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bbpbuildbot/GitLab logs for neuronsimulator-nrn#2909 Secret

Created June 17, 2024 15:21
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Logfiles for GitLab pipeline https://bbpgitlab.epfl.ch/hpc/cellular/nrn/-/pipelines/217394 (:no_entry:) running on GitHub PR neuronsimulator/nrn#2909.
Raw
build-neuron-nmodl-intel-legacy.txt
Running with gitlab-runner 15.5.0 (0d4137b8)
 on BB5 map runner pnPo3yJy
section_start:1718635140:resolve_secrets Resolving secrets
section_end:1718635140:resolve_secrets section_start:1718635140:prepare_executor Preparing the "custom" executor
Using Custom executor with driver BB5 PROD runner v0.0.3...
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-executor65909970, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
Runner ID 29, project root hpc, project name nrn
Pipeline ID 217394, build ref , job ID 1321687
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag , optional reservation flag
A slurm job will be created with name GL_J1321687_PROD_P2160_CP0_C1
Job parameters: memory=160G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos= reservation=
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 2254969
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1321687_PROD_P2160_CP0_C1 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --time=2:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --ntasks=2 --jobid=2254969 --cpus-per-task=8 --mem=160G
section_end:1718635142:prepare_executor section_start:1718635142:prepare_script Preparing environment
Using git from spack modules
Running on r1i6n5 via bbpv1.epfl.ch...
section_end:1718635146:prepare_script section_start:1718635146:get_sources Getting source from Git repository
Using git from spack modules
Skipping Git repository setup
Skipping Git checkout
Skipping Git submodules setup
section_end:1718635147:get_sources section_start:1718635147:restore_cache Restoring cache
Using git from spack modules
Checking cache for build:neuron:nmodl:intel:legacy-1-non_protected...
Runtime platform  arch=amd64 os=linux pid=2717 revision=58ba2b95 version=14.2.0
cache.zip is up to date 
Successfully extracted cache
section_end:1718635153:restore_cache section_start:1718635153:download_artifacts Downloading artifacts
Using git from spack modules
Downloading artifacts for build:nmodl (1321686)...
Runtime platform  arch=amd64 os=linux pid=2827 revision=58ba2b95 version=14.2.0
Downloading artifacts from coordinator... ok  id=1321686 responseStatus=200 OK token=glcbt-64
section_end:1718635154:download_artifacts section_start:1718635154:step_script Executing "step_script" stage of the job script
WARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426
Using git from spack modules
$ SPACK_BUILD="${PWD}/spack-build"
$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env
$ . ${SPACK_ROOT}/share/spack/setup-env.sh
$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config
$ mkdir ${SPACK_USER_CONFIG_PATH}
$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command
$ spack ${SPACK_EXTRA_FLAGS} config add concretizer:reuse:false
$ spack ${SPACK_EXTRA_FLAGS} config blame config
--- config:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-config/config.yaml:2 build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/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:7 environments_root: $user_cache_path/environments
/gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 build_jobs: 8
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:18 extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:37 template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:124 checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:129 deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:134 dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:142 build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:151 locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:205 shared_linking:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:210 type: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:216 bind: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:227 install_status: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:233 flags:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:235 keep_werror: none
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:240 aliases:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:241 concretise: concretize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:242 containerise: containerize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:243 rm: remove
_builtin debug: False
$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer
--- concretizer:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-config/concretizer.yaml:2 reuse: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:23 targets:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:38 unify: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:40 duplicates:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal
$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config
$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394/J1321687_local_config)
$ mkdir -p "${XDG_CONFIG_HOME}/git"
$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"
$ 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"
$ cat "${XDG_CONFIG_HOME}/git/config"
[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/
$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"
$ echo "Preparing to install ${SPACK_FULL_SPEC}"
Preparing to install neuron%oneapi ~rx3d~caliper~gpu+coreneuron~legacy-unit~openmp~shared~sympy+tests build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^/53hy2ex7xntc24cnbuojh6rrc3l2auap
$ if [ ${SPACK_USE_CCACHE+x} ]; then
$ module load unstable ccache
$ export CCACHE_BASEDIR=$(realpath -P ${CI_BUILDS_DIR})
$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394
$ export CCACHE_MAXSIZE=512M
$ export CCACHE_DIR="${TMPDIR}/ccache"
$ mkdir -p ${CCACHE_DIR}
$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then
$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"
$ fi
$ ccache --zero-stats
Statistics zeroed
$ ccache --show-stats --verbose
Cache directory: /nvme/bbpcihpcproj12/2254969/ccache
Config file: /nvme/bbpcihpcproj12/2254969/ccache/ccache.conf
System config file: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ccache-4.7.4-eompz5/etc/ccache.conf
Stats updated: Mon Jun 17 16:39:19 2024
Local storage:
Cache size (GB): 0.46 / 0.51 (90.13%)
Files: 10510
Hits: 0
Misses: 0
Reads: 0
Writes: 0
$ fi
$ module load unstable git ${SPACK_EXTRA_MODULES}
$ spack ${SPACK_EXTRA_FLAGS} spec -Il ${SPACK_FULL_SPEC}
Input spec
--------------------------------
- neuron%oneapi~caliper+coreneuron~gpu~legacy-unit~openmp~rx3d~shared~sympy+tests build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy
- ^/53hy2ex7xntc24cnbuojh6rrc3l2auap
Concretized
--------------------------------
- k7yneqm neuron@git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop%oneapi@2023.2.0~backtrace~caliper+coreneuron~gpu~interviews~ipo~legacy-unit+mpi~openmp~prcellstate+python+report~rx3d~shared~sympy~sympyopt+tests build_system=cmake build_type=FastDebug generator=make model_tests=channel-benchmark,olfactory,tqperf-heavy sanitizers=None arch=linux-rhel7-skylake
[^] tj3mv5i ^binutils@2.41%gcc@12.3.0+gas+gold~gprofng~headers~interwork+ld~libiberty~lto~nls~pgo+plugins build_system=autotools compress_debug_sections=zlib libs=shared,static arch=linux-rhel7-skylake
[^] 7jd6loj ^diffutils@3.9%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] e533uuv ^pkgconf@1.9.5%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] z7jpg7s ^zlib-ng@2.1.4%gcc@12.3.0+compat+opt build_system=autotools arch=linux-rhel7-skylake
[^] aivjoo2 ^zstd@1.5.5%gcc@12.3.0+programs build_system=makefile compression=none libs=shared,static arch=linux-rhel7-skylake
[e] yn5fbwg ^bison@3.8.2%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[e] rd65pst ^boost@1.83.0%gcc@12.3.0~atomic~chrono~clanglibcpp~container~context~contract~coroutine~date_time~debug~exception~fiber+filesystem~graph~graph_parallel~icu~iostreams~json~locale~log~math~mpi+multithreaded~nowide~numpy+pic~program_options~python~random~regex+serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout+test~thread~timer~type_erasure~versionedlayout~wave build_system=generic cxxstd=98 patches=a440f96 visibility=hidden arch=linux-rhel7-skylake
[e] b5zzpr3 ^cmake@3.27.7%gcc@12.3.0~doc+ncurses+ownlibs build_system=generic build_type=Release arch=linux-rhel7-skylake
[e] 77vzaxs ^flex@2.6.3%gcc@12.3.0+lex~nls build_system=autotools arch=linux-rhel7-skylake
[^] nbi5w5c ^gettext@0.22.3%gcc@12.3.0+bzip2+curses+git~libunistring+libxml2+pic+shared+tar+xz build_system=autotools arch=linux-rhel7-skylake
[^] vdqwmgi ^bzip2@1.0.8%gcc@12.3.0~debug~pic+shared build_system=generic arch=linux-rhel7-skylake
[^] nv4xh4v ^libiconv@1.17%gcc@12.3.0 build_system=autotools libs=shared,static arch=linux-rhel7-skylake
[^] oh2g4in ^libxml2@2.10.3%gcc@12.3.0+pic~python+shared build_system=autotools arch=linux-rhel7-skylake
[^] zz4acmm ^tar@1.34%gcc@12.3.0 build_system=autotools zip=pigz arch=linux-rhel7-skylake
[^] dwjcguu ^pigz@2.7%gcc@12.3.0 build_system=makefile arch=linux-rhel7-skylake
[^] wwn5enj ^xz@5.4.1%gcc@12.3.0~pic build_system=autotools libs=shared,static arch=linux-rhel7-skylake
[^] swjylul ^gmake@4.4.1%gcc@12.3.0~guile build_system=generic arch=linux-rhel7-skylake
[e] h6t3hgb ^hpe-mpi@2.27.p1.hmpt%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
- fz3oxtc ^libsonata-report@git.5602aadfa710d6766ce23cd151a1855190271bd8=develop%oneapi@2023.2.0~ipo+mpi build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 5o77yem ^hdf5@1.14.3%gcc@12.3.0+cxx~fortran+hl~ipo~java~map+mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] ihotvbs ^spdlog@1.12.0%gcc@12.3.0+fmt_external~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 6kdbhvi ^ncurses@6.4%gcc@12.3.0~symlinks+termlib abi=none build_system=autotools arch=linux-rhel7-skylake
[e] omn6mm4 ^ninja@1.11.1%gcc@12.3.0+re2c build_system=generic arch=linux-rhel7-skylake
[+] 53hy2ex ^nmodl@git.5ff221d045c92389b4cab5ee159d46770aa12665=develop%gcc@12.3.0~ipo~legacy-unit~llvm~llvm_cuda~python~tests build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[^] pywly2v ^catch2@3.4.0%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] ud3echq ^cli11@2.3.2%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] evtttrh ^fmt@10.1.1%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release cxxstd=11 generator=make arch=linux-rhel7-skylake
[^] teske2k ^nlohmann-json@3.9.1%gcc@12.3.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 5dylnca ^py-find-libpython@0.3.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 7validy ^py-jinja2@3.1.2%gcc@12.3.0~i18n build_system=python_pip arch=linux-rhel7-skylake
[^] r3ehtmw ^py-markupsafe@2.1.3%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] tabj2mo ^py-pybind11@2.11.1%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[^] 2inh3rt ^py-pyyaml@5.4.1%gcc@12.3.0+libyaml build_system=python_pip arch=linux-rhel7-skylake
[^] bzl4xcz ^libyaml@0.2.5%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] x733hwb ^py-mpi4py@3.1.4%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] m3dslef ^py-cython@0.29.36%gcc@12.3.0 build_system=python_pip patches=c4369ad arch=linux-rhel7-skylake
[^] aj3rk42 ^py-wheel@0.41.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] elr5pnt ^py-numpy@1.26.1%gcc@12.3.0 build_system=python_pip patches=873745d arch=linux-rhel7-skylake
[e] w2ldcy2 ^intel-oneapi-mkl@2023.2.0%gcc@12.3.0~cluster+envmods~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-rhel7-skylake
[^] 3y7uuwr ^py-pyproject-metadata@0.7.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] uqml2to ^py-packaging@23.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] h6f6feu ^py-flit-core@3.9.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 77ku3vv ^py-pip@23.1.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] lrf2u3h ^py-pytest@7.3.2%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] mvxx6gh ^py-iniconfig@2.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] cbpzath ^py-hatch-vcs@0.3.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 2o7gdvi ^py-hatchling@1.21.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 6domhtg ^py-editables@0.3%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] edobf76 ^py-pathspec@0.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] a6ialdh ^py-trove-classifiers@2023.8.7%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] jurd5ga ^py-calver@2022.6.26%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 6su7kvx ^py-pluggy@1.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] sokbfzv ^py-setuptools-scm@8.0.4%gcc@12.3.0+toml build_system=python_pip arch=linux-rhel7-skylake
[e] 2sazdxk ^git@2.42.0%gcc@12.3.0+man+nls+perl+subtree~svn~tcltk build_system=autotools arch=linux-rhel7-skylake
[^] xwl5l6q ^py-tomli@2.0.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 275jtek ^py-typing-extensions@4.8.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] z5nf6n2 ^py-pytest-cov@4.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] wuxetkw ^py-coverage@7.2.6%gcc@12.3.0+toml build_system=python_pip arch=linux-rhel7-skylake
[^] p3xbqxj ^py-setuptools@68.0.0%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] t5tovex ^py-sympy@1.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 4fflyib ^py-mpmath@1.2.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[e] 5wl76vp ^python@3.11.6%gcc@12.3.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=13fa8bf,b0615b2,ebdca64,f2fd060 arch=linux-rhel7-skylake
[^] pdugg7r ^readline@8.2%gcc@12.3.0 build_system=autotools patches=bbf97f1 arch=linux-rhel7-skylake
$ set -o pipefail
$ (spack ${SPACK_EXTRA_FLAGS} install --overwrite -y -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} | tee log) || install_failed=1
==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394, but it is owned by 0
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zlib-ng-2.1.4-z7jpg7
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zstd-1.5.5-aivjoo
==> bison@3.8.2 : has external module in ['bison/3.8.2']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/bison-3.8.2-qcx3sg (external bison-3.8.2-yn5fbwgteilgqg6b62shkhkjg3hlwmrq)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/boost-1.83.0-2quv7w (external boost-1.83.0-rd65pstwb56uftszduzg7lsiq4za4lnn)
==> cmake@3.27.7 : has external module in ['cmake/3.27.7']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes (external cmake-3.27.7-b5zzpr3mwm7jxv6bvvrs6zpeg62cfhbu)
==> flex@2.6.3 : has external module in ['flex/2.6.3']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/flex-2.6.3-edx4lf (external flex-2.6.3-77vzaxsa3g7wr3omktr4skpetx5ds4pt)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/bzip2-1.0.8-vdqwmg
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libiconv-1.17-nv4xh4
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/xz-5.4.1-wwn5en
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gmake-4.4.1-swjylu
==> hpe-mpi@2.27.p1.hmpt : has external module in ['hpe-mpi/2.27.p1.hmpt']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/hpe-mpi-2.27.p1.hmpt-6rr256 (external hpe-mpi-2.27.p1.hmpt-h6t3hgbguhacajbyzlp43xpawsnreb3m)
==> ninja@1.11.1 : has external module in ['ninja/1.11.1']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ninja-1.11.1-nxtlgo (external ninja-1.11.1-omn6mm4a3zsbpbkptvdwxs6kkrh6yafw)
==> python@3.11.6 : has external module in ['python/3.11.6']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m (external python-3.11.6-5wl76vphfvpcapfaipipf7xn2xylnc4o)
==> intel-oneapi-mkl@2023.2.0 : has external module in ['intel-oneapi-mkl/2023.2.0']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/intel-oneapi-mkl-2023.2.0-twl2n4 (external intel-oneapi-mkl-2023.2.0-w2ldcy2y2urm3uaa7omu3w7nhwsqt433)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/catch2-3.4.0-pywly2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/binutils-2.41-tj3mv5
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/fmt-10.1.1-evtttr
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pkgconf-1.9.5-e533uu
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/cli11-2.3.2-ud3ech
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/nlohmann-json-3.9.1-teske2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/readline-8.2-pdugg7
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pigz-2.7-dwjcgu
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libyaml-0.2.5-bzl4xc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pybind11-2.11.1-tabj2m
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-markupsafe-2.1.3-r3ehtm
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-packaging-23.1-uqml2t
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-coverage-7.2.6-wuxetk
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pip-23.1.2-77ku3v
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/spdlog-1.12.0-ihotvb
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libxml2-2.10.3-oh2g4i
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/hdf5-1.14.3-5o77ye
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/tar-1.34-zz4acm
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-find-libpython-0.3.1-5dylnc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-numpy-1.26.1-elr5pn
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pyyaml-5.4.1-2inh3r
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pluggy-1.0.0-6su7kv
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-iniconfig-2.0.0-mvxx6g
==> Installing libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8=develop-fz3oxtcl57lk2z5alhm3jvnsf6bsoiul [40/49]
==> No binary for libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8=develop-fz3oxtcl57lk2z5alhm3jvnsf6bsoiul found: installing from source
==> 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-git.5602aadfa710d6766ce23cd151a1855190271bd8=develop-fz3oxtcl57lk2z5alhm3jvnsf6bsoiul
Stage: 2.31s. Cmake: 5.00s. Build: 1.65s. Install: 0.11s. Post-install: 0.10s. Total: 9.32s
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_oneapi-2023.2.0-skylake/libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-fz3oxt
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gettext-0.22.3-nbi5w5
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpmath-1.2.1-4fflyi
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpi4py-3.1.4-x733hw
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-7.3.2-lrf2u3
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-sympy-1.11.1-t5tove
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-cov-4.0.0-z5nf6n
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d46770aa12665_develop-53hy2e
==> Installing neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh [49/49]
==> No binary for neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh found: installing from source
==> No patches needed for neuron
==> neuron: Executing phase: 'cmake'
==> neuron: Executing phase: 'build'
==> Error: ProcessError: Command exited with status 2:
'make' '-j8'
34 errors found in build log:
2757 [ 35%] Built target coreneuron-for-tests
2758 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-bu
ild-k7yneqm/bin && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage
_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmak
e -E env NMODLHOME= /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc
proj12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea
23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfj
yqpaw7dh/spack-build-k7yneqm/bin/nrnivmodl-core -b STATIC -m /gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/i
nstall_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d46
770aa12665_develop-53hy2e/bin/nmodl -n internal -p 4 .
2759 WARNING: No mod files found in '/gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5
jrlizk4ncpfjyqpaw7dh/spack-build-k7yneqm/bin', compiling default o
nes only!
2760 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqp
aw7dh/spack-build-k7yneqm MECHLIB_SUFFIX=internal NMODL_BINARY=/gp
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software
/install_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d
46770aa12665_develop-53hy2e/bin/nmodl MODS_PATH=x86_64/corenrn/mod
2c BUILD_TYPE=STATIC NRN_PRCELLSTATE=0
2761 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrl
izk4ncpfjyqpaw7dh/spack-build-k7yneqm/bin'
2762 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 2763 make[3]: xcrun: No such file or directory
2764 Default NMODL flags:
>> 2765 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
2766 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2767 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2768 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2769 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
2770 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm'
2771 [ 35%] Built target nrnpython
...
3686 [ 49%] Building CXX object src/nrniv/CMakeFiles/nrniv.dir/__/oc/oc
kludge.cpp.o
3687 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-bu
ild-k7yneqm/src/nrniv && /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321684/spack/lib/spack/env/oneapi/icpx -DCOR
ENRN_BUILD=0 -DHAVE_CONFIG_H -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIN
D=1 -DNRN_AVOID_ABSOLUTE_PATHS -DNRN_ENABLE_THREADS -DOMPI_SKIP_MP
ICXX=1 -DUSE_PYTHON -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcih
pcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9bab
ea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncp
fjyqpaw7dh/spack-src/src/ivoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5
jrlizk4ncpfjyqpaw7dh/spack-src/src/nrncvode -I/gpfs/bbp.cscs.ch/ss
d/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-build/spac
k-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develo
p-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src/src/nrniv -I/gpfs/bbp
.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack
-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1
a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src/src/nrnoc
-I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13
21687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05e
aa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src
/src/oc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P21
7394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f1
38bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/s
pack-build-k7yneqm -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihp
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ck-src/src/nrnpython/../ivos -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024
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3688 Mod files: "./follower.mod" "./gap.mod" "./name_clashes.mod" "./un
itstest.mod" "./version_macros.mod"
3689
3690 Creating 'x86_64' directory for .o files.
3691
>> 3692 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/insta
ll_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx/lib/python3.11/s
ite-packages/setuptools/__init__.py:84: _DeprecatedInstaller: setu
ptools.installer and fetch_build_eggs are deprecated.
3693 !!
3694
3695 **********************************************************
**********************
3696 Requirements should be satisfied by a PEP 517 installer.
3697 If you are using pip, you can try `pip install --use-pep51
7`.
3698 **********************************************************
**********************
...
3703 MODOBJS= ./follower.o ./gap.o ./name_clashes.o ./unitstest.o ./ver
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3704 [ 49%] Building CXX object src/nrniv/CMakeFiles/nrniv.dir/__/oc/mo
dlreg.cpp.o
3705 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
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pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src/src/iv
os -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/
J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd
05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-
src/src/nrnpython/.. -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci
hpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9ba
bea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4nc
pfjyqpaw7dh/spack-src/src/nrnpython/../oc -I/gpfs/bbp.cscs.ch/ssd/
gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-build/spack-
stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-
k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src/src/nrnpython/../nrnoc
-I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13
21687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05e
aa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src
/src/nrnpython/../ivoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9
babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4
ncpfjyqpaw7dh/spack-src/src/nrnpython/../nrniv -I/gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src/src/nrnpython/../n
rnmpi -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P2173
94/J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138
bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spa
ck-src/src/nrnpython/../ivos -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024
-02-01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj
4i6m/include/python3.11 -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_
jobs/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuro
n-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t
5jrlizk4ncpfjyqpaw7dh/spack-src/external/eigen -march=skylake -mtu
ne=skylake -fopenmp-simd -g -O1 -fp-model precise -std=c++17 -pth
read -MD -MT src/nrniv/CMakeFiles/nrniv.dir/__/oc/modlreg.cpp.o -M
F CMakeFiles/nrniv.dir/__/oc/modlreg.cpp.o.d -o CMakeFiles/nrniv.d
ir/__/oc/modlreg.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bb
pcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git.e
9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk
4ncpfjyqpaw7dh/spack-src/src/oc/modlreg.cpp
3706 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqp
aw7dh/spack-build-k7yneqm MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
3707 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrl
izk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/c448d279dd3b9
1940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0'
3708 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 3709 make[3]: xcrun: No such file or directory
3710 Default NMODL flags:
>> 3711 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
3712 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3713 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3714 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3715 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
3716 [ 49%] Linking CXX executable ../../bin/nrniv
3717 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-bu
ild-k7yneqm/src/nrniv && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01
/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bi
n/cmake -E cmake_link_script CMakeFiles/nrniv.dir/link.txt --verbo
se=1
...
4463 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrl
izk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/c35d2f235e0f3
860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7'
4464 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
4465 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/39368a3f2faa5c
7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/x86_64'
4466 Successfully created x86_64/special
4467 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm'
4468 -> NMODL .././vlag.mod
>> 4469 make[3]: xcrun: No such file or directory
4470 Default NMODL flags:
4471 Translating tstpnt2.mod into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrl
izk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/263a5c542e063
ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/tstpnt2
.cpp
4472 Notice: Use of POINTER is not thread safe.
4473 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7
dh/spack-build-k7yneqm/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/argpass.cpp
4474 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm'
4475 Translating vclmp1.mod into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/263a5c542e063e
e6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/vclmp1.c
pp
...
4478 Notice: LINEAR is not thread safe.
4479 Translating tstvec.mod into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/263a5c542e063e
e6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/tstvec.c
pp
4480 Notice: VERBATIM blocks are not thread safe
4481 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7
dh/spack-build-k7yneqm/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/cachan.cpp
4482 [ 53%] Built target NRN_TEST_nrnivmodl_39368a3f2faa5c7f6c1a7040953
64be6ec3af30bbfc8f85c1eef2176aae784ad
4483 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7
dh/spack-build-k7yneqm/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/cabpump.cpp
>> 4484 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4485 Translating vlag.mod into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bb
pcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git.e
9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk
4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/263a5c542e063ee6
760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/vlag.cpp
4486 Thread Safe
4487 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7
dh/spack-build-k7yneqm/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/cacum.cpp
4488 [ 53%] Built target sections_c
4489 [ 54%] Linking CXX executable ../../bin/test/vclamp_cpp
4490 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-bu
ild-k7yneqm/test/api && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/
stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin
/cmake -E cmake_link_script CMakeFiles/vclamp_cpp.dir/link.txt --v
erbose=1
...
4600 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
4601 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqp
aw7dh/spack-build-k7yneqm MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4602 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrl
izk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/a9c54b18e4b54
351cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff'
4603 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
4604 -> Compiling mod_func.cpp
4605 -> NMODL .././halfgap.mod
>> 4606 make[3]: xcrun: No such file or directory
4607 Default NMODL flags:
4608 Translating halfgap.mod into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrl
izk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/bbd7c82eee28b
931214a8172bb776ba66c406a6620c807381c850fedcdd74295/x86_64/halfgap
.cpp
4609 Thread Safe
4610 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7
dh/spack-build-k7yneqm/test/nrnivmodl/bbd7c82eee28b931214a8172bb77
6ba66c406a6620c807381c850fedcdd74295/x86_64/halfgap.cpp
>> 4611 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4612 [ 55%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/DGC_UK.mod
4613 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-bu
ild-k7yneqm/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src/external/tests/red
uced_dentate//mechanisms/DGC_UK.mod /gpfs/bbp.cscs.ch/ssd/gitlab_m
ap_jobs/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-ne
uron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy
57t5jrlizk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/53c432
f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/DGC_UK.
mod
4614 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4615 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4616 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4617 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4n
cpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/c448d279dd3b91940d
228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/x86_64/./special" L
DFLAGS are:
...
4804 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7
dh/spack-build-k7yneqm/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/cagkftab.cpp
4805 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqp
aw7dh/spack-build-k7yneqm MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4806 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrl
izk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/b62f97c7d3f6d
905c774d64e10128b3300792f8f757b926b965c058a4d6ee876'
4807 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
4808 [ 57%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/Ca_HVA.mod
4809 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-bu
ild-k7yneqm/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/Ca_HVA.mod /gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spac
k-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d
1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-build-k7yneqm
/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6
fd47c3be88641a/Ca_HVA.mod
>> 4810 make[3]: xcrun: No such file or directory
4811 Default NMODL flags:
4812 [ 57%] Building special[-core] for test group reduced_dentate
4813 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-bu
ild-k7yneqm/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425
d200c645a6b4cec93b5edfead && cmake -E env NEURONHOME=/gpfs/bbp\.cs
cs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-b
uild/spack-stage-neuron-git\.e9babea23e4ee25f138bbd05eaa6b05c67d1a
086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-build-k7yneqm/s
hare/nrn NRNHOME=/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcp
roj12/P217394/J1321687/spack-build/spack-stage-neuron-git\.e9babea
23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfj
yqpaw7dh/spack-build-k7yneqm PATH=/gpfs/bbp\.cscs\.ch/ssd/gitlab_m
ap_jobs/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-ne
uron-git\.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqm
y57t5jrlizk4ncpfjyqpaw7dh/spack-build-k7yneqm/bin:/gpfs/bbp\.cscs\
.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.
0-skylake/readline-8\.2-pdugg7/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bs
d/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-co
verage-7\.2\.6-wuxetk/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02
-01/stage_applications/install_gcc-12\.3\.0-skylake/py-pytest-7\.3
\.2-lrf2u3/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_a
pplications/install_gcc-12\.3\.0-skylake/py-pip-23\.1\.2-77ku3v/bi
n:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/i
nstall_gcc-12\.3\.0-skylake/py-numpy-1\.26\.1-elr5pn/bin:/gpfs/bbp
\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/ins
tall_gcc-12\.3\.0-skylake/nmodl-git\.5ff221d045c92389b4cab5ee159d4
6770aa12665_develop-53hy2e/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/20
24-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-sympy-
1\.11\.1-t5tove/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/st
age_applications/install_gcc-12\.3\.0-skylake/py-pybind11-2\.11\.1
-tabj2m/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_appl
ications/install_gcc-12\.3\.0-skylake/py-find-libpython-0\.3\.1-5d
ylnc/bin:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P2
17394/software/install_oneapi-2023\.2\.0-skylake/libsonata-report-
git\.5602aadfa710d6766ce23cd151a1855190271bd8_develop-fz3oxt/bin:/
gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/inst
all_gcc-12\.3\.0-skylake/gettext-0\.22\.3-nbi5w5/bin:/gpfs/bbp\.cs
cs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.
3\.0-skylake/pigz-2\.7-dwjcgu/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd
/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/ncurse
s-6\.4-6kdbhv/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stag
e_applications/install_gcc-12\.3\.0-skylake/pkgconf-1\.9\.5-e533uu
/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_application
s/install_gcc-12\.3\.0-skylake/gmake-4\.4\.1-swjylu/bin:/gpfs/bbp\
.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-1
2\.3\.0-skylake/xz-5\.4\.1-wwn5en/bin:/gpfs/bbp\.cscs\.ch/ssd/apps
/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/zs
td-1\.5\.5-aivjoo/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/
stage_applications/install_gcc-12\.3\.0-skylake/bzip2-1\.0\.8-vdqw
mg/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals
/install_gcc-12\.3\.0-skylake/python-3\.11\.6-bj4i6m/bin:/gpfs/bbp
\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\
.3\.0-skylake/python-3\.11\.6-bj4i6m/bin:/gpfs/bbp\.cscs\.ch/ssd/a
pps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/in
tel-oneapi-mkl-2023\.2\.0-twl2n4/mkl/2023\.2\.0/bin/intel64:/gpfs/
bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-
12\.3\.0-skylake/hpe-mpi-2\.27\.p1\.hmpt-6rr256/bin:/gpfs/bbp\.csc
s\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0
-skylake/ninja-1\.11\.1-nxtlgo/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bs
d/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/flex-2\.
6\.3-edx4lf/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_
externals/install_gcc-12\.3\.0-skylake/cmake-3\.27\.7-slyoes/bin:/
gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install
_gcc-12\.3\.0-skylake/bison-3\.8\.2-qcx3sg/bin:/gpfs/bbp\.cscs\.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/lib/spa
ck/env/oneapi:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj
12/P217394/J1321684/spack/lib/spack/env/case-insensitive:/gpfs/bbp
\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spa
ck/lib/spack/env:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage
_compilers/install_gcc-4\.8\.5-haswell/intel-oneapi-compilers-2023
\.2\.1-tnua5y/compiler/2023\.2\.1/linux/bin:/gpfs/bbp\.cscs\.ch/ss
d/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake
/intel-oneapi-mkl-2023\.2\.0-twl2n4/mkl/2023\.2\.0/bin/intel64:/gp
fs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_g
cc-12\.3\.0-skylake/python-3\.11\.6-bj4i6m/bin:/gpfs/bbp\.cscs\.ch
/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skyl
ake/ninja-1\.11\.1-nxtlgo/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/202
4-02-01/stage_externals/install_gcc-12\.3\.0-skylake/hpe-mpi-2\.27
\.p1\.hmpt-6rr256/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/
stage_externals/install_gcc-12\.3\.0-skylake/flex-2\.6\.3-edx4lf/b
in:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/ins
tall_gcc-12\.3\.0-skylake/cmake-3\.27\.7-slyoes/bin:/gpfs/bbp\.csc
s\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0
-skylake/m4-1\.4\.19-wtcpud/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2
024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/bison-3\.8\
.2-qcx3sg/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_co
mpilers/install_gcc-4\.8\.5-haswell/binutils-2\.41-o6yabj/bin:/gpf
s/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_compilers/install_gc
c-4\.8\.5-haswell/intel-oneapi-compilers-2023\.2\.1-tnua5y/compile
r/2023\.2\.1/linux/lib/oclfpga/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bs
d/2024-02-01/stage_compilers/install_gcc-4\.8\.5-haswell/intel-one
api-compilers-2023\.2\.1-tnua5y/compiler/2023\.2\.1/linux/bin/inte
l64:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_compilers/in
stall_gcc-4\.8\.5-haswell/intel-oneapi-compilers-2023\.2\.1-tnua5y
/compiler/2023\.2\.1/linux/bin:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_
jobs/bbpcihpcproj12/P217394/bootstrap/store/linux-centos7-x86_64/g
cc-10\.2\.1/patchelf-0\.18\.0-afv7arjarb7nzmlh7c5slkfxykybuqce/bin
:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/insta
ll_gcc-12\.3\.0-skylake/ccache-4\.7\.4-eompz5/bin:/gpfs/bbp\.cscs\
.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/bin:
/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/instal
l_gcc-12\.3\.0-skylake/git-2\.42\.0-sie4gc/bin:/opt/clmgr/sbin:/op
t/clmgr/bin:/opt/sgi/sbin:/opt/sgi/bin:/usr/lib64/qt-3\.3/bin:/usr
/lib64/ccache:/usr/local/bin:/bin:/usr/bin:/usr/local/sbin:/usr/sb
in:/gpfs/bbp\.cscs\.ch/ssd/apps/bb5/systemtools:/opt/c3/bin:/opt/d
dn/ime/bin:/opt/puppetlabs/bin:/sbin:/bin:/gpfs/bbp\.cscs\.ch/home
/bbpcihpcproj12/\.local/bin:/gpfs/bbp\.cscs\.ch/home/bbpcihpcproj1
2/bin LD_LIBRARY_PATH=/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git\.e9
babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4
ncpfjyqpaw7dh/spack-build-k7yneqm/lib:/gpfs/bbp\.cscs\.ch/ssd/apps
/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/intel
-oneapi-mkl-2023\.2\.0-twl2n4/mkl/2023\.2\.0/lib/intel64:/gpfs/bbp
\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\
.3\.0-skylake/intel-oneapi-mkl-2023\.2\.0-twl2n4/mkl/2023\.2\.0/li
b/intel64:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_extern
als/install_gcc-12\.3\.0-skylake/hpe-mpi-2\.27\.p1\.hmpt-6rr256/li
b:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_compilers/inst
all_gcc-4\.8\.5-haswell/intel-oneapi-compilers-2023\.2\.1-tnua5y/c
ompiler/2023\.2\.1/linux/lib:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024
-02-01/stage_compilers/install_gcc-4\.8\.5-haswell/intel-oneapi-co
mpilers-2023\.2\.1-tnua5y/compiler/2023\.2\.1/linux/lib/x64:/gpfs/
bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_compilers/install_gcc-
4\.8\.5-haswell/intel-oneapi-compilers-2023\.2\.1-tnua5y/compiler/
2023\.2\.1/linux/lib/oclfpga/host/linux64/lib:/gpfs/bbp\.cscs\.ch/
ssd/apps/bsd/2024-02-01/stage_compilers/install_gcc-4\.8\.5-haswel
l/intel-oneapi-compilers-2023\.2\.1-tnua5y/compiler/2023\.2\.1/lin
ux/compiler/lib/intel64_lin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-
02-01/stage_externals/install_gcc-12\.3\.0-skylake/hpe-mpi-2\.27\.
p1\.hmpt-6rr256/lib:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/st
age_applications/install_gcc-12\.3\.0-skylake/hdf5-1\.14\.3-5o77ye
/lib CORENRNHOME=/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcp
roj12/P217394/J1321687/spack-build/spack-stage-neuron-git\.e9babea
23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfj
yqpaw7dh/spack-build-k7yneqm PYTHONPATH=/gpfs/bbp\.cscs\.ch/ssd/gi
tlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-build/spack-st
age-neuron-git\.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k
7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-build-k7yneqm/lib/python:/gp
fs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13216
87/spack-build/spack-stage-neuron-git\.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src/t
est/rxd:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P21
7394/software/install_gcc-12\.3\.0-skylake/nmodl-git\.5ff221d045c9
2389b4cab5ee159d46770aa12665_develop-53hy2e/lib:/gpfs/bbp\.cscs\.c
h/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_gcc-
12\.3\.0-skylake/nmodl-git\.5ff221d045c92389b4cab5ee159d46770aa126
65_develop-53hy2e/lib:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/
stage_applications/install_gcc-12\.3\.0-skylake/py-pytest-cov-4\.0
\.0-z5nf6n/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/a
pps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake
/py-coverage-7\.2\.6-wuxetk/lib/python3\.11/site-packages:/gpfs/bb
p\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc
-12\.3\.0-skylake/py-pytest-7\.3\.2-lrf2u3/lib/python3\.11/site-pa
ckages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applicati
ons/install_gcc-12\.3\.0-skylake/py-iniconfig-2\.0\.0-mvxx6g/lib/p
ython3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-
01/stage_applications/install_gcc-12\.3\.0-skylake/py-pluggy-1\.0\
.0-6su7kv/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/ap
ps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/
py-numpy-1\.26\.1-elr5pn/lib/python3\.11/site-packages:/gpfs/bbp\.
cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12
\.3\.0-skylake/py-mpi4py-3\.1\.4-x733hw/lib/python3\.11/site-packa
ges:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications
/install_gcc-12\.3\.0-skylake/py-sympy-1\.11\.1-t5tove/lib/python3
\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/sta
ge_applications/install_gcc-12\.3\.0-skylake/py-mpmath-1\.2\.1-4ff
lyi/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd
/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-pac
kaging-23\.1-uqml2t/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\
.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.
0-skylake/py-pyyaml-5\.4\.1-2inh3r/lib/python3\.11/site-packages:/
gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/inst
all_gcc-12\.3\.0-skylake/py-pybind11-2\.11\.1-tabj2m/lib/python3\.
11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage
_applications/install_gcc-12\.3\.0-skylake/py-jinja2-3\.1\.2-7vali
d/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2
024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-marku
psafe-2\.1\.3-r3ehtm/lib/python3\.11/site-packages:/gpfs/bbp\.cscs
\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\
.0-skylake/py-find-libpython-0\.3\.1-5dylnc/lib/python3\.11/site-p
ackages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applicat
ions/install_gcc-12\.3\.0-skylake/py-setuptools-68\.0\.0-p3xbqx/li
b/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-
02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-pip-23\.1
\.2-77ku3v/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/a
pps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake
/py-pytest-cov-4\.0\.0-z5nf6n/lib/python3\.11/site-packages:/gpfs/
bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_g
cc-12\.3\.0-skylake/py-pluggy-1\.0\.0-6su7kv/lib/python3\.11/site-
packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applica
tions/install_gcc-12\.3\.0-skylake/py-sympy-1\.11\.1-t5tove/lib/py
thon3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-0
1/stage_applications/install_gcc-12\.3\.0-skylake/py-coverage-7\.2
\.6-wuxetk/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/a
pps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake
/py-pytest-7\.3\.2-lrf2u3/lib/python3\.11/site-packages:/gpfs/bbp\
.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-1
2\.3\.0-skylake/py-iniconfig-2\.0\.0-mvxx6g/lib/python3\.11/site-p
ackages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applicat
ions/install_gcc-12\.3\.0-skylake/py-numpy-1\.26\.1-elr5pn/lib/pyt
hon3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01
/stage_applications/install_gcc-12\.3\.0-skylake/py-mpmath-1\.2\.1
-4fflyi/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps
/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py
-mpi4py-3\.1\.4-x733hw/lib/python3\.11/site-packages:/gpfs/bbp\.cs
cs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.
3\.0-skylake/py-setuptools-68\.0\.0-p3xbqx/lib/python3\.11/site-pa
ckages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applicati
ons/install_gcc-12\.3\.0-skylake/py-packaging-23\.1-uqml2t/lib/pyt
hon3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01
/stage_applications/install_gcc-12\.3\.0-skylake/py-pip-23\.1\.2-7
7ku3v/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/b
sd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/ninja-1
\.11\.1-nxtlgo/misc:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/st
age_externals/install_gcc-12\.3\.0-skylake/ninja-1\.11\.1-nxtlgo/m
isc /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J
1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd0
5eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-b
uild-k7yneqm/bin/nrnivmodl -coreneuron .
>> 4814 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4815 [NMODL] [warning] :: Can not inline function call to mynormrand
4816 [NMODL] [warning] :: Can not inline function call to mynormrand
4817 [NMODL] [warning] :: Can not inline function call to mynormrand
4818 [NMODL] [warning] :: Can not inline function call to mynormrand
4819 [ 57%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/Ca_HVA2.mod
4820 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-bu
ild-k7yneqm/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/Ca_HVA2.mod /gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-build-k7yneq
m/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc
6fd47c3be88641a/Ca_HVA2.mod
...
4856 1 warning generated.
4857 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqp
aw7dh/spack-build-k7yneqm INCFLAGS=-I/usr/include LINKFLAGS=/usr/l
ib64/libcrypto.so MODS_PATH=x86_64/corenrn/mod2c BUILD_TYPE=STATIC
NRN_PRCELLSTATE=0
4858 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrl
izk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/f7f437ac4f0ea
140e809f1bdd7f7d03201e354b9a2041597f8faaf7fb7aebb7c'
4859 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
4860 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
4861 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7
dh/spack-build-k7yneqm/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/capmp.cpp
>> 4862 make[3]: xcrun: No such file or directory
4863 Default NMODL flags:
4864 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7
dh/spack-build-k7yneqm/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/expsynspine.cpp
4865 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7
dh/spack-build-k7yneqm/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/fh.cpp
4866 [ 57%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/Ca_LVAst.mod
4867 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-bu
ild-k7yneqm/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/Ca_LVAst.mod /gpfs/
bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/sp
ack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c6
7d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-build-k7yne
qm/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963d
c6fd47c3be88641a/Ca_LVAst.mod
>> 4868 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4869 x86_64/corenrn/mod2c/hh.cpp:361:13: warning: loop not vectorized:
the optimizer was unable to perform the requested transformation;
the transformation might be disabled or specified as part of an un
supported transformation ordering [-Wpass-failed=transform-warning
]
4870 #pragma omp simd
4871 ^
4872 x86_64/corenrn/mod2c/hh.cpp:449:9: warning: loop not vectorized: t
he optimizer was unable to perform the requested transformation; t
he transformation might be disabled or specified as part of an uns
upported transformation ordering [-Wpass-failed=transform-warning]
4873 #pragma omp simd
4874 ^
...
5118 #pragma omp simd
5119 ^
5120 3 warnings generated.
5121 "./ThreshDetect.mod" "./ampanmda.mod"[INFO] Running: make -j4 -f
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-build
-k7yneqm/share/coreneuron/nrnivmodl_core_makefile ROOT=/gpfs/bbp.c
scs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-b
uild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a0
86_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-build-k7yneqm MO
DS_PATH=x86_64/corenrn/mod2c BUILD_TYPE=STATIC NRN_PRCELLSTATE=0
5122 "./distrt.mod"make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/
gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-build/spack-
stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-
k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmod
l/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead
'
5123 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 5124 "./fi.mod"make[3]: xcrun: No such file or directory
5125 Default NMODL flags:
5126 "./fi_stdp.mod" "./gap.mod"x86_64/corenrn/mod2c/hh.cpp:361:13: wa
rning: loop not vectorized: the optimizer was unable to perform th
e requested transformation; the transformation might be disabled o
r specified as part of an unsupported transformation ordering [-Wp
ass-failed=transform-warning]
5127 #pragma omp simd
5128 ^
5129 x86_64/corenrn/mod2c/hh.cpp:449:9: warning: loop not vectorized: t
he optimizer was unable to perform the requested transformation; t
he transformation might be disabled or specified as part of an uns
upported transformation ordering [-Wpass-failed=transform-warning]
5130 #pragma omp simd
...
5136 "./kamt.mod" "./kdrmt.mod" "./ks.mod"[ 59%] Generating ../../nrni
vmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6fd47c3be88
641a/can2.mod
5137 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-bu
ild-k7yneqm/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/can2.mod /gpfs/bbp.
cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-
build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a
086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-build-k7yneqm/t
est/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6fd
47c3be88641a/can2.mod
5138 x86_64/corenrn/mod2c/invlfire.cpp:313:13: warning: loop not vector
ized: the optimizer was unable to perform the requested transforma
tion; the transformation might be disabled or specified as part of
an unsupported transformation ordering [-Wpass-failed=transform-w
arning]
5139 #pragma omp simd
5140 ^
5141 1 warning generated.
>> 5142 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
5143 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
5144 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
5145 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
5146 "./naxn.mod" "./orn.mod" "./ostimhelper.mod"
5147
5148 Creating 'x86_64' directory for .o files.
...
5217 #pragma omp simd
5218 ^
5219 3 warnings generated.
