.env CI_COMMIT_BRANCH=sandbox/jblanco/lfp GITLAB_PIPELINES_BRANCH=main NEURON_BRANCH=sandbox/jblanco/lfp NMODL_BRANCH=master SPACK_BRANCH=sandbox/jblanco/lfp CI_DEFAULT_BRANCH=master CORENEURON_COMMIT=8f27b92ff41054643c2d05571e9854847f1e3a46
	==> CI_COMMIT: ignoring CI_COMMIT_BRANCH=sandbox/jblanco/lfp
	==> GITLAB_PIPELINES: ignoring GITLAB_PIPELINES_BRANCH=main
	==> SPACK: ignoring SPACK_BRANCH=sandbox/jblanco/lfp
	==> CI_DEFAULT: ignoring CI_DEFAULT_BRANCH=master
	==> neuron: resolved branch sandbox/jblanco/lfp to 9228f80b89b8bf01d65d61bf1aeacad4f193b0c1
	==> nmodl: resolved branch master to 7cf95511a804590681e1a5b9f9088b7860baca5d
	==> neuron@develop: remove branch/commit/tag
	==> neuron@develop: use commit="9228f80b89b8bf01d65d61bf1aeacad4f193b0c1"
	==> neuron@develop: add preferred=True
	==> nmodl@develop: remove branch/commit/tag
	==> nmodl@develop: use commit="7cf95511a804590681e1a5b9f9088b7860baca5d"
	==> nmodl@develop: add preferred=True
	==> coreneuron@develop: remove branch/commit/tag
	==> coreneuron@develop: use commit="8f27b92ff41054643c2d05571e9854847f1e3a46"
	==> coreneuron@develop: add preferred=True
	[32;1m$ (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 1061e40..f068055 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='8f27b92ff41054643c2d05571e9854847f1e3a46') # old: branch='master'
	version('8.2.1.2022.03.10_lfp', branch='sandbox/jblanco/lfp')
	version('8.2.1_lfp', branch='sandbox/jblanco/lfp')
	version('8.2.1', tag='8.2.1')
	diff --git a/bluebrain/repo-bluebrain/packages/nmodl/package.py b/bluebrain/repo-bluebrain/packages/nmodl/package.py
	index a79f28b..e210189 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='7cf95511a804590681e1a5b9f9088b7860baca5d', submodules=True) # old: branch="master"
	version("llvm", branch="llvm", submodules=True)
	version("0.4.0", tag="0.4")
	# This is the merge commit of #875, which allows catch2 etc. to be dependencies
	diff --git a/bluebrain/repo-patches/packages/neuron/package.py b/bluebrain/repo-patches/packages/neuron/package.py
	index 5092190..bc3c831 100644
	--- a/bluebrain/repo-patches/packages/neuron/package.py
	+++ b/bluebrain/repo-patches/packages/neuron/package.py
	@@ -30,7 +30,7 @@ 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='9228f80b89b8bf01d65d61bf1aeacad4f193b0c1') # old: branch="master"
	version("8.2.1.2022.03.10_lfp", branch="sandbox/jblanco/lfp")
	version("8.2.1_lfp", branch="sandbox/jblanco/lfp")
	version("8.2.1", tag="8.2.1")
	[32;1m$ cat commit-mapping.env[0;m
	NEURON_COMMIT=9228f80b89b8bf01d65d61bf1aeacad4f193b0c1
	NMODL_COMMIT=7cf95511a804590681e1a5b9f9088b7860baca5d
	CORENEURON_COMMIT=8f27b92ff41054643c2d05571e9854847f1e3a46
	[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:1670427096:step_script [0Ksection_start:1670427096:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m
	Using git from spack modules
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=99383 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=463628 responseStatus[0;m=201 Created token[0;m=ajydHPW1
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=99408 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=463628 responseStatus[0;m=201 Created token[0;m=ajydHPW1
	section_end:1670427097:upload_artifacts_on_success [0Ksection_start:1670427097:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
	Using git from spack modules
	section_end:1670427098:cleanup_file_variables [0K[32;1mJob succeeded[0;m
	[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m
	[0K on BB5 map runner pnPo3yJy[0;m
	section_start:1670427578:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m
	section_end:1670427578:resolve_secrets [0Ksection_start:1670427578: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 15.5.0, user
	TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3215246520, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	Runner ID 29, project root hpc, project name coreneuron
	Pipeline ID 89228, build ref 8f27b92ff41054643c2d05571e9854847f1e3a46, job ID 463651
	Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228, optional exclusive flag , optional cpus per task flag --cpus-per-task=1, optional qos flag
	CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
	uid=0(root) gid=0(root) groups=0(root)
	root
	UID is 0
	A slurm job will be created with name GL_J463651_PROD_P112_CP2_C15
	Job parameters: memory=30750M, cpus_per_task=1, duration=1:00:00, constraint=volta ntasks=8 account=proj9998 user=bbpcihpcproj12 partition=prod qos=
	Not executing the chown -R
	sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS
	Submitted batch job 1055894
	job state: R
	sbatch: sbatch -p prod -A proj9998 --ntasks=8 --cpus-per-task=1 --mem=30750M --job-name=GL_J463651_PROD_P112_CP2_C15 -C volta --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --time=1:00:00 --wrap="sleep infinity"
	srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P89228 --ntasks=8 --jobid=1055894 --cpus-per-task=1 --mem=30750M
	section_end:1670427580:prepare_executor [0Ksection_start:1670427580:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m
	Using git from spack modules
	Running on ldir01u09.bbp.epfl.ch via bbpv1.epfl.ch...