5220 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqp
aw7dh/spack-build-k7yneqm MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
5221 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrl
izk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/14c92ceb412f1
b4e766bfda05bec75b2d552a2f4499313751329f0689cf9faab'
5222 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 5223 make[3]: xcrun: No such file or directory
5224 Default NMODL flags:
5225 [ 59%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/kdb.mod
5226 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-bu
ild-k7yneqm/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/kdb.mod /gpfs/bbp.c
scs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-b
uild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a0
86_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-build-k7yneqm/te
st/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6fd4
7c3be88641a/kdb.mod
>> 5227 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
5228 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
5229 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
5230 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
5231 x86_64/corenrn/mod2c/hhderiv.cpp:512:13: warning: loop not vectori
zed: the optimizer was unable to perform the requested transformat
ion; the transformation might be disabled or specified as part of
an unsupported transformation ordering [-Wpass-failed=transform-wa
rning]
5232 #pragma omp simd
5233 ^
...
5777 #pragma omp simd
5778 ^
5779 3 warnings generated.
5780 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqp
aw7dh/spack-build-k7yneqm MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
5781 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrl
izk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/3a24bd33c51ee
30c68f71d610b146a37c165552933d5963dc6fd47c3be88641a'
5782 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 5783 make[3]: xcrun: No such file or directory
5784 Default NMODL flags:
>> 5785 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
5786 x86_64/corenrn/mod2c/Gfluct3.cpp:564:9: warning: loop not vectoriz
ed: the optimizer was unable to perform the requested transformati
on; the transformation might be disabled or specified as part of a
n unsupported transformation ordering [-Wpass-failed=transform-war
ning]
5787 #pragma omp simd
5788 ^
5789 x86_64/corenrn/mod2c/Gfluct3.cpp:611:13: warning: loop not vectori
zed: the optimizer was unable to perform the requested transformat
ion; the transformation might be disabled or specified as part of
an unsupported transformation ordering [-Wpass-failed=transform-wa
rning]
5790 #pragma omp simd
5791 ^
...
5981 #pragma omp simd
5982 ^
5983 3 warnings generated.
5984 [ 59%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_hoc_po.py
5985 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-bu
ild-k7yneqm/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4n
cpfjyqpaw7dh/spack-src//test/pytest_coreneuron/test_hoc_po.py /gpf
s/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/
spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05
c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-build-k7y
neqm/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_coreneu
ron/test_hoc_po.py
5986 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7
dh/spack-build-k7yneqm/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/vlag.cpp
>> 5987 bacur.cpp:373:9: error: use of undeclared identifier '_globals'
5988 init ( _threadargs_ ) ;
5989 ^
5990 bacur.cpp:53:50: note: expanded from macro '_threadargs_'
5991 #define _threadargs_ _ml, _iml, _ppvar, _thread, _globals, _nt
5992 ^
5993 1 error generated.
>> 5994 make[3]: *** [makemod2c_inc:23: bacur.o] Error 1
5995 make[3]: *** Waiting for unfinished jobs....
>> 5996 axial.cpp:243:12: error: use of undeclared identifier '_globals'
5997 foo ( _threadargs_ ) ;
5998 ^
5999 axial.cpp:53:50: note: expanded from macro '_threadargs_'
6000 #define _threadargs_ _ml, _iml, _ppvar, _thread, _globals, _nt
6001 ^
6002 1 error generated.
>> 6003 make[3]: *** [makemod2c_inc:7: axial.o] Error 1
>> 6004 banocur.cpp:343:9: error: use of undeclared identifier '_globals'
6005 init ( _threadargs_ ) ;
6006 ^
6007 banocur.cpp:53:50: note: expanded from macro '_threadargs_'
6008 #define _threadargs_ _ml, _iml, _ppvar, _thread, _globals, _nt
6009 ^
6010 1 error generated.
>> 6011 make[3]: *** [makemod2c_inc:31: banocur.o] Error 1
>> 6012 axial_pp.cpp:290:12: error: use of undeclared identifier '_globals
'
6013 foo ( _threadargs_ ) ;
6014 ^
6015 axial_pp.cpp:53:50: note: expanded from macro '_threadargs_'
6016 #define _threadargs_ _ml, _iml, _ppvar, _thread, _globals, _nt
6017 ^
6018 1 error generated.
>> 6019 make[3]: *** [makemod2c_inc:15: axial_pp.o] Error 1
6020 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/c35d2f235e0f38
60fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/x86_64'
>> 6021 make[2]: *** [test/CMakeFiles/NRN_TEST_nrnivmodl_c35d2f235e0f3860f
becadf05ec8c2b6901bba2525195c69836276a4b5d88ca7.dir/build.make:106
: test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c698
36276a4b5d88ca7/x86_64/special] Error 2
6022 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm'
>> 6023 make[1]: *** [CMakeFiles/Makefile2:5726: test/CMakeFiles/NRN_TEST_
nrnivmodl_c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4
b5d88ca7.dir/all] Error 2
6024 make[1]: *** Waiting for unfinished jobs....
6025 [ 59%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_imem.py
6026 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-bu
ild-k7yneqm/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4n
cpfjyqpaw7dh/spack-src//test/pytest_coreneuron/test_imem.py /gpfs/
bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/sp
ack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c6
7d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-build-k7yne
qm/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_coreneuro
n/test_imem.py
6027 x86_64/corenrn/mod2c/bgka.cpp:443:13: warning: loop not vectorized
: the optimizer was unable to perform the requested transformation
; the transformation might be disabled or specified as part of an
unsupported transformation ordering [-Wpass-failed=transform-warni
ng]
6028 #pragma omp simd
6029 ^
...
6566 #pragma omp simd
6567 ^
6568 x86_64/corenrn/mod2c/Nap_Et2.cpp:413:9: warning: loop not vectoriz
ed: the optimizer was unable to perform the requested transformati
on; the transformation might be disabled or specified as part of a
n unsupported transformation ordering [-Wpass-failed=transform-war
ning]
6569 #pragma omp simd
6570 ^
6571 3 warnings generated.
>> 6572 ampanmda.cpp:605:36: error: use of undeclared identifier '_globals
'
6573 _args[2] = _args[0] * plast ( _threadargscomma_ _args[1] ) ;
6574 ^
6575 ampanmda.cpp:49:55: note: expanded from macro '_threadargscomma_'
6576 #define _threadargscomma_ _ml, _iml, _ppvar, _thread, _globals, _n
t,
6577 ^
6578 1 error generated.
>> 6579 make[3]: *** [makemod2c_inc:23: ampanmda.o] Error 1
6580 make[3]: *** Waiting for unfinished jobs....
6581 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/14c92ceb412f1b
4e766bfda05bec75b2d552a2f4499313751329f0689cf9faab/x86_64'
>> 6582 make[2]: *** [test/external/olfactory-bulb-3d/CMakeFiles/NRN_TEST_
nrnivmodl_14c92ceb412f1b4e766bfda05bec75b2d552a2f4499313751329f068
9cf9faab.dir/build.make:102: test/nrnivmodl/14c92ceb412f1b4e766bfd
a05bec75b2d552a2f4499313751329f0689cf9faab/x86_64/special] Error 2
6583 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm'
>> 6584 make[1]: *** [CMakeFiles/Makefile2:9702: test/external/olfactory-b
ulb-3d/CMakeFiles/NRN_TEST_nrnivmodl_14c92ceb412f1b4e766bfda05bec7
5b2d552a2f4499313751329f0689cf9faab.dir/all] Error 2
6585 x86_64/corenrn/mod2c/nca.cpp:455:13: warning: loop not vectorized:
the optimizer was unable to perform the requested transformation;
the transformation might be disabled or specified as part of an u
nsupported transformation ordering [-Wpass-failed=transform-warnin
g]
6586 #pragma omp simd
6587 ^
6588 x86_64/corenrn/mod2c/nca.cpp:565:9: warning: loop not vectorized:
the optimizer was unable to perform the requested transformation;
the transformation might be disabled or specified as part of an un
supported transformation ordering [-Wpass-failed=transform-warning
]
6589 #pragma omp simd
6590 ^
...
7357 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4n
cpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/3a24bd33c51ee30c68
f71d610b146a37c165552933d5963dc6fd47c3be88641a/x86_64/./special" L
DFLAGS are:
7358 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm/test/nrnivmodl/3a24bd33c51ee3
0c68f71d610b146a37c165552933d5963dc6fd47c3be88641a/x86_64'
7359 Successfully created x86_64/special
7360 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm'
7361 [ 60%] Built target NRN_TEST_nrnivmodl_3a24bd33c51ee30c68f71d610b1
46a37c165552933d5963dc6fd47c3be88641a
7362 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrli
zk4ncpfjyqpaw7dh/spack-build-k7yneqm'
>> 7363 make: *** [Makefile:169: all] Error 2
See build log for details:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321687/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-k7yneqmy57t5jrlizk4ncpfjyqpaw7dh/spack-build-out.txt
$ set +o pipefail
$ chmod -R g+rX "${SPACK_BUILD}"
$ if [[ ${install_failed} == 1 ]]; then exit 1; fi
srun: error: r1i6n5: task 0: Exited with exit code 1
section_end:1718636150:step_script section_start:1718636150:upload_artifacts_on_failure Uploading artifacts for failed job
Using git from spack modules
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=25415 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
initial_environment.env: found 1 matching files and directories
spack-build-env.txt: found 1 matching files and directories
spack-build-out.txt: found 1 matching files and directories
spack-configure-args.txt: found 1 matching files and directories
Uploading artifacts as "archive" to coordinator... ok id=1321687 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=25456 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
Uploading artifacts as "junit" to coordinator... ok id=1321687 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=25495 revision=58ba2b95 version=14.2.0
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
Uploading artifacts as "dotenv" to coordinator... ok id=1321687 responseStatus=201 Created token=glcbt-64
section_end:1718636152:upload_artifacts_on_failure section_start:1718636152:cleanup_file_variables Cleaning up project directory and file based variables
Using git from spack modules
section_end:1718636153:cleanup_file_variables ERROR: Job failed: exit status 1

Raw
build-neuron-nmodl-intel-shared.txt
Running with gitlab-runner 15.5.0 (0d4137b8)
 on BB5 map runner pnPo3yJy
section_start:1718635141:resolve_secrets Resolving secrets
section_end:1718635141:resolve_secrets section_start:1718635141:prepare_executor Preparing the "custom" executor
Using Custom executor with driver BB5 PROD runner v0.0.3...
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-executor3513914755, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
Runner ID 29, project root hpc, project name nrn
Pipeline ID 217394, build ref , job ID 1321688
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag , optional reservation flag
A slurm job will be created with name GL_J1321688_PROD_P2160_CP1_C2
Job parameters: memory=160G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos= reservation=
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 2254970
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1321688_PROD_P2160_CP1_C2 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --time=2:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --ntasks=2 --jobid=2254970 --cpus-per-task=8 --mem=160G
section_end:1718635143:prepare_executor section_start:1718635143:prepare_script Preparing environment
Using git from spack modules
Running on r1i5n12 via bbpv1.epfl.ch...
section_end:1718635146:prepare_script section_start:1718635146:get_sources Getting source from Git repository
Using git from spack modules
Skipping Git repository setup
Skipping Git checkout
Skipping Git submodules setup
section_end:1718635147:get_sources section_start:1718635147:restore_cache Restoring cache
Using git from spack modules
Checking cache for build:neuron:nmodl:intel:shared-1-non_protected...
Runtime platform  arch=amd64 os=linux pid=185880 revision=58ba2b95 version=14.2.0
cache.zip is up to date 
Successfully extracted cache
section_end:1718635153:restore_cache section_start:1718635153:download_artifacts Downloading artifacts
Using git from spack modules
Downloading artifacts for build:nmodl (1321686)...
Runtime platform  arch=amd64 os=linux pid=185990 revision=58ba2b95 version=14.2.0
Downloading artifacts from coordinator... ok  id=1321686 responseStatus=200 OK token=glcbt-64
section_end:1718635154:download_artifacts section_start:1718635154:step_script Executing "step_script" stage of the job script
WARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426
Using git from spack modules
$ SPACK_BUILD="${PWD}/spack-build"
$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env
$ . ${SPACK_ROOT}/share/spack/setup-env.sh
$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config
$ mkdir ${SPACK_USER_CONFIG_PATH}
$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command
$ spack ${SPACK_EXTRA_FLAGS} config add concretizer:reuse:false
$ spack ${SPACK_EXTRA_FLAGS} config blame config
--- config:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-config/config.yaml:2 build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/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:7 environments_root: $user_cache_path/environments
/gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 build_jobs: 8
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:18 extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:37 template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:124 checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:129 deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:134 dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:142 build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:151 locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:205 shared_linking:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:210 type: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:216 bind: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:227 install_status: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:233 flags:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:235 keep_werror: none
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:240 aliases:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:241 concretise: concretize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:242 containerise: containerize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:243 rm: remove
_builtin debug: False
$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer
--- concretizer:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-config/concretizer.yaml:2 reuse: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:23 targets:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:38 unify: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:40 duplicates:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal
$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config
$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394/J1321688_local_config)
$ mkdir -p "${XDG_CONFIG_HOME}/git"
$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"
$ 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"
$ cat "${XDG_CONFIG_HOME}/git/config"
[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/
$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"
$ echo "Preparing to install ${SPACK_FULL_SPEC}"
Preparing to install neuron%oneapi ~rx3d~caliper~gpu+coreneuron~legacy-unit~openmp+shared+sympy+tests build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^/53hy2ex7xntc24cnbuojh6rrc3l2auap
$ if [ ${SPACK_USE_CCACHE+x} ]; then
$ module load unstable ccache
$ export CCACHE_BASEDIR=$(realpath -P ${CI_BUILDS_DIR})
$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394
$ export CCACHE_MAXSIZE=512M
$ export CCACHE_DIR="${TMPDIR}/ccache"
$ mkdir -p ${CCACHE_DIR}
$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then
$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"
$ fi
$ ccache --zero-stats
Statistics zeroed
$ ccache --show-stats --verbose
Cache directory: /nvme/bbpcihpcproj12/2254970/ccache
Config file: /nvme/bbpcihpcproj12/2254970/ccache/ccache.conf
System config file: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ccache-4.7.4-eompz5/etc/ccache.conf
Stats updated: Mon Jun 17 16:39:20 2024
Local storage:
Cache size (GB): 0.47 / 0.51 (91.35%)
Files: 10379
Hits: 0
Misses: 0
Reads: 0
Writes: 0
$ fi
$ module load unstable git ${SPACK_EXTRA_MODULES}
$ spack ${SPACK_EXTRA_FLAGS} spec -Il ${SPACK_FULL_SPEC}
Input spec
--------------------------------
- neuron%oneapi~caliper+coreneuron~gpu~legacy-unit~openmp~rx3d+shared+sympy+tests build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy
- ^/53hy2ex7xntc24cnbuojh6rrc3l2auap
Concretized
--------------------------------
- z2ewjh7 neuron@git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop%oneapi@2023.2.0~backtrace~caliper+coreneuron~gpu~interviews~ipo~legacy-unit+mpi~openmp~prcellstate+python+report~rx3d+shared+sympy~sympyopt+tests build_system=cmake build_type=FastDebug generator=make model_tests=channel-benchmark,olfactory,tqperf-heavy sanitizers=None arch=linux-rhel7-skylake
[^] tj3mv5i ^binutils@2.41%gcc@12.3.0+gas+gold~gprofng~headers~interwork+ld~libiberty~lto~nls~pgo+plugins build_system=autotools compress_debug_sections=zlib libs=shared,static arch=linux-rhel7-skylake
[^] 7jd6loj ^diffutils@3.9%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] e533uuv ^pkgconf@1.9.5%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] z7jpg7s ^zlib-ng@2.1.4%gcc@12.3.0+compat+opt build_system=autotools arch=linux-rhel7-skylake
[^] aivjoo2 ^zstd@1.5.5%gcc@12.3.0+programs build_system=makefile compression=none libs=shared,static arch=linux-rhel7-skylake
[e] yn5fbwg ^bison@3.8.2%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[e] rd65pst ^boost@1.83.0%gcc@12.3.0~atomic~chrono~clanglibcpp~container~context~contract~coroutine~date_time~debug~exception~fiber+filesystem~graph~graph_parallel~icu~iostreams~json~locale~log~math~mpi+multithreaded~nowide~numpy+pic~program_options~python~random~regex+serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout+test~thread~timer~type_erasure~versionedlayout~wave build_system=generic cxxstd=98 patches=a440f96 visibility=hidden arch=linux-rhel7-skylake
[e] b5zzpr3 ^cmake@3.27.7%gcc@12.3.0~doc+ncurses+ownlibs build_system=generic build_type=Release arch=linux-rhel7-skylake
[e] 77vzaxs ^flex@2.6.3%gcc@12.3.0+lex~nls build_system=autotools arch=linux-rhel7-skylake
[^] nbi5w5c ^gettext@0.22.3%gcc@12.3.0+bzip2+curses+git~libunistring+libxml2+pic+shared+tar+xz build_system=autotools arch=linux-rhel7-skylake
[^] vdqwmgi ^bzip2@1.0.8%gcc@12.3.0~debug~pic+shared build_system=generic arch=linux-rhel7-skylake
[^] nv4xh4v ^libiconv@1.17%gcc@12.3.0 build_system=autotools libs=shared,static arch=linux-rhel7-skylake
[^] oh2g4in ^libxml2@2.10.3%gcc@12.3.0+pic~python+shared build_system=autotools arch=linux-rhel7-skylake
[^] zz4acmm ^tar@1.34%gcc@12.3.0 build_system=autotools zip=pigz arch=linux-rhel7-skylake
[^] dwjcguu ^pigz@2.7%gcc@12.3.0 build_system=makefile arch=linux-rhel7-skylake
[^] wwn5enj ^xz@5.4.1%gcc@12.3.0~pic build_system=autotools libs=shared,static arch=linux-rhel7-skylake
[^] swjylul ^gmake@4.4.1%gcc@12.3.0~guile build_system=generic arch=linux-rhel7-skylake
[e] h6t3hgb ^hpe-mpi@2.27.p1.hmpt%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
- fz3oxtc ^libsonata-report@git.5602aadfa710d6766ce23cd151a1855190271bd8=develop%oneapi@2023.2.0~ipo+mpi build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 5o77yem ^hdf5@1.14.3%gcc@12.3.0+cxx~fortran+hl~ipo~java~map+mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] ihotvbs ^spdlog@1.12.0%gcc@12.3.0+fmt_external~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 6kdbhvi ^ncurses@6.4%gcc@12.3.0~symlinks+termlib abi=none build_system=autotools arch=linux-rhel7-skylake
[e] omn6mm4 ^ninja@1.11.1%gcc@12.3.0+re2c build_system=generic arch=linux-rhel7-skylake
[+] 53hy2ex ^nmodl@git.5ff221d045c92389b4cab5ee159d46770aa12665=develop%gcc@12.3.0~ipo~legacy-unit~llvm~llvm_cuda~python~tests build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[^] pywly2v ^catch2@3.4.0%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] ud3echq ^cli11@2.3.2%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] evtttrh ^fmt@10.1.1%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release cxxstd=11 generator=make arch=linux-rhel7-skylake
[^] teske2k ^nlohmann-json@3.9.1%gcc@12.3.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 5dylnca ^py-find-libpython@0.3.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 7validy ^py-jinja2@3.1.2%gcc@12.3.0~i18n build_system=python_pip arch=linux-rhel7-skylake
[^] r3ehtmw ^py-markupsafe@2.1.3%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] tabj2mo ^py-pybind11@2.11.1%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[^] 2inh3rt ^py-pyyaml@5.4.1%gcc@12.3.0+libyaml build_system=python_pip arch=linux-rhel7-skylake
[^] bzl4xcz ^libyaml@0.2.5%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] x733hwb ^py-mpi4py@3.1.4%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] m3dslef ^py-cython@0.29.36%gcc@12.3.0 build_system=python_pip patches=c4369ad arch=linux-rhel7-skylake
[^] aj3rk42 ^py-wheel@0.41.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] elr5pnt ^py-numpy@1.26.1%gcc@12.3.0 build_system=python_pip patches=873745d arch=linux-rhel7-skylake
[e] w2ldcy2 ^intel-oneapi-mkl@2023.2.0%gcc@12.3.0~cluster+envmods~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-rhel7-skylake
[^] 3y7uuwr ^py-pyproject-metadata@0.7.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] uqml2to ^py-packaging@23.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] h6f6feu ^py-flit-core@3.9.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 77ku3vv ^py-pip@23.1.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] lrf2u3h ^py-pytest@7.3.2%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] mvxx6gh ^py-iniconfig@2.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] cbpzath ^py-hatch-vcs@0.3.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 2o7gdvi ^py-hatchling@1.21.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 6domhtg ^py-editables@0.3%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] edobf76 ^py-pathspec@0.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] a6ialdh ^py-trove-classifiers@2023.8.7%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] jurd5ga ^py-calver@2022.6.26%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 6su7kvx ^py-pluggy@1.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] sokbfzv ^py-setuptools-scm@8.0.4%gcc@12.3.0+toml build_system=python_pip arch=linux-rhel7-skylake
[e] 2sazdxk ^git@2.42.0%gcc@12.3.0+man+nls+perl+subtree~svn~tcltk build_system=autotools arch=linux-rhel7-skylake
[^] xwl5l6q ^py-tomli@2.0.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 275jtek ^py-typing-extensions@4.8.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] z5nf6n2 ^py-pytest-cov@4.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] wuxetkw ^py-coverage@7.2.6%gcc@12.3.0+toml build_system=python_pip arch=linux-rhel7-skylake
[^] p3xbqxj ^py-setuptools@68.0.0%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] t5tovex ^py-sympy@1.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 4fflyib ^py-mpmath@1.2.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[e] 5wl76vp ^python@3.11.6%gcc@12.3.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=13fa8bf,b0615b2,ebdca64,f2fd060 arch=linux-rhel7-skylake
[^] pdugg7r ^readline@8.2%gcc@12.3.0 build_system=autotools patches=bbf97f1 arch=linux-rhel7-skylake
$ set -o pipefail
$ (spack ${SPACK_EXTRA_FLAGS} install --overwrite -y -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} | tee log) || install_failed=1
==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394, but it is owned by 0
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zlib-ng-2.1.4-z7jpg7
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zstd-1.5.5-aivjoo
==> bison@3.8.2 : has external module in ['bison/3.8.2']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/bison-3.8.2-qcx3sg (external bison-3.8.2-yn5fbwgteilgqg6b62shkhkjg3hlwmrq)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/boost-1.83.0-2quv7w (external boost-1.83.0-rd65pstwb56uftszduzg7lsiq4za4lnn)
==> cmake@3.27.7 : has external module in ['cmake/3.27.7']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes (external cmake-3.27.7-b5zzpr3mwm7jxv6bvvrs6zpeg62cfhbu)
==> flex@2.6.3 : has external module in ['flex/2.6.3']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/flex-2.6.3-edx4lf (external flex-2.6.3-77vzaxsa3g7wr3omktr4skpetx5ds4pt)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/bzip2-1.0.8-vdqwmg
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libiconv-1.17-nv4xh4
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/xz-5.4.1-wwn5en
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gmake-4.4.1-swjylu
==> hpe-mpi@2.27.p1.hmpt : has external module in ['hpe-mpi/2.27.p1.hmpt']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/hpe-mpi-2.27.p1.hmpt-6rr256 (external hpe-mpi-2.27.p1.hmpt-h6t3hgbguhacajbyzlp43xpawsnreb3m)
==> ninja@1.11.1 : has external module in ['ninja/1.11.1']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ninja-1.11.1-nxtlgo (external ninja-1.11.1-omn6mm4a3zsbpbkptvdwxs6kkrh6yafw)
==> python@3.11.6 : has external module in ['python/3.11.6']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m (external python-3.11.6-5wl76vphfvpcapfaipipf7xn2xylnc4o)
==> intel-oneapi-mkl@2023.2.0 : has external module in ['intel-oneapi-mkl/2023.2.0']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/intel-oneapi-mkl-2023.2.0-twl2n4 (external intel-oneapi-mkl-2023.2.0-w2ldcy2y2urm3uaa7omu3w7nhwsqt433)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/cli11-2.3.2-ud3ech
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pkgconf-1.9.5-e533uu
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/catch2-3.4.0-pywly2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/readline-8.2-pdugg7
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/fmt-10.1.1-evtttr
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/nlohmann-json-3.9.1-teske2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pigz-2.7-dwjcgu
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libyaml-0.2.5-bzl4xc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-iniconfig-2.0.0-mvxx6g
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-packaging-23.1-uqml2t
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pip-23.1.2-77ku3v
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libxml2-2.10.3-oh2g4i
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/binutils-2.41-tj3mv5
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/hdf5-1.14.3-5o77ye
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/spdlog-1.12.0-ihotvb
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/tar-1.34-zz4acm
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpmath-1.2.1-4fflyi
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pybind11-2.11.1-tabj2m
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-find-libpython-0.3.1-5dylnc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpi4py-3.1.4-x733hw
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-numpy-1.26.1-elr5pn
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pluggy-1.0.0-6su7kv
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-markupsafe-2.1.3-r3ehtm
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-coverage-7.2.6-wuxetk
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pyyaml-5.4.1-2inh3r
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gettext-0.22.3-nbi5w5
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-sympy-1.11.1-t5tove
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-7.3.2-lrf2u3
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-cov-4.0.0-z5nf6n
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d46770aa12665_develop-53hy2e
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_oneapi-2023.2.0-skylake/libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-fz3oxt
==> Installing neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv [49/49]
==> No binary for neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv found: installing from source
==> No patches needed for neuron
==> neuron: Executing phase: 'cmake'
==> neuron: Executing phase: 'build'
==> Error: ProcessError: Command exited with status 2:
'make' '-j8'
34 errors found in build log:
2764 [ 34%] Running nrnivmodl-core with internal mod files
2765 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/bin && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage
_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmak
e -E env NMODLHOME= /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc
proj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea
23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wj
w7obq7hv/spack-build-z2ewjh7/bin/nrnivmodl-core -b SHARED -m /gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/i
nstall_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d46
770aa12665_develop-53hy2e/bin/nmodl -n internal -p 4 .
2766 WARNING: No mod files found in '/gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuck
kuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/bin', compiling default o
nes only!
2767 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7o
bq7hv/spack-build-z2ewjh7 MECHLIB_SUFFIX=internal NMODL_BINARY=/gp
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software
/install_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d
46770aa12665_develop-53hy2e/bin/nmodl MODS_PATH=x86_64/corenrn/mod
2c BUILD_TYPE=SHARED NRN_PRCELLSTATE=0
2768 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuw
xxhfjr3wjw7obq7hv/spack-build-z2ewjh7/bin'
2769 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 2770 make[3]: xcrun: No such file or directory
2771 Default NMODL flags:
>> 2772 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
2773 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2774 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2775 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2776 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
2777 x86_64/corenrn/mod2c/netstim.cpp:487:13: warning: loop not vectori
zed: the optimizer was unable to perform the requested transformat
ion; the transformation might be disabled or specified as part of
an unsupported transformation ordering [-Wpass-failed=transform-wa
rning]
2778 #pragma omp simd
...
3689 INFO:root:Extension common compile flags defaultdict(<class 'list'
>, {'library_dirs': ['/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcih
pcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9bab
ea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3
wjw7obq7hv/spack-build-z2ewjh7/lib'], 'libraries': ['nrniv'], 'lan
guage': 'c++'})
3690 INFO:root:RX3D is DISABLED
3691 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build
-z2ewjh7/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e
840f9c938be979cceb8fe0
3692 cfiles =
3693 [ 47%] Building CXX object src/nrniv/CMakeFiles/nrniv.dir/__/oc/oc
kludge.cpp.o
3694 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/src/nrniv && /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321684/spack/lib/spack/env/oneapi/icpx -DCOR
ENRN_BUILD=0 -DHAVE_CONFIG_H -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIN
D=1 -DNRN_AVOID_ABSOLUTE_PATHS -DNRN_ENABLE_THREADS -DOMPI_SKIP_MP
ICXX=1 -DUSE_PYTHON -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcih
pcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9bab
ea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3
wjw7obq7hv/spack-src/src/ivoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuck
kuwxxhfjr3wjw7obq7hv/spack-src/src/nrncvode -I/gpfs/bbp.cscs.ch/ss
d/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spac
k-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develo
p-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/nrniv -I/gpfs/bbp
.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack
-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1
a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/nrnoc
-I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13
21688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05e
aa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src
/src/oc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P21
7394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f1
38bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/s
pack-build-z2ewjh7 -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihp
cproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babe
a23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3w
jw7obq7hv/spack-build-z2ewjh7/src/nrncvode -I/gpfs/bbp.cscs.ch/ssd
/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack
-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop
-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/src/nrnoc -I
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build
-z2ewjh7/src/nrnpython -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9
babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhf
jr3wjw7obq7hv/spack-build-z2ewjh7/src/oc -I/gpfs/bbp.cscs.ch/ssd/g
itlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-s
tage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z
2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/src/parallel -
I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J132
1688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05ea
a6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-buil
d-z2ewjh7/src/sundials -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9
babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhf
jr3wjw7obq7hv/spack-build-z2ewjh7/src/sundials/shared -I/gpfs/bbp.
cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-
build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a
086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src -I/gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/gn
u -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J
1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd0
5eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-s
rc/src/nrnmpi -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj
12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e4
ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7ob
q7hv/spack-src/src/nrnpython -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jo
bs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-
git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckk
uwxxhfjr3wjw7obq7hv/spack-src/src/parallel -I/gpfs/bbp.cscs.ch/ssd
/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack
-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop
-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/scopmath -I/gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/spar
se -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/
J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd
05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-
src/src/sparse13 -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcp
roj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea2
3e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw
7obq7hv/spack-src/src/sundials -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_
jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuro
n-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuc
kkuwxxhfjr3wjw7obq7hv/spack-src/src/sundials/cvodes -I/gpfs/bbp.cs
cs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-bu
ild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a08
6_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/sundials/
ida -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394
/J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bb
d05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack
-src/src/sundials/shared -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b
bpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.
e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxx
hfjr3wjw7obq7hv/spack-build-z2ewjh7/src/nrniv/oc_generated -I/gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/iv
os -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/
J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd
05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-
src/src/nrnpython/.. -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci
hpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9ba
bea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr
3wjw7obq7hv/spack-src/src/nrnpython/../oc -I/gpfs/bbp.cscs.ch/ssd/
gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-
stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-
z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/nrnpython/../nrnoc
-I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13
21688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05e
aa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src
/src/nrnpython/../ivoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9
babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhf
jr3wjw7obq7hv/spack-src/src/nrnpython/../nrniv -I/gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/nrnpython/../n
rnmpi -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P2173
94/J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138
bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spa
ck-src/src/nrnpython/../ivos -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024
-02-01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj
4i6m/include/python3.11 -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_
jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuro
n-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuc
kkuwxxhfjr3wjw7obq7hv/spack-src/external/eigen -march=skylake -mtu
ne=skylake -fopenmp-simd -g -O1 -fp-model precise -std=c++17 -pth
read -MD -MT src/nrniv/CMakeFiles/nrniv.dir/__/oc/ockludge.cpp.o -
MF CMakeFiles/nrniv.dir/__/oc/ockludge.cpp.o.d -o CMakeFiles/nrniv
.dir/__/oc/ockludge.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuw
xxhfjr3wjw7obq7hv/spack-src/src/oc/ockludge.cpp
>> 3695 Mod files: "./follower.mod" "./gap.mod" "./name_clashes.mod"/gpfs/
bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc
-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx/lib/python3.11/site-pa
ckages/setuptools/__init__.py:84: _DeprecatedInstaller: setuptools
.installer and fetch_build_eggs are deprecated.
3696 !!
3697
3698 **********************************************************
**********************
3699 Requirements should be satisfied by a PEP 517 installer.
3700 If you are using pip, you can try `pip install --use-pep51
7`.
3701 **********************************************************
**********************
...
3710 MODOBJS= ./follower.o ./gap.o ./name_clashes.o ./unitstest.o ./ver
sion_macros.o
3711 [ 47%] Building CXX object src/nrniv/CMakeFiles/nrniv.dir/__/oc/mo
dlreg.cpp.o
3712 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/src/nrniv && /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321684/spack/lib/spack/env/oneapi/icpx -DCOR
ENRN_BUILD=0 -DHAVE_CONFIG_H -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIN
D=1 -DNRN_AVOID_ABSOLUTE_PATHS -DNRN_ENABLE_THREADS -DOMPI_SKIP_MP
ICXX=1 -DUSE_PYTHON -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcih
pcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9bab
ea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3
wjw7obq7hv/spack-src/src/ivoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuck
kuwxxhfjr3wjw7obq7hv/spack-src/src/nrncvode -I/gpfs/bbp.cscs.ch/ss
d/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spac
k-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develo
p-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/nrniv -I/gpfs/bbp
.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack
-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1
a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/nrnoc
-I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13
21688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05e
aa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src
/src/oc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P21
7394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f1
38bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/s
pack-build-z2ewjh7 -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihp
cproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babe
a23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3w
jw7obq7hv/spack-build-z2ewjh7/src/nrncvode -I/gpfs/bbp.cscs.ch/ssd
/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack
-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop
-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/src/nrnoc -I
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build
-z2ewjh7/src/nrnpython -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9
babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhf
jr3wjw7obq7hv/spack-build-z2ewjh7/src/oc -I/gpfs/bbp.cscs.ch/ssd/g
itlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-s
tage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z
2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/src/parallel -
I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J132
1688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05ea
a6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-buil
d-z2ewjh7/src/sundials -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9
babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhf
jr3wjw7obq7hv/spack-build-z2ewjh7/src/sundials/shared -I/gpfs/bbp.
cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-
build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a
086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src -I/gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/gn
u -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J
1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd0
5eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-s
rc/src/nrnmpi -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj
12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e4
ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7ob
q7hv/spack-src/src/nrnpython -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jo
bs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-
git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckk
uwxxhfjr3wjw7obq7hv/spack-src/src/parallel -I/gpfs/bbp.cscs.ch/ssd
/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack
-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop
-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/scopmath -I/gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/spar
se -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/
J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd
05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-
src/src/sparse13 -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcp
roj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea2
3e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw
7obq7hv/spack-src/src/sundials -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_
jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuro
n-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuc
kkuwxxhfjr3wjw7obq7hv/spack-src/src/sundials/cvodes -I/gpfs/bbp.cs
cs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-bu
ild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a08
6_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/sundials/
ida -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394
/J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bb
d05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack
-src/src/sundials/shared -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b
bpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.
e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxx
hfjr3wjw7obq7hv/spack-build-z2ewjh7/src/nrniv/oc_generated -I/gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/iv
os -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/
J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd
05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-
src/src/nrnpython/.. -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci
hpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9ba
bea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr
3wjw7obq7hv/spack-src/src/nrnpython/../oc -I/gpfs/bbp.cscs.ch/ssd/
gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-
stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-
z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/nrnpython/../nrnoc
-I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13
21688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05e
aa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src
/src/nrnpython/../ivoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9
babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhf
jr3wjw7obq7hv/spack-src/src/nrnpython/../nrniv -I/gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/src/nrnpython/../n
rnmpi -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P2173
94/J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138
bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spa
ck-src/src/nrnpython/../ivos -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024
-02-01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj
4i6m/include/python3.11 -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_
jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuro
n-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuc
kkuwxxhfjr3wjw7obq7hv/spack-src/external/eigen -march=skylake -mtu
ne=skylake -fopenmp-simd -g -O1 -fp-model precise -std=c++17 -pth
read -MD -MT src/nrniv/CMakeFiles/nrniv.dir/__/oc/modlreg.cpp.o -M
F CMakeFiles/nrniv.dir/__/oc/modlreg.cpp.o.d -o CMakeFiles/nrniv.d
ir/__/oc/modlreg.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bb
pcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e
9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxh
fjr3wjw7obq7hv/spack-src/src/oc/modlreg.cpp
3713 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7o
bq7hv/spack-build-z2ewjh7 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=SHARED NRN_PRCELLSTATE=0
3714 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuw
xxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/c448d279dd3b9
1940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0'
3715 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 3716 make[3]: xcrun: No such file or directory
3717 Default NMODL flags:
>> 3718 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
3719 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3720 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3721 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3722 [ 47%] Linking CXX executable ../../bin/nrniv
3723 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/src/nrniv && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01
/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bi
n/cmake -E cmake_link_script CMakeFiles/nrniv.dir/link.txt --verbo
se=1
3724 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
684/spack/lib/spack/env/oneapi/icpx -march=skylake -mtune=skylake
-fopenmp-simd -g -O1 -fp-model precise CMakeFiles/nrniv.dir/__/iv
oc/nrnmain.cpp.o CMakeFiles/nrniv.dir/__/oc/ockludge.cpp.o CMakeFi
les/nrniv.dir/__/oc/modlreg.cpp.o -o ../../bin/nrniv -Wl,-rpath,/
gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13216
88/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6
b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-
z2ewjh7/lib:/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applic
ations/install_gcc-12.3.0-skylake/readline-8.2-pdugg7/lib:/gpfs/bb
p.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3
.0-skylake/python-3.11.6-bj4i6m/lib:/gpfs/bbp.cscs.ch/ssd/apps/bsd
/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/ncurses-
6.4-6kdbhv/lib: ../../lib/libnrniv.so -ldl /gpfs/bbp.cscs.ch/ssd/a
pps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/r
eadline-8.2-pdugg7/lib/libreadline.so -pthread ../../lib/libnrngnu
.a ../../lib/libsparse13.a /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-
01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m
/lib/libpython3.11.so /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/st
age_applications/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv/lib
/libcurses.so /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_appl
ications/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv/lib/libform
.so -ldl
...
4413 Notice: ARTIFICIAL_CELL is a synonym for POINT_PROCESS which hints
that it
4414 only affects and is affected by discrete events. As such it is not
4415 located in a section and is not associated with an integrator
4416 -> NMODL .././passiv.mod
4417 make -f test/api/CMakeFiles/vclamp_cpp.dir/build.make test/api/CM
akeFiles/vclamp_cpp.dir/depend
4418 -> NMODL .././rchan.mod
>> 4419 make[3]: xcrun: No such file or directory
4420 Default NMODL flags:
4421 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfj
r3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/ae2c9b73c9a624bce3
58af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/x86_64/./special" L
DFLAGS are:
4422 Translating obj_ex.mod into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/263a5c542e063e
e6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/obj_ex.c
pp
4423 Thread Safe
4424 make[2]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuw
xxhfjr3wjw7obq7hv/spack-build-z2ewjh7'
4425 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7 && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_ext
ernals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmake -E
cmake_depends "Unix Makefiles" /gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuck
kuwxxhfjr3wjw7obq7hv/spack-src /gpfs/bbp.cscs.ch/ssd/gitlab_map_jo
bs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-
git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckk
uwxxhfjr3wjw7obq7hv/spack-src/test/api /gpfs/bbp.cscs.ch/ssd/gitla
b_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage
-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewj
h73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7 /gpfs/bbp.cscs.ch/
ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/sp
ack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_deve
lop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/api
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build
-z2ewjh7/test/api/CMakeFiles/vclamp_cpp.dir/DependInfo.cmake "--co
lor="
...
4429 make[2]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuw
xxhfjr3wjw7obq7hv/spack-build-z2ewjh7'
4430 Translating order.mod into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b
bpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.
e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxx
hfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/263a5c542e063ee
6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/order.cpp
4431 Thread Safe
4432 Translating passiv.mod into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/263a5c542e063e
e6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/passiv.c
pp
4433 -> NMODL .././str.mod
4434 Thread Safe
>> 4435 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4436 Translating rchan.mod into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b
bpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.
e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxx
hfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/263a5c542e063ee
6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/rchan.cpp
4437 Notice: normrand is not thread safe
4438 Notice: This mechanism cannot be used with CVODE
4439 -> NMODL .././syn1.mod
4440 -> NMODL .././synpre.mod
4441 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7'
...
4594 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/red
uced_dentate//mechanisms/Aradi_Na.mod /gpfs/bbp.cscs.ch/ssd/gitlab
_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-
neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh
73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/53c4
32f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/Aradi
_Na.mod
4595 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7o
bq7hv/spack-build-z2ewjh7 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=SHARED NRN_PRCELLSTATE=0
4596 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuw
xxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/a9c54b18e4b54
351cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff'
4597 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
4598 [ 53%] Generating ../../nrnivmodl/b62f97c7d3f6d905c774d64e10128b33
00792f8f757b926b965c058a4d6ee876/hhderiv.mod
4599 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/testcorenrn && /gpfs/bbp.cscs.ch/ssd/app
s/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-
3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch/ssd
/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack
-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop
-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/testcor
enrn//mod/hhderiv.mod /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcih
pcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9bab
ea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3
wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/b62f97c7d3f6d905c774
d64e10128b3300792f8f757b926b965c058a4d6ee876/hhderiv.mod
>> 4600 make[3]: xcrun: No such file or directory
4601 Default NMODL flags:
4602 [ 53%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/CaBK.mod
4603 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/red
uced_dentate//mechanisms/CaBK.mod /gpfs/bbp.cscs.ch/ssd/gitlab_map
_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neur
on-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zu
ckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/53c432f7
080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/CaBK.mod
>> 4604 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4605 [ 53%] Generating ../../nrnivmodl/b62f97c7d3f6d905c774d64e10128b33
00792f8f757b926b965c058a4d6ee876/hhkin.mod
4606 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/testcorenrn && /gpfs/bbp.cscs.ch/ssd/app
s/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-
3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch/ssd
/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack
-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop
-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/testcor
enrn//mod/hhkin.mod /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc
proj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea
23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wj
w7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/b62f97c7d3f6d905c774d6
4e10128b3300792f8f757b926b965c058a4d6ee876/hhkin.mod
4607 [ 53%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/DGC_M.mod
4608 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/red
uced_dentate//mechanisms/DGC_M.mod /gpfs/bbp.cscs.ch/ssd/gitlab_ma
p_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neu
ron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73z
uckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/53c432f
7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/DGC_M.mo
d
4609 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4610 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
...
4702 => LINKING shared library "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/bbd7c82eee28b9
31214a8172bb776ba66c406a6620c807381c850fedcdd74295/x86_64/./libnrn
mech.so"
4703 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7o
bq7hv/spack-build-z2ewjh7 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=SHARED NRN_PRCELLSTATE=0
4704 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuw
xxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/b62f97c7d3f6d
905c774d64e10128b3300792f8f757b926b965c058a4d6ee876'
4705 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
4706 [ 54%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/hyperde3.mod
4707 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/red
uced_dentate//mechanisms/hyperde3.mod /gpfs/bbp.cscs.ch/ssd/gitlab
_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-
neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh
73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/53c4
32f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/hyper
de3.mod
>> 4708 make[3]: xcrun: No such file or directory
4709 Default NMODL flags:
4710 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfj
r3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/c448d279dd3b91940d
228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/x86_64/./special" L
DFLAGS are:
>> 4711 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4712 [NMODL] [warning] :: Can not inline function call to mynormrand
4713 [NMODL] [warning] :: Can not inline function call to mynormrand
4714 [NMODL] [warning] :: Can not inline function call to mynormrand
4715 [NMODL] [warning] :: Can not inline function call to mynormrand
4716 [ 54%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/ichan2.mod
4717 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/red
uced_dentate//mechanisms/ichan2.mod /gpfs/bbp.cscs.ch/ssd/gitlab_m
ap_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-ne
uron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73
zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/53c432
f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/ichan2.
mod
4718 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7o
bq7hv/spack-build-z2ewjh7 INCFLAGS=-I/usr/include LINKFLAGS=/usr/l
ib64/libcrypto.so MODS_PATH=x86_64/corenrn/mod2c BUILD_TYPE=SHARED
NRN_PRCELLSTATE=0
4719 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuw
xxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/f7f437ac4f0ea
140e809f1bdd7f7d03201e354b9a2041597f8faaf7fb7aebb7c'
4720 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4721 make[3]: xcrun: No such file or directory
4722 Default NMODL flags:
4723 [ 54%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/iconc_Ca.mod
4724 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/red
uced_dentate//mechanisms/iconc_Ca.mod /gpfs/bbp.cscs.ch/ssd/gitlab
_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-
neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh
73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/53c4
32f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/iconc
_Ca.mod
4725 x86_64/corenrn/mod2c/axial.cpp:246:9: warning: loop not vectorized
: the optimizer was unable to perform the requested transformation
; the transformation might be disabled or specified as part of an
unsupported transformation ordering [-Wpass-failed=transform-warni
ng]
4726 #pragma omp simd
4727 ^
4728 x86_64/corenrn/mod2c/axial.cpp:280:9: warning: loop not vectorized
: the optimizer was unable to perform the requested transformation
; the transformation might be disabled or specified as part of an
unsupported transformation ordering [-Wpass-failed=transform-warni
ng]
4729 #pragma omp simd
4730 ^
4731 2 warnings generated.
>> 4732 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4733 [NMODL] [warning] :: Can not inline function call to specify_invl
4734 [NMODL] [warning] :: Can not inline function call to specify_invl
4735 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfj
r3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/bbd7c82eee28b93121
4a8172bb776ba66c406a6620c807381c850fedcdd74295/x86_64/./special" L
DFLAGS are:
4736 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7
hv/spack-build-z2ewjh7/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/cagkftab.cpp
4737 [ 54%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/kcaPR.mod
4738 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/red
uced_dentate//mechanisms/kcaPR.mod /gpfs/bbp.cscs.ch/ssd/gitlab_ma
p_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neu
ron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73z
uckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/53c432f
7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/kcaPR.mo
d
...
5112 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/TTXDynamicsSwitch.m
od /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552
933d5963dc6fd47c3be88641a/TTXDynamicsSwitch.mod
5113 [ 57%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/VecStim.mod
5114 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/VecStim.mod /gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh
7/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc
6fd47c3be88641a/VecStim.mod
5115 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7o
bq7hv/spack-build-z2ewjh7 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=SHARED NRN_PRCELLSTATE=0
5116 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuw
xxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/53c432f7080fe
7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead'
5117 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 5118 make[3]: xcrun: No such file or directory
5119 Default NMODL flags:
5120 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7
hv/spack-build-z2ewjh7/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/ionleak.cpp
5121 [ 57%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/cacumm.mod
5122 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/cacumm.mod /gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spac
k-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d
1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7
/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6
fd47c3be88641a/cacumm.mod
>> 5123 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
5124 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
5125 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
5126 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
5127 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7
hv/spack-build-z2ewjh7/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/nacum.cpp
5128 [ 57%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/cacummb.mod
5129 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/cacummb.mod /gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh
7/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc
6fd47c3be88641a/cacummb.mod
...
5148 [ 57%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/can2.mod
5149 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/can2.mod /gpfs/bbp.
cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-
build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a
086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/t
est/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6fd
47c3be88641a/can2.mod
5150 x86_64/corenrn/mod2c/invlfire.cpp:313:13: warning: loop not vector
ized: the optimizer was unable to perform the requested transforma
tion; the transformation might be disabled or specified as part of
an unsupported transformation ordering [-Wpass-failed=transform-w
arning]
5151 #pragma omp simd
5152 ^
5153 1 warning generated.
>> 5154 make[3]: xcrun: No such file or directory
5155 Default NMODL flags:
>> 5156 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
5157 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
5158 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
5159 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
5160 x86_64/corenrn/mod2c/netmove.cpp:333:9: warning: loop not vectoriz
ed: the optimizer was unable to perform the requested transformati
on; the transformation might be disabled or specified as part of a
n unsupported transformation ordering [-Wpass-failed=transform-war
ning]
5161 #pragma omp simd
5162 ^
...
5714 make -f test/CMakeFiles/copy-scripts-pytest-basic_tests_py3.11.di
r/build.make test/CMakeFiles/copy-scripts-pytest-basic_tests_py3.1
1.dir/depend
5715 make[2]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuw
xxhfjr3wjw7obq7hv/spack-build-z2ewjh7'
5716 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7 && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_ext
ernals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmake -E
cmake_depends "Unix Makefiles" /gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuck
kuwxxhfjr3wjw7obq7hv/spack-src /gpfs/bbp.cscs.ch/ssd/gitlab_map_jo
bs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-
git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckk
uwxxhfjr3wjw7obq7hv/spack-src/test /gpfs/bbp.cscs.ch/ssd/gitlab_ma
p_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neu
ron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73z
uckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7 /gpfs/bbp.cscs.ch/ssd/
gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-
stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-
z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test /gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spac
k-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d
1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh7
/test/CMakeFiles/copy-scripts-pytest-basic_tests_py3.11.dir/Depend
Info.cmake "--color="
5717 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7o
bq7hv/spack-build-z2ewjh7 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=SHARED NRN_PRCELLSTATE=0
5718 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuw
xxhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/3a24bd33c51ee
30c68f71d610b146a37c165552933d5963dc6fd47c3be88641a'
5719 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 5720 make[3]: xcrun: No such file or directory
5721 Default NMODL flags:
5722 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7'
5723 make -f test/CMakeFiles/copy-scripts-pytest-basic_tests_py3.11.di
r/build.make test/CMakeFiles/copy-scripts-pytest-basic_tests_py3.1
1.dir/build
5724 make[2]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuw
xxhfjr3wjw7obq7hv/spack-build-z2ewjh7'
>> 5725 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
5726 => Binary creating x86_64/special-core
5727 [ 58%] Generating pytest/basic_tests_py3.11/test/pytest/test_nrnte
st_thread.json
5728 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfj
r3wjw7obq7hv/spack-src//test/pytest/test_nrntest_thread.json /gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ew
jh7/test/pytest/basic_tests_py3.11/test/pytest/test_nrntest_thread
.json
5729 [ 58%] Generating pytest/basic_tests_py3.11/test/pytest/test_nrnte
st_thread.py
5730 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfj
r3wjw7obq7hv/spack-src//test/pytest/test_nrntest_thread.py /gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2ewjh
7/test/pytest/basic_tests_py3.11/test/pytest/test_nrntest_thread.p
y
5731 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7'
...
5905 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfj
r3wjw7obq7hv/spack-src//test/pytest_coreneuron/test_multigid.py /g
pfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J132168
8/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b
05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z
2ewjh7/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_coren
euron/test_multigid.py
5906 [ 59%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_netpar.py
5907 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfj
r3wjw7obq7hv/spack-src//test/pytest_coreneuron/test_netpar.py /gpf
s/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/
spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05
c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2e
wjh7/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_coreneu
ron/test_netpar.py
5908 => LINKING shared library "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/share/nrn/demo/release/x86_64
/./libnrnmech.so"
5909 [ 59%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_nlayer.py
5910 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfj
r3wjw7obq7hv/spack-src//test/pytest_coreneuron/test_nlayer.py /gpf
s/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/
spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05
c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2e
wjh7/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_coreneu
ron/test_nlayer.py
>> 5911 axial_pp.cpp:290:12: error: use of undeclared identifier '_globals
'
5912 foo ( _threadargs_ ) ;
5913 ^
5914 axial_pp.cpp:53:50: note: expanded from macro '_threadargs_'
5915 #define _threadargs_ _ml, _iml, _ppvar, _thread, _globals, _nt
5916 ^
5917 1 error generated.
>> 5918 make[3]: *** [makemod2c_inc:15: axial_pp.o] Error 1
5919 make[3]: *** Waiting for unfinished jobs....
>> 5920 bacur.cpp:373:9: error: use of undeclared identifier '_globals'
5921 init ( _threadargs_ ) ;
5922 ^
5923 bacur.cpp:53:50: note: expanded from macro '_threadargs_'
5924 #define _threadargs_ _ml, _iml, _ppvar, _thread, _globals, _nt
5925 ^
5926 1 error generated.
>> 5927 make[3]: *** [makemod2c_inc:23: bacur.o] Error 1
>> 5928 banocur.cpp:343:9: error: use of undeclared identifier '_globals'
5929 init ( _threadargs_ ) ;
5930 ^
5931 banocur.cpp:53:50: note: expanded from macro '_threadargs_'
5932 #define _threadargs_ _ml, _iml, _ppvar, _thread, _globals, _nt
5933 ^
5934 1 error generated.
>> 5935 make[3]: *** [makemod2c_inc:31: banocur.o] Error 1
5936 [ 59%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_nrnste.py
5937 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfj
r3wjw7obq7hv/spack-src//test/pytest_coreneuron/test_nrnste.py /gpf
s/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/
spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05
c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-z2e
wjh7/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_coreneu
ron/test_nrnste.py
>> 5938 axial.cpp:243:12: error: use of undeclared identifier '_globals'
5939 foo ( _threadargs_ ) ;
5940 ^
5941 axial.cpp:53:50: note: expanded from macro '_threadargs_'
5942 #define _threadargs_ _ml, _iml, _ppvar, _thread, _globals, _nt
5943 ^
5944 1 error generated.
>> 5945 make[3]: *** [makemod2c_inc:7: axial.o] Error 1
5946 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/c35d2f235e0f38
60fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/x86_64'
>> 5947 make[2]: *** [test/CMakeFiles/NRN_TEST_nrnivmodl_c35d2f235e0f3860f
becadf05ec8c2b6901bba2525195c69836276a4b5d88ca7.dir/build.make:106
: test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c698
36276a4b5d88ca7/x86_64/special] Error 2
5948 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7'
>> 5949 make[1]: *** [CMakeFiles/Makefile2:5760: test/CMakeFiles/NRN_TEST_
nrnivmodl_c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4
b5d88ca7.dir/all] Error 2
5950 make[1]: *** Waiting for unfinished jobs....
5951 [ 59%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_nrntest_fast.py
5952 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bu
ild-z2ewjh7/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfj
r3wjw7obq7hv/spack-src//test/pytest_coreneuron/test_nrntest_fast.p
y /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13
21688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05e
aa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-bui
ld-z2ewjh7/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_c
oreneuron/test_nrntest_fast.py
5953 => LINKING shared library "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/263a5c542e063e
e6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/./libnrn
mech.so"
5954 [NMODL] [warning] :: SYMTAB :: ca [Argument] in rates shadows <ion
> definition in NMODL_GLOBAL
5955 [NMODL] [warning] :: SYMTAB :: ca [Argument] in rates shadows <ion
> definition in NMODL_GLOBAL
...
6348 #pragma omp simd
6349 ^
6350 x86_64/corenrn/mod2c/ccanl.cpp:427:9: warning: loop not vectorized
: the optimizer was unable to perform the requested transformation
; the transformation might be disabled or specified as part of an
unsupported transformation ordering [-Wpass-failed=transform-warni
ng]
6351 #pragma omp simd
6352 ^
6353 2 warnings generated.
>> 6354 ampanmda.cpp:605:36: error: use of undeclared identifier '_globals
'
6355 _args[2] = _args[0] * plast ( _threadargscomma_ _args[1] ) ;
6356 ^
6357 ampanmda.cpp:49:55: note: expanded from macro '_threadargscomma_'
6358 #define _threadargscomma_ _ml, _iml, _ppvar, _thread, _globals, _n
t,
6359 ^
6360 1 error generated.
>> 6361 make[3]: *** [makemod2c_inc:23: ampanmda.o] Error 1
6362 make[3]: *** Waiting for unfinished jobs....
6363 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/14c92ceb412f1b
4e766bfda05bec75b2d552a2f4499313751329f0689cf9faab/x86_64'
>> 6364 make[2]: *** [test/external/olfactory-bulb-3d/CMakeFiles/NRN_TEST_
nrnivmodl_14c92ceb412f1b4e766bfda05bec75b2d552a2f4499313751329f068
9cf9faab.dir/build.make:102: test/nrnivmodl/14c92ceb412f1b4e766bfd
a05bec75b2d552a2f4499313751329f0689cf9faab/x86_64/special] Error 2
6365 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7'
>> 6366 make[1]: *** [CMakeFiles/Makefile2:9814: test/external/olfactory-b
ulb-3d/CMakeFiles/NRN_TEST_nrnivmodl_14c92ceb412f1b4e766bfda05bec7
5b2d552a2f4499313751329f0689cf9faab.dir/all] Error 2
6367 x86_64/corenrn/mod2c/ggap.cpp:235:13: warning: loop not vectorized
: the optimizer was unable to perform the requested transformation
; the transformation might be disabled or specified as part of an
unsupported transformation ordering [-Wpass-failed=transform-warni
ng]
6368 #pragma omp simd
6369 ^
6370 x86_64/corenrn/mod2c/ggap.cpp:272:9: warning: loop not vectorized:
the optimizer was unable to perform the requested transformation;
the transformation might be disabled or specified as part of an u
nsupported transformation ordering [-Wpass-failed=transform-warnin
g]
6371 #pragma omp simd
6372 ^
...
7364 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfj
r3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/3a24bd33c51ee30c68
f71d610b146a37c165552933d5963dc6fd47c3be88641a/x86_64/./special" L
DFLAGS are:
7365 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7/test/nrnivmodl/3a24bd33c51ee3
0c68f71d610b146a37c165552933d5963dc6fd47c3be88641a/x86_64'
7366 Successfully created x86_64/special
7367 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7'
7368 [ 59%] Built target NRN_TEST_nrnivmodl_3a24bd33c51ee30c68f71d610b1
46a37c165552933d5963dc6fd47c3be88641a
7369 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwx
xhfjr3wjw7obq7hv/spack-build-z2ewjh7'
>> 7370 make: *** [Makefile:169: all] Error 2
See build log for details:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321688/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-z2ewjh73zuckkuwxxhfjr3wjw7obq7hv/spack-build-out.txt
$ set +o pipefail
$ chmod -R g+rX "${SPACK_BUILD}"
$ if [[ ${install_failed} == 1 ]]; then exit 1; fi
srun: error: r1i5n12: task 0: Exited with exit code 1
section_end:1718636298:step_script section_start:1718636298:upload_artifacts_on_failure Uploading artifacts for failed job
Using git from spack modules
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=217067 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
initial_environment.env: found 1 matching files and directories
spack-build-env.txt: found 1 matching files and directories
spack-build-out.txt: found 1 matching files and directories
spack-configure-args.txt: found 1 matching files and directories
Uploading artifacts as "archive" to coordinator... ok id=1321688 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=217123 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
Uploading artifacts as "junit" to coordinator... ok id=1321688 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=217180 revision=58ba2b95 version=14.2.0
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
Uploading artifacts as "dotenv" to coordinator... ok id=1321688 responseStatus=201 Created token=glcbt-64
section_end:1718636300:upload_artifacts_on_failure section_start:1718636300:cleanup_file_variables Cleaning up project directory and file based variables
Using git from spack modules
section_end:1718636301:cleanup_file_variables ERROR: Job failed: exit status 1

Raw
build-neuron-nmodl-nvhpc-acc-legacy.txt
Running with gitlab-runner 15.5.0 (0d4137b8)
 on BB5 map runner pnPo3yJy
section_start:1718635142:resolve_secrets Resolving secrets
section_end:1718635142:resolve_secrets section_start:1718635142:prepare_executor Preparing the "custom" executor
Using Custom executor with driver BB5 PROD runner v0.0.3...
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-executor3160366684, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
Runner ID 29, project root hpc, project name nrn
Pipeline ID 217394, build ref , job ID 1321689
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag , optional reservation flag
A slurm job will be created with name GL_J1321689_PROD_P2160_CP2_C5
Job parameters: memory=160G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos= reservation=
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 2254971
job state: PD
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1321689_PROD_P2160_CP2_C5 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --time=2:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --ntasks=2 --jobid=2254971 --cpus-per-task=8 --mem=160G
section_end:1718635145:prepare_executor section_start:1718635145:prepare_script Preparing environment
Using git from spack modules
Running on r1i4n4 via bbpv1.epfl.ch...
section_end:1718635151:prepare_script section_start:1718635151:get_sources Getting source from Git repository
Using git from spack modules
Skipping Git repository setup
Skipping Git checkout
Skipping Git submodules setup
section_end:1718635152:get_sources section_start:1718635152:restore_cache Restoring cache
Using git from spack modules
Checking cache for build:neuron:nmodl:nvhpc:acc:legacy-1-non_protected...
Runtime platform  arch=amd64 os=linux pid=59482 revision=58ba2b95 version=14.2.0
Downloading cache.zip from https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/2160/build%3Aneuron%3Anmodl%3Anvhpc%3Aacc%3Alegacy-1-non_protected
Successfully extracted cache
section_end:1718635160:restore_cache section_start:1718635160:download_artifacts Downloading artifacts
Using git from spack modules
Downloading artifacts for build:nmodl (1321686)...
Runtime platform  arch=amd64 os=linux pid=59591 revision=58ba2b95 version=14.2.0
Downloading artifacts from coordinator... ok  id=1321686 responseStatus=200 OK token=glcbt-64
section_end:1718635161:download_artifacts section_start:1718635161:step_script Executing "step_script" stage of the job script
WARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426
Using git from spack modules
$ SPACK_BUILD="${PWD}/spack-build"
$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env
$ . ${SPACK_ROOT}/share/spack/setup-env.sh
$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config
$ mkdir ${SPACK_USER_CONFIG_PATH}
$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command
$ spack ${SPACK_EXTRA_FLAGS} config add concretizer:reuse:false
$ spack ${SPACK_EXTRA_FLAGS} config blame config
--- config:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-config/config.yaml:2 build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/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:7 environments_root: $user_cache_path/environments
/gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 build_jobs: 8
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:18 extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:37 template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:124 checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:129 deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:134 dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:142 build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:151 locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:205 shared_linking:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:210 type: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:216 bind: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:227 install_status: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:233 flags:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:235 keep_werror: none
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:240 aliases:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:241 concretise: concretize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:242 containerise: containerize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:243 rm: remove
_builtin debug: False
$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer
--- concretizer:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-config/concretizer.yaml:2 reuse: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:23 targets:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:38 unify: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:40 duplicates:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal
$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config
$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394/J1321689_local_config)
$ mkdir -p "${XDG_CONFIG_HOME}/git"
$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"
$ 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"
$ cat "${XDG_CONFIG_HOME}/git/config"
[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/
$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"
$ echo "Preparing to install ${SPACK_FULL_SPEC}"
Preparing to install neuron%nvhpc ~rx3d~caliper+gpu+coreneuron~legacy-unit~openmp~shared~sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^/53hy2ex7xntc24cnbuojh6rrc3l2auap
$ if [ ${SPACK_USE_CCACHE+x} ]; then
$ module load unstable ccache
$ export CCACHE_BASEDIR=$(realpath -P ${CI_BUILDS_DIR})
$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394
$ export CCACHE_MAXSIZE=512M
$ export CCACHE_DIR="${TMPDIR}/ccache"
$ mkdir -p ${CCACHE_DIR}
$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then
$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"
$ fi
$ ccache --zero-stats
Statistics zeroed
$ ccache --show-stats --verbose
Cache directory: /nvme/bbpcihpcproj12/2254971/ccache
Config file: /nvme/bbpcihpcproj12/2254971/ccache/ccache.conf
System config file: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ccache-4.7.4-eompz5/etc/ccache.conf
Stats updated: Mon Jun 17 16:39:26 2024
Local storage:
Cache size (GB): 0.45 / 0.51 (88.54%)
Files: 10450
Hits: 0
Misses: 0
Reads: 0
Writes: 0
$ fi
$ module load unstable git ${SPACK_EXTRA_MODULES}
$ spack ${SPACK_EXTRA_FLAGS} spec -Il ${SPACK_FULL_SPEC}
Input spec
--------------------------------
- neuron%nvhpc~caliper+coreneuron+gpu~legacy-unit~openmp~rx3d~shared~sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy
- ^/53hy2ex7xntc24cnbuojh6rrc3l2auap
Concretized
--------------------------------
- qgmawmh neuron@git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop%nvhpc@23.1~backtrace~caliper+coreneuron+gpu~interviews~ipo~legacy-unit+mpi~openmp~prcellstate+python+report~rx3d~shared~sympy~sympyopt+tests~unified build_system=cmake build_type=FastDebug generator=make model_tests=channel-benchmark,olfactory,tqperf-heavy sanitizers=None arch=linux-rhel7-skylake
[^] tj3mv5i ^binutils@2.41%gcc@12.3.0+gas+gold~gprofng~headers~interwork+ld~libiberty~lto~nls~pgo+plugins build_system=autotools compress_debug_sections=zlib libs=shared,static arch=linux-rhel7-skylake
[^] 7jd6loj ^diffutils@3.9%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] e533uuv ^pkgconf@1.9.5%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] z7jpg7s ^zlib-ng@2.1.4%gcc@12.3.0+compat+opt build_system=autotools arch=linux-rhel7-skylake
[^] aivjoo2 ^zstd@1.5.5%gcc@12.3.0+programs build_system=makefile compression=none libs=shared,static arch=linux-rhel7-skylake
[e] yn5fbwg ^bison@3.8.2%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[e] rd65pst ^boost@1.83.0%gcc@12.3.0~atomic~chrono~clanglibcpp~container~context~contract~coroutine~date_time~debug~exception~fiber+filesystem~graph~graph_parallel~icu~iostreams~json~locale~log~math~mpi+multithreaded~nowide~numpy+pic~program_options~python~random~regex+serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout+test~thread~timer~type_erasure~versionedlayout~wave build_system=generic cxxstd=98 patches=a440f96 visibility=hidden arch=linux-rhel7-skylake
[e] b5zzpr3 ^cmake@3.27.7%gcc@12.3.0~doc+ncurses+ownlibs build_system=generic build_type=Release arch=linux-rhel7-skylake
[e] 3fsjp3m ^cuda@12.0.0%gcc@12.3.0~allow-unsupported-compilers~dev build_system=generic arch=linux-rhel7-skylake
[e] 77vzaxs ^flex@2.6.3%gcc@12.3.0+lex~nls build_system=autotools arch=linux-rhel7-skylake
[^] nbi5w5c ^gettext@0.22.3%gcc@12.3.0+bzip2+curses+git~libunistring+libxml2+pic+shared+tar+xz build_system=autotools arch=linux-rhel7-skylake
[^] vdqwmgi ^bzip2@1.0.8%gcc@12.3.0~debug~pic+shared build_system=generic arch=linux-rhel7-skylake
[^] nv4xh4v ^libiconv@1.17%gcc@12.3.0 build_system=autotools libs=shared,static arch=linux-rhel7-skylake
[^] oh2g4in ^libxml2@2.10.3%gcc@12.3.0+pic~python+shared build_system=autotools arch=linux-rhel7-skylake
[^] zz4acmm ^tar@1.34%gcc@12.3.0 build_system=autotools zip=pigz arch=linux-rhel7-skylake
[^] dwjcguu ^pigz@2.7%gcc@12.3.0 build_system=makefile arch=linux-rhel7-skylake
[^] wwn5enj ^xz@5.4.1%gcc@12.3.0~pic build_system=autotools libs=shared,static arch=linux-rhel7-skylake
[^] swjylul ^gmake@4.4.1%gcc@12.3.0~guile build_system=generic arch=linux-rhel7-skylake
[e] h6t3hgb ^hpe-mpi@2.27.p1.hmpt%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
- az6cwid ^libsonata-report@git.5602aadfa710d6766ce23cd151a1855190271bd8=develop%nvhpc@23.1~ipo+mpi build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 5o77yem ^hdf5@1.14.3%gcc@12.3.0+cxx~fortran+hl~ipo~java~map+mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] ihotvbs ^spdlog@1.12.0%gcc@12.3.0+fmt_external~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 6kdbhvi ^ncurses@6.4%gcc@12.3.0~symlinks+termlib abi=none build_system=autotools arch=linux-rhel7-skylake
[e] omn6mm4 ^ninja@1.11.1%gcc@12.3.0+re2c build_system=generic arch=linux-rhel7-skylake
[+] 53hy2ex ^nmodl@git.5ff221d045c92389b4cab5ee159d46770aa12665=develop%gcc@12.3.0~ipo~legacy-unit~llvm~llvm_cuda~python~tests build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[^] pywly2v ^catch2@3.4.0%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] ud3echq ^cli11@2.3.2%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] evtttrh ^fmt@10.1.1%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release cxxstd=11 generator=make arch=linux-rhel7-skylake
[^] teske2k ^nlohmann-json@3.9.1%gcc@12.3.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 5dylnca ^py-find-libpython@0.3.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 7validy ^py-jinja2@3.1.2%gcc@12.3.0~i18n build_system=python_pip arch=linux-rhel7-skylake
[^] r3ehtmw ^py-markupsafe@2.1.3%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] tabj2mo ^py-pybind11@2.11.1%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[^] 2inh3rt ^py-pyyaml@5.4.1%gcc@12.3.0+libyaml build_system=python_pip arch=linux-rhel7-skylake
[^] bzl4xcz ^libyaml@0.2.5%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] x733hwb ^py-mpi4py@3.1.4%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] m3dslef ^py-cython@0.29.36%gcc@12.3.0 build_system=python_pip patches=c4369ad arch=linux-rhel7-skylake
[^] aj3rk42 ^py-wheel@0.41.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] elr5pnt ^py-numpy@1.26.1%gcc@12.3.0 build_system=python_pip patches=873745d arch=linux-rhel7-skylake
[e] w2ldcy2 ^intel-oneapi-mkl@2023.2.0%gcc@12.3.0~cluster+envmods~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-rhel7-skylake
[^] 3y7uuwr ^py-pyproject-metadata@0.7.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] uqml2to ^py-packaging@23.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] h6f6feu ^py-flit-core@3.9.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 77ku3vv ^py-pip@23.1.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] lrf2u3h ^py-pytest@7.3.2%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] mvxx6gh ^py-iniconfig@2.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] cbpzath ^py-hatch-vcs@0.3.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 2o7gdvi ^py-hatchling@1.21.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 6domhtg ^py-editables@0.3%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] edobf76 ^py-pathspec@0.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] a6ialdh ^py-trove-classifiers@2023.8.7%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] jurd5ga ^py-calver@2022.6.26%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 6su7kvx ^py-pluggy@1.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] sokbfzv ^py-setuptools-scm@8.0.4%gcc@12.3.0+toml build_system=python_pip arch=linux-rhel7-skylake
[e] 2sazdxk ^git@2.42.0%gcc@12.3.0+man+nls+perl+subtree~svn~tcltk build_system=autotools arch=linux-rhel7-skylake
[^] xwl5l6q ^py-tomli@2.0.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 275jtek ^py-typing-extensions@4.8.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] z5nf6n2 ^py-pytest-cov@4.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] wuxetkw ^py-coverage@7.2.6%gcc@12.3.0+toml build_system=python_pip arch=linux-rhel7-skylake
[^] p3xbqxj ^py-setuptools@68.0.0%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] t5tovex ^py-sympy@1.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 4fflyib ^py-mpmath@1.2.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[e] 5wl76vp ^python@3.11.6%gcc@12.3.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=13fa8bf,b0615b2,ebdca64,f2fd060 arch=linux-rhel7-skylake
[^] pdugg7r ^readline@8.2%gcc@12.3.0 build_system=autotools patches=bbf97f1 arch=linux-rhel7-skylake
$ set -o pipefail
$ (spack ${SPACK_EXTRA_FLAGS} install --overwrite -y -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} | tee log) || install_failed=1
==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394, but it is owned by 0
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zlib-ng-2.1.4-z7jpg7
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zstd-1.5.5-aivjoo
==> bison@3.8.2 : has external module in ['bison/3.8.2']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/bison-3.8.2-qcx3sg (external bison-3.8.2-yn5fbwgteilgqg6b62shkhkjg3hlwmrq)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/boost-1.83.0-2quv7w (external boost-1.83.0-rd65pstwb56uftszduzg7lsiq4za4lnn)
==> cmake@3.27.7 : has external module in ['cmake/3.27.7']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes (external cmake-3.27.7-b5zzpr3mwm7jxv6bvvrs6zpeg62cfhbu)
==> cuda@12.0.0 : has external module in ['cuda/12.0.0']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb (external cuda-12.0.0-3fsjp3mjnqnrrtfa6vspkddejnyei5sa)
==> flex@2.6.3 : has external module in ['flex/2.6.3']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/flex-2.6.3-edx4lf (external flex-2.6.3-77vzaxsa3g7wr3omktr4skpetx5ds4pt)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/bzip2-1.0.8-vdqwmg
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libiconv-1.17-nv4xh4
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/xz-5.4.1-wwn5en
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gmake-4.4.1-swjylu
==> hpe-mpi@2.27.p1.hmpt : has external module in ['hpe-mpi/2.27.p1.hmpt']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/hpe-mpi-2.27.p1.hmpt-6rr256 (external hpe-mpi-2.27.p1.hmpt-h6t3hgbguhacajbyzlp43xpawsnreb3m)
==> ninja@1.11.1 : has external module in ['ninja/1.11.1']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ninja-1.11.1-nxtlgo (external ninja-1.11.1-omn6mm4a3zsbpbkptvdwxs6kkrh6yafw)
==> python@3.11.6 : has external module in ['python/3.11.6']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m (external python-3.11.6-5wl76vphfvpcapfaipipf7xn2xylnc4o)
==> intel-oneapi-mkl@2023.2.0 : has external module in ['intel-oneapi-mkl/2023.2.0']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/intel-oneapi-mkl-2023.2.0-twl2n4 (external intel-oneapi-mkl-2023.2.0-w2ldcy2y2urm3uaa7omu3w7nhwsqt433)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/cli11-2.3.2-ud3ech
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/catch2-3.4.0-pywly2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pigz-2.7-dwjcgu
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/binutils-2.41-tj3mv5
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pkgconf-1.9.5-e533uu
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/fmt-10.1.1-evtttr
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libyaml-0.2.5-bzl4xc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/readline-8.2-pdugg7
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/nlohmann-json-3.9.1-teske2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpmath-1.2.1-4fflyi
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pluggy-1.0.0-6su7kv
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pip-23.1.2-77ku3v
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/tar-1.34-zz4acm
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/hdf5-1.14.3-5o77ye
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libxml2-2.10.3-oh2g4i
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/spdlog-1.12.0-ihotvb
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pyyaml-5.4.1-2inh3r
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-sympy-1.11.1-t5tove
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-markupsafe-2.1.3-r3ehtm
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pybind11-2.11.1-tabj2m
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpi4py-3.1.4-x733hw
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-coverage-7.2.6-wuxetk
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-find-libpython-0.3.1-5dylnc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-numpy-1.26.1-elr5pn
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-iniconfig-2.0.0-mvxx6g
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-packaging-23.1-uqml2t
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gettext-0.22.3-nbi5w5
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-7.3.2-lrf2u3
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_nvhpc-23.1-skylake/libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6cwi
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d46770aa12665_develop-53hy2e
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-cov-4.0.0-z5nf6n
==> Installing neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4 [50/50]
==> No binary for neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4 found: installing from source
==> No patches needed for neuron
==> neuron: Executing phase: 'cmake'
==> neuron: Executing phase: 'build'
==> Error: ProcessError: Command exited with status 2:
'make' '-j8'
34 errors found in build log:
2875 [ 29%] Running nrnivmodl-core with internal mod files
2876 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/bin && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage
_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmak
e -E env NMODLHOME= /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc
proj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea
23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5
buld4qd4/spack-build-qgmawmh/bin/nrnivmodl-core -b STATIC -m /gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/i
nstall_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d46
770aa12665_develop-53hy2e/bin/nmodl -n internal -p 4 .
2877 WARNING: No mod files found in '/gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpji
or3ikrwxqnn5buld4qd4/spack-build-qgmawmh/bin', compiling default o
nes only!
2878 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bul
d4qd4/spack-build-qgmawmh MECHLIB_SUFFIX=internal NMODL_BINARY=/gp
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software
/install_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d
46770aa12665_develop-53hy2e/bin/nmodl MODS_PATH=x86_64/corenrn/mod
2c BUILD_TYPE=STATIC NRN_PRCELLSTATE=0
2879 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3
ikrwxqnn5buld4qd4/spack-build-qgmawmh/bin'
2880 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 2881 make[3]: xcrun: No such file or directory
2882 Default NMODL flags:
>> 2883 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
2884 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2885 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2886 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2887 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
2888 "../../../spack-src/external/eigen/Eigen/src/Core/arch/AVX/PacketM
ath.h", line 984: warning: integer conversion resulted in a change
of sign [integer_sign_change]
2889 const __m128i sign_mask = _mm_set1_epi16(static_cast<numext::u
int16_t>(0x8000));
...
3818 Creating 'x86_64' directory for .o files.
3819
3820 INFO:root:setup.py called with:setup.py build --cmake-build-dir /g
pfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J132168
9/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b
05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-q
gmawmh --disable-rx3d --without-nrnpython --build-lib=/gpfs/bbp.cs
cs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-bu
ild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a08
6_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh/lib
/python build_ext --define=USE_PYTHON,NRN_ENABLE_THREADS,CORENRN_B
UILD=0
3821 INFO:root:Extension common compile flags defaultdict(<class 'list'
>, {'library_dirs': ['/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcih
pcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9bab
ea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqn
n5buld4qd4/spack-build-qgmawmh/lib'], 'libraries': ['nrniv'], 'lan
guage': 'c++'})
3822 INFO:root:RX3D is DISABLED
3823 MODOBJS= ./follower.o ./gap.o ./name_clashes.o ./unitstest.o ./ver
sion_macros.o
>> 3824 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/insta
ll_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx/lib/python3.11/s
ite-packages/setuptools/__init__.py:84: _DeprecatedInstaller: setu
ptools.installer and fetch_build_eggs are deprecated.
3825 !!
3826
3827 **********************************************************
**********************
3828 Requirements should be satisfied by a PEP 517 installer.
3829 If you are using pip, you can try `pip install --use-pep51
7`.
3830 **********************************************************
**********************
...
3832 !!
3833 dist.fetch_build_eggs(dist.setup_requires)
3834 WARNING:root:WARNING: The wheel package is not available.
3835 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bul
d4qd4/spack-build-qgmawmh MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
3836 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3
ikrwxqnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/c448d279dd3b9
1940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0'
3837 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 3838 make[3]: xcrun: No such file or directory
3839 Default NMODL flags:
>> 3840 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
3841 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3842 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3843 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3844 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
3845 [ 42%] Building CXX object src/nrniv/CMakeFiles/nrniv.dir/__/oc/oc
kludge.cpp.o
3846 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/src/nrniv && /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321684/spack/lib/spack/env/nvhpc/nvc++ -DCOR
ENRN_BUILD=0 -DHAVE_CONFIG_H -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIN
D=1 -DNRN_AVOID_ABSOLUTE_PATHS -DNRN_ENABLE_THREADS -DOMPI_SKIP_MP
ICXX=1 -DUSE_PYTHON -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcih
pcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9bab
ea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqn
n5buld4qd4/spack-src/src/ivoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpji
or3ikrwxqnn5buld4qd4/spack-src/src/nrncvode -I/gpfs/bbp.cscs.ch/ss
d/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spac
k-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develo
p-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/nrniv -I/gpfs/bbp
.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack
-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1
a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/nrnoc
-I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13
21689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05e
aa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src
/src/oc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P21
7394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f1
38bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/s
pack-build-qgmawmh -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihp
cproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babe
a23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn
5buld4qd4/spack-build-qgmawmh/src/nrncvode -I/gpfs/bbp.cscs.ch/ssd
/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack
-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop
-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh/src/nrnoc -I
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build
-qgmawmh/src/nrnpython -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9
babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrw
xqnn5buld4qd4/spack-build-qgmawmh/src/oc -I/gpfs/bbp.cscs.ch/ssd/g
itlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-s
tage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-q
gmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh/src/parallel -
I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J132
1689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05ea
a6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-buil
d-qgmawmh/src/sundials -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9
babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrw
xqnn5buld4qd4/spack-build-qgmawmh/src/sundials/shared -I/gpfs/bbp.
cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-
build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a
086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src -I/gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/gn
u -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J
1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd0
5eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-s
rc/src/nrnmpi -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj
12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4
ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld
4qd4/spack-src/src/nrnpython -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jo
bs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-
git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjio
r3ikrwxqnn5buld4qd4/spack-src/src/parallel -I/gpfs/bbp.cscs.ch/ssd
/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack
-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop
-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/scopmath -I/gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/spar
se -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/
J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd
05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-
src/src/sparse13 -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcp
roj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea2
3e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5b
uld4qd4/spack-src/src/sundials -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_
jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuro
n-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpj
ior3ikrwxqnn5buld4qd4/spack-src/src/sundials/cvodes -I/gpfs/bbp.cs
cs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-bu
ild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a08
6_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/sundials/
ida -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394
/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bb
d05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack
-src/src/sundials/shared -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b
bpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.
e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ik
rwxqnn5buld4qd4/spack-build-qgmawmh/src/nrniv/oc_generated -I/gpfs
/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-1
2.3.0-skylake/hpe-mpi-2.27.p1.hmpt-6rr256/include -I/gpfs/bbp.cscs
.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-buil
d/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_
develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/ivos -I/gpf
s/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/
spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05
c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/n
rnpython/.. -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4q
d4/spack-src/src/nrnpython/../oc -I/gpfs/bbp.cscs.ch/ssd/gitlab_ma
p_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neu
ron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtr
pjior3ikrwxqnn5buld4qd4/spack-src/src/nrnpython/../nrnoc -I/gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/nrnp
ython/../ivoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj
12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4
ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld
4qd4/spack-src/src/nrnpython/../nrniv -I/gpfs/bbp.cscs.ch/ssd/gitl
ab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stag
e-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgma
wmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/nrnpython/../nrnmpi -I/
gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13216
89/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6
b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/sr
c/nrnpython/../ivos -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/st
age_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m/incl
ude/python3.11 -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwx
qnn5buld4qd4/spack-src/external/eigen -tp haswell -g -O1 -fno-omit
-frame-pointer --c++17 --diag_suppress=1,47,111,128,170,174,177,1
86,541,550,816,2465 -noswitcherror -MD -MT src/nrniv/CMakeFiles/nr
niv.dir/__/oc/ockludge.cpp.o -MF CMakeFiles/nrniv.dir/__/oc/ocklud
ge.cpp.o.d -o CMakeFiles/nrniv.dir/__/oc/ockludge.cpp.o -c /gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/oc/o
ckludge.cpp
...
4518 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_ext
ernals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmake -E
cmake_depends "Unix Makefiles" /gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpji
or3ikrwxqnn5buld4qd4/spack-src /gpfs/bbp.cscs.ch/ssd/gitlab_map_jo
bs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-
git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjio
r3ikrwxqnn5buld4qd4/spack-src/test/api /gpfs/bbp.cscs.ch/ssd/gitla
b_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage
-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmaw
mhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh /gpfs/bbp.cscs.ch/
ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/sp
ack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_deve
lop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh/test/api
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build
-qgmawmh/test/api/CMakeFiles/netcon_cpp.dir/DependInfo.cmake "--co
lor="
4519 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bul
d4qd4/spack-build-qgmawmh MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4520 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3
ikrwxqnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/c35d2f235e0f3
860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7'
4521 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
4522 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh'
4523 make -f test/api/CMakeFiles/netcon_cpp.dir/build.make test/api/CM
akeFiles/netcon_cpp.dir/build
>> 4524 make[3]: xcrun: No such file or directory
4525 Default NMODL flags:
4526 make[2]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3
ikrwxqnn5buld4qd4/spack-build-qgmawmh'
>> 4527 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4528 [ 44%] Building CXX object test/api/CMakeFiles/netcon_cpp.dir/netc
on.cpp.o
4529 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test/api && /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321684/spack/lib/spack/env/nvhpc/nvc++ -DCORE
NEURON_ENABLED -DCORENRN_BUILD=0 -DHAVE_CONFIG_H -DMPICH_SKIP_MPIC
XX=1 -DMPI_NO_CPPBIND=1 -DNRN_ENABLE_THREADS -DOMPI_SKIP_MPICXX=1
-DUSE_PYTHON -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj1
2/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4e
e25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4
qd4/spack-src/src/ivoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9
babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrw
xqnn5buld4qd4/spack-src/src/nrncvode -I/gpfs/bbp.cscs.ch/ssd/gitla
b_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage
-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmaw
mhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/nrniv -I/gpfs/bbp.cscs.c
h/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/
spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_de
velop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/nrnoc -I/gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/oc
-I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4q
d4/spack-build-qgmawmh/src/nrncvode -I/gpfs/bbp.cscs.ch/ssd/gitlab
_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-
neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawm
htrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh/src/nrnoc -I/gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawm
h/src/nrnpython -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpr
oj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23
e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bu
ld4qd4/spack-build-qgmawmh/src/oc -I/gpfs/bbp.cscs.ch/ssd/gitlab_m
ap_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-ne
uron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmht
rpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh/src/parallel -I/gpfs/
bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/sp
ack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c6
7d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmaw
mh/src/sundials -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpr
oj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23
e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bu
ld4qd4/spack-build-qgmawmh/src/sundials/shared -I/gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src -I/gpfs/bbp.cs
cs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-bu
ild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a08
6_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/gnu -I/gp
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689
/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b0
5c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/
nrnmpi -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217
394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f13
8bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/sp
ack-src/src/nrnpython -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwx
qnn5buld4qd4/spack-src/src/parallel -I/gpfs/bbp.cscs.ch/ssd/gitlab
_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-
neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawm
htrpjior3ikrwxqnn5buld4qd4/spack-src/src/scopmath -I/gpfs/bbp.cscs
.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-buil
d/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_
develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/sparse -I/g
pfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J132168
9/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b
05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src
/sparse13 -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P
217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25
f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4
/spack-src/src/sundials -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bb
pcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e
9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikr
wxqnn5buld4qd4/spack-src/src/sundials/cvodes -I/gpfs/bbp.cscs.ch/s
sd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spa
ck-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_devel
op-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/sundials/ida -I/
gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13216
89/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6
b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/sr
c/sundials/shared -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc
proj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea
23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5
buld4qd4/spack-build-qgmawmh/src/nrniv/oc_generated -I/gpfs/bbp.cs
cs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-s
kylake/hpe-mpi-2.27.p1.hmpt-6rr256/include -I/gpfs/bbp.cscs.ch/ssd
/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack
-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop
-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/ivos -I/gpfs/bbp.c
scs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-b
uild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a0
86_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/nrnpytho
n/.. -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P21739
4/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138b
bd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spac
k-src/src/nrnpython/../oc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-src/src/nrnpython/../nrnoc -I/gpfs/bbp.cscs
.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-buil
d/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_
develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/nrnpython/.
./ivoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217
394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f13
8bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/sp
ack-src/src/nrnpython/../nrniv -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_
jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuro
n-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpj
ior3ikrwxqnn5buld4qd4/spack-src/src/nrnpython/../nrnmpi -I/gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spac
k-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d
1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/src/nrnpy
thon/../ivos -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_ext
ernals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m/include/pyt
hon3.11 -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bul
d4qd4/spack-src/external/eigen -tp haswell -g -O1 -fno-omit-frame-
pointer --c++17 --diag_suppress=1,47,111,128,170,174,177,186,541,
550,816,2465 -noswitcherror -MD -MT test/api/CMakeFiles/netcon_cpp
.dir/netcon.cpp.o -MF CMakeFiles/netcon_cpp.dir/netcon.cpp.o.d -o
CMakeFiles/netcon_cpp.dir/netcon.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gi
tlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-st
age-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qg
mawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/test/api/netcon.cpp
4530 [NMODL] [error] :: PROTECT statement is not supported with GPU exe
cution
4531 [NMODL] [error] :: PROTECT statement is not supported with GPU exe
cution
4532 [NMODL] [warning] :: SYMTAB :: w [Argument] in ForNetcon shadows <
argument> definition in NetReceiveBlock
4533 [NMODL] [warning] :: SYMTAB :: w [Argument] in ForNetcon shadows <
argument> definition in NetReceiveBlock
...