	section_end:1670427587:prepare_script [0Ksection_start:1670427587:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m
	Using git from spack modules
	[32;1mSkipping Git repository setup[0;m
	[32;1mSkipping Git checkout[0;m
	[32;1mSkipping Git submodules setup[0;m
	section_end:1670427588:get_sources [0Ksection_start:1670427588:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m
	Using git from spack modules
	[32;1mDownloading artifacts for build:coreneuron:mod2c:nvhpc:acc:debug:unified (463634)...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=39757 revision[0;m=58ba2b95 version[0;m=14.2.0
	Downloading artifacts from coordinator... ok [0;m id[0;m=463634 responseStatus[0;m=200 OK token[0;m=iTEUyfk2
	section_end:1670427589:download_artifacts [0Ksection_start:1670427589: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
	Using git from spack modules
	[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: r1i5n25
	Build name: Linux-nvc++
	Create new tag: 20221207-1540 - Experimental
	Test project /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P89228/J463634/spack-build/spack-stage-coreneuron-develop-2asi2me356b2upp2q2whulfko55yuxye/spack-build-2asi2me
	Start 1: cmd_interface_test
	Start 2: interleave_info_constructor_test
	Start 3: alignment_test
	Start 4: queuing_test
	Start 5: test-solver
	Start 6: lfp_test
	Start 7: ring_TEST
	1/20 Test #1: cmd_interface_test ..................... Passed 0.22 sec
	Start 20: reporting_1
	2/20 Test #4: queuing_test ........................... Passed 0.18 sec
	3/20 Test #6: lfp_test ............................... Passed 0.19 sec
	Start 8: ring_binqueue_TEST
	4/20 Test #3: alignment_test ......................... Passed 4.84 sec
	5/20 Test #2: interleave_info_constructor_test ....... Passed 4.96 sec
	Start 9: ring_multisend_TEST
	6/20 Test #20: reporting_1 ............................ Passed 5.45 sec
	7/20 Test #5: test-solver ............................ Passed 7.00 sec
	Start 10: ring_spike_buffer_TEST
	8/20 Test #8: ring_binqueue_TEST ..................... Passed 27.74 sec
	Start 11: ring_gap_TEST
	9/20 Test #7: ring_TEST .............................. Passed 28.27 sec
	Start 12: ring_gap_binqueue_TEST
	10/20 Test #9: ring_multisend_TEST .................... Passed 24.80 sec
	Start 13: ring_gap_multisend_TEST
	11/20 Test #10: ring_spike_buffer_TEST ................. Passed 24.27 sec
	Start 14: ring_permute1_TEST
	12/20 Test #14: ring_permute1_TEST ..................... Passed 24.75 sec
	Start 15: ring_gap_permute1_TEST
	13/20 Test #11: ring_gap_TEST .......................... Passed 29.71 sec
	Start 16: ring_permute2_TEST
	14/20 Test #12: ring_gap_binqueue_TEST ................. Passed 29.52 sec
	Start 17: ring_gap_permute2_TEST
	15/20 Test #13: ring_gap_multisend_TEST ................ Passed 29.25 sec
	Start 18: ring_permute2_cudaInterface_TEST
	16/20 Test #16: ring_permute2_TEST ..................... Passed 20.90 sec
	Start 19: ring_gap_permute2_cudaInterface_TEST
	17/20 Test #15: ring_gap_permute1_TEST ................. Passed 23.98 sec
	18/20 Test #18: ring_permute2_cudaInterface_TEST ....... Passed 21.17 sec
	19/20 Test #17: ring_gap_permute2_TEST ................. Passed 24.34 sec
	20/20 Test #19: ring_gap_permute2_cudaInterface_TEST ... Passed 7.55 sec

	100% tests passed, 0 tests failed out of 20

	Total Test time (real) = 86.17 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:1670427702:step_script [0Ksection_start:1670427702:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m
	Using git from spack modules
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=42111 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=463651 responseStatus[0;m=201 Created token[0;m=iTEUyfk2
	[32;1mUploading artifacts...[0;m
	Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=42178 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=463651 responseStatus[0;m=201 Created token[0;m=iTEUyfk2
	section_end:1670427704:upload_artifacts_on_success [0Ksection_start:1670427704:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m
	Using git from spack modules
	section_end:1670427704:cleanup_file_variables [0K[32;1mJob succeeded[0;m