4646 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bul
d4qd4/spack-build-qgmawmh MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4647 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh'
4648 make -f test/external/ringtest/CMakeFiles/NRN_TEST_nrnivmodl_bbd7
c82eee28b931214a8172bb776ba66c406a6620c807381c850fedcdd74295.dir/b
uild.make test/external/ringtest/CMakeFiles/NRN_TEST_nrnivmodl_bbd
7c82eee28b931214a8172bb776ba66c406a6620c807381c850fedcdd74295.dir/
build
4649 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3
ikrwxqnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/a9c54b18e4b54
351cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff'
4650 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
4651 make[2]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3
ikrwxqnn5buld4qd4/spack-build-qgmawmh'
>> 4652 make[3]: xcrun: No such file or directory
4653 Default NMODL flags:
4654 [ 45%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/SH_na8st.mod
4655 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/external/tests/red
uced_dentate//mechanisms/SH_na8st.mod /gpfs/bbp.cscs.ch/ssd/gitlab
_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-
neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawm
htrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/53c4
32f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/SH_na
8st.mod
>> 4656 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4657 [ 45%] Generating ../../nrnivmodl/bbd7c82eee28b931214a8172bb776ba6
6c406a6620c807381c850fedcdd74295/halfgap.mod
4658 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test/external/ringtest && /gpfs/bbp.cscs.ch/ssd/apps/b
sd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.2
7.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gi
tlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-st
age-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qg
mawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/external/tests/ringtest//
mod/halfgap.mod /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj
12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4
ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld
4qd4/spack-build-qgmawmh/test/nrnivmodl/bbd7c82eee28b931214a8172bb
776ba66c406a6620c807381c850fedcdd74295/halfgap.mod
4659 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4660 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4661 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4662 [ 45%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/bgka.mod
...
4767 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test/external/tqperf && /gpfs/bbp.cscs.ch/ssd/apps/bsd
/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.
7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitl
ab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stag
e-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgma
wmhtrpjior3ikrwxqnn5buld4qd4/spack-src/external/tests/tqperf//modx
/invlfiresha.mod /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bul
d4qd4/spack-build-qgmawmh/test/nrnivmodl/f7f437ac4f0ea140e809f1bdd
7f7d03201e354b9a2041597f8faaf7fb7aebb7c/invlfiresha.mod
4768 [ 47%] Building special[-core] for test group tqperf
4769 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test/nrnivmodl/f7f437ac4f0ea140e809f1bdd7f7d03201e354b
9a2041597f8faaf7fb7aebb7c && cmake -E env NEURONHOME=/gpfs/bbp\.cs
cs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-b
uild/spack-stage-neuron-git\.e9babea23e4ee25f138bbd05eaa6b05c67d1a
086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh/s
hare/nrn NRNHOME=/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcp
roj12/P217394/J1321689/spack-build/spack-stage-neuron-git\.e9babea
23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5
buld4qd4/spack-build-qgmawmh PATH=/gpfs/bbp\.cscs\.ch/ssd/gitlab_m
ap_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-ne
uron-git\.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmh
trpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh/bin:/gpfs/bbp\.cscs\
.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.
0-skylake/readline-8\.2-pdugg7/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bs
d/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-co
verage-7\.2\.6-wuxetk/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02
-01/stage_applications/install_gcc-12\.3\.0-skylake/py-pytest-7\.3
\.2-lrf2u3/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_a
pplications/install_gcc-12\.3\.0-skylake/py-pip-23\.1\.2-77ku3v/bi
n:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/i
nstall_gcc-12\.3\.0-skylake/py-numpy-1\.26\.1-elr5pn/bin:/gpfs/bbp
\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/ins
tall_gcc-12\.3\.0-skylake/nmodl-git\.5ff221d045c92389b4cab5ee159d4
6770aa12665_develop-53hy2e/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/20
24-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-sympy-
1\.11\.1-t5tove/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/st
age_applications/install_gcc-12\.3\.0-skylake/py-pybind11-2\.11\.1
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ications/install_gcc-12\.3\.0-skylake/py-find-libpython-0\.3\.1-5d
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bp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gc
c-12\.3\.0-skylake/gettext-0\.22\.3-nbi5w5/bin:/gpfs/bbp\.cscs\.ch
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kylake/pigz-2\.7-dwjcgu/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-
02-01/stage_applications/install_gcc-12\.3\.0-skylake/ncurses-6\.4
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ications/install_gcc-12\.3\.0-skylake/pkgconf-1\.9\.5-e533uu/bin:/
gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/inst
all_gcc-12\.3\.0-skylake/gmake-4\.4\.1-swjylu/bin:/gpfs/bbp\.cscs\
.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.
0-skylake/xz-5\.4\.1-wwn5en/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2
024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/zstd-1\.
5\.5-aivjoo/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_
applications/install_gcc-12\.3\.0-skylake/bzip2-1\.0\.8-vdqwmg/bin
:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/insta
ll_gcc-12\.3\.0-skylake/python-3\.11\.6-bj4i6m/bin:/gpfs/bbp\.cscs
\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-
skylake/python-3\.11\.6-bj4i6m/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bs
d/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/intel-on
eapi-mkl-2023\.2\.0-twl2n4/mkl/2023\.2\.0/bin/intel64:/gpfs/bbp\.c
scs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\
.0-skylake/hpe-mpi-2\.27\.p1\.hmpt-6rr256/bin:/gpfs/bbp\.cscs\.ch/
ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skyla
ke/ninja-1\.11\.1-nxtlgo/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024
-02-01/stage_externals/install_gcc-12\.3\.0-skylake/flex-2\.6\.3-e
dx4lf/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_extern
als/install_gcc-12\.3\.0-skylake/cuda-12\.0\.0-ucajzb/bin:/gpfs/bb
p\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12
\.3\.0-skylake/cmake-3\.27\.7-slyoes/bin:/gpfs/bbp\.cscs\.ch/ssd/a
pps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/bi
son-3\.8\.2-qcx3sg/bin:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321684/spack/lib/spack/env/nvhpc:/gpfs/bbp\.
cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack
/lib/spack/env/case-insensitive:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map
_jobs/bbpcihpcproj12/P217394/J1321684/spack/lib/spack/env:/gpfs/bb
p\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12
\.3\.0-skylake/intel-oneapi-mkl-2023\.2\.0-twl2n4/mkl/2023\.2\.0/b
in/intel64:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_exter
nals/install_gcc-12\.3\.0-skylake/python-3\.11\.6-bj4i6m/bin:/gpfs
/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc
-12\.3\.0-skylake/ninja-1\.11\.1-nxtlgo/bin:/gpfs/bbp\.cscs\.ch/ss
d/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake
/hpe-mpi-2\.27\.p1\.hmpt-6rr256/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/b
sd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/flex-2\
.6\.3-edx4lf/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage
_externals/install_gcc-12\.3\.0-skylake/cuda-12\.0\.0-ucajzb/bin:/
gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install
_gcc-12\.3\.0-skylake/cmake-3\.27\.7-slyoes/bin:/gpfs/bbp\.cscs\.c
h/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-sky
lake/m4-1\.4\.19-wtcpud/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-
02-01/stage_externals/install_gcc-12\.3\.0-skylake/bison-3\.8\.2-q
cx3sg/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_extern
als/install_gcc-12\.3\.0-skylake/binutils-2\.41-vvcm5q/bin:/gpfs/b
bp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-1
2\.3\.0-skylake/nvhpc-23\.1-vficpy/Linux_x86_64/23\.1/compilers/bi
n:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/b
ootstrap/store/linux-centos7-x86_64/gcc-10\.2\.1/patchelf-0\.18\.0
-afv7arjarb7nzmlh7c5slkfxykybuqce/bin:/gpfs/bbp\.cscs\.ch/ssd/apps
/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/ccach
e-4\.7\.4-eompz5/bin:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpci
hpcproj12/P217394/J1321684/spack/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/
bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/git-2\
.42\.0-sie4gc/bin:/opt/clmgr/sbin:/opt/clmgr/bin:/opt/sgi/sbin:/op
t/sgi/bin:/usr/lib64/qt-3\.3/bin:/usr/lib64/ccache:/usr/local/bin:
/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/gpfs/bbp\.cscs\.ch/ssd/ap
ps/bb5/systemtools:/opt/c3/bin:/opt/ddn/ime/bin:/opt/puppetlabs/bi
n:/sbin:/bin:/gpfs/bbp\.cscs\.ch/home/bbpcihpcproj12/\.local/bin:/
gpfs/bbp\.cscs\.ch/home/bbpcihpcproj12/bin LD_LIBRARY_PATH=/gpfs/b
bp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/s
pack-build/spack-stage-neuron-git\.e9babea23e4ee25f138bbd05eaa6b05
c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgm
awmh/lib:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externa
ls/install_gcc-12\.3\.0-skylake/intel-oneapi-mkl-2023\.2\.0-twl2n4
/mkl/2023\.2\.0/lib/intel64:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-
02-01/stage_externals/install_gcc-12\.3\.0-skylake/intel-oneapi-mk
l-2023\.2\.0-twl2n4/mkl/2023\.2\.0/lib/intel64:/gpfs/bbp\.cscs\.ch
/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skyl
ake/hpe-mpi-2\.27\.p1\.hmpt-6rr256/lib:/gpfs/bbp\.cscs\.ch/ssd/app
s/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/nvhp
c-23\.1-vficpy/Linux_x86_64/23\.1/compilers/lib:/gpfs/bbp\.cscs\.c
h/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-sky
lake/cuda-12\.0\.0-ucajzb/extras/CUPTI/lib64:/gpfs/bbp\.cscs\.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylak
e/hpe-mpi-2\.27\.p1\.hmpt-6rr256/lib:/gpfs/bbp\.cscs\.ch/ssd/apps/
bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/hdf
5-1\.14\.3-5o77ye/lib CORENRNHOME=/gpfs/bbp\.cscs\.ch/ssd/gitlab_m
ap_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-ne
uron-git\.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmh
trpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh PYTHONPATH=/gpfs/bbp
\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spa
ck-build/spack-stage-neuron-git\.e9babea23e4ee25f138bbd05eaa6b05c6
7d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmaw
mh/lib/python:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj
12/P217394/J1321689/spack-build/spack-stage-neuron-git\.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bul
d4qd4/spack-src/test/rxd:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/b
bpcihpcproj12/P217394/software/install_gcc-12\.3\.0-skylake/nmodl-
git\.5ff221d045c92389b4cab5ee159d46770aa12665_develop-53hy2e/lib:/
gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/soft
ware/install_gcc-12\.3\.0-skylake/nmodl-git\.5ff221d045c92389b4cab
5ee159d46770aa12665_develop-53hy2e/lib:/gpfs/bbp\.cscs\.ch/ssd/app
s/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/p
y-pytest-cov-4\.0\.0-z5nf6n/lib/python3\.11/site-packages:/gpfs/bb
p\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc
-12\.3\.0-skylake/py-coverage-7\.2\.6-wuxetk/lib/python3\.11/site-
packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applica
tions/install_gcc-12\.3\.0-skylake/py-pytest-7\.3\.2-lrf2u3/lib/py
thon3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-0
1/stage_applications/install_gcc-12\.3\.0-skylake/py-iniconfig-2\.
0\.0-mvxx6g/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/
apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylak
e/py-pluggy-1\.0\.0-6su7kv/lib/python3\.11/site-packages:/gpfs/bbp
\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-
12\.3\.0-skylake/py-numpy-1\.26\.1-elr5pn/lib/python3\.11/site-pac
kages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applicatio
ns/install_gcc-12\.3\.0-skylake/py-mpi4py-3\.1\.4-x733hw/lib/pytho
n3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/s
tage_applications/install_gcc-12\.3\.0-skylake/py-sympy-1\.11\.1-t
5tove/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/b
sd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-m
pmath-1\.2\.1-4fflyi/lib/python3\.11/site-packages:/gpfs/bbp\.cscs
\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\
.0-skylake/py-packaging-23\.1-uqml2t/lib/python3\.11/site-packages
:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/in
stall_gcc-12\.3\.0-skylake/py-pyyaml-5\.4\.1-2inh3r/lib/python3\.1
1/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_
applications/install_gcc-12\.3\.0-skylake/py-pybind11-2\.11\.1-tab
j2m/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd
/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-jin
ja2-3\.1\.2-7valid/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.
ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0
-skylake/py-markupsafe-2\.1\.3-r3ehtm/lib/python3\.11/site-package
s:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/i
nstall_gcc-12\.3\.0-skylake/py-find-libpython-0\.3\.1-5dylnc/lib/p
ython3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-
01/stage_applications/install_gcc-12\.3\.0-skylake/py-setuptools-6
8\.0\.0-p3xbqx/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/s
sd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-sky
lake/py-pip-23\.1\.2-77ku3v/lib/python3\.11/site-packages:/gpfs/bb
p\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc
-12\.3\.0-skylake/py-pytest-cov-4\.0\.0-z5nf6n/lib/python3\.11/sit
e-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_appli
cations/install_gcc-12\.3\.0-skylake/py-packaging-23\.1-uqml2t/lib
/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-0
2-01/stage_applications/install_gcc-12\.3\.0-skylake/py-mpmath-1\.
2\.1-4fflyi/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/
apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylak
e/py-sympy-1\.11\.1-t5tove/lib/python3\.11/site-packages:/gpfs/bbp
\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-
12\.3\.0-skylake/py-mpi4py-3\.1\.4-x733hw/lib/python3\.11/site-pac
kages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applicatio
ns/install_gcc-12\.3\.0-skylake/py-setuptools-68\.0\.0-p3xbqx/lib/
python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02
-01/stage_applications/install_gcc-12\.3\.0-skylake/py-numpy-1\.26
\.1-elr5pn/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/a
pps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake
/py-pytest-7\.3\.2-lrf2u3/lib/python3\.11/site-packages:/gpfs/bbp\
.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-1
2\.3\.0-skylake/py-coverage-7\.2\.6-wuxetk/lib/python3\.11/site-pa
ckages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applicati
ons/install_gcc-12\.3\.0-skylake/py-iniconfig-2\.0\.0-mvxx6g/lib/p
ython3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-
01/stage_applications/install_gcc-12\.3\.0-skylake/py-pip-23\.1\.2
-77ku3v/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps
/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py
-pluggy-1\.0\.0-6su7kv/lib/python3\.11/site-packages:/gpfs/bbp\.cs
cs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.
0-skylake/ninja-1\.11\.1-nxtlgo/misc:/gpfs/bbp\.cscs\.ch/ssd/apps/
bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/ninja-
1\.11\.1-nxtlgo/misc /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihp
cproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babe
a23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn
5buld4qd4/spack-build-qgmawmh/bin/nrnivmodl -incflags -I/usr/inclu
de -loadflags /usr/lib64/libcrypto.so -coreneuron .
4770 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bul
d4qd4/spack-build-qgmawmh MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4771 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3
ikrwxqnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/53c432f7080fe
7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead'
4772 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4773 make[3]: xcrun: No such file or directory
4774 Default NMODL flags:
>> 4775 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4776 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4777 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4778 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4779 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build
-qgmawmh/test/nrnivmodl/f7f437ac4f0ea140e809f1bdd7f7d03201e354b9a2
041597f8faaf7fb7aebb7c
4780 cfiles =
4781 Mod files: "./invlfire.mod"[NMODL] [warning] :: SYMTAB :: k [Argum
ent] in exp1 shadows <ion> definition in NMODL_GLOBAL
...
4796 [NMODL] [warning] :: SYMTAB :: cai [Argument] in h2 shadows <assig
ned_definition read_ion> definition in NMODL_GLOBAL
4797 [NMODL] [warning] :: SYMTAB :: celsius [Argument] in KTF shadows <
assigned_definition extern_neuron_var> definition in NMODL_GLOBAL
4798 MODOBJS= ./invlfire.o ./invlfiresha.o ./invlfirestats.o
4799 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bul
d4qd4/spack-build-qgmawmh MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4800 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3
ikrwxqnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/b62f97c7d3f6d
905c774d64e10128b3300792f8f757b926b965c058a4d6ee876'
4801 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4802 make[3]: xcrun: No such file or directory
4803 Default NMODL flags:
4804 [NMODL] [warning] :: SYMTAB :: cai [Argument] in rate shadows <ass
igned_definition> definition in NMODL_GLOBAL
4805 [NMODL] [warning] :: SYMTAB :: cai [Argument] in rate shadows <ass
igned_definition> definition in NMODL_GLOBAL
4806 [NMODL] [warning] :: SYMTAB :: cai [Argument] in rate shadows <ass
igned_definition> definition in NMODL_GLOBAL
>> 4807 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4808 [NMODL] [warning] :: Can not inline function call to mynormrand
4809 [NMODL] [warning] :: Can not inline function call to mynormrand
4810 [NMODL] [warning] :: Can not inline function call to mynormrand
4811 [NMODL] [warning] :: Can not inline function call to mynormrand
4812 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4813 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
...
4820 [NMODL] [warning] :: SYMTAB :: celsius [Argument] in KTF shadows <
assigned_definition extern_neuron_var> definition in NMODL_GLOBAL
4821 [NMODL] [warning] :: SYMTAB :: celsius [Argument] in KTF shadows <
assigned_definition extern_neuron_var> definition in NMODL_GLOBAL
4822 [NMODL] [warning] :: SYMTAB :: celsius [Argument] in KTF shadows <
assigned_definition extern_neuron_var> definition in NMODL_GLOBAL
4823 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bul
d4qd4/spack-build-qgmawmh INCFLAGS=-I/usr/include LINKFLAGS=/usr/l
ib64/libcrypto.so MODS_PATH=x86_64/corenrn/mod2c BUILD_TYPE=STATIC
NRN_PRCELLSTATE=0
4824 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3
ikrwxqnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/f7f437ac4f0ea
140e809f1bdd7f7d03201e354b9a2041597f8faaf7fb7aebb7c'
4825 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4826 make[3]: xcrun: No such file or directory
4827 Default NMODL flags:
>> 4828 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4829 [NMODL] [warning] :: Can not inline function call to specify_invl
4830 [NMODL] [warning] :: Can not inline function call to specify_invl
4831 [NMODL] [warning] :: Can not inline function call to specify_invl
4832 [NMODL] [warning] :: Can not inline function call to specify_invl
4833 [NMODL] [warning] :: Can not inline function call to specify_invl
4834 [NMODL] [warning] :: Can not inline function call to specify_invl
...
4967 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/halfgap.mod /gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawm
h/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc
6fd47c3be88641a/halfgap.mod
4968 [ 48%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/kadist.mod
4969 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/kadist.mod /gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spac
k-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d
1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh
/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6
fd47c3be88641a/kadist.mod
4970 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bul
d4qd4/spack-build-qgmawmh MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4971 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3
ikrwxqnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/14c92ceb412f1
b4e766bfda05bec75b2d552a2f4499313751329f0689cf9faab'
4972 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4973 make[3]: xcrun: No such file or directory
4974 Default NMODL flags:
4975 [ 48%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/kaprox.mod
4976 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/kaprox.mod /gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spac
k-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d
1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh
/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6
fd47c3be88641a/kaprox.mod
>> 4977 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4978 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
4979 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
4980 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
4981 [ 48%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/kca.mod
4982 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/kca.mod /gpfs/bbp.c
scs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-b
uild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a0
86_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh/te
st/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6fd4
7c3be88641a/kca.mod
4983 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
...
5039 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwx
qnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/a9c54b18e4b54351cb
4fd3e79067cafa02da4514b4383a54de8ff121657615ff/x86_64/./special" L
DFLAGS are:
5040 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build
-qgmawmh/share/nrn/nrnmain.cpp:
5041 MODOBJS= ./Ca.o ./CaDynamics_DC0.o ./CaDynamics_E2.o ./Ca_HVA.o ./
Ca_HVA2.o ./Ca_LVAst.o ./CoreConfig.o ./Ih.o ./Im.o ./K_Pst.o ./K_
Tst.o ./KdShu2007.o ./NaTa_t.o ./NaTg.o ./NaTs2_t.o ./Nap_Et2.o ./
ProbAMPANMDA_EMS.o ./ProbGABAAB_EMS.o ./ProfileHelper.o ./SK_E2.o
./SKv3_1.o ./TTXDynamicsSwitch.o ./VecStim.o ./cacumm.o ./cacummb.
o ./cagk.o ./cal2.o ./can2.o ./cat.o ./gap.o ./h.o ./halfgap.o ./k
adist.o ./kaprox.o ./kca.o ./kd.o ./kd2.o ./kdb.o ./kdrbca1.o ./kd
rca1.o ./km.o ./kmb.o ./na3n.o ./naxn.o ./netstim_inhpoisson.o ./n
ew_calcium_channels.o
5042 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5bul
d4qd4/spack-build-qgmawmh MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
5043 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3
ikrwxqnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/3a24bd33c51ee
30c68f71d610b146a37c165552933d5963dc6fd47c3be88641a'
5044 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 5045 make[3]: xcrun: No such file or directory
5046 Default NMODL flags:
>> 5047 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
5048 [NMODL] [warning] :: SYMTAB :: ca [Argument] in rates shadows <ion
> definition in NMODL_GLOBAL
5049 [NMODL] [warning] :: SYMTAB :: ca [Argument] in rates shadows <ion
> definition in NMODL_GLOBAL
5050 [NMODL] [warning] :: SYMTAB :: ca [Argument] in rates shadows <ion
> definition in NMODL_GLOBAL
5051 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
5052 [NMODL] [warning] :: SYMTAB :: cai [Argument] in h2 shadows <range
parameter read_ion> definition in NMODL_GLOBAL
5053 [NMODL] [warning] :: SYMTAB :: celsius [Argument] in KTF shadows <
parameter extern_neuron_var> definition in NMODL_GLOBAL
...
5310 make -f test/CMakeFiles/copy-scripts-pytest_coreneuron-basic_test
s_py3.11.dir/build.make test/CMakeFiles/copy-scripts-pytest_corene
uron-basic_tests_py3.11.dir/depend
5311 make[2]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3
ikrwxqnn5buld4qd4/spack-build-qgmawmh'
5312 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_ext
ernals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmake -E
cmake_depends "Unix Makefiles" /gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpji
or3ikrwxqnn5buld4qd4/spack-src /gpfs/bbp.cscs.ch/ssd/gitlab_map_jo
bs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-
git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjio
r3ikrwxqnn5buld4qd4/spack-src/test /gpfs/bbp.cscs.ch/ssd/gitlab_ma
p_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neu
ron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtr
pjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh /gpfs/bbp.cscs.ch/ssd/
gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-
stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-
qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh/test /gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spac
k-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d
1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgmawmh
/test/CMakeFiles/copy-scripts-pytest_coreneuron-basic_tests_py3.11
.dir/DependInfo.cmake "--color="
5313 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh'
5314 make -f test/CMakeFiles/copy-scripts-pytest_coreneuron-basic_test
s_py3.11.dir/build.make test/CMakeFiles/copy-scripts-pytest_corene
uron-basic_tests_py3.11.dir/build
5315 make[2]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3
ikrwxqnn5buld4qd4/spack-build-qgmawmh'
>> 5316 "bacur.cpp", line 373: error: identifier "_globals" is undefined
5317 init ( _threadargs_ ) ;
5318 ^
5319
5320 1 error detected in the compilation of "bacur.cpp".
>> 5321 make[3]: *** [makemod2c_inc:23: bacur.o] Error 2
5322 make[3]: *** Waiting for unfinished jobs....
5323 [ 49%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_nrntest_fast.json
5324 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwx
qnn5buld4qd4/spack-src//test/pytest_coreneuron/test_nrntest_fast.j
son /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J
1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd0
5eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-b
uild-qgmawmh/test/pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_nrntest_fast.json
>> 5325 "banocur.cpp", line 343: error: identifier "_globals" is undefined
5326 init ( _threadargs_ ) ;
5327 ^
5328
5329 1 error detected in the compilation of "banocur.cpp".
>> 5330 make[3]: *** [makemod2c_inc:31: banocur.o] Error 2
5331 [ 49%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/gui_pycallobject.py
5332 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwx
qnn5buld4qd4/spack-src//test/pytest_coreneuron/gui_pycallobject.py
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J132
1689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05ea
a6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-buil
d-qgmawmh/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_co
reneuron/gui_pycallobject.py
>> 5333 "axial.cpp", line 243: error: identifier "_globals" is undefined
5334 foo ( _threadargs_ ) ;
5335 ^
5336
5337 1 error detected in the compilation of "axial.cpp".
>> 5338 make[3]: *** [makemod2c_inc:7: axial.o] Error 2
5339 [ 49%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/run_pytest.py
5340 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwx
qnn5buld4qd4/spack-src//test/pytest_coreneuron/run_pytest.py /gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgma
wmh/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_coreneur
on/run_pytest.py
>> 5341 "axial_pp.cpp", line 290: error: identifier "_globals" is undefine
d
5342 foo ( _threadargs_ ) ;
5343 ^
5344
5345 1 error detected in the compilation of "axial_pp.cpp".
>> 5346 make[3]: *** [makemod2c_inc:15: axial_pp.o] Error 2
5347 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/c35d2f235e0f38
60fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/x86_64'
>> 5348 make[2]: *** [test/CMakeFiles/NRN_TEST_nrnivmodl_c35d2f235e0f3860f
becadf05ec8c2b6901bba2525195c69836276a4b5d88ca7.dir/build.make:106
: test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c698
36276a4b5d88ca7/x86_64/special] Error 2
5349 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh'
>> 5350 make[1]: *** [CMakeFiles/Makefile2:5929: test/CMakeFiles/NRN_TEST_
nrnivmodl_c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4
b5d88ca7.dir/all] Error 2
5351 make[1]: *** Waiting for unfinished jobs....
5352 [ 49%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_a_neuronoptions.py
5353 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwx
qnn5buld4qd4/spack-src//test/pytest_coreneuron/test_a_neuronoption
s.py /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/
J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd
05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-
build-qgmawmh/test/pytest_coreneuron/basic_tests_py3.11/test/pytes
t_coreneuron/test_a_neuronoptions.py
5354 [ 49%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_basic.py
5355 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-bu
ild-qgmawmh/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwx
qnn5buld4qd4/spack-src//test/pytest_coreneuron/test_basic.py /gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-qgma
wmh/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_coreneur
on/test_basic.py
5356 [ 49%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_bbss.py
...
5577 Thread Safe
5578 Notice: ARTIFICIAL_CELL is a synonym for POINT_PROCESS which hints
that it
5579 only affects and is affected by discrete events. As such it is not
5580 located in a section and is not associated with an integrator
5581 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4q
d4/spack-build-qgmawmh/test/nrnivmodl/53c432f7080fe7b786e16536f2d1
7f96d387425d200c645a6b4cec93b5edfead/x86_64/Aradi_KDRf.cpp
5582 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4q
d4/spack-build-qgmawmh/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/vlag.cpp
>> 5583 "ampanmda.cpp", line 605: error: identifier "_globals" is undefine
d
5584 _args[2] = _args[0] * plast ( _threadargscomma_ _args[1] )
;
5585 ^
5586
5587 1 error detected in the compilation of "ampanmda.cpp".
>> 5588 make[3]: *** [makemod2c_inc:23: ampanmda.o] Error 2
5589 make[3]: *** Waiting for unfinished jobs....
5590 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/14c92ceb412f1b
4e766bfda05bec75b2d552a2f4499313751329f0689cf9faab/x86_64'
>> 5591 make[2]: *** [test/external/olfactory-bulb-3d/CMakeFiles/NRN_TEST_
nrnivmodl_14c92ceb412f1b4e766bfda05bec75b2d552a2f4499313751329f068
9cf9faab.dir/build.make:102: test/nrnivmodl/14c92ceb412f1b4e766bfd
a05bec75b2d552a2f4499313751329f0689cf9faab/x86_64/special] Error 2
5592 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh'
>> 5593 make[1]: *** [CMakeFiles/Makefile2:11803: test/external/olfactory-
bulb-3d/CMakeFiles/NRN_TEST_nrnivmodl_14c92ceb412f1b4e766bfda05bec
75b2d552a2f4499313751329f0689cf9faab.dir/all] Error 2
5594 => LINKING shared library "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/263a5c542e063e
e6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/./libnrn
mech.so"
5595 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4q
d4/spack-build-qgmawmh/test/nrnivmodl/53c432f7080fe7b786e16536f2d1
7f96d387425d200c645a6b4cec93b5edfead/x86_64/Aradi_KDRs.cpp
5596 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4q
d4/spack-build-qgmawmh/test/nrnivmodl/53c432f7080fe7b786e16536f2d1
7f96d387425d200c645a6b4cec93b5edfead/x86_64/Aradi_Na.cpp
5597 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4q
d4/spack-build-qgmawmh/test/nrnivmodl/53c432f7080fe7b786e16536f2d1
7f96d387425d200c645a6b4cec93b5edfead/x86_64/CaBK.cpp
5598 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4q
d4/spack-build-qgmawmh/test/nrnivmodl/53c432f7080fe7b786e16536f2d1
7f96d387425d200c645a6b4cec93b5edfead/x86_64/DGC_M.cpp
5599 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwx
qnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/263a5c542e063ee676
0ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/./special" L
DFLAGS are:
...
5880 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: NOTE: This behavio
ur is deprecated and will be removed in a future version of the li
nker
5881 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh/test/nrnivmodl/3a24bd33c51ee3
0c68f71d610b146a37c165552933d5963dc6fd47c3be88641a/x86_64'
5882 Successfully created x86_64/special
5883 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh'
5884 [ 50%] Built target NRN_TEST_nrnivmodl_3a24bd33c51ee30c68f71d610b1
46a37c165552933d5963dc6fd47c3be88641a
5885 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3i
krwxqnn5buld4qd4/spack-build-qgmawmh'
>> 5886 make: *** [Makefile:169: all] Error 2
See build log for details:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321689/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-qgmawmhtrpjior3ikrwxqnn5buld4qd4/spack-build-out.txt
$ set +o pipefail
$ chmod -R g+rX "${SPACK_BUILD}"
$ if [[ ${install_failed} == 1 ]]; then exit 1; fi
srun: error: r1i4n4: task 0: Exited with exit code 1
section_end:1718636618:step_script section_start:1718636618:upload_artifacts_on_failure Uploading artifacts for failed job
Using git from spack modules
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=84160 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
initial_environment.env: found 1 matching files and directories
spack-build-env.txt: found 1 matching files and directories
spack-build-out.txt: found 1 matching files and directories
spack-configure-args.txt: found 1 matching files and directories
Uploading artifacts as "archive" to coordinator... ok id=1321689 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=84202 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
Uploading artifacts as "junit" to coordinator... ok id=1321689 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=84270 revision=58ba2b95 version=14.2.0
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
Uploading artifacts as "dotenv" to coordinator... ok id=1321689 responseStatus=201 Created token=glcbt-64
section_end:1718636620:upload_artifacts_on_failure section_start:1718636620:cleanup_file_variables Cleaning up project directory and file based variables
Using git from spack modules
section_end:1718636621:cleanup_file_variables ERROR: Job failed: exit status 1

Raw
build-neuron-nmodl-nvhpc-acc-shared.txt
Running with gitlab-runner 15.5.0 (0d4137b8)
 on BB5 map runner pnPo3yJy
section_start:1718635142:resolve_secrets Resolving secrets
section_end:1718635142:resolve_secrets section_start:1718635142:prepare_executor Preparing the "custom" executor
Using Custom executor with driver BB5 PROD runner v0.0.3...
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-executor1992641006, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
Runner ID 29, project root hpc, project name nrn
Pipeline ID 217394, build ref , job ID 1321690
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag , optional reservation flag
A slurm job will be created with name GL_J1321690_PROD_P2160_CP3_C7
Job parameters: memory=160G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos= reservation=
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 2254972
job state: PD
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1321690_PROD_P2160_CP3_C7 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --time=2:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --ntasks=2 --jobid=2254972 --cpus-per-task=8 --mem=160G
section_end:1718635145:prepare_executor section_start:1718635145:prepare_script Preparing environment
Using git from spack modules
Running on r1i4n5 via bbpv1.epfl.ch...
section_end:1718635151:prepare_script section_start:1718635151:get_sources Getting source from Git repository
Using git from spack modules
Skipping Git repository setup
Skipping Git checkout
Skipping Git submodules setup
section_end:1718635152:get_sources section_start:1718635152:restore_cache Restoring cache
Using git from spack modules
Checking cache for build:neuron:nmodl:nvhpc:acc:shared-1-non_protected...
Runtime platform  arch=amd64 os=linux pid=153335 revision=58ba2b95 version=14.2.0
cache.zip is up to date 
Successfully extracted cache
section_end:1718635158:restore_cache section_start:1718635158:download_artifacts Downloading artifacts
Using git from spack modules
Downloading artifacts for build:nmodl (1321686)...
Runtime platform  arch=amd64 os=linux pid=153441 revision=58ba2b95 version=14.2.0
Downloading artifacts from coordinator... ok  id=1321686 responseStatus=200 OK token=glcbt-64
section_end:1718635159:download_artifacts section_start:1718635159:step_script Executing "step_script" stage of the job script
WARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426
Using git from spack modules
$ SPACK_BUILD="${PWD}/spack-build"
$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env
$ . ${SPACK_ROOT}/share/spack/setup-env.sh
$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config
$ mkdir ${SPACK_USER_CONFIG_PATH}
$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command
$ spack ${SPACK_EXTRA_FLAGS} config add concretizer:reuse:false
$ spack ${SPACK_EXTRA_FLAGS} config blame config
--- config:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-config/config.yaml:2 build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/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:7 environments_root: $user_cache_path/environments
/gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 build_jobs: 8
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:18 extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:37 template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:124 checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:129 deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:134 dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:142 build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:151 locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:205 shared_linking:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:210 type: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:216 bind: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:227 install_status: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:233 flags:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:235 keep_werror: none
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:240 aliases:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:241 concretise: concretize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:242 containerise: containerize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:243 rm: remove
_builtin debug: False
$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer
--- concretizer:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-config/concretizer.yaml:2 reuse: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:23 targets:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:38 unify: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:40 duplicates:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal
$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config
$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394/J1321690_local_config)
$ mkdir -p "${XDG_CONFIG_HOME}/git"
$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"
$ 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"
$ cat "${XDG_CONFIG_HOME}/git/config"
[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/
$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"
$ echo "Preparing to install ${SPACK_FULL_SPEC}"
Preparing to install neuron%nvhpc ~rx3d~caliper+gpu+coreneuron~legacy-unit~openmp+shared+sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^/53hy2ex7xntc24cnbuojh6rrc3l2auap
$ if [ ${SPACK_USE_CCACHE+x} ]; then
$ module load unstable ccache
$ export CCACHE_BASEDIR=$(realpath -P ${CI_BUILDS_DIR})
$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394
$ export CCACHE_MAXSIZE=512M
$ export CCACHE_DIR="${TMPDIR}/ccache"
$ mkdir -p ${CCACHE_DIR}
$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then
$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"
$ fi
$ ccache --zero-stats
Statistics zeroed
$ ccache --show-stats --verbose
Cache directory: /nvme/bbpcihpcproj12/2254972/ccache
Config file: /nvme/bbpcihpcproj12/2254972/ccache/ccache.conf
System config file: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ccache-4.7.4-eompz5/etc/ccache.conf
Stats updated: Mon Jun 17 16:39:25 2024
Local storage:
Cache size (GB): 0.46 / 0.51 (90.34%)
Files: 10325
Hits: 0
Misses: 0
Reads: 0
Writes: 0
$ fi
$ module load unstable git ${SPACK_EXTRA_MODULES}
$ spack ${SPACK_EXTRA_FLAGS} spec -Il ${SPACK_FULL_SPEC}
Input spec
--------------------------------
- neuron%nvhpc~caliper+coreneuron+gpu~legacy-unit~openmp~rx3d+shared+sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy
- ^/53hy2ex7xntc24cnbuojh6rrc3l2auap
Concretized
--------------------------------
- v62rka7 neuron@git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop%nvhpc@23.1~backtrace~caliper+coreneuron+gpu~interviews~ipo~legacy-unit+mpi~openmp~prcellstate+python+report~rx3d+shared+sympy~sympyopt+tests~unified build_system=cmake build_type=FastDebug generator=make model_tests=channel-benchmark,olfactory,tqperf-heavy sanitizers=None arch=linux-rhel7-skylake
[^] tj3mv5i ^binutils@2.41%gcc@12.3.0+gas+gold~gprofng~headers~interwork+ld~libiberty~lto~nls~pgo+plugins build_system=autotools compress_debug_sections=zlib libs=shared,static arch=linux-rhel7-skylake
[^] 7jd6loj ^diffutils@3.9%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] e533uuv ^pkgconf@1.9.5%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] z7jpg7s ^zlib-ng@2.1.4%gcc@12.3.0+compat+opt build_system=autotools arch=linux-rhel7-skylake
[^] aivjoo2 ^zstd@1.5.5%gcc@12.3.0+programs build_system=makefile compression=none libs=shared,static arch=linux-rhel7-skylake
[e] yn5fbwg ^bison@3.8.2%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[e] rd65pst ^boost@1.83.0%gcc@12.3.0~atomic~chrono~clanglibcpp~container~context~contract~coroutine~date_time~debug~exception~fiber+filesystem~graph~graph_parallel~icu~iostreams~json~locale~log~math~mpi+multithreaded~nowide~numpy+pic~program_options~python~random~regex+serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout+test~thread~timer~type_erasure~versionedlayout~wave build_system=generic cxxstd=98 patches=a440f96 visibility=hidden arch=linux-rhel7-skylake
[e] b5zzpr3 ^cmake@3.27.7%gcc@12.3.0~doc+ncurses+ownlibs build_system=generic build_type=Release arch=linux-rhel7-skylake
[e] 3fsjp3m ^cuda@12.0.0%gcc@12.3.0~allow-unsupported-compilers~dev build_system=generic arch=linux-rhel7-skylake
[e] 77vzaxs ^flex@2.6.3%gcc@12.3.0+lex~nls build_system=autotools arch=linux-rhel7-skylake
[^] nbi5w5c ^gettext@0.22.3%gcc@12.3.0+bzip2+curses+git~libunistring+libxml2+pic+shared+tar+xz build_system=autotools arch=linux-rhel7-skylake
[^] vdqwmgi ^bzip2@1.0.8%gcc@12.3.0~debug~pic+shared build_system=generic arch=linux-rhel7-skylake
[^] nv4xh4v ^libiconv@1.17%gcc@12.3.0 build_system=autotools libs=shared,static arch=linux-rhel7-skylake
[^] oh2g4in ^libxml2@2.10.3%gcc@12.3.0+pic~python+shared build_system=autotools arch=linux-rhel7-skylake
[^] zz4acmm ^tar@1.34%gcc@12.3.0 build_system=autotools zip=pigz arch=linux-rhel7-skylake
[^] dwjcguu ^pigz@2.7%gcc@12.3.0 build_system=makefile arch=linux-rhel7-skylake
[^] wwn5enj ^xz@5.4.1%gcc@12.3.0~pic build_system=autotools libs=shared,static arch=linux-rhel7-skylake
[^] swjylul ^gmake@4.4.1%gcc@12.3.0~guile build_system=generic arch=linux-rhel7-skylake
[e] h6t3hgb ^hpe-mpi@2.27.p1.hmpt%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
- az6cwid ^libsonata-report@git.5602aadfa710d6766ce23cd151a1855190271bd8=develop%nvhpc@23.1~ipo+mpi build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 5o77yem ^hdf5@1.14.3%gcc@12.3.0+cxx~fortran+hl~ipo~java~map+mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] ihotvbs ^spdlog@1.12.0%gcc@12.3.0+fmt_external~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 6kdbhvi ^ncurses@6.4%gcc@12.3.0~symlinks+termlib abi=none build_system=autotools arch=linux-rhel7-skylake
[e] omn6mm4 ^ninja@1.11.1%gcc@12.3.0+re2c build_system=generic arch=linux-rhel7-skylake
[+] 53hy2ex ^nmodl@git.5ff221d045c92389b4cab5ee159d46770aa12665=develop%gcc@12.3.0~ipo~legacy-unit~llvm~llvm_cuda~python~tests build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[^] pywly2v ^catch2@3.4.0%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] ud3echq ^cli11@2.3.2%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] evtttrh ^fmt@10.1.1%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release cxxstd=11 generator=make arch=linux-rhel7-skylake
[^] teske2k ^nlohmann-json@3.9.1%gcc@12.3.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 5dylnca ^py-find-libpython@0.3.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 7validy ^py-jinja2@3.1.2%gcc@12.3.0~i18n build_system=python_pip arch=linux-rhel7-skylake
[^] r3ehtmw ^py-markupsafe@2.1.3%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] tabj2mo ^py-pybind11@2.11.1%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[^] 2inh3rt ^py-pyyaml@5.4.1%gcc@12.3.0+libyaml build_system=python_pip arch=linux-rhel7-skylake
[^] bzl4xcz ^libyaml@0.2.5%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] x733hwb ^py-mpi4py@3.1.4%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] m3dslef ^py-cython@0.29.36%gcc@12.3.0 build_system=python_pip patches=c4369ad arch=linux-rhel7-skylake
[^] aj3rk42 ^py-wheel@0.41.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] elr5pnt ^py-numpy@1.26.1%gcc@12.3.0 build_system=python_pip patches=873745d arch=linux-rhel7-skylake
[e] w2ldcy2 ^intel-oneapi-mkl@2023.2.0%gcc@12.3.0~cluster+envmods~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-rhel7-skylake
[^] 3y7uuwr ^py-pyproject-metadata@0.7.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] uqml2to ^py-packaging@23.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] h6f6feu ^py-flit-core@3.9.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 77ku3vv ^py-pip@23.1.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] lrf2u3h ^py-pytest@7.3.2%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] mvxx6gh ^py-iniconfig@2.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] cbpzath ^py-hatch-vcs@0.3.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 2o7gdvi ^py-hatchling@1.21.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 6domhtg ^py-editables@0.3%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] edobf76 ^py-pathspec@0.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] a6ialdh ^py-trove-classifiers@2023.8.7%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] jurd5ga ^py-calver@2022.6.26%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 6su7kvx ^py-pluggy@1.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] sokbfzv ^py-setuptools-scm@8.0.4%gcc@12.3.0+toml build_system=python_pip arch=linux-rhel7-skylake
[e] 2sazdxk ^git@2.42.0%gcc@12.3.0+man+nls+perl+subtree~svn~tcltk build_system=autotools arch=linux-rhel7-skylake
[^] xwl5l6q ^py-tomli@2.0.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 275jtek ^py-typing-extensions@4.8.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] z5nf6n2 ^py-pytest-cov@4.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] wuxetkw ^py-coverage@7.2.6%gcc@12.3.0+toml build_system=python_pip arch=linux-rhel7-skylake
[^] p3xbqxj ^py-setuptools@68.0.0%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] t5tovex ^py-sympy@1.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 4fflyib ^py-mpmath@1.2.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[e] 5wl76vp ^python@3.11.6%gcc@12.3.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=13fa8bf,b0615b2,ebdca64,f2fd060 arch=linux-rhel7-skylake
[^] pdugg7r ^readline@8.2%gcc@12.3.0 build_system=autotools patches=bbf97f1 arch=linux-rhel7-skylake
$ set -o pipefail
$ (spack ${SPACK_EXTRA_FLAGS} install --overwrite -y -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} | tee log) || install_failed=1
==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394, but it is owned by 0
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zlib-ng-2.1.4-z7jpg7
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zstd-1.5.5-aivjoo
==> bison@3.8.2 : has external module in ['bison/3.8.2']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/bison-3.8.2-qcx3sg (external bison-3.8.2-yn5fbwgteilgqg6b62shkhkjg3hlwmrq)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/boost-1.83.0-2quv7w (external boost-1.83.0-rd65pstwb56uftszduzg7lsiq4za4lnn)
==> cmake@3.27.7 : has external module in ['cmake/3.27.7']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes (external cmake-3.27.7-b5zzpr3mwm7jxv6bvvrs6zpeg62cfhbu)
==> cuda@12.0.0 : has external module in ['cuda/12.0.0']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb (external cuda-12.0.0-3fsjp3mjnqnrrtfa6vspkddejnyei5sa)
==> flex@2.6.3 : has external module in ['flex/2.6.3']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/flex-2.6.3-edx4lf (external flex-2.6.3-77vzaxsa3g7wr3omktr4skpetx5ds4pt)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/bzip2-1.0.8-vdqwmg
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libiconv-1.17-nv4xh4
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/xz-5.4.1-wwn5en
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gmake-4.4.1-swjylu
==> hpe-mpi@2.27.p1.hmpt : has external module in ['hpe-mpi/2.27.p1.hmpt']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/hpe-mpi-2.27.p1.hmpt-6rr256 (external hpe-mpi-2.27.p1.hmpt-h6t3hgbguhacajbyzlp43xpawsnreb3m)
==> ninja@1.11.1 : has external module in ['ninja/1.11.1']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ninja-1.11.1-nxtlgo (external ninja-1.11.1-omn6mm4a3zsbpbkptvdwxs6kkrh6yafw)
==> python@3.11.6 : has external module in ['python/3.11.6']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m (external python-3.11.6-5wl76vphfvpcapfaipipf7xn2xylnc4o)
==> intel-oneapi-mkl@2023.2.0 : has external module in ['intel-oneapi-mkl/2023.2.0']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/intel-oneapi-mkl-2023.2.0-twl2n4 (external intel-oneapi-mkl-2023.2.0-w2ldcy2y2urm3uaa7omu3w7nhwsqt433)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/cli11-2.3.2-ud3ech
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/fmt-10.1.1-evtttr
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libxml2-2.10.3-oh2g4i
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pigz-2.7-dwjcgu
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libyaml-0.2.5-bzl4xc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pkgconf-1.9.5-e533uu
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/nlohmann-json-3.9.1-teske2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/readline-8.2-pdugg7
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/catch2-3.4.0-pywly2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-markupsafe-2.1.3-r3ehtm
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pluggy-1.0.0-6su7kv
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-iniconfig-2.0.0-mvxx6g
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pip-23.1.2-77ku3v
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/spdlog-1.12.0-ihotvb
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/tar-1.34-zz4acm
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/binutils-2.41-tj3mv5
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/hdf5-1.14.3-5o77ye
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pyyaml-5.4.1-2inh3r
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-packaging-23.1-uqml2t
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpmath-1.2.1-4fflyi
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-find-libpython-0.3.1-5dylnc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pybind11-2.11.1-tabj2m
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-coverage-7.2.6-wuxetk
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-numpy-1.26.1-elr5pn
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpi4py-3.1.4-x733hw
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gettext-0.22.3-nbi5w5
==> Installing libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8=develop-az6cwiduk3774jmb44p477xjr6dtnm4g [45/50]
==> No binary for libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8=develop-az6cwiduk3774jmb44p477xjr6dtnm4g found: installing from source
==> 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-git.5602aadfa710d6766ce23cd151a1855190271bd8=develop-az6cwiduk3774jmb44p477xjr6dtnm4g
Stage: 1.07s. Cmake: 4.15s. Build: 1.33s. Install: 0.10s. Post-install: 0.11s. Total: 6.92s
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_nvhpc-23.1-skylake/libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6cwi
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-7.3.2-lrf2u3
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-sympy-1.11.1-t5tove
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-cov-4.0.0-z5nf6n
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d46770aa12665_develop-53hy2e
==> Installing neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o [50/50]
==> No binary for neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o found: installing from source
==> No patches needed for neuron
==> neuron: Executing phase: 'cmake'
==> neuron: Executing phase: 'build'
==> Error: ProcessError: Command exited with status 2:
'make' '-j8'
34 errors found in build log:
2878 [ 26%] Running nrnivmodl-core with internal mod files
2879 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/bin && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage
_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmak
e -E env NMODLHOME= /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc
proj12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea
23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7
dzcnqv4o/spack-build-v62rka7/bin/nrnivmodl-core -b SHARED -m /gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/i
nstall_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d46
770aa12665_develop-53hy2e/bin/nmodl -n internal -p 4 .
2880 WARNING: No mod files found in '/gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7
zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7/bin', compiling default o
nes only!
2881 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzc
nqv4o/spack-build-v62rka7 MECHLIB_SUFFIX=internal NMODL_BINARY=/gp
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software
/install_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d
46770aa12665_develop-53hy2e/bin/nmodl MODS_PATH=x86_64/corenrn/mod
2c BUILD_TYPE=SHARED NRN_PRCELLSTATE=0
2882 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm
2l3osj4s7dzcnqv4o/spack-build-v62rka7/bin'
2883 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 2884 make[3]: xcrun: No such file or directory
2885 Default NMODL flags:
>> 2886 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
2887 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2888 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2889 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2890 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
2891 "../../../spack-src/external/eigen/Eigen/src/Core/arch/AVX/PacketM
ath.h", line 984: warning: integer conversion resulted in a change
of sign [integer_sign_change]
2892 const __m128i sign_mask = _mm_set1_epi16(static_cast<numext::u
int16_t>(0x8000));
...
3823 INFO:root:RX3D is DISABLED
3824 "./unitstest.mod" "./version_macros.mod"
3825
3826 Creating 'x86_64' directory for .o files.
3827
3828 MODOBJS= ./follower.o ./gap.o ./name_clashes.o ./unitstest.o ./ver
sion_macros.o
>> 3829 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/insta
ll_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx/lib/python3.11/s
ite-packages/setuptools/__init__.py:84: _DeprecatedInstaller: setu
ptools.installer and fetch_build_eggs are deprecated.
3830 !!
3831
3832 **********************************************************
**********************
3833 Requirements should be satisfied by a PEP 517 installer.
3834 If you are using pip, you can try `pip install --use-pep51
7`.
3835 **********************************************************
**********************
...
3837 !!
3838 dist.fetch_build_eggs(dist.setup_requires)
3839 WARNING:root:WARNING: The wheel package is not available.
3840 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzc
nqv4o/spack-build-v62rka7 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=SHARED NRN_PRCELLSTATE=0
3841 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm
2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/c448d279dd3b9
1940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0'
3842 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 3843 make[3]: xcrun: No such file or directory
3844 Default NMODL flags:
>> 3845 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
3846 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3847 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3848 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3849 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
3850 [ 38%] Building CXX object src/nrniv/CMakeFiles/nrniv.dir/__/oc/oc
kludge.cpp.o
3851 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/src/nrniv && /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321684/spack/lib/spack/env/nvhpc/nvc++ -DCOR
ENRN_BUILD=0 -DHAVE_CONFIG_H -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIN
D=1 -DNRN_AVOID_ABSOLUTE_PATHS -DNRN_ENABLE_THREADS -DOMPI_SKIP_MP
ICXX=1 -DUSE_PYTHON -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcih
pcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9bab
ea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4
s7dzcnqv4o/spack-src/src/ivoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7
zcm2l3osj4s7dzcnqv4o/spack-src/src/nrncvode -I/gpfs/bbp.cscs.ch/ss
d/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spac
k-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develo
p-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/src/nrniv -I/gpfs/bbp
.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack
-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1
a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/src/nrnoc
-I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13
21690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05e
aa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src
/src/oc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P21
7394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f1
38bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/s
pack-build-v62rka7 -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihp
cproj12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babe
a23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s
7dzcnqv4o/spack-build-v62rka7/src/nrncvode -I/gpfs/bbp.cscs.ch/ssd
/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spack
-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop
-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7/src/nrnoc -I
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scs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-b
uild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a0
86_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/src/nrnpytho
n/.. -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P21739
4/J1321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138b
bd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spac
k-src/src/nrnpython/../oc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-src/src/nrnpython/../nrnoc -I/gpfs/bbp.cscs
.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-buil
d/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_
develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/src/nrnpython/.
./ivoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217
394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f13
8bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/sp
ack-src/src/nrnpython/../nrniv -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_
jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuro
n-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk
7zcm2l3osj4s7dzcnqv4o/spack-src/src/nrnpython/../nrnmpi -I/gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spac
k-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d
1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/src/nrnpy
thon/../ivos -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_ext
ernals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m/include/pyt
hon3.11 -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzc
nqv4o/spack-src/external/eigen -tp haswell -g -O1 -fno-omit-frame-
pointer --c++17 --diag_suppress=1,47,111,128,170,174,177,186,541,
550,816,2465 -noswitcherror -MD -MT test/api/CMakeFiles/netcon_cpp
.dir/netcon.cpp.o -MF CMakeFiles/netcon_cpp.dir/netcon.cpp.o.d -o
CMakeFiles/netcon_cpp.dir/netcon.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gi
tlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-st
age-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v6
2rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/test/api/netcon.cpp
4543 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzc
nqv4o/spack-build-v62rka7 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=SHARED NRN_PRCELLSTATE=0
4544 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm
2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/c35d2f235e0f3
860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7'
4545 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4546 make[3]: xcrun: No such file or directory
4547 Default NMODL flags:
>> 4548 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4549 [NMODL] [error] :: PROTECT statement is not supported with GPU exe
cution
4550 [ 41%] Linking CXX executable ../../bin/test/netcon_cpp
4551 [NMODL] [error] :: PROTECT statement is not supported with GPU exe
cution
4552 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/test/api && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/
stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin
/cmake -E cmake_link_script CMakeFiles/netcon_cpp.dir/link.txt --v
erbose=1
4553 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
684/spack/lib/spack/env/nvhpc/nvc++ -tp haswell -g -O1 -fno-omit-f
rame-pointer -noswitcherror -rdynamic CMakeFiles/netcon_cpp.dir/n
etcon.cpp.o -o ../../bin/test/netcon_cpp -L/gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/hp
e-mpi-2.27.p1.hmpt-6rr256/lib -Wl,-rpath,/gpfs/bbp.cscs.ch/ssd/gi
tlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-st
age-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v6
2rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7/lib:/gpfs/bbp.c
scs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-
skylake/python-3.11.6-bj4i6m/lib:/gpfs/bbp.cscs.ch/ssd/apps/bsd/20
24-02-01/stage_applications/install_gcc-12.3.0-skylake/readline-8.
2-pdugg7/lib:/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_appli
cations/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv/lib:/gpfs/bb
p.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3
.0-skylake/hpe-mpi-2.27.p1.hmpt-6rr256/lib -ldl ../../lib/libnrniv
.so ../../lib/libnrngnu.a ../../lib/libsparse13.a /gpfs/bbp.cscs.c
h/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skyla
ke/python-3.11.6-bj4i6m/lib/libpython3.11.so /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake
/readline-8.2-pdugg7/lib/libreadline.so /gpfs/bbp.cscs.ch/ssd/apps
/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/ncur
ses-6.4-6kdbhv/lib/libcurses.so /gpfs/bbp.cscs.ch/ssd/apps/bsd/202
4-02-01/stage_applications/install_gcc-12.3.0-skylake/ncurses-6.4-
6kdbhv/lib/libform.so -lpthread -lmpi -ldl
4554 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv
4o/spack-build-v62rka7/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/cadif.cpp
...
4711 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/external/tests/red
uced_dentate//mechanisms/Gfluct3.mod /gpfs/bbp.cscs.ch/ssd/gitlab_
map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-n
euron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7
pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/53c43
2f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/Gfluct
3.mod
4712 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv
4o/spack-build-v62rka7/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/fh.cpp
4713 [ 44%] Built target NRN_TEST_nrnivmodl_ae2c9b73c9a624bce358af1b004
2b70ba7c70ce86d0fb0bf97de8ac420156de5
4714 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzc
nqv4o/spack-build-v62rka7 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=SHARED NRN_PRCELLSTATE=0
4715 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm
2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/a9c54b18e4b54
351cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff'
4716 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4717 make[3]: xcrun: No such file or directory
4718 Default NMODL flags:
4719 make -f test/external/testcorenrn/CMakeFiles/NRN_TEST_nrnivmodl_b
62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876.di
r/build.make test/external/testcorenrn/CMakeFiles/NRN_TEST_nrnivmo
dl_b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee87
6.dir/depend
4720 [ 44%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/LcaMig.mod
4721 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/external/tests/red
uced_dentate//mechanisms/LcaMig.mod /gpfs/bbp.cscs.ch/ssd/gitlab_m
ap_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-ne
uron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7p
wtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/53c432
f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/LcaMig.
mod
4722 make[2]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm
2l3osj4s7dzcnqv4o/spack-build-v62rka7'
4723 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7 && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_ext
ernals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmake -E
cmake_depends "Unix Makefiles" /gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7
zcm2l3osj4s7dzcnqv4o/spack-src /gpfs/bbp.cscs.ch/ssd/gitlab_map_jo
bs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-
git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7z
cm2l3osj4s7dzcnqv4o/spack-src/test/external/testcorenrn /gpfs/bbp.
cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-
build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a
086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7 /
gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13216
90/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6
b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-
v62rka7/test/external/testcorenrn /gpfs/bbp.cscs.ch/ssd/gitlab_map
_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neur
on-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwt
k7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/external/testcoren
rn/CMakeFiles/NRN_TEST_nrnivmodl_b62f97c7d3f6d905c774d64e10128b330
0792f8f757b926b965c058a4d6ee876.dir/DependInfo.cmake "--color="
>> 4724 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4725 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7'
4726 make -f test/external/testcorenrn/CMakeFiles/NRN_TEST_nrnivmodl_b
62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876.di
r/build.make test/external/testcorenrn/CMakeFiles/NRN_TEST_nrnivmo
dl_b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee87
6.dir/build
4727 make[2]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm
2l3osj4s7dzcnqv4o/spack-build-v62rka7'
4728 [ 44%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/SH_KIn.mod
4729 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/external/tests/red
uced_dentate//mechanisms/SH_KIn.mod /gpfs/bbp.cscs.ch/ssd/gitlab_m
ap_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-ne
uron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7p
wtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/53c432
f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/SH_KIn.
mod
4730 [ 44%] Generating ../../nrnivmodl/b62f97c7d3f6d905c774d64e10128b33
00792f8f757b926b965c058a4d6ee876/vecevent.mod
...
4801 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/external/tests/red
uced_dentate//mechanisms/spines.mod /gpfs/bbp.cscs.ch/ssd/gitlab_m
ap_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-ne
uron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7p
wtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/53c432
f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/spines.
mod
4802 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzc
nqv4o/spack-build-v62rka7 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=SHARED NRN_PRCELLSTATE=0
4803 [ 45%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/tca.mod
4804 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/external/tests/red
uced_dentate//mechanisms/tca.mod /gpfs/bbp.cscs.ch/ssd/gitlab_map_
jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuro
n-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk
7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/53c432f70
80fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/tca.mod
4805 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm
2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/b62f97c7d3f6d
905c774d64e10128b3300792f8f757b926b965c058a4d6ee876'
4806 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4807 make[3]: xcrun: No such file or directory
4808 Default NMODL flags:
>> 4809 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4810 [NMODL] [warning] :: Can not inline function call to mynormrand
4811 [NMODL] [warning] :: Can not inline function call to mynormrand
4812 [NMODL] [warning] :: Can not inline function call to mynormrand
4813 [NMODL] [warning] :: Can not inline function call to mynormrand
4814 [ 45%] Building special[-core] for test group reduced_dentate
4815 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425
d200c645a6b4cec93b5edfead && cmake -E env NEURONHOME=/gpfs/bbp\.cs
cs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-b
uild/spack-stage-neuron-git\.e9babea23e4ee25f138bbd05eaa6b05c67d1a
086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7/s
hare/nrn NRNHOME=/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcp
roj12/P217394/J1321690/spack-build/spack-stage-neuron-git\.e9babea
23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7
dzcnqv4o/spack-build-v62rka7 PATH=/gpfs/bbp\.cscs\.ch/ssd/gitlab_m
ap_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-ne
uron-git\.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7
pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7/bin:/gpfs/bbp\.cscs\
.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.
0-skylake/readline-8\.2-pdugg7/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bs
d/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-co
verage-7\.2\.6-wuxetk/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02
-01/stage_applications/install_gcc-12\.3\.0-skylake/py-pytest-7\.3
\.2-lrf2u3/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_a
pplications/install_gcc-12\.3\.0-skylake/py-pip-23\.1\.2-77ku3v/bi
n:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/i
nstall_gcc-12\.3\.0-skylake/py-numpy-1\.26\.1-elr5pn/bin:/gpfs/bbp
\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/ins
tall_gcc-12\.3\.0-skylake/nmodl-git\.5ff221d045c92389b4cab5ee159d4
6770aa12665_develop-53hy2e/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/20
24-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-sympy-
1\.11\.1-t5tove/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/st
age_applications/install_gcc-12\.3\.0-skylake/py-pybind11-2\.11\.1
-tabj2m/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_appl
ications/install_gcc-12\.3\.0-skylake/py-find-libpython-0\.3\.1-5d
ylnc/bin:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P2
17394/software/install_nvhpc-23\.1-skylake/libsonata-report-git\.5
602aadfa710d6766ce23cd151a1855190271bd8_develop-az6cwi/bin:/gpfs/b
bp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gc
c-12\.3\.0-skylake/gettext-0\.22\.3-nbi5w5/bin:/gpfs/bbp\.cscs\.ch
/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-s
kylake/pigz-2\.7-dwjcgu/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-
02-01/stage_applications/install_gcc-12\.3\.0-skylake/ncurses-6\.4
-6kdbhv/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_appl
ications/install_gcc-12\.3\.0-skylake/pkgconf-1\.9\.5-e533uu/bin:/
gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/inst
all_gcc-12\.3\.0-skylake/gmake-4\.4\.1-swjylu/bin:/gpfs/bbp\.cscs\
.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.
0-skylake/xz-5\.4\.1-wwn5en/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2
024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/zstd-1\.
5\.5-aivjoo/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_
applications/install_gcc-12\.3\.0-skylake/bzip2-1\.0\.8-vdqwmg/bin
:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/insta
ll_gcc-12\.3\.0-skylake/python-3\.11\.6-bj4i6m/bin:/gpfs/bbp\.cscs
\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-
skylake/python-3\.11\.6-bj4i6m/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bs
d/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/intel-on
eapi-mkl-2023\.2\.0-twl2n4/mkl/2023\.2\.0/bin/intel64:/gpfs/bbp\.c
scs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\
.0-skylake/hpe-mpi-2\.27\.p1\.hmpt-6rr256/bin:/gpfs/bbp\.cscs\.ch/
ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skyla
ke/ninja-1\.11\.1-nxtlgo/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024
-02-01/stage_externals/install_gcc-12\.3\.0-skylake/flex-2\.6\.3-e
dx4lf/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_extern
als/install_gcc-12\.3\.0-skylake/cuda-12\.0\.0-ucajzb/bin:/gpfs/bb
p\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12
\.3\.0-skylake/cmake-3\.27\.7-slyoes/bin:/gpfs/bbp\.cscs\.ch/ssd/a
pps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/bi
son-3\.8\.2-qcx3sg/bin:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321684/spack/lib/spack/env/nvhpc:/gpfs/bbp\.
cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack
/lib/spack/env/case-insensitive:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map
_jobs/bbpcihpcproj12/P217394/J1321684/spack/lib/spack/env:/gpfs/bb
p\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12
\.3\.0-skylake/intel-oneapi-mkl-2023\.2\.0-twl2n4/mkl/2023\.2\.0/b
in/intel64:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_exter
nals/install_gcc-12\.3\.0-skylake/python-3\.11\.6-bj4i6m/bin:/gpfs
/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc
-12\.3\.0-skylake/ninja-1\.11\.1-nxtlgo/bin:/gpfs/bbp\.cscs\.ch/ss
d/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake
/hpe-mpi-2\.27\.p1\.hmpt-6rr256/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/b
sd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/flex-2\
.6\.3-edx4lf/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage
_externals/install_gcc-12\.3\.0-skylake/cuda-12\.0\.0-ucajzb/bin:/
gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install
_gcc-12\.3\.0-skylake/cmake-3\.27\.7-slyoes/bin:/gpfs/bbp\.cscs\.c
h/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-sky
lake/m4-1\.4\.19-wtcpud/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-
02-01/stage_externals/install_gcc-12\.3\.0-skylake/bison-3\.8\.2-q
cx3sg/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_extern
als/install_gcc-12\.3\.0-skylake/binutils-2\.41-vvcm5q/bin:/gpfs/b
bp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-1
2\.3\.0-skylake/nvhpc-23\.1-vficpy/Linux_x86_64/23\.1/compilers/bi
n:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/b
ootstrap/store/linux-centos7-x86_64/gcc-10\.2\.1/patchelf-0\.18\.0
-afv7arjarb7nzmlh7c5slkfxykybuqce/bin:/gpfs/bbp\.cscs\.ch/ssd/apps
/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/ccach
e-4\.7\.4-eompz5/bin:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpci
hpcproj12/P217394/J1321684/spack/bin:/gpfs/bbp\.cscs\.ch/ssd/apps/
bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/git-2\
.42\.0-sie4gc/bin:/opt/clmgr/sbin:/opt/clmgr/bin:/opt/sgi/sbin:/op
t/sgi/bin:/usr/lib64/qt-3\.3/bin:/usr/lib64/ccache:/usr/local/bin:
/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/gpfs/bbp\.cscs\.ch/ssd/ap
ps/bb5/systemtools:/opt/c3/bin:/opt/ddn/ime/bin:/opt/puppetlabs/bi
n:/sbin:/bin:/gpfs/bbp\.cscs\.ch/home/bbpcihpcproj12/\.local/bin:/
gpfs/bbp\.cscs\.ch/home/bbpcihpcproj12/bin LD_LIBRARY_PATH=/gpfs/b
bp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/s
pack-build/spack-stage-neuron-git\.e9babea23e4ee25f138bbd05eaa6b05
c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62
rka7/lib:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_externa
ls/install_gcc-12\.3\.0-skylake/intel-oneapi-mkl-2023\.2\.0-twl2n4
/mkl/2023\.2\.0/lib/intel64:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-
02-01/stage_externals/install_gcc-12\.3\.0-skylake/intel-oneapi-mk
l-2023\.2\.0-twl2n4/mkl/2023\.2\.0/lib/intel64:/gpfs/bbp\.cscs\.ch
/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skyl
ake/hpe-mpi-2\.27\.p1\.hmpt-6rr256/lib:/gpfs/bbp\.cscs\.ch/ssd/app
s/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/nvhp
c-23\.1-vficpy/Linux_x86_64/23\.1/compilers/lib:/gpfs/bbp\.cscs\.c
h/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-sky
lake/cuda-12\.0\.0-ucajzb/extras/CUPTI/lib64:/gpfs/bbp\.cscs\.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylak
e/hpe-mpi-2\.27\.p1\.hmpt-6rr256/lib:/gpfs/bbp\.cscs\.ch/ssd/apps/
bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/hdf
5-1\.14\.3-5o77ye/lib CORENRNHOME=/gpfs/bbp\.cscs\.ch/ssd/gitlab_m
ap_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-ne
uron-git\.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7
pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7 PYTHONPATH=/gpfs/bbp
\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spa
ck-build/spack-stage-neuron-git\.e9babea23e4ee25f138bbd05eaa6b05c6
7d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62rk
a7/lib/python:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj
12/P217394/J1321690/spack-build/spack-stage-neuron-git\.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzc
nqv4o/spack-src/test/rxd:/gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/b
bpcihpcproj12/P217394/software/install_gcc-12\.3\.0-skylake/nmodl-
git\.5ff221d045c92389b4cab5ee159d46770aa12665_develop-53hy2e/lib:/
gpfs/bbp\.cscs\.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/soft
ware/install_gcc-12\.3\.0-skylake/nmodl-git\.5ff221d045c92389b4cab
5ee159d46770aa12665_develop-53hy2e/lib:/gpfs/bbp\.cscs\.ch/ssd/app
s/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/p
y-pytest-cov-4\.0\.0-z5nf6n/lib/python3\.11/site-packages:/gpfs/bb
p\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc
-12\.3\.0-skylake/py-coverage-7\.2\.6-wuxetk/lib/python3\.11/site-
packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applica
tions/install_gcc-12\.3\.0-skylake/py-pytest-7\.3\.2-lrf2u3/lib/py
thon3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-0
1/stage_applications/install_gcc-12\.3\.0-skylake/py-iniconfig-2\.
0\.0-mvxx6g/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/
apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylak
e/py-pluggy-1\.0\.0-6su7kv/lib/python3\.11/site-packages:/gpfs/bbp
\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-
12\.3\.0-skylake/py-numpy-1\.26\.1-elr5pn/lib/python3\.11/site-pac
kages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applicatio
ns/install_gcc-12\.3\.0-skylake/py-mpi4py-3\.1\.4-x733hw/lib/pytho
n3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/s
tage_applications/install_gcc-12\.3\.0-skylake/py-sympy-1\.11\.1-t
5tove/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/b
sd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-m
pmath-1\.2\.1-4fflyi/lib/python3\.11/site-packages:/gpfs/bbp\.cscs
\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\
.0-skylake/py-packaging-23\.1-uqml2t/lib/python3\.11/site-packages
:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/in
stall_gcc-12\.3\.0-skylake/py-pyyaml-5\.4\.1-2inh3r/lib/python3\.1
1/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_
applications/install_gcc-12\.3\.0-skylake/py-pybind11-2\.11\.1-tab
j2m/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd
/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-jin
ja2-3\.1\.2-7valid/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.
ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0
-skylake/py-markupsafe-2\.1\.3-r3ehtm/lib/python3\.11/site-package
s:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/i
nstall_gcc-12\.3\.0-skylake/py-find-libpython-0\.3\.1-5dylnc/lib/p
ython3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-
01/stage_applications/install_gcc-12\.3\.0-skylake/py-setuptools-6
8\.0\.0-p3xbqx/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/s
sd/apps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-sky
lake/py-pip-23\.1\.2-77ku3v/lib/python3\.11/site-packages:/gpfs/bb
p\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc
-12\.3\.0-skylake/py-pluggy-1\.0\.0-6su7kv/lib/python3\.11/site-pa
ckages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applicati
ons/install_gcc-12\.3\.0-skylake/py-numpy-1\.26\.1-elr5pn/lib/pyth
on3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/
stage_applications/install_gcc-12\.3\.0-skylake/py-iniconfig-2\.0\
.0-mvxx6g/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/ap
ps/bsd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/
py-sympy-1\.11\.1-t5tove/lib/python3\.11/site-packages:/gpfs/bbp\.
cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12
\.3\.0-skylake/py-pytest-7\.3\.2-lrf2u3/lib/python3\.11/site-packa
ges:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications
/install_gcc-12\.3\.0-skylake/py-coverage-7\.2\.6-wuxetk/lib/pytho
n3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/s
tage_applications/install_gcc-12\.3\.0-skylake/py-mpmath-1\.2\.1-4
fflyi/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/b
sd/2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-p
ytest-cov-4\.0\.0-z5nf6n/lib/python3\.11/site-packages:/gpfs/bbp\.
cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12
\.3\.0-skylake/py-mpi4py-3\.1\.4-x733hw/lib/python3\.11/site-packa
ges:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/stage_applications
/install_gcc-12\.3\.0-skylake/py-packaging-23\.1-uqml2t/lib/python
3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/2024-02-01/st
age_applications/install_gcc-12\.3\.0-skylake/py-pip-23\.1\.2-77ku
3v/lib/python3\.11/site-packages:/gpfs/bbp\.cscs\.ch/ssd/apps/bsd/
2024-02-01/stage_applications/install_gcc-12\.3\.0-skylake/py-setu
ptools-68\.0\.0-p3xbqx/lib/python3\.11/site-packages:/gpfs/bbp\.cs
cs\.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12\.3\.
0-skylake/ninja-1\.11\.1-nxtlgo/misc:/gpfs/bbp\.cscs\.ch/ssd/apps/
bsd/2024-02-01/stage_externals/install_gcc-12\.3\.0-skylake/ninja-
1\.11\.1-nxtlgo/misc /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihp
cproj12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babe
a23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s
7dzcnqv4o/spack-build-v62rka7/bin/nrnivmodl -coreneuron .
4816 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzc
nqv4o/spack-build-v62rka7 INCFLAGS=-I/usr/include LINKFLAGS=/usr/l
ib64/libcrypto.so MODS_PATH=x86_64/corenrn/mod2c BUILD_TYPE=SHARED
NRN_PRCELLSTATE=0
4817 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm
2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/f7f437ac4f0ea
140e809f1bdd7f7d03201e354b9a2041597f8faaf7fb7aebb7c'
4818 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
4819 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build
-v62rka7/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d20
0c645a6b4cec93b5edfead
4820 cfiles =
>> 4821 make[3]: xcrun: No such file or directory
4822 Default NMODL flags:
>> 4823 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4824 [NMODL] [warning] :: Can not inline function call to specify_invl
4825 [NMODL] [warning] :: Can not inline function call to specify_invl
4826 [NMODL] [warning] :: Can not inline function call to specify_invl
4827 [NMODL] [warning] :: Can not inline function call to specify_invl
4828 [NMODL] [warning] :: Can not inline function call to specify_invl
4829 [NMODL] [warning] :: Can not inline function call to specify_invl
...
4855 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/new_calcium_channel
s.mod /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394
/J1321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bb
d05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack
-build-v62rka7/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165
552933d5963dc6fd47c3be88641a/new_calcium_channels.mod
4856 [ 45%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/Ca.mod
4857 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/Ca.mod /gpfs/bbp.cs
cs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-bu
ild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a08
6_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka7/tes
t/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6fd47
c3be88641a/Ca.mod
4858 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzc
nqv4o/spack-build-v62rka7 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=SHARED NRN_PRCELLSTATE=0
4859 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm
2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/53c432f7080fe
7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead'
4860 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4861 make[3]: xcrun: No such file or directory
4862 Default NMODL flags:
4863 [ 45%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/CaDynamics_DC0.mod
4864 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/CaDynamics_DC0.mod
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build
-v62rka7/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933
d5963dc6fd47c3be88641a/CaDynamics_DC0.mod
>> 4865 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4866 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4867 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4868 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4869 [ 45%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/CaDynamics_E2.mod
4870 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/CaDynamics_E2.mod /
gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13216
90/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6
b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-
v62rka7/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d
5963dc6fd47c3be88641a/CaDynamics_E2.mod
4871 [ 45%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/Ca_HVA.mod
...
5043
5044 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv
4o/spack-build-v62rka7/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/nacur.cpp
5045 MODOBJS= ./Gfluct.o ./ThreshDetect.o ./ampanmda.o ./distrt.o ./fi.
o ./fi_stdp.o ./gap.o ./kamt.o ./kdrmt.o ./ks.o ./naxn.o ./orn.o .
/ostimhelper.o
5046 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzc
nqv4o/spack-build-v62rka7 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=SHARED NRN_PRCELLSTATE=0
5047 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm
2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/14c92ceb412f1
b4e766bfda05bec75b2d552a2f4499313751329f0689cf9faab'
5048 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 5049 make[3]: xcrun: No such file or directory
5050 Default NMODL flags:
>> 5051 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
5052 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
5053 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
5054 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
5055 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzc
nqv4o/spack-build-v62rka7 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=SHARED NRN_PRCELLSTATE=0
5056 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm
2l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/3a24bd33c51ee
30c68f71d610b146a37c165552933d5963dc6fd47c3be88641a'
5057 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 5058 make[3]: xcrun: No such file or directory
5059 Default NMODL flags:
>> 5060 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
5061 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
5062 [NMODL] [warning] :: SYMTAB :: w [Argument] in NetReceiveBlock sha
dows <assigned_definition> definition in NMODL_GLOBAL
5063 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
5064 [NMODL] [warning] :: SYMTAB :: w [Argument] in NetReceiveBlock sha
dows <assigned_definition> definition in NMODL_GLOBAL
5065 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
5066 [NMODL] [warning] :: SYMTAB :: w [Argument] in NetReceiveBlock sha
dows <assigned_definition> definition in NMODL_GLOBAL
...
5347 Remark: individual warnings can be suppressed with "--diag_suppres
s <warning-name>"
5348
5349 "x86_64/corenrn/mod2c/CoreConfig.cpp", line 231: warning: conversi
on from a string literal to "char *" is deprecated [deprecated_str
ing_conv]
5350 static char* REPORT_CONFIG_FILE = "report.conf";
5351 ^
5352
>> 5353 "bacur.cpp", line 373: error: identifier "_globals" is undefined
5354 init ( _threadargs_ ) ;
5355 ^
5356
5357 1 error detected in the compilation of "bacur.cpp".
>> 5358 make[3]: *** [makemod2c_inc:23: bacur.o] Error 2
5359 make[3]: *** Waiting for unfinished jobs....
5360 [ 47%] Generating pytest/basic_tests_py3.11/test/pytest/test_nrnte
st_thread.json
5361 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3os
j4s7dzcnqv4o/spack-src//test/pytest/test_nrntest_thread.json /gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62r
ka7/test/pytest/basic_tests_py3.11/test/pytest/test_nrntest_thread
.json
>> 5362 "banocur.cpp", line 343: error: identifier "_globals" is undefined
5363 init ( _threadargs_ ) ;
5364 ^
5365
5366 1 error detected in the compilation of "banocur.cpp".
>> 5367 make[3]: *** [makemod2c_inc:31: banocur.o] Error 2
>> 5368 "axial_pp.cpp", line 290: error: identifier "_globals" is undefine
d
5369 foo ( _threadargs_ ) ;
5370 ^
5371
5372 1 error detected in the compilation of "axial_pp.cpp".
>> 5373 make[3]: *** [makemod2c_inc:15: axial_pp.o] Error 2
5374 [ 47%] Generating pytest/basic_tests_py3.11/test/pytest/test_nrnte
st_thread.py
5375 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-bu
ild-v62rka7/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3os
j4s7dzcnqv4o/spack-src//test/pytest/test_nrntest_thread.py /gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-v62rka
7/test/pytest/basic_tests_py3.11/test/pytest/test_nrntest_thread.p
y
5376 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv
4o/spack-build-v62rka7/test/nrnivmodl/b62f97c7d3f6d905c774d64e1012
8b3300792f8f757b926b965c058a4d6ee876/x86_64/vecevent.cpp
>> 5377 "axial.cpp", line 243: error: identifier "_globals" is undefined
5378 foo ( _threadargs_ ) ;
5379 ^
5380
5381 1 error detected in the compilation of "axial.cpp".
>> 5382 make[3]: *** [makemod2c_inc:7: axial.o] Error 2
5383 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/c35d2f235e0f38
60fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/x86_64'
>> 5384 make[2]: *** [test/CMakeFiles/NRN_TEST_nrnivmodl_c35d2f235e0f3860f
becadf05ec8c2b6901bba2525195c69836276a4b5d88ca7.dir/build.make:106
: test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c698
36276a4b5d88ca7/x86_64/special] Error 2
5385 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7'
>> 5386 make[1]: *** [CMakeFiles/Makefile2:5967: test/CMakeFiles/NRN_TEST_
nrnivmodl_c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4
b5d88ca7.dir/all] Error 2
5387 make[1]: *** Waiting for unfinished jobs....
5388 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7'
5389 [ 47%] Built target copy-scripts-pytest-basic_tests_py3.11
5390 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv
4o/spack-build-v62rka7/share/nrn/demo/release/x86_64/release.cpp
5391 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv
4o/spack-build-v62rka7/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/tstextrn.cpp
5392 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv
4o/spack-build-v62rka7/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/tstpnt1.cpp
...
5477 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7'
5478 [ 47%] Built target generate-neurondemo-mechanism-library
5479 => LINKING shared library "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/263a5c542e063e
e6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/./libnrn
mech.so"
5480 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: warning: /nvme/bbp
cihpcproj12/2254972/pgcudafat6-iRUBckitNz.o: missing .note.GNU-sta
ck section implies executable stack
5481 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: NOTE: This behavio
ur is deprecated and will be removed in a future version of the li
nker
5482 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3os
j4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/263a5c542e063ee676
0ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/./special" L
DFLAGS are:
>> 5483 "ampanmda.cpp", line 605: error: identifier "_globals" is undefine
d
5484 _args[2] = _args[0] * plast ( _threadargscomma_ _args[1] )
;
5485 ^
5486
5487 1 error detected in the compilation of "ampanmda.cpp".
>> 5488 make[3]: *** [makemod2c_inc:23: ampanmda.o] Error 2
5489 make[3]: *** Waiting for unfinished jobs....
5490 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/14c92ceb412f1b
4e766bfda05bec75b2d552a2f4499313751329f0689cf9faab/x86_64'
>> 5491 make[2]: *** [test/external/olfactory-bulb-3d/CMakeFiles/NRN_TEST_
nrnivmodl_14c92ceb412f1b4e766bfda05bec75b2d552a2f4499313751329f068
9cf9faab.dir/build.make:102: test/nrnivmodl/14c92ceb412f1b4e766bfd
a05bec75b2d552a2f4499313751329f0689cf9faab/x86_64/special] Error 2
5492 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7'
>> 5493 make[1]: *** [CMakeFiles/Makefile2:11971: test/external/olfactory-
bulb-3d/CMakeFiles/NRN_TEST_nrnivmodl_14c92ceb412f1b4e766bfda05bec
75b2d552a2f4499313751329f0689cf9faab.dir/all] Error 2
5494 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: warning: /nvme/bbp
cihpcproj12/2254972/pgcudafatfflRpNuvV1TZ.o: missing .note.GNU-sta
ck section implies executable stack
5495 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: NOTE: This behavio
ur is deprecated and will be removed in a future version of the li
nker
5496 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/263a5c542e063e
e6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64'
5497 Successfully created x86_64/special
5498 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7'
5499 [ 47%] Built target NRN_TEST_nrnivmodl_263a5c542e063ee6760ce51af8b
e262e1c89db6e16b2211fb308c533e45334f2
...
5889 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: NOTE: This behavio
ur is deprecated and will be removed in a future version of the li
nker
5890 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7/test/nrnivmodl/3a24bd33c51ee3
0c68f71d610b146a37c165552933d5963dc6fd47c3be88641a/x86_64'
5891 Successfully created x86_64/special
5892 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7'
5893 [ 47%] Built target NRN_TEST_nrnivmodl_3a24bd33c51ee30c68f71d610b1
46a37c165552933d5963dc6fd47c3be88641a
5894 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2
l3osj4s7dzcnqv4o/spack-build-v62rka7'
>> 5895 make: *** [Makefile:169: all] Error 2
See build log for details:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321690/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-v62rka7pwtk7zcm2l3osj4s7dzcnqv4o/spack-build-out.txt
$ set +o pipefail
$ chmod -R g+rX "${SPACK_BUILD}"
$ if [[ ${install_failed} == 1 ]]; then exit 1; fi
srun: error: r1i4n5: task 0: Exited with exit code 1
section_end:1718636642:step_script section_start:1718636642:upload_artifacts_on_failure Uploading artifacts for failed job
Using git from spack modules
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=178926 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
initial_environment.env: found 1 matching files and directories
spack-build-env.txt: found 1 matching files and directories
spack-build-out.txt: found 1 matching files and directories
spack-configure-args.txt: found 1 matching files and directories
Uploading artifacts as "archive" to coordinator... ok id=1321690 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=178968 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
Uploading artifacts as "junit" to coordinator... ok id=1321690 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=179010 revision=58ba2b95 version=14.2.0
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
Uploading artifacts as "dotenv" to coordinator... ok id=1321690 responseStatus=201 Created token=glcbt-64
section_end:1718636644:upload_artifacts_on_failure section_start:1718636644:cleanup_file_variables Cleaning up project directory and file based variables
Using git from spack modules
section_end:1718636645:cleanup_file_variables ERROR: Job failed: exit status 1

Raw
build-neuron-nmodl-nvhpc-omp-legacy.txt
Running with gitlab-runner 15.5.0 (0d4137b8)
 on BB5 map runner pnPo3yJy
section_start:1718635143:resolve_secrets Resolving secrets
section_end:1718635143:resolve_secrets section_start:1718635143:prepare_executor Preparing the "custom" executor
Using Custom executor with driver BB5 PROD runner v0.0.3...
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-executor4233786093, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
Runner ID 29, project root hpc, project name nrn
Pipeline ID 217394, build ref , job ID 1321691
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag , optional reservation flag
A slurm job will be created with name GL_J1321691_PROD_P2160_CP4_C8
Job parameters: memory=160G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos= reservation=
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 2254973
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1321691_PROD_P2160_CP4_C8 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --time=2:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --ntasks=2 --jobid=2254973 --cpus-per-task=8 --mem=160G
section_end:1718635145:prepare_executor section_start:1718635145:prepare_script Preparing environment
Using git from spack modules
Running on r1i7n21 via bbpv1.epfl.ch...
section_end:1718635151:prepare_script section_start:1718635151:get_sources Getting source from Git repository
Using git from spack modules
Skipping Git repository setup
Skipping Git checkout
Skipping Git submodules setup
section_end:1718635152:get_sources section_start:1718635152:restore_cache Restoring cache
Using git from spack modules
Checking cache for build:neuron:nmodl:nvhpc:omp:legacy-1-non_protected...
Runtime platform  arch=amd64 os=linux pid=9164 revision=58ba2b95 version=14.2.0
cache.zip is up to date 
Successfully extracted cache
section_end:1718635158:restore_cache section_start:1718635158:download_artifacts Downloading artifacts
Using git from spack modules
Downloading artifacts for build:nmodl (1321686)...
Runtime platform  arch=amd64 os=linux pid=9270 revision=58ba2b95 version=14.2.0
Downloading artifacts from coordinator... ok  id=1321686 responseStatus=200 OK token=glcbt-64
section_end:1718635159:download_artifacts section_start:1718635159:step_script Executing "step_script" stage of the job script
WARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426
Using git from spack modules
$ SPACK_BUILD="${PWD}/spack-build"
$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env
$ . ${SPACK_ROOT}/share/spack/setup-env.sh
$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config
$ mkdir ${SPACK_USER_CONFIG_PATH}
$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command
$ spack ${SPACK_EXTRA_FLAGS} config add concretizer:reuse:false
$ spack ${SPACK_EXTRA_FLAGS} config blame config
--- config:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-config/config.yaml:2 build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/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:7 environments_root: $user_cache_path/environments
/gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 build_jobs: 8
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:18 extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:37 template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:124 checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:129 deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:134 dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:142 build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:151 locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:205 shared_linking:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:210 type: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:216 bind: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:227 install_status: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:233 flags:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:235 keep_werror: none
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:240 aliases:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:241 concretise: concretize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:242 containerise: containerize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:243 rm: remove
_builtin debug: False
$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer
--- concretizer:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-config/concretizer.yaml:2 reuse: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:23 targets:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:38 unify: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:40 duplicates:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal
$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config
$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394/J1321691_local_config)
$ mkdir -p "${XDG_CONFIG_HOME}/git"
$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"
$ 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"
$ cat "${XDG_CONFIG_HOME}/git/config"
[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/
$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"
$ echo "Preparing to install ${SPACK_FULL_SPEC}"
Preparing to install neuron%nvhpc ~rx3d+caliper+gpu+coreneuron~legacy-unit+openmp~shared~sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^caliper+cuda cuda_arch=70 ^/53hy2ex7xntc24cnbuojh6rrc3l2auap
$ if [ ${SPACK_USE_CCACHE+x} ]; then
$ module load unstable ccache
$ export CCACHE_BASEDIR=$(realpath -P ${CI_BUILDS_DIR})
$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394
$ export CCACHE_MAXSIZE=512M
$ export CCACHE_DIR="${TMPDIR}/ccache"
$ mkdir -p ${CCACHE_DIR}
$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then
$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"
$ fi
$ ccache --zero-stats
Statistics zeroed
$ ccache --show-stats --verbose
Cache directory: /nvme/bbpcihpcproj12/2254973/ccache
Config file: /nvme/bbpcihpcproj12/2254973/ccache/ccache.conf
System config file: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ccache-4.7.4-eompz5/etc/ccache.conf
Stats updated: Mon Jun 17 16:39:24 2024
Local storage:
Cache size (GB): 0.46 / 0.51 (90.55%)
Files: 10962
Hits: 0
Misses: 0
Reads: 0
Writes: 0
$ fi
$ module load unstable git ${SPACK_EXTRA_MODULES}
$ spack ${SPACK_EXTRA_FLAGS} spec -Il ${SPACK_FULL_SPEC}
Input spec
--------------------------------
- neuron%nvhpc+caliper+coreneuron+gpu~legacy-unit+openmp~rx3d~shared~sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy
- ^/53hy2ex7xntc24cnbuojh6rrc3l2auap
- ^caliper+cuda cuda_arch=70
Concretized
--------------------------------
- r5em2zk neuron@git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop%nvhpc@23.1~backtrace+caliper+coreneuron+gpu~interviews~ipo~legacy-unit+mpi+openmp~prcellstate+python+report~rx3d~shared~sympy~sympyopt+tests~unified build_system=cmake build_type=FastDebug generator=make model_tests=channel-benchmark,olfactory,tqperf-heavy sanitizers=None arch=linux-rhel7-skylake
[^] tj3mv5i ^binutils@2.41%gcc@12.3.0+gas+gold~gprofng~headers~interwork+ld~libiberty~lto~nls~pgo+plugins build_system=autotools compress_debug_sections=zlib libs=shared,static arch=linux-rhel7-skylake
[^] 7jd6loj ^diffutils@3.9%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] e533uuv ^pkgconf@1.9.5%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] z7jpg7s ^zlib-ng@2.1.4%gcc@12.3.0+compat+opt build_system=autotools arch=linux-rhel7-skylake
[^] aivjoo2 ^zstd@1.5.5%gcc@12.3.0+programs build_system=makefile compression=none libs=shared,static arch=linux-rhel7-skylake
[e] yn5fbwg ^bison@3.8.2%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[e] rd65pst ^boost@1.83.0%gcc@12.3.0~atomic~chrono~clanglibcpp~container~context~contract~coroutine~date_time~debug~exception~fiber+filesystem~graph~graph_parallel~icu~iostreams~json~locale~log~math~mpi+multithreaded~nowide~numpy+pic~program_options~python~random~regex+serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout+test~thread~timer~type_erasure~versionedlayout~wave build_system=generic cxxstd=98 patches=a440f96 visibility=hidden arch=linux-rhel7-skylake
- vjj3tpl ^caliper@2.11.0%gcc@12.3.0+adiak+cuda~fortran+gotcha~ipo+kokkos+libdw~libpfm+libunwind+mpi+papi~rocm+sampler+shared~sosflow~tests~variorum~vtune build_system=cmake build_type=Release cuda_arch=70 generator=make arch=linux-rhel7-skylake
[^] hficqq7 ^adiak@0.4.0%gcc@12.3.0~ipo+mpi+shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] a46bi6u ^elfutils@0.189%gcc@12.3.0~debuginfod+exeprefix+nls build_system=autotools arch=linux-rhel7-skylake
[^] wtcpudz ^m4@1.4.19%gcc@12.3.0+sigsegv build_system=autotools patches=9dc5fbd,bfdffa7 arch=linux-rhel7-skylake
[^] rytdxw5 ^libsigsegv@2.14%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] 7xnekxr ^libunwind@1.6.2%gcc@12.3.0~block_signals~conservative_checks~cxx_exceptions~debug~debug_frame+docs~pic+tests+weak_backtrace~xz~zlib build_system=autotools components=none libs=shared,static arch=linux-rhel7-skylake
[^] vol6npp ^papi@6.0.0.1%gcc@12.3.0~cuda~debug+example~infiniband~lmsensors~nvml~powercap~rapl~rocm~rocm_smi~sde+shared~static_tools build_system=autotools arch=linux-rhel7-skylake
[e] b5zzpr3 ^cmake@3.27.7%gcc@12.3.0~doc+ncurses+ownlibs build_system=generic build_type=Release arch=linux-rhel7-skylake
[e] 3fsjp3m ^cuda@12.0.0%gcc@12.3.0~allow-unsupported-compilers~dev build_system=generic arch=linux-rhel7-skylake
[e] 77vzaxs ^flex@2.6.3%gcc@12.3.0+lex~nls build_system=autotools arch=linux-rhel7-skylake
[^] nbi5w5c ^gettext@0.22.3%gcc@12.3.0+bzip2+curses+git~libunistring+libxml2+pic+shared+tar+xz build_system=autotools arch=linux-rhel7-skylake
[^] vdqwmgi ^bzip2@1.0.8%gcc@12.3.0~debug~pic+shared build_system=generic arch=linux-rhel7-skylake
[^] nv4xh4v ^libiconv@1.17%gcc@12.3.0 build_system=autotools libs=shared,static arch=linux-rhel7-skylake
[^] oh2g4in ^libxml2@2.10.3%gcc@12.3.0+pic~python+shared build_system=autotools arch=linux-rhel7-skylake
[^] zz4acmm ^tar@1.34%gcc@12.3.0 build_system=autotools zip=pigz arch=linux-rhel7-skylake
[^] dwjcguu ^pigz@2.7%gcc@12.3.0 build_system=makefile arch=linux-rhel7-skylake
[^] wwn5enj ^xz@5.4.1%gcc@12.3.0~pic build_system=autotools libs=shared,static arch=linux-rhel7-skylake
[^] swjylul ^gmake@4.4.1%gcc@12.3.0~guile build_system=generic arch=linux-rhel7-skylake
[e] h6t3hgb ^hpe-mpi@2.27.p1.hmpt%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
- az6cwid ^libsonata-report@git.5602aadfa710d6766ce23cd151a1855190271bd8=develop%nvhpc@23.1~ipo+mpi build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 5o77yem ^hdf5@1.14.3%gcc@12.3.0+cxx~fortran+hl~ipo~java~map+mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] ihotvbs ^spdlog@1.12.0%gcc@12.3.0+fmt_external~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 6kdbhvi ^ncurses@6.4%gcc@12.3.0~symlinks+termlib abi=none build_system=autotools arch=linux-rhel7-skylake
[e] omn6mm4 ^ninja@1.11.1%gcc@12.3.0+re2c build_system=generic arch=linux-rhel7-skylake
[+] 53hy2ex ^nmodl@git.5ff221d045c92389b4cab5ee159d46770aa12665=develop%gcc@12.3.0~ipo~legacy-unit~llvm~llvm_cuda~python~tests build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[^] pywly2v ^catch2@3.4.0%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] ud3echq ^cli11@2.3.2%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] evtttrh ^fmt@10.1.1%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release cxxstd=11 generator=make arch=linux-rhel7-skylake
[^] teske2k ^nlohmann-json@3.9.1%gcc@12.3.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 5dylnca ^py-find-libpython@0.3.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 7validy ^py-jinja2@3.1.2%gcc@12.3.0~i18n build_system=python_pip arch=linux-rhel7-skylake
[^] r3ehtmw ^py-markupsafe@2.1.3%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] tabj2mo ^py-pybind11@2.11.1%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[^] 2inh3rt ^py-pyyaml@5.4.1%gcc@12.3.0+libyaml build_system=python_pip arch=linux-rhel7-skylake
[^] bzl4xcz ^libyaml@0.2.5%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] x733hwb ^py-mpi4py@3.1.4%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] m3dslef ^py-cython@0.29.36%gcc@12.3.0 build_system=python_pip patches=c4369ad arch=linux-rhel7-skylake
[^] aj3rk42 ^py-wheel@0.41.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] elr5pnt ^py-numpy@1.26.1%gcc@12.3.0 build_system=python_pip patches=873745d arch=linux-rhel7-skylake
[e] w2ldcy2 ^intel-oneapi-mkl@2023.2.0%gcc@12.3.0~cluster+envmods~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-rhel7-skylake
[^] 3y7uuwr ^py-pyproject-metadata@0.7.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] uqml2to ^py-packaging@23.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] h6f6feu ^py-flit-core@3.9.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 77ku3vv ^py-pip@23.1.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] lrf2u3h ^py-pytest@7.3.2%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] mvxx6gh ^py-iniconfig@2.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] cbpzath ^py-hatch-vcs@0.3.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 2o7gdvi ^py-hatchling@1.21.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 6domhtg ^py-editables@0.3%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] edobf76 ^py-pathspec@0.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] a6ialdh ^py-trove-classifiers@2023.8.7%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] jurd5ga ^py-calver@2022.6.26%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 6su7kvx ^py-pluggy@1.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] sokbfzv ^py-setuptools-scm@8.0.4%gcc@12.3.0+toml build_system=python_pip arch=linux-rhel7-skylake
[e] 2sazdxk ^git@2.42.0%gcc@12.3.0+man+nls+perl+subtree~svn~tcltk build_system=autotools arch=linux-rhel7-skylake
[^] xwl5l6q ^py-tomli@2.0.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 275jtek ^py-typing-extensions@4.8.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] z5nf6n2 ^py-pytest-cov@4.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] wuxetkw ^py-coverage@7.2.6%gcc@12.3.0+toml build_system=python_pip arch=linux-rhel7-skylake
[^] p3xbqxj ^py-setuptools@68.0.0%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] t5tovex ^py-sympy@1.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 4fflyib ^py-mpmath@1.2.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[e] 5wl76vp ^python@3.11.6%gcc@12.3.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=13fa8bf,b0615b2,ebdca64,f2fd060 arch=linux-rhel7-skylake
[^] pdugg7r ^readline@8.2%gcc@12.3.0 build_system=autotools patches=bbf97f1 arch=linux-rhel7-skylake
$ set -o pipefail
$ (spack ${SPACK_EXTRA_FLAGS} install --overwrite -y -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} | tee log) || install_failed=1
==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394, but it is owned by 0
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zlib-ng-2.1.4-z7jpg7
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zstd-1.5.5-aivjoo
==> bison@3.8.2 : has external module in ['bison/3.8.2']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/bison-3.8.2-qcx3sg (external bison-3.8.2-yn5fbwgteilgqg6b62shkhkjg3hlwmrq)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/boost-1.83.0-2quv7w (external boost-1.83.0-rd65pstwb56uftszduzg7lsiq4za4lnn)
==> hpe-mpi@2.27.p1.hmpt : has external module in ['hpe-mpi/2.27.p1.hmpt']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/hpe-mpi-2.27.p1.hmpt-6rr256 (external hpe-mpi-2.27.p1.hmpt-h6t3hgbguhacajbyzlp43xpawsnreb3m)
==> cmake@3.27.7 : has external module in ['cmake/3.27.7']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes (external cmake-3.27.7-b5zzpr3mwm7jxv6bvvrs6zpeg62cfhbu)
==> cuda@12.0.0 : has external module in ['cuda/12.0.0']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb (external cuda-12.0.0-3fsjp3mjnqnrrtfa6vspkddejnyei5sa)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/bzip2-1.0.8-vdqwmg
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libiconv-1.17-nv4xh4
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/xz-5.4.1-wwn5en
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pkgconf-1.9.5-e533uu
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gmake-4.4.1-swjylu
==> python@3.11.6 : has external module in ['python/3.11.6']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m (external python-3.11.6-5wl76vphfvpcapfaipipf7xn2xylnc4o)
==> flex@2.6.3 : has external module in ['flex/2.6.3']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/flex-2.6.3-edx4lf (external flex-2.6.3-77vzaxsa3g7wr3omktr4skpetx5ds4pt)
==> ninja@1.11.1 : has external module in ['ninja/1.11.1']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ninja-1.11.1-nxtlgo (external ninja-1.11.1-omn6mm4a3zsbpbkptvdwxs6kkrh6yafw)
==> intel-oneapi-mkl@2023.2.0 : has external module in ['intel-oneapi-mkl/2023.2.0']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/intel-oneapi-mkl-2023.2.0-twl2n4 (external intel-oneapi-mkl-2023.2.0-w2ldcy2y2urm3uaa7omu3w7nhwsqt433)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pigz-2.7-dwjcgu
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/fmt-10.1.1-evtttr
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libyaml-0.2.5-bzl4xc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/cli11-2.3.2-ud3ech
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/readline-8.2-pdugg7
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/hdf5-1.14.3-5o77ye
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libunwind-1.6.2-7xnekx
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libxml2-2.10.3-oh2g4i
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/catch2-3.4.0-pywly2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/nlohmann-json-3.9.1-teske2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/papi-6.0.0.1-vol6np
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/adiak-0.4.0-hficqq
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/binutils-2.41-tj3mv5
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-packaging-23.1-uqml2t
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pip-23.1.2-77ku3v
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/tar-1.34-zz4acm
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/spdlog-1.12.0-ihotvb
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-numpy-1.26.1-elr5pn
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pybind11-2.11.1-tabj2m
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpmath-1.2.1-4fflyi
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pyyaml-5.4.1-2inh3r
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-find-libpython-0.3.1-5dylnc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-markupsafe-2.1.3-r3ehtm
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-iniconfig-2.0.0-mvxx6g
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpi4py-3.1.4-x733hw
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gettext-0.22.3-nbi5w5
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-coverage-7.2.6-wuxetk
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pluggy-1.0.0-6su7kv
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-sympy-1.11.1-t5tove
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/elfutils-0.189-a46bi6
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-7.3.2-lrf2u3
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d46770aa12665_develop-53hy2e
==> Installing caliper-2.11.0-vjj3tplvh6es4rqhqhzfqqelewsp44m2 [53/55]
==> No binary for caliper-2.11.0-vjj3tplvh6es4rqhqhzfqqelewsp44m2 found: installing from source
==> Fetching https://github.com/LLNL/Caliper/archive/v2.11.0.tar.gz
==> No patches needed for caliper
==> caliper: Executing phase: 'cmake'
==> caliper: Executing phase: 'build'
==> caliper: Executing phase: 'install'
==> caliper: Successfully installed caliper-2.11.0-vjj3tplvh6es4rqhqhzfqqelewsp44m2
Stage: 3.14s. Cmake: 9.25s. Build: 7.66s. Install: 0.95s. Post-install: 0.18s. Total: 21.47s
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_nvhpc-23.1-skylake/libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6cwi
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-cov-4.0.0-z5nf6n
==> Installing neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop-r5em2zk5twnla2hxma7ua7jddk24gffc [55/55]
==> No binary for neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop-r5em2zk5twnla2hxma7ua7jddk24gffc found: installing from source
==> No patches needed for neuron
==> neuron: Executing phase: 'cmake'
==> neuron: Executing phase: 'build'
==> Error: ProcessError: Command exited with status 2:
'make' '-j8'
34 errors found in build log:
2878 [ 29%] Built target coreneuron-for-tests
2879 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/bin && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage
_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmak
e -E env NMODLHOME= /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc
proj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea
23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jd
dk24gffc/spack-build-r5em2zk/bin/nrnivmodl-core -b STATIC -m /gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/i
nstall_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d46
770aa12665_develop-53hy2e/bin/nmodl -n internal -p 4 .
2880 WARNING: No mod files found in '/gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnl
a2hxma7ua7jddk24gffc/spack-build-r5em2zk/bin', compiling default o
nes only!
2881 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk2
4gffc/spack-build-r5em2zk MECHLIB_SUFFIX=internal NMODL_BINARY=/gp
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software
/install_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d
46770aa12665_develop-53hy2e/bin/nmodl MODS_PATH=x86_64/corenrn/mod
2c BUILD_TYPE=STATIC NRN_PRCELLSTATE=0
2882 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2h
xma7ua7jddk24gffc/spack-build-r5em2zk/bin'
2883 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 2884 make[3]: xcrun: No such file or directory
2885 Default NMODL flags:
>> 2886 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
2887 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2888 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2889 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2890 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
2891 "../../../spack-src/external/eigen/Eigen/src/Core/arch/AVX/PacketM
ath.h", line 984: warning: integer conversion resulted in a change
of sign [integer_sign_change]
2892 const __m128i sign_mask = _mm_set1_epi16(static_cast<numext::u
int16_t>(0x8000));
...
3821 Creating 'x86_64' directory for .o files.
3822
3823 INFO:root:setup.py called with:setup.py build --cmake-build-dir /g
pfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J132169
1/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b
05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build-r
5em2zk --disable-rx3d --without-nrnpython --build-lib=/gpfs/bbp.cs
cs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-bu
ild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a08
6_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build-r5em2zk/lib
/python build_ext --define=USE_PYTHON,NRN_ENABLE_THREADS,CORENRN_B
UILD=0
3824 INFO:root:Extension common compile flags defaultdict(<class 'list'
>, {'library_dirs': ['/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcih
pcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9bab
ea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7
jddk24gffc/spack-build-r5em2zk/lib'], 'libraries': ['nrniv'], 'lan
guage': 'c++'})
3825 INFO:root:RX3D is DISABLED
3826 MODOBJS= ./follower.o ./gap.o ./name_clashes.o ./unitstest.o ./ver
sion_macros.o
>> 3827 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/insta
ll_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx/lib/python3.11/s
ite-packages/setuptools/__init__.py:84: _DeprecatedInstaller: setu
ptools.installer and fetch_build_eggs are deprecated.
3828 !!
3829
3830 **********************************************************
**********************
3831 Requirements should be satisfied by a PEP 517 installer.
3832 If you are using pip, you can try `pip install --use-pep51
7`.
3833 **********************************************************
**********************
...
3835 !!
3836 dist.fetch_build_eggs(dist.setup_requires)
3837 WARNING:root:WARNING: The wheel package is not available.
3838 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk2
4gffc/spack-build-r5em2zk MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
3839 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2h
xma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/c448d279dd3b9
1940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0'
3840 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 3841 make[3]: xcrun: No such file or directory
3842 Default NMODL flags:
>> 3843 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
3844 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3845 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3846 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3847 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
3848 [ 42%] Building CXX object src/nrniv/CMakeFiles/nrniv.dir/__/oc/oc
kludge.cpp.o
3849 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/src/nrniv && /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321684/spack/lib/spack/env/nvhpc/nvc++ -DCOR
ENRN_BUILD=0 -DHAVE_CONFIG_H -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIN
D=1 -DNRN_AVOID_ABSOLUTE_PATHS -DNRN_CALIPER -DNRN_ENABLE_THREADS
-DNRN_PROFILING -DOMPI_SKIP_MPICXX=1 -DUSE_PYTHON -I/gpfs/bbp.cscs
.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-buil
d/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_
develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/src/ivoc -I/gpf
s/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/
spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05
c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/src/n
rncvode -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P21
7394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f1
38bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/s
pack-src/src/nrniv -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihp
cproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babe
a23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7j
ddk24gffc/spack-src/src/nrnoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnl
a2hxma7ua7jddk24gffc/spack-src/src/oc -I/gpfs/bbp.cscs.ch/ssd/gitl
ab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stag
e-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em
2zk5twnla2hxma7ua7jddk24gffc/spack-build-r5em2zk -I/gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build-r5em2zk/src/nr
ncvode -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217
394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f13
8bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/sp
ack-build-r5em2zk/src/nrnoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_job
s/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-g
it.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2
hxma7ua7jddk24gffc/spack-build-r5em2zk/src/nrnpython -I/gpfs/bbp.c
scs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-b
uild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a0
86_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build-r5em2zk/sr
c/oc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P21739
4/J1321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138b
bd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spac
k-build-r5em2zk/src/parallel -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jo
bs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-
git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla
2hxma7ua7jddk24gffc/spack-build-r5em2zk/src/sundials -I/gpfs/bbp.c
scs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-b
uild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a0
86_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build-r5em2zk/sr
c/sundials/shared -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc
proj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea
23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jd
dk24gffc/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9
babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7
ua7jddk24gffc/spack-src/src/gnu -I/gpfs/bbp.cscs.ch/ssd/gitlab_map
_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neur
on-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5tw
nla2hxma7ua7jddk24gffc/spack-src/src/nrnmpi -I/gpfs/bbp.cscs.ch/ss
d/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/spac
k-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develo
p-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/src/nrnpython -I/gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/src/pa
rallel -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217
394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f13
8bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/sp
ack-src/src/scopmath -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci
hpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9ba
bea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua
7jddk24gffc/spack-src/src/sparse -I/gpfs/bbp.cscs.ch/ssd/gitlab_ma
p_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neu
ron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5t
wnla2hxma7ua7jddk24gffc/spack-src/src/sparse13 -I/gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/src/sundials -I/gp
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691
/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b0
5c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/src/
sundials/cvodes -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpr
oj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23
e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk
24gffc/spack-src/src/sundials/ida -I/gpfs/bbp.cscs.ch/ssd/gitlab_m
ap_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-ne
uron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5
twnla2hxma7ua7jddk24gffc/spack-src/src/sundials/shared -I/gpfs/bbp
.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack
-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1
a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build-r5em2zk/
src/nrniv/oc_generated -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01
/stage_externals/install_gcc-12.3.0-skylake/hpe-mpi-2.27.p1.hmpt-6
rr256/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj
12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e4
ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24
gffc/spack-src/src/ivos -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bb
pcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e
9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma
7ua7jddk24gffc/spack-src/src/nrnpython/.. -I/gpfs/bbp.cscs.ch/ssd/
gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-
stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-
r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/src/nrnpython/../oc -I/
gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13216
91/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6
b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/sr
c/nrnpython/../nrnoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci
hpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9ba
bea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua
7jddk24gffc/spack-src/src/nrnpython/../ivoc -I/gpfs/bbp.cscs.ch/ss
d/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/spac
k-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develo
p-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/src/nrnpython/../nrni
v -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J
1321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd0
5eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-s
rc/src/nrnpython/../nrnmpi -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2h
xma7ua7jddk24gffc/spack-src/src/nrnpython/../ivos -I/gpfs/bbp.cscs
.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-sky
lake/python-3.11.6-bj4i6m/include/python3.11 -isystem /gpfs/bbp.cs
cs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_
gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp/include -isystem /gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spac
k-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d
1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/external/
eigen -tp haswell -g -O1 -fno-omit-frame-pointer --c++17 --diag_s
uppress=1,47,111,128,170,174,177,186,541,550,816,2465 -noswitcherr
or -MD -MT src/nrniv/CMakeFiles/nrniv.dir/__/oc/ockludge.cpp.o -MF
CMakeFiles/nrniv.dir/__/oc/ockludge.cpp.o.d -o CMakeFiles/nrniv.d
ir/__/oc/ockludge.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b
bpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.
e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxm
a7ua7jddk24gffc/spack-src/src/oc/ockludge.cpp
...
4512 [ 44%] Linking CXX executable ../../bin/test/hh_sim_cpp
4513 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test/api && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/
stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin
/cmake -E cmake_link_script CMakeFiles/hh_sim_cpp.dir/link.txt --v
erbose=1
4514 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
684/spack/lib/spack/env/nvhpc/nvc++ -tp haswell -g -O1 -fno-omit-f
rame-pointer -noswitcherror -rdynamic CMakeFiles/hh_sim_cpp.dir/h
h_sim.cpp.o -o ../../bin/test/hh_sim_cpp -L/gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/hp
e-mpi-2.27.p1.hmpt-6rr256/lib -Wl,-rpath,/gpfs/bbp.cscs.ch/ssd/gi
tlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-st
age-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5
em2zk5twnla2hxma7ua7jddk24gffc/spack-build-r5em2zk/lib:/gpfs/bbp.c
scs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-
skylake/python-3.11.6-bj4i6m/lib:/gpfs/bbp.cscs.ch/ssd/apps/bsd/20
24-02-01/stage_applications/install_gcc-12.3.0-skylake/readline-8.
2-pdugg7/lib:/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_appli
cations/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv/lib:/gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/inst
all_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp/lib64:/gpfs/bbp.cscs.
ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-s
kylake/adiak-0.4.0-hficqq/lib:/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-
02-01/stage_externals/install_gcc-12.3.0-skylake/hpe-mpi-2.27.p1.h
mpt-6rr256/lib -ldl ../../lib/libnrniv.so ../../lib/libnrngnu.a ..
/../lib/libsparse13.a /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/st
age_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m/lib/
libpython3.11.so /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_a
pplications/install_gcc-12.3.0-skylake/readline-8.2-pdugg7/lib/lib
readline.so /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applic
ations/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv/lib/libcurses
.so /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/i
nstall_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv/lib/libform.so /gpfs/
bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/in
stall_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp/lib64/libcaliper.so
.2.11.0 -lpthread -lpthread -ldl -lmpi -Wl,-rpath-link,/gpfs/bbp.c
scs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3
.0-skylake/adiak-0.4.0-hficqq/lib
4515 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk2
4gffc/spack-build-r5em2zk MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4516 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2h
xma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/c35d2f235e0f3
860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7'
4517 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4518 make[3]: xcrun: No such file or directory
4519 Default NMODL flags:
>> 4520 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4521 [NMODL] [error] :: PROTECT statement is not supported with GPU exe
cution
4522 [NMODL] [error] :: PROTECT statement is not supported with GPU exe
cution
4523 [NMODL] [warning] :: SYMTAB :: w [Argument] in ForNetcon shadows <
argument> definition in NetReceiveBlock
4524 [NMODL] [warning] :: SYMTAB :: w [Argument] in ForNetcon shadows <
argument> definition in NetReceiveBlock
4525 [NMODL] [warning] :: SYMTAB :: w [Argument] in ForNetcon shadows <
argument> definition in NetReceiveBlock
4526 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
...
4649 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
4650 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk2
4gffc/spack-build-r5em2zk MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4651 -> Compiling mod_func.cpp
4652 -> NMODL .././halfgap.mod
4653 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2h
xma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/a9c54b18e4b54
351cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff'
4654 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4655 make[3]: xcrun: No such file or directory
4656 Default NMODL flags:
4657 [ 45%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/DGC_M.mod
4658 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/external/tests/red
uced_dentate//mechanisms/DGC_M.mod /gpfs/bbp.cscs.ch/ssd/gitlab_ma
p_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neu
ron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5t
wnla2hxma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/53c432f
7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/DGC_M.mo
d
>> 4659 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4660 Translating halfgap.mod into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2h
xma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/bbd7c82eee28b
931214a8172bb776ba66c406a6620c807381c850fedcdd74295/x86_64/halfgap
.cpp
4661 Thread Safe
4662 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gf
fc/spack-build-r5em2zk/test/nrnivmodl/bbd7c82eee28b931214a8172bb77
6ba66c406a6620c807381c850fedcdd74295/x86_64/halfgap.cpp
4663 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4664 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4665 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
...
4765 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test/external/tqperf && /gpfs/bbp.cscs.ch/ssd/apps/bsd
/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.
7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitl
ab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stag
e-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em
2zk5twnla2hxma7ua7jddk24gffc/spack-src/external/tests/tqperf//modx
/invlfirestats.mod /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcp
roj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea2
3e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jdd
k24gffc/spack-build-r5em2zk/test/nrnivmodl/f7f437ac4f0ea140e809f1b
dd7f7d03201e354b9a2041597f8faaf7fb7aebb7c/invlfirestats.mod
4766 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk2
4gffc/spack-build-r5em2zk MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4767 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2h
xma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/b62f97c7d3f6d
905c774d64e10128b3300792f8f757b926b965c058a4d6ee876'
4768 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
4769 [ 47%] Generating ../../nrnivmodl/f7f437ac4f0ea140e809f1bdd7f7d032
01e354b9a2041597f8faaf7fb7aebb7c/invlfire.mod
4770 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test/external/tqperf && /gpfs/bbp.cscs.ch/ssd/apps/bsd
/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.
7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitl
ab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stag
e-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em
2zk5twnla2hxma7ua7jddk24gffc/spack-src/external/tests/tqperf//mod/
invlfire.mod /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/
P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e4ee2
5f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gff
c/spack-build-r5em2zk/test/nrnivmodl/f7f437ac4f0ea140e809f1bdd7f7d
03201e354b9a2041597f8faaf7fb7aebb7c/invlfire.mod
>> 4771 make[3]: xcrun: No such file or directory
4772 Default NMODL flags:
>> 4773 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4774 [NMODL] [warning] :: Can not inline function call to mynormrand
4775 [NMODL] [warning] :: Can not inline function call to mynormrand
4776 [NMODL] [warning] :: Can not inline function call to mynormrand
4777 [NMODL] [warning] :: Can not inline function call to mynormrand
4778 [ 47%] Generating ../../nrnivmodl/f7f437ac4f0ea140e809f1bdd7f7d032
01e354b9a2041597f8faaf7fb7aebb7c/invlfiresha.mod
4779 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test/external/tqperf && /gpfs/bbp.cscs.ch/ssd/apps/bsd
/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.
7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitl
ab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stag
e-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em
2zk5twnla2hxma7ua7jddk24gffc/spack-src/external/tests/tqperf//modx
/invlfiresha.mod /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk2
4gffc/spack-build-r5em2zk/test/nrnivmodl/f7f437ac4f0ea140e809f1bdd
7f7d03201e354b9a2041597f8faaf7fb7aebb7c/invlfiresha.mod
...
4791 Creating 'x86_64' directory for .o files.
4792
4793 MODOBJS= ./invlfire.o ./invlfiresha.o ./invlfirestats.o
4794 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk2
4gffc/spack-build-r5em2zk INCFLAGS=-I/usr/include LINKFLAGS=/usr/l
ib64/libcrypto.so MODS_PATH=x86_64/corenrn/mod2c BUILD_TYPE=STATIC
NRN_PRCELLSTATE=0
4795 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2h
xma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/f7f437ac4f0ea
140e809f1bdd7f7d03201e354b9a2041597f8faaf7fb7aebb7c'
4796 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4797 make[3]: xcrun: No such file or directory
4798 Default NMODL flags:
>> 4799 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4800 [NMODL] [warning] :: Can not inline function call to specify_invl
4801 [NMODL] [warning] :: Can not inline function call to specify_invl
4802 [NMODL] [warning] :: Can not inline function call to specify_invl
4803 [NMODL] [warning] :: Can not inline function call to specify_invl
4804 [NMODL] [warning] :: Can not inline function call to specify_invl
4805 [NMODL] [warning] :: Can not inline function call to specify_invl
...
4807 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4808 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4809 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
4810 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk2
4gffc/spack-build-r5em2zk MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4811 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2h
xma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/53c432f7080fe
7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead'
4812 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4813 make[3]: xcrun: No such file or directory
4814 Default NMODL flags:
>> 4815 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4816 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4817 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4818 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4819 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4820 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4821 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
...
4960 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/cal2.mod /gpfs/bbp.
cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-
build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a
086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build-r5em2zk/t
est/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6fd
47c3be88641a/cal2.mod
4961 [ 48%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/can2.mod
4962 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/can2.mod /gpfs/bbp.
cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-
build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a
086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build-r5em2zk/t
est/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6fd
47c3be88641a/can2.mod
4963 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk2
4gffc/spack-build-r5em2zk MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4964 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2h
xma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/14c92ceb412f1
b4e766bfda05bec75b2d552a2f4499313751329f0689cf9faab'
4965 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4966 make[3]: xcrun: No such file or directory
4967 Default NMODL flags:
>> 4968 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4969 [ 48%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/cat.mod
4970 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/cat.mod /gpfs/bbp.c
scs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-b
uild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a0
86_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build-r5em2zk/te
st/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6fd4
7c3be88641a/cat.mod
4971 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
4972 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
4973 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
4974 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
...
5042 => LINKING shared library "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/a9c54b18e4b543
51cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff/x86_64/./libnrn
mech.so"
5043 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7u
a7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/a9c54b18e4b54351cb
4fd3e79067cafa02da4514b4383a54de8ff121657615ff/x86_64/./special" L
DFLAGS are:
5044 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build
-r5em2zk/share/nrn/nrnmain.cpp:
5045 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk2
4gffc/spack-build-r5em2zk MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
5046 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2h
xma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/3a24bd33c51ee
30c68f71d610b146a37c165552933d5963dc6fd47c3be88641a'
5047 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 5048 make[3]: xcrun: No such file or directory
5049 Default NMODL flags:
>> 5050 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
5051 [NMODL] [warning] :: SYMTAB :: ca [Argument] in rates shadows <ion
> definition in NMODL_GLOBAL
5052 [NMODL] [warning] :: SYMTAB :: ca [Argument] in rates shadows <ion
> definition in NMODL_GLOBAL
5053 [NMODL] [warning] :: SYMTAB :: ca [Argument] in rates shadows <ion
> definition in NMODL_GLOBAL
5054 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
5055 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
5056 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
...
5316 make -f test/CMakeFiles/copy-scripts-pytest_coreneuron-basic_test
s_py3.11.dir/build.make test/CMakeFiles/copy-scripts-pytest_corene
uron-basic_tests_py3.11.dir/build
5317 make[2]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2h
xma7ua7jddk24gffc/spack-build-r5em2zk'
5318 [ 49%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_nrntest_fast.json
5319 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7u
a7jddk24gffc/spack-src//test/pytest_coreneuron/test_nrntest_fast.j
son /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J
1321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd0
5eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-b
uild-r5em2zk/test/pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_nrntest_fast.json
5320 [ 49%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/gui_pycallobject.py
5321 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7u
a7jddk24gffc/spack-src//test/pytest_coreneuron/gui_pycallobject.py
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J132
1691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05ea
a6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-buil
d-r5em2zk/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_co
reneuron/gui_pycallobject.py
>> 5322 "bacur.cpp", line 373: error: identifier "_globals" is undefined
5323 init ( _threadargs_ ) ;
5324 ^
5325
5326 1 error detected in the compilation of "bacur.cpp".
>> 5327 make[3]: *** [makemod2c_inc:23: bacur.o] Error 2
5328 make[3]: *** Waiting for unfinished jobs....
5329 [ 49%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/run_pytest.py
5330 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7u
a7jddk24gffc/spack-src//test/pytest_coreneuron/run_pytest.py /gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build-r5em
2zk/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_coreneur
on/run_pytest.py
>> 5331 "banocur.cpp", line 343: error: identifier "_globals" is undefined
5332 init ( _threadargs_ ) ;
5333 ^
5334
5335 1 error detected in the compilation of "banocur.cpp".
>> 5336 make[3]: *** [makemod2c_inc:31: banocur.o] Error 2
>> 5337 "axial_pp.cpp", line 290: error: identifier "_globals" is undefine
d
5338 foo ( _threadargs_ ) ;
5339 ^
5340
5341 1 error detected in the compilation of "axial_pp.cpp".
>> 5342 make[3]: *** [makemod2c_inc:15: axial_pp.o] Error 2
5343 [ 49%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_a_neuronoptions.py
5344 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7u
a7jddk24gffc/spack-src//test/pytest_coreneuron/test_a_neuronoption
s.py /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/
J1321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd
05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-
build-r5em2zk/test/pytest_coreneuron/basic_tests_py3.11/test/pytes
t_coreneuron/test_a_neuronoptions.py
5345 [ 49%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_basic.py
5346 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7u
a7jddk24gffc/spack-src//test/pytest_coreneuron/test_basic.py /gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build-r5em
2zk/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_coreneur
on/test_basic.py
>> 5347 "axial.cpp", line 243: error: identifier "_globals" is undefined
5348 foo ( _threadargs_ ) ;
5349 ^
5350
5351 1 error detected in the compilation of "axial.cpp".
>> 5352 make[3]: *** [makemod2c_inc:7: axial.o] Error 2
5353 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/c35d2f235e0f38
60fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/x86_64'
>> 5354 make[2]: *** [test/CMakeFiles/NRN_TEST_nrnivmodl_c35d2f235e0f3860f
becadf05ec8c2b6901bba2525195c69836276a4b5d88ca7.dir/build.make:106
: test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c698
36276a4b5d88ca7/x86_64/special] Error 2
5355 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk'
>> 5356 make[1]: *** [CMakeFiles/Makefile2:5929: test/CMakeFiles/NRN_TEST_
nrnivmodl_c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4
b5d88ca7.dir/all] Error 2
5357 make[1]: *** Waiting for unfinished jobs....
5358 [ 49%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_bbss.py
5359 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7u
a7jddk24gffc/spack-src//test/pytest_coreneuron/test_bbss.py /gpfs/
bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/sp
ack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c6
7d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build-r5em2
zk/test/pytest_coreneuron/basic_tests_py3.11/test/pytest_coreneuro
n/test_bbss.py
5360 [ 49%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_coreneuron_configuration.py
5361 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-bu
ild-r5em2zk/test && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stag
e_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cma
ke -E copy_if_different /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7u
a7jddk24gffc/spack-src//test/pytest_coreneuron/test_coreneuron_con
figuration.py /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gf
fc/spack-build-r5em2zk/test/pytest_coreneuron/basic_tests_py3.11/t
est/pytest_coreneuron/test_coreneuron_configuration.py
5362 [ 50%] Generating pytest_coreneuron/basic_tests_py3.11/test/pytest
_coreneuron/test_fast_imem.py
...
5481 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk'
5482 [ 50%] Built target generate-neurondemo-mechanism-library
5483 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gf
fc/spack-build-r5em2zk/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/vclmp1.cpp
5484 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gf
fc/spack-build-r5em2zk/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/vlag.cpp
5485 => Binary creating x86_64/special-core
5486 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build
-r5em2zk/share/coreneuron/coreneuron.cpp:
>> 5487 "ampanmda.cpp", line 605: error: identifier "_globals" is undefine
d
5488 _args[2] = _args[0] * plast ( _threadargscomma_ _args[1] )
;
5489 ^
5490
5491 1 error detected in the compilation of "ampanmda.cpp".
>> 5492 make[3]: *** [makemod2c_inc:23: ampanmda.o] Error 2
5493 make[3]: *** Waiting for unfinished jobs....
5494 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/14c92ceb412f1b
4e766bfda05bec75b2d552a2f4499313751329f0689cf9faab/x86_64'
>> 5495 make[2]: *** [test/external/olfactory-bulb-3d/CMakeFiles/NRN_TEST_
nrnivmodl_14c92ceb412f1b4e766bfda05bec75b2d552a2f4499313751329f068
9cf9faab.dir/build.make:102: test/nrnivmodl/14c92ceb412f1b4e766bfd
a05bec75b2d552a2f4499313751329f0689cf9faab/x86_64/special] Error 2
5496 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk'
>> 5497 make[1]: *** [CMakeFiles/Makefile2:11803: test/external/olfactory-
bulb-3d/CMakeFiles/NRN_TEST_nrnivmodl_14c92ceb412f1b4e766bfda05bec
75b2d552a2f4499313751329f0689cf9faab.dir/all] Error 2
5498 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: warning: /nvme/bbp
cihpcproj12/2254973/pgcudafat6nujU3o7iNmT.o: missing .note.GNU-sta
ck section implies executable stack
5499 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: NOTE: This behavio
ur is deprecated and will be removed in a future version of the li
nker
5500 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/53c432f7080fe7
b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead'
5501 [INFO] MOD files built successfully for CoreNEURON
5502 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2h
xma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/53c432f7080fe
7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/x86_64'
5503 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
...
5883 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: NOTE: This behavio
ur is deprecated and will be removed in a future version of the li
nker
5884 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk/test/nrnivmodl/3a24bd33c51ee3
0c68f71d610b146a37c165552933d5963dc6fd47c3be88641a/x86_64'
5885 Successfully created x86_64/special
5886 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk'
5887 [ 50%] Built target NRN_TEST_nrnivmodl_3a24bd33c51ee30c68f71d610b1
46a37c165552933d5963dc6fd47c3be88641a
5888 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hx
ma7ua7jddk24gffc/spack-build-r5em2zk'
>> 5889 make: *** [Makefile:169: all] Error 2
See build log for details:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321691/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-r5em2zk5twnla2hxma7ua7jddk24gffc/spack-build-out.txt
$ set +o pipefail
$ chmod -R g+rX "${SPACK_BUILD}"
$ if [[ ${install_failed} == 1 ]]; then exit 1; fi
srun: error: r1i7n21: task 0: Exited with exit code 1
section_end:1718636721:step_script section_start:1718636721:upload_artifacts_on_failure Uploading artifacts for failed job
Using git from spack modules
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=44158 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
initial_environment.env: found 1 matching files and directories
spack-build-env.txt: found 1 matching files and directories
spack-build-out.txt: found 1 matching files and directories
spack-configure-args.txt: found 1 matching files and directories
Uploading artifacts as "archive" to coordinator... ok id=1321691 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=44195 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
Uploading artifacts as "junit" to coordinator... ok id=1321691 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=44232 revision=58ba2b95 version=14.2.0
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
Uploading artifacts as "dotenv" to coordinator... ok id=1321691 responseStatus=201 Created token=glcbt-64
section_end:1718636723:upload_artifacts_on_failure section_start:1718636723:cleanup_file_variables Cleaning up project directory and file based variables
Using git from spack modules
section_end:1718636725:cleanup_file_variables ERROR: Job failed: exit status 1

Raw
build-neuron-nmodl-nvhpc-omp.txt
Running with gitlab-runner 15.5.0 (0d4137b8)
 on BB5 map runner pnPo3yJy
section_start:1718635144:resolve_secrets Resolving secrets
section_end:1718635144:resolve_secrets section_start:1718635144:prepare_executor Preparing the "custom" executor
Using Custom executor with driver BB5 PROD runner v0.0.3...
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-executor223735011, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
Runner ID 29, project root hpc, project name nrn
Pipeline ID 217394, build ref , job ID 1321692
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag , optional reservation flag
A slurm job will be created with name GL_J1321692_PROD_P2160_CP5_C9
Job parameters: memory=160G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos= reservation=
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 2254974
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1321692_PROD_P2160_CP5_C9 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --time=2:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --ntasks=2 --jobid=2254974 --cpus-per-task=8 --mem=160G
section_end:1718635145:prepare_executor section_start:1718635145:prepare_script Preparing environment
Using git from spack modules
Running on r1i7n20 via bbpv1.epfl.ch...
section_end:1718635151:prepare_script section_start:1718635151:get_sources Getting source from Git repository
Using git from spack modules
Skipping Git repository setup
Skipping Git checkout
Skipping Git submodules setup
section_end:1718635152:get_sources section_start:1718635152:restore_cache Restoring cache
Using git from spack modules
Checking cache for build:neuron:nmodl:nvhpc:omp-1-non_protected...
Runtime platform  arch=amd64 os=linux pid=150850 revision=58ba2b95 version=14.2.0
cache.zip is up to date 
Successfully extracted cache
section_end:1718635158:restore_cache section_start:1718635158:download_artifacts Downloading artifacts
Using git from spack modules
Downloading artifacts for build:nmodl (1321686)...
Runtime platform  arch=amd64 os=linux pid=150986 revision=58ba2b95 version=14.2.0
Downloading artifacts from coordinator... ok  id=1321686 responseStatus=200 OK token=glcbt-64
section_end:1718635159:download_artifacts section_start:1718635159:step_script Executing "step_script" stage of the job script
WARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426
Using git from spack modules
$ SPACK_BUILD="${PWD}/spack-build"
$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env
$ . ${SPACK_ROOT}/share/spack/setup-env.sh
$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config
$ mkdir ${SPACK_USER_CONFIG_PATH}
$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command
$ spack ${SPACK_EXTRA_FLAGS} config add concretizer:reuse:false
$ spack ${SPACK_EXTRA_FLAGS} config blame config
--- config:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-config/config.yaml:2 build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/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:7 environments_root: $user_cache_path/environments
/gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 build_jobs: 8
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:18 extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:37 template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:124 checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:129 deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:134 dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:142 build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:151 locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:205 shared_linking:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:210 type: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:216 bind: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:227 install_status: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:233 flags:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:235 keep_werror: none
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:240 aliases:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:241 concretise: concretize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:242 containerise: containerize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:243 rm: remove
_builtin debug: False
$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer
--- concretizer:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-config/concretizer.yaml:2 reuse: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:23 targets:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:38 unify: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:40 duplicates:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal
$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config
$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394/J1321692_local_config)
$ mkdir -p "${XDG_CONFIG_HOME}/git"
$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"
$ 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"
$ cat "${XDG_CONFIG_HOME}/git/config"
[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/
$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"
$ echo "Preparing to install ${SPACK_FULL_SPEC}"
Preparing to install neuron%nvhpc ~rx3d+caliper+gpu+coreneuron~legacy-unit+openmp~shared+sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^caliper+cuda cuda_arch=70 ^/53hy2ex7xntc24cnbuojh6rrc3l2auap
$ if [ ${SPACK_USE_CCACHE+x} ]; then
$ module load unstable ccache
$ export CCACHE_BASEDIR=$(realpath -P ${CI_BUILDS_DIR})
$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394
$ export CCACHE_MAXSIZE=512M
$ export CCACHE_DIR="${TMPDIR}/ccache"
$ mkdir -p ${CCACHE_DIR}
$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then
$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"
$ fi
$ ccache --zero-stats
Statistics zeroed
$ ccache --show-stats --verbose
Cache directory: /nvme/bbpcihpcproj12/2254974/ccache
Config file: /nvme/bbpcihpcproj12/2254974/ccache/ccache.conf
System config file: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ccache-4.7.4-eompz5/etc/ccache.conf
Stats updated: Mon Jun 17 16:39:25 2024
Local storage:
Cache size (GB): 0.46 / 0.51 (90.02%)
Files: 10494
Hits: 0
Misses: 0
Reads: 0
Writes: 0
$ fi
$ module load unstable git ${SPACK_EXTRA_MODULES}
$ spack ${SPACK_EXTRA_FLAGS} spec -Il ${SPACK_FULL_SPEC}
Input spec
--------------------------------
- neuron%nvhpc+caliper+coreneuron+gpu~legacy-unit+openmp~rx3d~shared+sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy
- ^/53hy2ex7xntc24cnbuojh6rrc3l2auap
- ^caliper+cuda cuda_arch=70
Concretized
--------------------------------
- dv2vt52 neuron@git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop%nvhpc@23.1~backtrace+caliper+coreneuron+gpu~interviews~ipo~legacy-unit+mpi+openmp~prcellstate+python+report~rx3d~shared+sympy~sympyopt+tests~unified build_system=cmake build_type=FastDebug generator=make model_tests=channel-benchmark,olfactory,tqperf-heavy sanitizers=None arch=linux-rhel7-skylake
[^] tj3mv5i ^binutils@2.41%gcc@12.3.0+gas+gold~gprofng~headers~interwork+ld~libiberty~lto~nls~pgo+plugins build_system=autotools compress_debug_sections=zlib libs=shared,static arch=linux-rhel7-skylake
[^] 7jd6loj ^diffutils@3.9%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] e533uuv ^pkgconf@1.9.5%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] z7jpg7s ^zlib-ng@2.1.4%gcc@12.3.0+compat+opt build_system=autotools arch=linux-rhel7-skylake
[^] aivjoo2 ^zstd@1.5.5%gcc@12.3.0+programs build_system=makefile compression=none libs=shared,static arch=linux-rhel7-skylake
[e] yn5fbwg ^bison@3.8.2%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[e] rd65pst ^boost@1.83.0%gcc@12.3.0~atomic~chrono~clanglibcpp~container~context~contract~coroutine~date_time~debug~exception~fiber+filesystem~graph~graph_parallel~icu~iostreams~json~locale~log~math~mpi+multithreaded~nowide~numpy+pic~program_options~python~random~regex+serialization+shared~signals~singlethreaded~stacktrace~system~taggedlayout+test~thread~timer~type_erasure~versionedlayout~wave build_system=generic cxxstd=98 patches=a440f96 visibility=hidden arch=linux-rhel7-skylake
- vjj3tpl ^caliper@2.11.0%gcc@12.3.0+adiak+cuda~fortran+gotcha~ipo+kokkos+libdw~libpfm+libunwind+mpi+papi~rocm+sampler+shared~sosflow~tests~variorum~vtune build_system=cmake build_type=Release cuda_arch=70 generator=make arch=linux-rhel7-skylake
[^] hficqq7 ^adiak@0.4.0%gcc@12.3.0~ipo+mpi+shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] a46bi6u ^elfutils@0.189%gcc@12.3.0~debuginfod+exeprefix+nls build_system=autotools arch=linux-rhel7-skylake
[^] wtcpudz ^m4@1.4.19%gcc@12.3.0+sigsegv build_system=autotools patches=9dc5fbd,bfdffa7 arch=linux-rhel7-skylake
[^] rytdxw5 ^libsigsegv@2.14%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] 7xnekxr ^libunwind@1.6.2%gcc@12.3.0~block_signals~conservative_checks~cxx_exceptions~debug~debug_frame+docs~pic+tests+weak_backtrace~xz~zlib build_system=autotools components=none libs=shared,static arch=linux-rhel7-skylake
[^] vol6npp ^papi@6.0.0.1%gcc@12.3.0~cuda~debug+example~infiniband~lmsensors~nvml~powercap~rapl~rocm~rocm_smi~sde+shared~static_tools build_system=autotools arch=linux-rhel7-skylake
[e] b5zzpr3 ^cmake@3.27.7%gcc@12.3.0~doc+ncurses+ownlibs build_system=generic build_type=Release arch=linux-rhel7-skylake
[e] 3fsjp3m ^cuda@12.0.0%gcc@12.3.0~allow-unsupported-compilers~dev build_system=generic arch=linux-rhel7-skylake
[e] 77vzaxs ^flex@2.6.3%gcc@12.3.0+lex~nls build_system=autotools arch=linux-rhel7-skylake
[^] nbi5w5c ^gettext@0.22.3%gcc@12.3.0+bzip2+curses+git~libunistring+libxml2+pic+shared+tar+xz build_system=autotools arch=linux-rhel7-skylake
[^] vdqwmgi ^bzip2@1.0.8%gcc@12.3.0~debug~pic+shared build_system=generic arch=linux-rhel7-skylake
[^] nv4xh4v ^libiconv@1.17%gcc@12.3.0 build_system=autotools libs=shared,static arch=linux-rhel7-skylake
[^] oh2g4in ^libxml2@2.10.3%gcc@12.3.0+pic~python+shared build_system=autotools arch=linux-rhel7-skylake
[^] zz4acmm ^tar@1.34%gcc@12.3.0 build_system=autotools zip=pigz arch=linux-rhel7-skylake
[^] dwjcguu ^pigz@2.7%gcc@12.3.0 build_system=makefile arch=linux-rhel7-skylake
[^] wwn5enj ^xz@5.4.1%gcc@12.3.0~pic build_system=autotools libs=shared,static arch=linux-rhel7-skylake
[^] swjylul ^gmake@4.4.1%gcc@12.3.0~guile build_system=generic arch=linux-rhel7-skylake
[e] h6t3hgb ^hpe-mpi@2.27.p1.hmpt%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
- az6cwid ^libsonata-report@git.5602aadfa710d6766ce23cd151a1855190271bd8=develop%nvhpc@23.1~ipo+mpi build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 5o77yem ^hdf5@1.14.3%gcc@12.3.0+cxx~fortran+hl~ipo~java~map+mpi+shared~szip~threadsafe+tools api=default build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] ihotvbs ^spdlog@1.12.0%gcc@12.3.0+fmt_external~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 6kdbhvi ^ncurses@6.4%gcc@12.3.0~symlinks+termlib abi=none build_system=autotools arch=linux-rhel7-skylake
[e] omn6mm4 ^ninja@1.11.1%gcc@12.3.0+re2c build_system=generic arch=linux-rhel7-skylake
[+] 53hy2ex ^nmodl@git.5ff221d045c92389b4cab5ee159d46770aa12665=develop%gcc@12.3.0~ipo~legacy-unit~llvm~llvm_cuda~python~tests build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[^] pywly2v ^catch2@3.4.0%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] ud3echq ^cli11@2.3.2%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] evtttrh ^fmt@10.1.1%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release cxxstd=11 generator=make arch=linux-rhel7-skylake
[^] teske2k ^nlohmann-json@3.9.1%gcc@12.3.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 5dylnca ^py-find-libpython@0.3.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 7validy ^py-jinja2@3.1.2%gcc@12.3.0~i18n build_system=python_pip arch=linux-rhel7-skylake
[^] r3ehtmw ^py-markupsafe@2.1.3%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] tabj2mo ^py-pybind11@2.11.1%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[^] 2inh3rt ^py-pyyaml@5.4.1%gcc@12.3.0+libyaml build_system=python_pip arch=linux-rhel7-skylake
[^] bzl4xcz ^libyaml@0.2.5%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] x733hwb ^py-mpi4py@3.1.4%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] m3dslef ^py-cython@0.29.36%gcc@12.3.0 build_system=python_pip patches=c4369ad arch=linux-rhel7-skylake
[^] aj3rk42 ^py-wheel@0.41.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] elr5pnt ^py-numpy@1.26.1%gcc@12.3.0 build_system=python_pip patches=873745d arch=linux-rhel7-skylake
[e] w2ldcy2 ^intel-oneapi-mkl@2023.2.0%gcc@12.3.0~cluster+envmods~ilp64+shared build_system=generic mpi_family=none threads=none arch=linux-rhel7-skylake
[^] 3y7uuwr ^py-pyproject-metadata@0.7.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] uqml2to ^py-packaging@23.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] h6f6feu ^py-flit-core@3.9.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 77ku3vv ^py-pip@23.1.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] lrf2u3h ^py-pytest@7.3.2%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] mvxx6gh ^py-iniconfig@2.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] cbpzath ^py-hatch-vcs@0.3.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 2o7gdvi ^py-hatchling@1.21.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 6domhtg ^py-editables@0.3%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] edobf76 ^py-pathspec@0.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] a6ialdh ^py-trove-classifiers@2023.8.7%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] jurd5ga ^py-calver@2022.6.26%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 6su7kvx ^py-pluggy@1.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] sokbfzv ^py-setuptools-scm@8.0.4%gcc@12.3.0+toml build_system=python_pip arch=linux-rhel7-skylake
[e] 2sazdxk ^git@2.42.0%gcc@12.3.0+man+nls+perl+subtree~svn~tcltk build_system=autotools arch=linux-rhel7-skylake
[^] xwl5l6q ^py-tomli@2.0.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 275jtek ^py-typing-extensions@4.8.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] z5nf6n2 ^py-pytest-cov@4.0.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] wuxetkw ^py-coverage@7.2.6%gcc@12.3.0+toml build_system=python_pip arch=linux-rhel7-skylake
[^] p3xbqxj ^py-setuptools@68.0.0%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] t5tovex ^py-sympy@1.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 4fflyib ^py-mpmath@1.2.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[e] 5wl76vp ^python@3.11.6%gcc@12.3.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=13fa8bf,b0615b2,ebdca64,f2fd060 arch=linux-rhel7-skylake
[^] pdugg7r ^readline@8.2%gcc@12.3.0 build_system=autotools patches=bbf97f1 arch=linux-rhel7-skylake
$ set -o pipefail
$ (spack ${SPACK_EXTRA_FLAGS} install --overwrite -y -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} | tee log) || install_failed=1
==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394, but it is owned by 0
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zlib-ng-2.1.4-z7jpg7
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zstd-1.5.5-aivjoo
==> bison@3.8.2 : has external module in ['bison/3.8.2']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/bison-3.8.2-qcx3sg (external bison-3.8.2-yn5fbwgteilgqg6b62shkhkjg3hlwmrq)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/boost-1.83.0-2quv7w (external boost-1.83.0-rd65pstwb56uftszduzg7lsiq4za4lnn)
==> hpe-mpi@2.27.p1.hmpt : has external module in ['hpe-mpi/2.27.p1.hmpt']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/hpe-mpi-2.27.p1.hmpt-6rr256 (external hpe-mpi-2.27.p1.hmpt-h6t3hgbguhacajbyzlp43xpawsnreb3m)
==> cmake@3.27.7 : has external module in ['cmake/3.27.7']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes (external cmake-3.27.7-b5zzpr3mwm7jxv6bvvrs6zpeg62cfhbu)
==> cuda@12.0.0 : has external module in ['cuda/12.0.0']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb (external cuda-12.0.0-3fsjp3mjnqnrrtfa6vspkddejnyei5sa)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/bzip2-1.0.8-vdqwmg
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libiconv-1.17-nv4xh4
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/xz-5.4.1-wwn5en
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pkgconf-1.9.5-e533uu
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gmake-4.4.1-swjylu
==> python@3.11.6 : has external module in ['python/3.11.6']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m (external python-3.11.6-5wl76vphfvpcapfaipipf7xn2xylnc4o)
==> flex@2.6.3 : has external module in ['flex/2.6.3']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/flex-2.6.3-edx4lf (external flex-2.6.3-77vzaxsa3g7wr3omktr4skpetx5ds4pt)
==> ninja@1.11.1 : has external module in ['ninja/1.11.1']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ninja-1.11.1-nxtlgo (external ninja-1.11.1-omn6mm4a3zsbpbkptvdwxs6kkrh6yafw)
==> intel-oneapi-mkl@2023.2.0 : has external module in ['intel-oneapi-mkl/2023.2.0']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/intel-oneapi-mkl-2023.2.0-twl2n4 (external intel-oneapi-mkl-2023.2.0-w2ldcy2y2urm3uaa7omu3w7nhwsqt433)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/binutils-2.41-tj3mv5
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/nlohmann-json-3.9.1-teske2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/papi-6.0.0.1-vol6np
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/catch2-3.4.0-pywly2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/cli11-2.3.2-ud3ech
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/readline-8.2-pdugg7
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libxml2-2.10.3-oh2g4i
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/fmt-10.1.1-evtttr
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pigz-2.7-dwjcgu
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/hdf5-1.14.3-5o77ye
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/adiak-0.4.0-hficqq
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libunwind-1.6.2-7xnekx
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libyaml-0.2.5-bzl4xc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpi4py-3.1.4-x733hw
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pip-23.1.2-77ku3v
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/spdlog-1.12.0-ihotvb
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/tar-1.34-zz4acm
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pluggy-1.0.0-6su7kv
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-find-libpython-0.3.1-5dylnc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pybind11-2.11.1-tabj2m
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-markupsafe-2.1.3-r3ehtm
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-coverage-7.2.6-wuxetk
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpmath-1.2.1-4fflyi
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-numpy-1.26.1-elr5pn
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-packaging-23.1-uqml2t
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-iniconfig-2.0.0-mvxx6g
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gettext-0.22.3-nbi5w5
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-7.3.2-lrf2u3
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-sympy-1.11.1-t5tove
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pyyaml-5.4.1-2inh3r
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_nvhpc-23.1-skylake/libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6cwi
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/elfutils-0.189-a46bi6
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-cov-4.0.0-z5nf6n
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d46770aa12665_develop-53hy2e
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp
==> Installing neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop-dv2vt522mexsvlve6pmtvur7u4jv3awn [55/55]
==> No binary for neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086=develop-dv2vt522mexsvlve6pmtvur7u4jv3awn found: installing from source
==> No patches needed for neuron
==> neuron: Executing phase: 'cmake'
==> neuron: Executing phase: 'build'
==> Error: ProcessError: Command exited with status 2:
'make' '-j8'
34 errors found in build log:
2878 [ 29%] Running nrnivmodl-core with internal mod files
2879 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-bu
ild-dv2vt52/bin && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage
_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmak
e -E env NMODLHOME= /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc
proj12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea
23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7
u4jv3awn/spack-build-dv2vt52/bin/nrnivmodl-core -b STATIC -m /gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/i
nstall_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d46
770aa12665_develop-53hy2e/bin/nmodl -n internal -p 4 .
2880 WARNING: No mod files found in '/gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexs
vlve6pmtvur7u4jv3awn/spack-build-dv2vt52/bin', compiling default o
nes only!
2881 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4j
v3awn/spack-build-dv2vt52 MECHLIB_SUFFIX=internal NMODL_BINARY=/gp
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software
/install_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d
46770aa12665_develop-53hy2e/bin/nmodl MODS_PATH=x86_64/corenrn/mod
2c BUILD_TYPE=STATIC NRN_PRCELLSTATE=0
2882 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlv
e6pmtvur7u4jv3awn/spack-build-dv2vt52/bin'
2883 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 2884 make[3]: xcrun: No such file or directory
2885 Default NMODL flags:
>> 2886 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
2887 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2888 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2889 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
2890 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
2891 "../../../spack-src/external/eigen/Eigen/src/Core/arch/AVX/PacketM
ath.h", line 984: warning: integer conversion resulted in a change
of sign [integer_sign_change]
2892 const __m128i sign_mask = _mm_set1_epi16(static_cast<numext::u
int16_t>(0x8000));
...
3821 INFO:root:RX3D is DISABLED
3822 "./unitstest.mod" "./version_macros.mod"
3823
3824 Creating 'x86_64' directory for .o files.
3825
3826 MODOBJS= ./follower.o ./gap.o ./name_clashes.o ./unitstest.o ./ver
sion_macros.o
>> 3827 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/insta
ll_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx/lib/python3.11/s
ite-packages/setuptools/__init__.py:84: _DeprecatedInstaller: setu
ptools.installer and fetch_build_eggs are deprecated.
3828 !!
3829
3830 **********************************************************
**********************
3831 Requirements should be satisfied by a PEP 517 installer.
3832 If you are using pip, you can try `pip install --use-pep51
7`.
3833 **********************************************************
**********************
...
3835 !!
3836 dist.fetch_build_eggs(dist.setup_requires)
3837 WARNING:root:WARNING: The wheel package is not available.
3838 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4j
v3awn/spack-build-dv2vt52 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
3839 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlv
e6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/c448d279dd3b9
1940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0'
3840 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 3841 make[3]: xcrun: No such file or directory
3842 Default NMODL flags:
>> 3843 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
3844 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3845 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3846 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
3847 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
3848 [ 42%] Building CXX object src/nrniv/CMakeFiles/nrniv.dir/__/oc/oc
kludge.cpp.o
3849 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-bu
ild-dv2vt52/src/nrniv && /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321684/spack/lib/spack/env/nvhpc/nvc++ -DCOR
ENRN_BUILD=0 -DHAVE_CONFIG_H -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIN
D=1 -DNRN_AVOID_ABSOLUTE_PATHS -DNRN_CALIPER -DNRN_ENABLE_THREADS
-DNRN_PROFILING -DOMPI_SKIP_MPICXX=1 -DUSE_PYTHON -I/gpfs/bbp.cscs
.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-buil
d/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_
develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/src/ivoc -I/gpf
s/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/
spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05
c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/src/n
rncvode -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P21
7394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f1
38bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/s
pack-src/src/nrniv -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihp
cproj12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babe
a23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur
7u4jv3awn/spack-src/src/nrnoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_j
obs/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron
-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexs
vlve6pmtvur7u4jv3awn/spack-src/src/oc -I/gpfs/bbp.cscs.ch/ssd/gitl
ab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stag
e-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2v
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ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build-dv2vt52/src/nr
ncvode -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217
394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f13
8bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/sp
ack-build-dv2vt52/src/nrnoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_job
s/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-g
it.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvl
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scs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-b
uild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a0
86_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build-dv2vt52/sr
c/oc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P21739
4/J1321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138b
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k-build-dv2vt52/src/parallel -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jo
bs/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-
git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsv
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scs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-b
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u4jv3awn/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbp
cihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9
babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pm
tvur7u4jv3awn/spack-src/src/gnu -I/gpfs/bbp.cscs.ch/ssd/gitlab_map
_jobs/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neur
on-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522me
xsvlve6pmtvur7u4jv3awn/spack-src/src/nrnmpi -I/gpfs/bbp.cscs.ch/ss
d/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build/spac
k-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develo
p-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/src/nrnpython -I/gpfs
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/s
pack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c
67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/src/pa
rallel -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217
394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f13
8bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/sp
ack-src/src/scopmath -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci
hpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9ba
bea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtv
ur7u4jv3awn/spack-src/src/sparse -I/gpfs/bbp.cscs.ch/ssd/gitlab_ma
p_jobs/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neu
ron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522m
exsvlve6pmtvur7u4jv3awn/spack-src/src/sparse13 -I/gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/src/sundials -I/gp
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692
/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b0
5c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/src/
sundials/cvodes -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpr
oj12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23
e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4
jv3awn/spack-src/src/sundials/ida -I/gpfs/bbp.cscs.ch/ssd/gitlab_m
ap_jobs/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-ne
uron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522
mexsvlve6pmtvur7u4jv3awn/spack-src/src/sundials/shared -I/gpfs/bbp
.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack
-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1
a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build-dv2vt52/
src/nrniv/oc_generated -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01
/stage_externals/install_gcc-12.3.0-skylake/hpe-mpi-2.27.p1.hmpt-6
rr256/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj
12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e4
ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv
3awn/spack-src/src/ivos -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bb
pcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git.e
9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6p
mtvur7u4jv3awn/spack-src/src/nrnpython/.. -I/gpfs/bbp.cscs.ch/ssd/
gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build/spack-
stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-
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gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J13216
92/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6
b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/sr
c/nrnpython/../nrnoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci
hpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9ba
bea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtv
ur7u4jv3awn/spack-src/src/nrnpython/../ivoc -I/gpfs/bbp.cscs.ch/ss
d/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build/spac
k-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develo
p-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/src/nrnpython/../nrni
v -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J
1321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd0
5eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-s
rc/src/nrnpython/../nrnmpi -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlv
e6pmtvur7u4jv3awn/spack-src/src/nrnpython/../ivos -I/gpfs/bbp.cscs
.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-sky
lake/python-3.11.6-bj4i6m/include/python3.11 -isystem /gpfs/bbp.cs
cs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_
gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp/include -isystem /gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spac
k-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d
1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/external/
eigen -tp haswell -g -O1 -fno-omit-frame-pointer --c++17 --diag_s
uppress=1,47,111,128,170,174,177,186,541,550,816,2465 -noswitcherr
or -MD -MT src/nrniv/CMakeFiles/nrniv.dir/__/oc/ockludge.cpp.o -MF
CMakeFiles/nrniv.dir/__/oc/ockludge.cpp.o.d -o CMakeFiles/nrniv.d
ir/__/oc/ockludge.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b
bpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git.
e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6
pmtvur7u4jv3awn/spack-src/src/oc/ockludge.cpp
...
4558 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
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stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin
/cmake -E cmake_link_script CMakeFiles/vclamp_cpp.dir/link.txt --v
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4559 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
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nit_tests/node_order_optim/permutations.cpp.o CMakeFiles/testneuro
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c-12.3.0-skylake/python-3.11.6-bj4i6m/lib:/gpfs/bbp.cscs.ch/ssd/ap
ps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/re
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:/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/soft
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../lib/libnrngnu.a ../lib/libsparse13.a /gpfs/bbp.cscs.ch/ssd/app
s/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/python
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/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/readline
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tage_applications/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv/li
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4560 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
684/spack/lib/spack/env/nvhpc/nvc++ -tp haswell -g -O1 -fno-omit-f
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skylake/python-3.11.6-bj4i6m/lib:/gpfs/bbp.cscs.ch/ssd/apps/bsd/20
24-02-01/stage_applications/install_gcc-12.3.0-skylake/readline-8.
2-pdugg7/lib:/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_appli
cations/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv/lib:/gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/inst
all_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp/lib64:/gpfs/bbp.cscs.
ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-s
kylake/adiak-0.4.0-hficqq/lib:/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-
02-01/stage_externals/install_gcc-12.3.0-skylake/hpe-mpi-2.27.p1.h
mpt-6rr256/lib -ldl ../../lib/libnrniv.so ../../lib/libnrngnu.a ..
/../lib/libsparse13.a /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/st
age_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m/lib/
libpython3.11.so /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_a
pplications/install_gcc-12.3.0-skylake/readline-8.2-pdugg7/lib/lib
readline.so /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applic
ations/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv/lib/libcurses
.so /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/i
nstall_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv/lib/libform.so /gpfs/
bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/in
stall_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp/lib64/libcaliper.so
.2.11.0 -lpthread -lpthread -ldl -lmpi -Wl,-rpath-link,/gpfs/bbp.c
scs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3
.0-skylake/adiak-0.4.0-hficqq/lib
4561 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4j
v3awn/spack-build-dv2vt52 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4562 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlv
e6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/c35d2f235e0f3
860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7'
4563 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4564 make[3]: xcrun: No such file or directory
4565 Default NMODL flags:
>> 4566 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4567 [NMODL] [error] :: PROTECT statement is not supported with GPU exe
cution
4568 [NMODL] [error] :: PROTECT statement is not supported with GPU exe
cution
4569 [NMODL] [warning] :: SYMTAB :: w [Argument] in ForNetcon shadows <
argument> definition in NetReceiveBlock
4570 [NMODL] [warning] :: SYMTAB :: w [Argument] in ForNetcon shadows <
argument> definition in NetReceiveBlock
4571 [NMODL] [warning] :: SYMTAB :: w [Argument] in ForNetcon shadows <
argument> definition in NetReceiveBlock
4572 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52'
...
4614 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3a
wn/spack-build-dv2vt52/test/nrnivmodl/5b499c48b620b3f996279dafe88f
f900a32797c8807f2acc88ebe24f2d04a100/x86_64/version_macros.cpp
4615 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4j
v3awn/spack-build-dv2vt52 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4616 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlv
e6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/a9c54b18e4b54
351cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff'
4617 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
4618 [ 45%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/Aradi_Na.mod
4619 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-bu
ild-dv2vt52/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/external/tests/red
uced_dentate//mechanisms/Aradi_Na.mod /gpfs/bbp.cscs.ch/ssd/gitlab
_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-
neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt5
22mexsvlve6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/53c4
32f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/Aradi
_Na.mod
>> 4620 make[3]: xcrun: No such file or directory
4621 Default NMODL flags:
>> 4622 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4623 [ 45%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/CaBK.mod
4624 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-bu
ild-dv2vt52/test/external/reduced_dentate && /gpfs/bbp.cscs.ch/ssd
/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cm
ake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.ch
/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build/s
pack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_dev
elop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/external/tests/red
uced_dentate//mechanisms/CaBK.mod /gpfs/bbp.cscs.ch/ssd/gitlab_map
_jobs/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neur
on-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522me
xsvlve6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/53c432f7
080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/CaBK.mod
4625 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4626 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4627 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4628 [ 45%] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96
d387425d200c645a6b4cec93b5edfead/DGC_M.mod
...
4714 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3a
wn/spack-build-dv2vt52/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/capmp.cpp
4715 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3a
wn/spack-build-dv2vt52/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/expsynspine.cpp
4716 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3a
wn/spack-build-dv2vt52/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/fh.cpp
4717 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4j
v3awn/spack-build-dv2vt52 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4718 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlv
e6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/53c432f7080fe
7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead'
4719 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4720 make[3]: xcrun: No such file or directory
4721 Default NMODL flags:
>> 4722 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4723 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4724 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4725 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4726 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4727 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
4728 [NMODL] [warning] :: SYMTAB :: k [Argument] in exp1 shadows <ion>
definition in NMODL_GLOBAL
...
4782 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4783 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4784 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado
ws <extern_neuron_var> definition in NMODL_GLOBAL
4785 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4j
v3awn/spack-build-dv2vt52 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4786 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlv
e6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/b62f97c7d3f6d
905c774d64e10128b3300792f8f757b926b965c058a4d6ee876'
4787 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4788 make[3]: xcrun: No such file or directory
4789 Default NMODL flags:
4790 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmt
vur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/bbd7c82eee28b93121
4a8172bb776ba66c406a6620c807381c850fedcdd74295/x86_64/./special" L
DFLAGS are:
>> 4791 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4792 [NMODL] [warning] :: Can not inline function call to mynormrand
4793 [NMODL] [warning] :: Can not inline function call to mynormrand
4794 [NMODL] [warning] :: Can not inline function call to mynormrand
4795 [NMODL] [warning] :: Can not inline function call to mynormrand
4796 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3a
wn/spack-build-dv2vt52/test/nrnivmodl/263a5c542e063ee6760ce51af8be
262e1c89db6e16b2211fb308c533e45334f2/x86_64/gap.cpp
4797 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit
h cnexp solver
...
4853 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-bu
ild-dv2vt52/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/Ca_HVA.mod /gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spac
k-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d
1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build-dv2vt52
/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6
fd47c3be88641a/Ca_HVA.mod
4854 [ 47%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/Ca_HVA2.mod
4855 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-bu
ild-dv2vt52/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/Ca_HVA2.mod /gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build-dv2vt5
2/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc
6fd47c3be88641a/Ca_HVA2.mod
4856 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4j
v3awn/spack-build-dv2vt52 INCFLAGS=-I/usr/include LINKFLAGS=/usr/l
ib64/libcrypto.so MODS_PATH=x86_64/corenrn/mod2c BUILD_TYPE=STATIC
NRN_PRCELLSTATE=0
4857 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlv
e6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/f7f437ac4f0ea
140e809f1bdd7f7d03201e354b9a2041597f8faaf7fb7aebb7c'
4858 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4859 make[3]: xcrun: No such file or directory
4860 Default NMODL flags:
4861 [ 47%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/Ca_LVAst.mod
4862 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-bu
ild-dv2vt52/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/Ca_LVAst.mod /gpfs/
bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/sp
ack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c6
7d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build-dv2vt
52/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963d
c6fd47c3be88641a/Ca_LVAst.mod
>> 4863 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4864 [NMODL] [warning] :: Can not inline function call to specify_invl
4865 [NMODL] [warning] :: Can not inline function call to specify_invl
4866 [ 47%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/CoreConfig.mod
4867 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-bu
ild-dv2vt52/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/CoreConfig.mod /gpf
s/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/
spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05
c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build-dv2
vt52/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d596
3dc6fd47c3be88641a/CoreConfig.mod
4868 [NMODL] [warning] :: Can not inline function call to specify_invl
4869 [NMODL] [warning] :: Can not inline function call to specify_invl
...
4982 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-bu
ild-dv2vt52/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/kd2.mod /gpfs/bbp.c
scs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-b
uild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a0
86_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build-dv2vt52/te
st/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6fd4
7c3be88641a/kd2.mod
4983 [ 48%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/kdb.mod
4984 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-bu
ild-dv2vt52/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/kdb.mod /gpfs/bbp.c
scs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-b
uild/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a0
86_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build-dv2vt52/te
st/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6fd4
7c3be88641a/kdb.mod
4985 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4j
v3awn/spack-build-dv2vt52 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
4986 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlv
e6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/14c92ceb412f1
b4e766bfda05bec75b2d552a2f4499313751329f0689cf9faab'
4987 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 4988 make[3]: xcrun: No such file or directory
4989 Default NMODL flags:
4990 [ 48%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/kdrbca1.mod
4991 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-bu
ild-dv2vt52/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/kdrbca1.mod /gpfs/b
bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spa
ck-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67
d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build-dv2vt5
2/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc
6fd47c3be88641a/kdrbca1.mod
>> 4992 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
4993 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
4994 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
4995 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
4996 [ 48%] Generating ../../nrnivmodl/3a24bd33c51ee30c68f71d610b146a37
c165552933d5963dc6fd47c3be88641a/kdrca1.mod
4997 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1
321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05
eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-bu
ild-dv2vt52/test/external/channel-benchmark && /gpfs/bbp.cscs.ch/s
sd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/
cmake-3.27.7-slyoes/bin/cmake -E copy_if_different /gpfs/bbp.cscs.
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build
/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_d
evelop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-src/external/tests/c
hannel-benchmark/benchmark/channels/lib/modlib/kdrca1.mod /gpfs/bb
p.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spac
k-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d
1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build-dv2vt52
/test/nrnivmodl/3a24bd33c51ee30c68f71d610b146a37c165552933d5963dc6
fd47c3be88641a/kdrca1.mod
4998 [NMODL] [warning] :: SYMTAB :: step [Argument] in plast shadows <e
xtern_method> definition in NMODL_GLOBAL
...
5042 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmt
vur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/a9c54b18e4b54351cb
4fd3e79067cafa02da4514b4383a54de8ff121657615ff/x86_64/./special" L
DFLAGS are:
5043 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build
-dv2vt52/share/nrn/nrnmain.cpp:
5044 MODOBJS= ./Ca.o ./CaDynamics_DC0.o ./CaDynamics_E2.o ./Ca_HVA.o ./
Ca_HVA2.o ./Ca_LVAst.o ./CoreConfig.o ./Ih.o ./Im.o ./K_Pst.o ./K_
Tst.o ./KdShu2007.o ./NaTa_t.o ./NaTg.o ./NaTs2_t.o ./Nap_Et2.o ./
ProbAMPANMDA_EMS.o ./ProbGABAAB_EMS.o ./ProfileHelper.o ./SK_E2.o
./SKv3_1.o ./TTXDynamicsSwitch.o ./VecStim.o ./cacumm.o ./cacummb.
o ./cagk.o ./cal2.o ./can2.o ./cat.o ./gap.o ./h.o ./halfgap.o ./k
adist.o ./kaprox.o ./kca.o ./kd.o ./kd2.o ./kdb.o ./kdrbca1.o ./kd
rca1.o ./km.o ./kmb.o ./na3n.o ./naxn.o ./netstim_inhpoisson.o ./n
ew_calcium_channels.o
5045 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/share/coreneuron/nrnivmodl_co
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro
j12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e
4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4j
v3awn/spack-build-dv2vt52 MODS_PATH=x86_64/corenrn/mod2c BUILD_TYP
E=STATIC NRN_PRCELLSTATE=0
5046 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs
/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-gi
t.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlv
e6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/3a24bd33c51ee
30c68f71d610b146a37c165552933d5963dc6fd47c3be88641a'
5047 make[3]: warning: -j4 forced in submake: resetting jobserver mode.
>> 5048 make[3]: xcrun: No such file or directory
5049 Default NMODL flags:
>> 5050 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director
y
5051 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: warning: /nvme/bbp
cihpcproj12/2254974/pgcudafatdaDPjIi4zMPk.o: missing .note.GNU-sta
ck section implies executable stack
5052 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: NOTE: This behavio
ur is deprecated and will be removed in a future version of the li
nker
5053 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/a9c54b18e4b543
51cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff/x86_64'
5054 Successfully created x86_64/special
5055 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52'
5056 [ 49%] Built target NRN_TEST_nrnivmodl_a9c54b18e4b54351cb4fd3e7906
7cafa02da4514b4383a54de8ff121657615ff
...
5288 static char* REPORT_CONFIG_FILE = "report.conf";
5289 ^
5290
5291 => LINKING shared library "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/f7f437ac4f0ea1
40e809f1bdd7f7d03201e354b9a2041597f8faaf7fb7aebb7c/x86_64/./libnrn
mech.so"
5292 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmt
vur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/f7f437ac4f0ea140e8
09f1bdd7f7d03201e354b9a2041597f8faaf7fb7aebb7c/x86_64/./special" L
DFLAGS are: /usr/lib64/libcrypto.so
5293 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321
692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa
6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build
-dv2vt52/share/nrn/nrnmain.cpp:
>> 5294 "bacur.cpp", line 373: error: identifier "_globals" is undefined
5295 init ( _threadargs_ ) ;
5296 ^
5297
5298 1 error detected in the compilation of "bacur.cpp".
>> 5299 make[3]: *** [makemod2c_inc:23: bacur.o] Error 2
5300 make[3]: *** Waiting for unfinished jobs....
>> 5301 "banocur.cpp", line 343: error: identifier "_globals" is undefined
5302 init ( _threadargs_ ) ;
5303 ^
5304
5305 1 error detected in the compilation of "banocur.cpp".
>> 5306 make[3]: *** [makemod2c_inc:31: banocur.o] Error 2
>> 5307 "axial_pp.cpp", line 290: error: identifier "_globals" is undefine
d
5308 foo ( _threadargs_ ) ;
5309 ^
5310
5311 1 error detected in the compilation of "axial_pp.cpp".
>> 5312 make[3]: *** [makemod2c_inc:15: axial_pp.o] Error 2
>> 5313 "axial.cpp", line 243: error: identifier "_globals" is undefined
5314 foo ( _threadargs_ ) ;
5315 ^
5316
5317 1 error detected in the compilation of "axial.cpp".
>> 5318 make[3]: *** [makemod2c_inc:7: axial.o] Error 2
5319 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/c35d2f235e0f38
60fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/x86_64'
>> 5320 make[2]: *** [test/CMakeFiles/NRN_TEST_nrnivmodl_c35d2f235e0f3860f
becadf05ec8c2b6901bba2525195c69836276a4b5d88ca7.dir/build.make:106
: test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c698
36276a4b5d88ca7/x86_64/special] Error 2
5321 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52'
>> 5322 make[1]: *** [CMakeFiles/Makefile2:5929: test/CMakeFiles/NRN_TEST_
nrnivmodl_c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4
b5d88ca7.dir/all] Error 2
5323 make[1]: *** Waiting for unfinished jobs....
5324 -> Compiling /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12
/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e4ee
25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3a
wn/spack-build-dv2vt52/test/nrnivmodl/b62f97c7d3f6d905c774d64e1012
8b3300792f8f757b926b965c058a4d6ee876/x86_64/vecevent.cpp
5325 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: warning: /nvme/bbp
cihpcproj12/2254974/pgcudafatXH6PtSng7ezx.o: missing .note.GNU-sta
ck section implies executable stack
5326 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: NOTE: This behavio
ur is deprecated and will be removed in a future version of the li
nker
5327 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/f7f437ac4f0ea1
40e809f1bdd7f7d03201e354b9a2041597f8faaf7fb7aebb7c/x86_64'
5328 Successfully created x86_64/special
...
5405 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: warning: /nvme/bbp
cihpcproj12/2254974/pgcudafatRodQbcZBbgPZ.o: missing .note.GNU-sta
ck section implies executable stack
5406 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: NOTE: This behavio
ur is deprecated and will be removed in a future version of the li
nker
5407 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/b62f97c7d3f6d9
05c774d64e10128b3300792f8f757b926b965c058a4d6ee876/x86_64'
5408 Successfully created x86_64/special
5409 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52'
5410 [ 49%] Built target NRN_TEST_nrnivmodl_b62f97c7d3f6d905c774d64e101
28b3300792f8f757b926b965c058a4d6ee876
>> 5411 "ampanmda.cpp", line 605: error: identifier "_globals" is undefine
d
5412 _args[2] = _args[0] * plast ( _threadargscomma_ _args[1] )
;
5413 ^
5414
5415 1 error detected in the compilation of "ampanmda.cpp".
>> 5416 make[3]: *** [makemod2c_inc:23: ampanmda.o] Error 2
5417 make[3]: *** Waiting for unfinished jobs....
5418 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/14c92ceb412f1b
4e766bfda05bec75b2d552a2f4499313751329f0689cf9faab/x86_64'
>> 5419 make[2]: *** [test/external/olfactory-bulb-3d/CMakeFiles/NRN_TEST_
nrnivmodl_14c92ceb412f1b4e766bfda05bec75b2d552a2f4499313751329f068
9cf9faab.dir/build.make:102: test/nrnivmodl/14c92ceb412f1b4e766bfd
a05bec75b2d552a2f4499313751329f0689cf9faab/x86_64/special] Error 2
5420 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52'
>> 5421 make[1]: *** [CMakeFiles/Makefile2:11803: test/external/olfactory-
bulb-3d/CMakeFiles/NRN_TEST_nrnivmodl_14c92ceb412f1b4e766bfda05bec
75b2d552a2f4499313751329f0689cf9faab.dir/all] Error 2
5422 => LINKING shared library "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/263a5c542e063e
e6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/./libnrn
mech.so"
5423 => LINKING executable "/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc
ihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9b
abea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmt
vur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/263a5c542e063ee676
0ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64/./special" L
DFLAGS are:
5424 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/263a5c542e063e
e6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/x86_64'
5425 Successfully created x86_64/special
5426 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52'
5427 [ 49%] Built target NRN_TEST_nrnivmodl_263a5c542e063ee6760ce51af8b
e262e1c89db6e16b2211fb308c533e45334f2
...
5809 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: NOTE: This behavio
ur is deprecated and will be removed in a future version of the li
nker
5810 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52/test/nrnivmodl/3a24bd33c51ee3
0c68f71d610b146a37c165552933d5963dc6fd47c3be88641a/x86_64'
5811 Successfully created x86_64/special
5812 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52'
5813 [ 49%] Built target NRN_TEST_nrnivmodl_3a24bd33c51ee30c68f71d610b1
46a37c165552933d5963dc6fd47c3be88641a
5814 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/
bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git
.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve
6pmtvur7u4jv3awn/spack-build-dv2vt52'
>> 5815 make: *** [Makefile:169: all] Error 2
See build log for details:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321692/spack-build/spack-stage-neuron-git.e9babea23e4ee25f138bbd05eaa6b05c67d1a086_develop-dv2vt522mexsvlve6pmtvur7u4jv3awn/spack-build-out.txt
$ set +o pipefail
$ chmod -R g+rX "${SPACK_BUILD}"
$ if [[ ${install_failed} == 1 ]]; then exit 1; fi
srun: error: r1i7n20: task 0: Exited with exit code 1
section_end:1718636730:step_script section_start:1718636730:upload_artifacts_on_failure Uploading artifacts for failed job
Using git from spack modules
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=174505 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
initial_environment.env: found 1 matching files and directories
spack-build-env.txt: found 1 matching files and directories
spack-build-out.txt: found 1 matching files and directories
spack-configure-args.txt: found 1 matching files and directories
Uploading artifacts as "archive" to coordinator... ok id=1321692 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=174544 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
Uploading artifacts as "junit" to coordinator... ok id=1321692 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=174585 revision=58ba2b95 version=14.2.0
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
Uploading artifacts as "dotenv" to coordinator... ok id=1321692 responseStatus=201 Created token=glcbt-64
section_end:1718636732:upload_artifacts_on_failure section_start:1718636732:cleanup_file_variables Cleaning up project directory and file based variables
Using git from spack modules
section_end:1718636733:cleanup_file_variables ERROR: Job failed: exit status 1

Raw
build-nmodl.txt
Running with gitlab-runner 15.5.0 (0d4137b8)
 on BB5 map runner pnPo3yJy
section_start:1718634790:resolve_secrets Resolving secrets
section_end:1718634790:resolve_secrets section_start:1718634790:prepare_executor Preparing the "custom" executor
Using Custom executor with driver BB5 PROD runner v0.0.3...
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-executor1124955573, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"]
Runner ID 29, project root hpc, project name nrn
Pipeline ID 217394, build ref , job ID 1321686
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394, optional exclusive flag , optional cpus per task flag --cpus-per-task=8, optional qos flag , optional reservation flag
A slurm job will be created with name GL_J1321686_PROD_P2160_CP0_C2
Job parameters: memory=160G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos= reservation=
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 2254940
job state: R
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1321686_PROD_P2160_CP0_C2 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --time=1:00:00 --wrap="sleep infinity"
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394 --ntasks=2 --jobid=2254940 --cpus-per-task=8 --mem=160G
section_end:1718634791:prepare_executor section_start:1718634791:prepare_script Preparing environment
Using git from spack modules
Running on r1i6n5 via bbpv1.epfl.ch...
section_end:1718634794:prepare_script section_start:1718634794:get_sources Getting source from Git repository
Using git from spack modules
Skipping Git repository setup
Skipping Git checkout
Skipping Git submodules setup
section_end:1718634795:get_sources section_start:1718634795:restore_cache Restoring cache
Using git from spack modules
Checking cache for build:nmodl-1-non_protected...
Runtime platform  arch=amd64 os=linux pid=301657 revision=58ba2b95 version=14.2.0
cache.zip is up to date 
Successfully extracted cache
section_end:1718634801:restore_cache section_start:1718634801:download_artifacts Downloading artifacts
Using git from spack modules
Downloading artifacts for spack_setup (1321684)...
Runtime platform  arch=amd64 os=linux pid=301760 revision=58ba2b95 version=14.2.0
Downloading artifacts from coordinator... ok  id=1321684 responseStatus=200 OK token=glcbt-64
section_end:1718634802:download_artifacts section_start:1718634802:step_script Executing "step_script" stage of the job script
WARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426
Using git from spack modules
$ SPACK_BUILD="${PWD}/spack-build"
$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env
$ . ${SPACK_ROOT}/share/spack/setup-env.sh
$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config
$ mkdir ${SPACK_USER_CONFIG_PATH}
$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command
$ spack ${SPACK_EXTRA_FLAGS} config add concretizer:reuse:false
$ spack ${SPACK_EXTRA_FLAGS} config blame config
--- config:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321686/spack-config/config.yaml:2 build_stage:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321686/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321686/spack-build
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321686/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321686/spack-source-cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/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:7 environments_root: $user_cache_path/environments
/gpfs/bbp.cscs.ch/ssd/apps/bsd//config/config.yaml:9 build_jobs: 8
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:18 extensions:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:37 template_dirs:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:124 checksum: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:129 deprecated: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:134 dirty: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:142 build_language: C
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:151 locks: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:205 shared_linking:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:210 type: rpath
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:216 bind: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:227 install_status: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:233 flags:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:235 keep_werror: none
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:240 aliases:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:241 concretise: concretize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:242 containerise: containerize
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/config.yaml:243 rm: remove
_builtin debug: False
$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer
--- concretizer:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321686/spack-config/concretizer.yaml:2 reuse: False
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:23 targets:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:38 unify: True
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:40 duplicates:
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/J1321684/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal
$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config
$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P217394/J1321686_local_config)
$ mkdir -p "${XDG_CONFIG_HOME}/git"
$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"
$ 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"
$ cat "${XDG_CONFIG_HOME}/git/config"
[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/
$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"
$ echo "Preparing to install ${SPACK_FULL_SPEC}"
Preparing to install nmodl%gcc ~legacy-unit
$ if [ ${SPACK_USE_CCACHE+x} ]; then
$ module load unstable ccache
$ export CCACHE_BASEDIR=$(realpath -P ${CI_BUILDS_DIR})
$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394
$ export CCACHE_MAXSIZE=512M
$ export CCACHE_DIR="${TMPDIR}/ccache"
$ mkdir -p ${CCACHE_DIR}
$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then
$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"
$ fi
$ ccache --zero-stats
Statistics zeroed
$ ccache --show-stats --verbose
Cache directory: /nvme/bbpcihpcproj12/2254940/ccache
Config file: /nvme/bbpcihpcproj12/2254940/ccache/ccache.conf
System config file: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ccache-4.7.4-eompz5/etc/ccache.conf
Stats updated: Mon Jun 17 16:33:27 2024
Local storage:
Cache size (GB): 0.45 / 0.51 (87.17%)
Files: 5119
Hits: 0
Misses: 0
Reads: 0
Writes: 0
$ fi
$ module load unstable git ${SPACK_EXTRA_MODULES}
$ spack ${SPACK_EXTRA_FLAGS} spec -Il ${SPACK_FULL_SPEC}
Input spec
--------------------------------
- nmodl%gcc~legacy-unit
Concretized
--------------------------------
- 53hy2ex nmodl@git.5ff221d045c92389b4cab5ee159d46770aa12665=develop%gcc@12.3.0~ipo~legacy-unit~llvm~llvm_cuda~python~tests build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[e] yn5fbwg ^bison@3.8.2%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] pywly2v ^catch2@3.4.0%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] swjylul ^gmake@4.4.1%gcc@12.3.0~guile build_system=generic arch=linux-rhel7-skylake
[^] ud3echq ^cli11@2.3.2%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[e] b5zzpr3 ^cmake@3.27.7%gcc@12.3.0~doc+ncurses+ownlibs build_system=generic build_type=Release arch=linux-rhel7-skylake
[e] 77vzaxs ^flex@2.6.3%gcc@12.3.0+lex~nls build_system=autotools arch=linux-rhel7-skylake
[^] evtttrh ^fmt@10.1.1%gcc@12.3.0~ipo+pic~shared build_system=cmake build_type=Release cxxstd=11 generator=make arch=linux-rhel7-skylake
[e] omn6mm4 ^ninja@1.11.1%gcc@12.3.0+re2c build_system=generic arch=linux-rhel7-skylake
[^] teske2k ^nlohmann-json@3.9.1%gcc@12.3.0~ipo+multiple_headers build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
[^] 5dylnca ^py-find-libpython@0.3.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 77ku3vv ^py-pip@23.1.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] p3xbqxj ^py-setuptools@68.0.0%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] aj3rk42 ^py-wheel@0.41.2%gcc@12.3.0 build_system=generic arch=linux-rhel7-skylake
[^] 7validy ^py-jinja2@3.1.2%gcc@12.3.0~i18n build_system=python_pip arch=linux-rhel7-skylake
[^] r3ehtmw ^py-markupsafe@2.1.3%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] tabj2mo ^py-pybind11@2.11.1%gcc@12.3.0~ipo build_system=cmake build_type=Release generator=ninja arch=linux-rhel7-skylake
[^] 2inh3rt ^py-pyyaml@5.4.1%gcc@12.3.0+libyaml build_system=python_pip arch=linux-rhel7-skylake
[^] bzl4xcz ^libyaml@0.2.5%gcc@12.3.0 build_system=autotools arch=linux-rhel7-skylake
[^] t5tovex ^py-sympy@1.11.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 4fflyib ^py-mpmath@1.2.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] sokbfzv ^py-setuptools-scm@8.0.4%gcc@12.3.0+toml build_system=python_pip arch=linux-rhel7-skylake
[e] 2sazdxk ^git@2.42.0%gcc@12.3.0+man+nls+perl+subtree~svn~tcltk build_system=autotools arch=linux-rhel7-skylake
[^] uqml2to ^py-packaging@23.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] h6f6feu ^py-flit-core@3.9.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] xwl5l6q ^py-tomli@2.0.1%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[^] 275jtek ^py-typing-extensions@4.8.0%gcc@12.3.0 build_system=python_pip arch=linux-rhel7-skylake
[e] 5wl76vp ^python@3.11.6%gcc@12.3.0+bz2+crypt+ctypes+dbm~debug+libxml2+lzma~nis~optimizations+pic+pyexpat+pythoncmd+readline+shared+sqlite3+ssl~tkinter+uuid+zlib build_system=generic patches=13fa8bf,b0615b2,ebdca64,f2fd060 arch=linux-rhel7-skylake
[^] ihotvbs ^spdlog@1.12.0%gcc@12.3.0+fmt_external~ipo+shared build_system=cmake build_type=Release generator=make arch=linux-rhel7-skylake
$ set -o pipefail
$ (spack ${SPACK_EXTRA_FLAGS} install --overwrite -y -j${SLURM_CPUS_PER_TASK} --log-format=junit --log-file=${CI_PROJECT_DIR}/install.xml --keep-stage ${SPACK_FULL_SPEC} | tee log) || install_failed=1
==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394, but it is owned by 0
==> bison@3.8.2 : has external module in ['bison/3.8.2']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/bison-3.8.2-qcx3sg (external bison-3.8.2-yn5fbwgteilgqg6b62shkhkjg3hlwmrq)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/catch2-3.4.0-pywly2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/cli11-2.3.2-ud3ech
==> cmake@3.27.7 : has external module in ['cmake/3.27.7']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes (external cmake-3.27.7-b5zzpr3mwm7jxv6bvvrs6zpeg62cfhbu)
==> flex@2.6.3 : has external module in ['flex/2.6.3']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/flex-2.6.3-edx4lf (external flex-2.6.3-77vzaxsa3g7wr3omktr4skpetx5ds4pt)
==> ninja@1.11.1 : has external module in ['ninja/1.11.1']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ninja-1.11.1-nxtlgo (external ninja-1.11.1-omn6mm4a3zsbpbkptvdwxs6kkrh6yafw)
==> python@3.11.6 : has external module in ['python/3.11.6']
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m (external python-3.11.6-5wl76vphfvpcapfaipipf7xn2xylnc4o)
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libyaml-0.2.5-bzl4xc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/fmt-10.1.1-evtttr
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/nlohmann-json-3.9.1-teske2
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-markupsafe-2.1.3-r3ehtm
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-find-libpython-0.3.1-5dylnc
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pybind11-2.11.1-tabj2m
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpmath-1.2.1-4fflyi
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pyyaml-5.4.1-2inh3r
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/spdlog-1.12.0-ihotvb
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-sympy-1.11.1-t5tove
==> Installing nmodl-git.5ff221d045c92389b4cab5ee159d46770aa12665=develop-53hy2ex7xntc24cnbuojh6rrc3l2auap [19/19]
==> No binary for nmodl-git.5ff221d045c92389b4cab5ee159d46770aa12665=develop-53hy2ex7xntc24cnbuojh6rrc3l2auap found: installing from source
==> No patches needed for nmodl
==> nmodl: Executing phase: 'cmake'
==> nmodl: Executing phase: 'build'
==> nmodl: Executing phase: 'install'
==> nmodl: Successfully installed nmodl-git.5ff221d045c92389b4cab5ee159d46770aa12665=develop-53hy2ex7xntc24cnbuojh6rrc3l2auap
Stage: 1m 12.75s. Cmake: 2.53s. Build: 1m 36.45s. Install: 1.40s. Post-install: 0.35s. Total: 2m 53.70s
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P217394/software/install_gcc-12.3.0-skylake/nmodl-git.5ff221d045c92389b4cab5ee159d46770aa12665_develop-53hy2e
$ set +o pipefail
$ chmod -R g+rX "${SPACK_BUILD}"
$ if [[ ${install_failed} == 1 ]]; then exit 1; fi
$ SPACK_INSTALLED_HASH=$(spack ${SPACK_EXTRA_FLAGS} find --format "{hash}" /$(sed -ne '${s/.*-//;p}' log))
$ echo "Determined the installed hash to be ${SPACK_INSTALLED_HASH}"
Determined the installed hash to be 53hy2ex7xntc24cnbuojh6rrc3l2auap
$ SPACK_STAGE_DIR=$(spack location -s "${SPACK_FULL_SPEC}")
$ SPACK_BUILD_DIR=$(spack location -b "${SPACK_FULL_SPEC}")
$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src
$ if [ ${SPACK_USE_CCACHE+x} ]; then
$ ccache --cleanup
$ ccache --show-stats --verbose
Cache directory: /nvme/bbpcihpcproj12/2254940/ccache
Config file: /nvme/bbpcihpcproj12/2254940/ccache/ccache.conf
System config file: /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ccache-4.7.4-eompz5/etc/ccache.conf
Stats updated: Mon Jun 17 16:38:32 2024
Cacheable calls: 138 / 165 (83.64%)
Hits: 136 / 138 (98.55%)
Direct: 28 / 136 (20.59%)
Preprocessed: 108 / 136 (79.41%)
Misses: 2 / 138 ( 1.45%)
Uncacheable calls: 27 / 165 (16.36%)
Called for linking: 24 / 27 (88.89%)
No input file: 3 / 27 (11.11%)
Successful lookups:
Direct: 28 / 138 (20.29%)
Preprocessed: 108 / 110 (98.18%)
Local storage:
Cache size (GB): 0.45 / 0.51 (87.18%)
Files: 5123
Hits: 136 / 138 (98.55%)
Misses: 2 / 138 ( 1.45%)
Reads: 276
Writes: 4
$ tar -C "${CCACHE_DIR}" -cf "${CI_PROJECT_DIR}/ccache.tar" .
$ fi
$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt
$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/
$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env
$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env
$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env
$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env
$ SPACK_PACKAGE_SLUGIFY=$(echo -n ${SPACK_PACKAGE} | tr -c '[:alnum:]' '_' | tr '[:lower:]' '[:upper:]')
$ echo "${SPACK_PACKAGE_SLUGIFY}_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env
$ echo "SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB=^/${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env
$ 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')))")
$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi
section_end:1718635113:step_script section_start:1718635113:archive_cache Saving cache for successful job
Using git from spack modules
Creating cache build:nmodl-1-non_protected...
Runtime platform  arch=amd64 os=linux pid=1703 revision=58ba2b95 version=14.2.0
ccache.tar: found 1 matching files and directories
Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/2160/build%3Anmodl-1-non_protected
Created cache
section_end:1718635136:archive_cache section_start:1718635136:upload_artifacts_on_success Uploading artifacts for successful job
Using git from spack modules
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=1870 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
initial_environment.env: found 1 matching files and directories
spack-build-env.txt: found 1 matching files and directories
spack-build-out.txt: found 1 matching files and directories
spack-configure-args.txt: found 1 matching files and directories
Uploading artifacts as "archive" to coordinator... ok id=1321686 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=1911 revision=58ba2b95 version=14.2.0
install.xml: found 1 matching files and directories
Uploading artifacts as "junit" to coordinator... ok id=1321686 responseStatus=201 Created token=glcbt-64
Uploading artifacts...
Runtime platform  arch=amd64 os=linux pid=1954 revision=58ba2b95 version=14.2.0
spack_build_info.env: found 1 matching files and directories
spack_clone_variables.env: found 1 matching files and directories
Uploading artifacts as "dotenv" to coordinator... ok id=1321686 responseStatus=201 Created token=glcbt-64
section_end:1718635138:upload_artifacts_on_success section_start:1718635138:cleanup_file_variables Cleaning up project directory and file based variables
Using git from spack modules
section_end:1718635139:cleanup_file_variables Job succeeded
Raw
mac-m1-cmake-build-cmake-on-off-off-address.txt
This file has been truncated, but you can view the full file.
Running with gitlab-runner 15.4.0 (43b2dc3d)
 on macos-arm64 vGzz-bdp
section_start:1718634675:resolve_secrets Resolving secrets
section_end:1718634675:resolve_secrets section_start:1718634675:prepare_executor Preparing the "shell" executor
Using Shell executor...
section_end:1718634675:prepare_executor section_start:1718634675:prepare_script Preparing environment
Running on bbpmacglr01.bbp.epfl.ch...
section_end:1718634675:prepare_script section_start:1718634675:get_sources Getting source from Git repository
Fetching changes with git depth set to 20...
Initialized empty Git repository in /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/.git/
Created fresh repository.
Checking out e9babea2 as cornu/use_globals...
Skipping Git submodules setup
section_end:1718634677:get_sources section_start:1718634677:restore_cache Restoring cache
Checking cache for mac_m1_cmake_build: [cmake, ON, OFF, OFF, address]-cornu/use_globals-1-non_protected...
Runtime platform  arch=arm64 os=darwin pid=2798 revision=43b2dc3d version=15.4.0
No URL provided, cache will not be downloaded from shared cache server. Instead a local version of cache will be extracted.
Successfully extracted cache
section_end:1718634677:restore_cache section_start:1718634677:step_script Executing "step_script" stage of the job script
$ cat > resolve_shim.py << END_SCRIPT # collapsed multi-line command
$ real_python=$(python3 resolve_shim.py)
$ echo "python3=$(command -v python3) is really ${real_python}"
python3=/opt/homebrew/bin/python3 is really /opt/homebrew/Cellar/python@3.10/3.10.13_1/Frameworks/Python.framework/Versions/3.10/Resources/Python.app/Contents/MacOS/Python
$ PYTHONEXECUTABLE=${real_python} ${real_python} -mvenv venv
$ venv/bin/python3 -m ensurepip --upgrade --default-pip
Looking in links: /var/folders/dm/mrnbn5ld56v61w1_hpbmskfw0000gp/T/tmpgwa1mzf7
Processing /private/var/folders/dm/mrnbn5ld56v61w1_hpbmskfw0000gp/T/tmpgwa1mzf7/setuptools-68.2.2-py3-none-any.whl
Processing /private/var/folders/dm/mrnbn5ld56v61w1_hpbmskfw0000gp/T/tmpgwa1mzf7/pip-23.3.1-py3-none-any.whl
Installing collected packages: setuptools, pip
Successfully installed pip-23.3.1 setuptools-68.2.2
$ git submodule update --init --recursive --force --depth 1 -- external/nmodl
Submodule 'external/nmodl' (https://github.com/BlueBrain/nmodl) registered for path 'external/nmodl'
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/nmodl'...
From https://github.com/BlueBrain/nmodl
* branch 70553cc4d9092aafed42aa49ac4e730830af1124 -> FETCH_HEAD
Submodule path 'external/nmodl': checked out '70553cc4d9092aafed42aa49ac4e730830af1124'
Submodule 'cmake/hpc-coding-conventions' (https://github.com/BlueBrain/hpc-coding-conventions.git) registered for path 'external/nmodl/cmake/hpc-coding-conventions'
Submodule 'ext/backward' (https://github.com/bombela/backward-cpp.git) registered for path 'external/nmodl/ext/backward'
Submodule 'ext/catch2' (https://github.com/catchorg/Catch2.git) registered for path 'external/nmodl/ext/catch2'
Submodule 'ext/cli11' (https://github.com/CLIUtils/CLI11.git) registered for path 'external/nmodl/ext/cli11'
Submodule 'ext/eigen' (https://gitlab.com/libeigen/eigen.git) registered for path 'external/nmodl/ext/eigen'
Submodule 'ext/fmt' (https://github.com/fmtlib/fmt.git) registered for path 'external/nmodl/ext/fmt'
Submodule 'ext/json' (https://github.com/nlohmann/json.git) registered for path 'external/nmodl/ext/json'
Submodule 'ext/pybind11' (https://github.com/pybind/pybind11.git) registered for path 'external/nmodl/ext/pybind11'
Submodule 'ext/spdlog' (https://github.com/gabime/spdlog) registered for path 'external/nmodl/ext/spdlog'
Submodule 'test/usecases/references' (https://github.com/BlueBrain/nmodl-references.git) registered for path 'external/nmodl/test/usecases/references'
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/nmodl/cmake/hpc-coding-conventions'...
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/nmodl/ext/backward'...
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/nmodl/ext/catch2'...
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/nmodl/ext/cli11'...
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/nmodl/ext/eigen'...
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/nmodl/ext/fmt'...
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/nmodl/ext/json'...
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/nmodl/ext/pybind11'...
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/nmodl/ext/spdlog'...
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/nmodl/test/usecases/references'...
Submodule path 'external/nmodl/cmake/hpc-coding-conventions': checked out '8f8115597817365c5c4fa39e217b3ab0b3640cb2'
Submodule path 'external/nmodl/ext/backward': checked out '51f0700452cf71c57d43c2d028277b24cde32502'
From https://github.com/catchorg/Catch2
* branch 8ac8190e494a381072c89f5e161b92a08d98b37b -> FETCH_HEAD
Submodule path 'external/nmodl/ext/catch2': checked out '8ac8190e494a381072c89f5e161b92a08d98b37b'
From https://github.com/CLIUtils/CLI11
* branch f4d0731cebb123ff0ace712c099dffbcd2c58e5a -> FETCH_HEAD
Submodule path 'external/nmodl/ext/cli11': checked out 'f4d0731cebb123ff0ace712c099dffbcd2c58e5a'
From https://gitlab.com/libeigen/eigen
* branch 3147391d946bb4b6c68edd901f2add6ac1f31f8c -> FETCH_HEAD
Submodule path 'external/nmodl/ext/eigen': checked out '3147391d946bb4b6c68edd901f2add6ac1f31f8c'
From https://github.com/fmtlib/fmt
* branch e69e5f977d458f2650bb346dadf2ad30c5320281 -> FETCH_HEAD
Submodule path 'external/nmodl/ext/fmt': checked out 'e69e5f977d458f2650bb346dadf2ad30c5320281'
From https://github.com/nlohmann/json
* branch 9cca280a4d0ccf0c08f47a99aa71d1b0e52f8d03 -> FETCH_HEAD
Submodule path 'external/nmodl/ext/json': checked out '9cca280a4d0ccf0c08f47a99aa71d1b0e52f8d03'
From https://github.com/pybind/pybind11
* branch 8a099e44b3d5f85b20f05828d919d2332a8de841 -> FETCH_HEAD
Submodule path 'external/nmodl/ext/pybind11': checked out '8a099e44b3d5f85b20f05828d919d2332a8de841'
From https://github.com/gabime/spdlog
* branch 7c02e204c92545f869e2f04edaab1f19fe8b19fd -> FETCH_HEAD
Submodule path 'external/nmodl/ext/spdlog': checked out '7c02e204c92545f869e2f04edaab1f19fe8b19fd'
From https://github.com/BlueBrain/nmodl-references
* branch c9f0aaa9270e9a49598c5424ad03eaa48a7eec47 -> FETCH_HEAD
Submodule path 'external/nmodl/test/usecases/references': checked out 'c9f0aaa9270e9a49598c5424ad03eaa48a7eec47'
$ venv/bin/pip install --upgrade -r external/nmodl/requirements.txt
Ignoring importlib-metadata: markers 'python_version < "3.9"' don't match your environment
Ignoring importlib-resources: markers 'python_version < "3.9"' don't match your environment
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Collecting MarkupSafe>=2.0 (from Jinja2>=2.9.3->-r external/nmodl/requirements.txt (line 4))
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Collecting mpmath<1.4.0,>=1.1.0 (from sympy>=1.3->-r external/nmodl/requirements.txt (line 8))
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Collecting coverage>=5.2.1 (from coverage[toml]>=5.2.1->pytest-cov->-r external/nmodl/requirements.txt (line 13))
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Collecting jupyter-core!=5.0.*,>=4.12 (from jupyter-client->-r external/nmodl/requirements.txt (line 16))
Using cached jupyter_core-5.7.2-py3-none-any.whl.metadata (3.4 kB)
Collecting python-dateutil>=2.8.2 (from jupyter-client->-r external/nmodl/requirements.txt (line 16))
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Collecting pyzmq>=23.0 (from jupyter-client->-r external/nmodl/requirements.txt (line 16))
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Collecting tornado>=6.2 (from jupyter-client->-r external/nmodl/requirements.txt (line 16))
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Collecting mdit-py-plugins~=0.3.4 (from myst_parser<2.0.0->-r external/nmodl/requirements.txt (line 18))
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Collecting six>=1.9.0 (from bleach!=5.0.0->nbconvert->-r external/nmodl/requirements.txt (line 20))
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Using cached types_python_dateutil-2.9.0.20240316-py3-none-any.whl (9.7 kB)
Installing collected packages: webencodings, wcwidth, snowballstemmer, pure-eval, ptyprocess, mpmath, mistune, find_libpython, fastjsonschema, widgetsnbextension, websocket-client, webcolors, urllib3, uri-template, typing-extensions, types-python-dateutil, traitlets, tornado, tomli, tinycss2, sympy, sphinxcontrib-serializinghtml, sphinxcontrib-qthelp, sphinxcontrib-jsmath, sphinxcontrib-htmlhelp, sphinxcontrib-devhelp, sphinxcontrib-applehelp, soupsieve, sniffio, six, send2trash, rpds-py, rfc3986-validator, pyzmq, PyYAML, python-json-logger, pygments, pycparser, psutil, prompt-toolkit, prometheus-client, pluggy, platformdirs, pexpect, pathspec, parso, pandocfilters, packaging, overrides, numpy, nest-asyncio, mdurl, MarkupSafe, jupyterlab-widgets, jupyterlab-pygments, jsonpointer, json5, iniconfig, imagesize, idna, h11, fqdn, executing, exceptiongroup, docutils, defusedxml, decorator, debugpy, coverage, charset-normalizer, certifi, babel, attrs, appnope, alabaster, terminado, setuptools-scm, scikit-build-core, rfc3339-validator, requests, referencing, qtpy, python-dateutil, pytest, matplotlib-inline, markdown-it-py, jupyter-core, Jinja2, jedi, httpcore, comm, cffi, bleach, beautifulsoup4, async-lru, asttokens, anyio, stack-data, sphinx, pytest-cov, mdit-py-plugins, jupyter-server-terminals, jupyter-client, jsonschema-specifications, httpx, arrow, argon2-cffi-bindings, sphinxcontrib-jquery, myst_parser, jsonschema, isoduration, ipython, argon2-cffi, sphinx-rtd-theme, nbformat, ipywidgets, ipykernel, qtconsole, nbclient, jupyter-events, jupyter-console, nbconvert, nbsphinx, jupyter-server, notebook-shim, jupyterlab-server, jupyter-lsp, jupyterlab, notebook, jupyter
Successfully installed Jinja2-3.1.4 MarkupSafe-2.1.5 PyYAML-6.0.1 alabaster-0.7.16 anyio-4.4.0 appnope-0.1.4 argon2-cffi-23.1.0 argon2-cffi-bindings-21.2.0 arrow-1.3.0 asttokens-2.4.1 async-lru-2.0.4 attrs-23.2.0 babel-2.15.0 beautifulsoup4-4.12.3 bleach-6.1.0 certifi-2024.6.2 cffi-1.16.0 charset-normalizer-3.3.2 comm-0.2.2 coverage-7.5.3 debugpy-1.8.1 decorator-5.1.1 defusedxml-0.7.1 docutils-0.19 exceptiongroup-1.2.1 executing-2.0.1 fastjsonschema-2.20.0 find_libpython-0.4.0 fqdn-1.5.1 h11-0.14.0 httpcore-1.0.5 httpx-0.27.0 idna-3.7 imagesize-1.4.1 iniconfig-2.0.0 ipykernel-6.29.4 ipython-8.25.0 ipywidgets-8.1.3 isoduration-20.11.0 jedi-0.19.1 json5-0.9.25 jsonpointer-3.0.0 jsonschema-4.22.0 jsonschema-specifications-2023.12.1 jupyter-1.0.0 jupyter-client-8.6.2 jupyter-console-6.6.3 jupyter-core-5.7.2 jupyter-events-0.10.0 jupyter-lsp-2.2.5 jupyter-server-2.14.1 jupyter-server-terminals-0.5.3 jupyterlab-4.2.2 jupyterlab-pygments-0.3.0 jupyterlab-server-2.27.2 jupyterlab-widgets-3.0.11 markdown-it-py-2.2.0 matplotlib-inline-0.1.7 mdit-py-plugins-0.3.5 mdurl-0.1.2 mistune-2.0.5 mpmath-1.3.0 myst_parser-1.0.0 nbclient-0.10.0 nbconvert-7.16.4 nbformat-5.10.4 nbsphinx-0.9.4 nest-asyncio-1.6.0 notebook-7.2.1 notebook-shim-0.2.4 numpy-2.0.0 overrides-7.7.0 packaging-24.1 pandocfilters-1.5.1 parso-0.8.4 pathspec-0.12.1 pexpect-4.9.0 platformdirs-4.2.2 pluggy-1.5.0 prometheus-client-0.20.0 prompt-toolkit-3.0.47 psutil-5.9.8 ptyprocess-0.7.0 pure-eval-0.2.2 pycparser-2.22 pygments-2.18.0 pytest-8.1.1 pytest-cov-5.0.0 python-dateutil-2.9.0.post0 python-json-logger-2.0.7 pyzmq-26.0.3 qtconsole-5.5.2 qtpy-2.4.1 referencing-0.35.1 requests-2.32.3 rfc3339-validator-0.1.4 rfc3986-validator-0.1.1 rpds-py-0.18.1 scikit-build-core-0.9.6 send2trash-1.8.3 setuptools-scm-8.1.0 six-1.16.0 sniffio-1.3.1 snowballstemmer-2.2.0 soupsieve-2.5 sphinx-5.3.0 sphinx-rtd-theme-2.0.0 sphinxcontrib-applehelp-1.0.2 sphinxcontrib-devhelp-1.0.6 sphinxcontrib-htmlhelp-2.0.0 sphinxcontrib-jquery-4.1 sphinxcontrib-jsmath-1.0.1 sphinxcontrib-qthelp-1.0.7 sphinxcontrib-serializinghtml-1.1.10 stack-data-0.6.3 sympy-1.12.1 terminado-0.18.1 tinycss2-1.3.0 tomli-2.0.1 tornado-6.4.1 traitlets-5.14.3 types-python-dateutil-2.9.0.20240316 typing-extensions-4.12.2 uri-template-1.3.0 urllib3-2.2.2 wcwidth-0.2.13 webcolors-24.6.0 webencodings-0.5.1 websocket-client-1.8.0 widgetsnbextension-4.0.11
[notice] A new release of pip is available: 23.3.1 -> 24.0
[notice] To update, run: /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/venv/bin/python3 -m pip install --upgrade pip
$ venv/bin/pip install --upgrade pip -r nrn_requirements.txt
Requirement already satisfied: pip in ./venv/lib/python3.10/site-packages (23.3.1)
Collecting pip
Using cached pip-24.0-py3-none-any.whl.metadata (3.6 kB)
Collecting wheel (from -r nrn_requirements.txt (line 1))
Using cached wheel-0.43.0-py3-none-any.whl.metadata (2.2 kB)
Requirement already satisfied: setuptools in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 2)) (68.2.2)
Collecting setuptools (from -r nrn_requirements.txt (line 2))
Using cached setuptools-70.0.0-py3-none-any.whl.metadata (5.9 kB)
Requirement already satisfied: setuptools_scm in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 3)) (8.1.0)
Collecting scikit-build (from -r nrn_requirements.txt (line 4))
Using cached scikit_build-0.17.6-py3-none-any.whl.metadata (14 kB)
Collecting matplotlib (from -r nrn_requirements.txt (line 5))
Using cached matplotlib-3.9.0-cp310-cp310-macosx_11_0_arm64.whl.metadata (11 kB)
Collecting bokeh<3 (from -r nrn_requirements.txt (line 7))
Using cached bokeh-2.4.3-py3-none-any.whl.metadata (14 kB)
Requirement already satisfied: ipython in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 8)) (8.25.0)
Collecting cython<3 (from -r nrn_requirements.txt (line 9))
Using cached Cython-0.29.37-py2.py3-none-any.whl.metadata (3.1 kB)
Requirement already satisfied: packaging in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 10)) (24.1)
Requirement already satisfied: pytest<=8.1.1 in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 11)) (8.1.1)
Requirement already satisfied: pytest-cov in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 12)) (5.0.0)
Collecting mpi4py (from -r nrn_requirements.txt (line 13))
Using cached mpi4py-3.1.6-cp310-cp310-macosx_12_0_arm64.whl
Collecting numpy<2 (from -r nrn_requirements.txt (line 14))
Using cached numpy-1.26.4-cp310-cp310-macosx_11_0_arm64.whl.metadata (61 kB)
Requirement already satisfied: find_libpython in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 15)) (0.4.0)
Requirement already satisfied: tomli>=1 in ./venv/lib/python3.10/site-packages (from setuptools_scm->-r nrn_requirements.txt (line 3)) (2.0.1)
Collecting distro (from scikit-build->-r nrn_requirements.txt (line 4))
Using cached distro-1.9.0-py3-none-any.whl.metadata (6.8 kB)
Collecting contourpy>=1.0.1 (from matplotlib->-r nrn_requirements.txt (line 5))
Using cached contourpy-1.2.1-cp310-cp310-macosx_11_0_arm64.whl.metadata (5.8 kB)
Collecting cycler>=0.10 (from matplotlib->-r nrn_requirements.txt (line 5))
Using cached cycler-0.12.1-py3-none-any.whl.metadata (3.8 kB)
Collecting fonttools>=4.22.0 (from matplotlib->-r nrn_requirements.txt (line 5))
Using cached fonttools-4.53.0-cp310-cp310-macosx_11_0_arm64.whl.metadata (162 kB)
Collecting kiwisolver>=1.3.1 (from matplotlib->-r nrn_requirements.txt (line 5))
Using cached kiwisolver-1.4.5-cp310-cp310-macosx_11_0_arm64.whl.metadata (6.4 kB)
Collecting pillow>=8 (from matplotlib->-r nrn_requirements.txt (line 5))
Using cached pillow-10.3.0-cp310-cp310-macosx_11_0_arm64.whl.metadata (9.2 kB)
Collecting pyparsing>=2.3.1 (from matplotlib->-r nrn_requirements.txt (line 5))
Using cached pyparsing-3.1.2-py3-none-any.whl.metadata (5.1 kB)
Requirement already satisfied: python-dateutil>=2.7 in ./venv/lib/python3.10/site-packages (from matplotlib->-r nrn_requirements.txt (line 5)) (2.9.0.post0)
Requirement already satisfied: Jinja2>=2.9 in ./venv/lib/python3.10/site-packages (from bokeh<3->-r nrn_requirements.txt (line 7)) (3.1.4)
Requirement already satisfied: PyYAML>=3.10 in ./venv/lib/python3.10/site-packages (from bokeh<3->-r nrn_requirements.txt (line 7)) (6.0.1)
Requirement already satisfied: tornado>=5.1 in ./venv/lib/python3.10/site-packages (from bokeh<3->-r nrn_requirements.txt (line 7)) (6.4.1)
Requirement already satisfied: typing-extensions>=3.10.0 in ./venv/lib/python3.10/site-packages (from bokeh<3->-r nrn_requirements.txt (line 7)) (4.12.2)
Requirement already satisfied: decorator in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 8)) (5.1.1)
Requirement already satisfied: jedi>=0.16 in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 8)) (0.19.1)
Requirement already satisfied: matplotlib-inline in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 8)) (0.1.7)
Requirement already satisfied: prompt-toolkit<3.1.0,>=3.0.41 in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 8)) (3.0.47)
Requirement already satisfied: pygments>=2.4.0 in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 8)) (2.18.0)
Requirement already satisfied: stack-data in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 8)) (0.6.3)
Requirement already satisfied: traitlets>=5.13.0 in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 8)) (5.14.3)
Requirement already satisfied: exceptiongroup in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 8)) (1.2.1)
Requirement already satisfied: pexpect>4.3 in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 8)) (4.9.0)
Requirement already satisfied: iniconfig in ./venv/lib/python3.10/site-packages (from pytest<=8.1.1->-r nrn_requirements.txt (line 11)) (2.0.0)
Requirement already satisfied: pluggy<2.0,>=1.4 in ./venv/lib/python3.10/site-packages (from pytest<=8.1.1->-r nrn_requirements.txt (line 11)) (1.5.0)
Requirement already satisfied: coverage>=5.2.1 in ./venv/lib/python3.10/site-packages (from coverage[toml]>=5.2.1->pytest-cov->-r nrn_requirements.txt (line 12)) (7.5.3)
Requirement already satisfied: parso<0.9.0,>=0.8.3 in ./venv/lib/python3.10/site-packages (from jedi>=0.16->ipython->-r nrn_requirements.txt (line 8)) (0.8.4)
Requirement already satisfied: MarkupSafe>=2.0 in ./venv/lib/python3.10/site-packages (from Jinja2>=2.9->bokeh<3->-r nrn_requirements.txt (line 7)) (2.1.5)
Requirement already satisfied: ptyprocess>=0.5 in ./venv/lib/python3.10/site-packages (from pexpect>4.3->ipython->-r nrn_requirements.txt (line 8)) (0.7.0)
Requirement already satisfied: wcwidth in ./venv/lib/python3.10/site-packages (from prompt-toolkit<3.1.0,>=3.0.41->ipython->-r nrn_requirements.txt (line 8)) (0.2.13)
Requirement already satisfied: six>=1.5 in ./venv/lib/python3.10/site-packages (from python-dateutil>=2.7->matplotlib->-r nrn_requirements.txt (line 5)) (1.16.0)
Requirement already satisfied: executing>=1.2.0 in ./venv/lib/python3.10/site-packages (from stack-data->ipython->-r nrn_requirements.txt (line 8)) (2.0.1)
Requirement already satisfied: asttokens>=2.1.0 in ./venv/lib/python3.10/site-packages (from stack-data->ipython->-r nrn_requirements.txt (line 8)) (2.4.1)
Requirement already satisfied: pure-eval in ./venv/lib/python3.10/site-packages (from stack-data->ipython->-r nrn_requirements.txt (line 8)) (0.2.2)
Using cached pip-24.0-py3-none-any.whl (2.1 MB)
Using cached wheel-0.43.0-py3-none-any.whl (65 kB)
Using cached setuptools-70.0.0-py3-none-any.whl (863 kB)
Using cached scikit_build-0.17.6-py3-none-any.whl (84 kB)
Using cached matplotlib-3.9.0-cp310-cp310-macosx_11_0_arm64.whl (7.8 MB)
Using cached bokeh-2.4.3-py3-none-any.whl (18.5 MB)
Using cached Cython-0.29.37-py2.py3-none-any.whl (989 kB)
Using cached numpy-1.26.4-cp310-cp310-macosx_11_0_arm64.whl (14.0 MB)
Using cached contourpy-1.2.1-cp310-cp310-macosx_11_0_arm64.whl (244 kB)
Using cached cycler-0.12.1-py3-none-any.whl (8.3 kB)
Using cached fonttools-4.53.0-cp310-cp310-macosx_11_0_arm64.whl (2.2 MB)
Using cached kiwisolver-1.4.5-cp310-cp310-macosx_11_0_arm64.whl (66 kB)
Using cached pillow-10.3.0-cp310-cp310-macosx_11_0_arm64.whl (3.4 MB)
Using cached pyparsing-3.1.2-py3-none-any.whl (103 kB)
Using cached distro-1.9.0-py3-none-any.whl (20 kB)
Installing collected packages: wheel, setuptools, pyparsing, pip, pillow, numpy, mpi4py, kiwisolver, fonttools, distro, cython, cycler, scikit-build, contourpy, bokeh, matplotlib
Attempting uninstall: setuptools
Found existing installation: setuptools 68.2.2
Uninstalling setuptools-68.2.2:
Successfully uninstalled setuptools-68.2.2
Attempting uninstall: pip
Found existing installation: pip 23.3.1
Uninstalling pip-23.3.1:
Successfully uninstalled pip-23.3.1
Attempting uninstall: numpy
Found existing installation: numpy 2.0.0
Uninstalling numpy-2.0.0:
Successfully uninstalled numpy-2.0.0
Successfully installed bokeh-2.4.3 contourpy-1.2.1 cycler-0.12.1 cython-0.29.37 distro-1.9.0 fonttools-4.53.0 kiwisolver-1.4.5 matplotlib-3.9.0 mpi4py-3.1.6 numpy-1.26.4 pillow-10.3.0 pip-24.0 pyparsing-3.1.2 scikit-build-0.17.6 setuptools-70.0.0 wheel-0.43.0
$ source ./venv/bin/activate
$ export PYTHON=${PWD}/venv/bin/python
$ ${PYTHON} --version
Python 3.10.13
$ ${PYTHON} -c "import os,matplotlib; f = open(os.path.join(os.path.dirname(matplotlib.__file__), \"mpl-data/matplotlibrc\"),\"a\"); f.write(\"backend: TkAgg\");f.close();"
$ export CXX=${CXX:-g++}
$ export CC=${CC:-gcc}
$ brew install flex bison
Warning: flex 2.6.4_2 is already installed and up-to-date.
To reinstall 2.6.4_2, run:
brew reinstall flex
Warning: bison 3.8.2 is already installed and up-to-date.
To reinstall 3.8.2, run:
brew reinstall bison
$ export PATH="/opt/homebrew/opt/flex/bin:/opt/homebrew/opt/bison/bin:$PATH"
$ export INSTALL_DIR=$(pwd)/install
$ echo $LANG
$ echo $LC_ALL
$ export PYTHONPATH=$(${PYTHON} -c "import site; print(\":\".join(site.getsitepackages()))")
$ ${PYTHON} -c 'import os,sys; os.set_blocking(sys.stdout.fileno(), True)'
$ cmake_args=(-G Ninja)
$ if [[ -n "${sanitizer}" ]]; then
$ cmake_args+=(-DCMAKE_BUILD_TYPE=Custom -DCMAKE_C_FLAGS="-O1 -g" -DCMAKE_CXX_FLAGS="-O1 -g" -DNRN_SANITIZERS=$(echo ${sanitizer} | sed -e 's/-/,/g'))
$ fi
$ cmake_args+=(-DCMAKE_C_COMPILER="${CC}" -DCMAKE_C_COMPILER_LAUNCHER=ccache -DCMAKE_CXX_COMPILER="${CXX}" -DCMAKE_CXX_COMPILER_LAUNCHER=ccache -DCMAKE_INSTALL_PREFIX="${INSTALL_DIR}" -DNRN_ENABLE_TESTS=ON -DNRN_ENABLE_PERFORMANCE_TESTS=OFF -DNRN_ENABLE_CORENEURON=${cmake_coreneuron} -DNRN_ENABLE_INTERVIEWS=${cmake_interviews} -DNRN_ENABLE_RX3D=${cmake_rx3d})
$ cmake_args+=(-DPYTHON_EXECUTABLE="${PYTHON}")
$ mkdir build && cd build
$ echo "Building with ${cmake_args[@]}"
Building with -G Ninja -DCMAKE_BUILD_TYPE=Custom -DCMAKE_C_FLAGS=-O1 -g -DCMAKE_CXX_FLAGS=-O1 -g -DNRN_SANITIZERS=address -DCMAKE_C_COMPILER=gcc -DCMAKE_C_COMPILER_LAUNCHER=ccache -DCMAKE_CXX_COMPILER=g++ -DCMAKE_CXX_COMPILER_LAUNCHER=ccache -DCMAKE_INSTALL_PREFIX=/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/install -DNRN_ENABLE_TESTS=ON -DNRN_ENABLE_PERFORMANCE_TESTS=OFF -DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DPYTHON_EXECUTABLE=/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/venv/bin/python
$ cmake .. "${cmake_args[@]}"
-- The C compiler identification is AppleClang 14.0.0.14000029
-- The CXX compiler identification is AppleClang 14.0.0.14000029
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/gcc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/g++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- git describe failed (stdout: '', stderr: 'fatal: No names found, cannot describe anything.', code: 128), skipping the version check
-- Sub-module : missing external/coding-conventions : running git submodule update --init
Submodule 'external/coding-conventions' (https://github.com/BlueBrain/hpc-coding-conventions.git) registered for path 'external/coding-conventions'
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/coding-conventions'...
Submodule path 'external/coding-conventions': checked out '3d157f9c8ea94d196a825aaa7f523265e360dc4b'
-- Fetching git submodule external/Random123: running git submodule update --init;--recursive;--depth;1 -- external/Random123
Submodule 'external/Random123' (https://github.com/BlueBrain/Random123.git) registered for path 'external/Random123'
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/Random123'...
From https://github.com/BlueBrain/Random123
* branch b5cb15614e8f3eb0ff316bdc50c300ddd32fa3c1 -> FETCH_HEAD
Submodule path 'external/Random123': checked out 'b5cb15614e8f3eb0ff316bdc50c300ddd32fa3c1'
-- 3rd party project: using Random123 from "external/Random123"
-- Fetching git submodule external/eigen: running git submodule update --init;--recursive;--depth;1 -- external/eigen
Submodule 'external/eigen' (https://gitlab.com/libeigen/eigen.git) registered for path 'external/eigen'
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/eigen'...
From https://gitlab.com/libeigen/eigen
* branch 3147391d946bb4b6c68edd901f2add6ac1f31f8c -> FETCH_HEAD
Submodule path 'external/eigen': checked out '3147391d946bb4b6c68edd901f2add6ac1f31f8c'
-- 3rd party project: using eigen from "external/eigen"
-- Enabling sanitizers: address
-- Sanitizer runtime library: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib/clang/14.0.0/lib/darwin/libclang_rt.asan_osx_dynamic.dylib
-- Checking if /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/venv/bin/python is a working python
-- Found BISON: /opt/homebrew/opt/bison/bin/bison (found version "3.8.2")
-- Found FLEX: /opt/homebrew/opt/flex/bin/flex (found suitable version "2.6.4", minimum required is "2.6")
-- Found Readline: /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include
-- Found MPI_C: /opt/homebrew/Cellar/open-mpi/5.0.1/lib/libmpi.dylib (found version "3.1")
-- Found MPI_CXX: /opt/homebrew/Cellar/open-mpi/5.0.1/lib/libmpi.dylib (found version "3.1")
-- Found MPI: TRUE (found version "3.1")
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
-- Found Threads: TRUE
-- Fetching git submodule external/CLI11: running git submodule update --init;--recursive;--depth;1 -- external/CLI11
Submodule 'external/CLI11' (https://github.com/CLIUtils/CLI11.git) registered for path 'external/CLI11'
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/CLI11'...
From https://github.com/CLIUtils/CLI11
* branch 291c58789c031208f08f4f261a858b5b7083e8e2 -> FETCH_HEAD
Submodule path 'external/CLI11': checked out '291c58789c031208f08f4f261a858b5b7083e8e2'
-- 3rd party project: using CLI11 from "external/CLI11"
CMake Deprecation Warning at external/CLI11/CMakeLists.txt:1 (cmake_minimum_required):
Compatibility with CMake < 3.5 will be removed from a future version of
CMake.
Update the VERSION argument <min> value or use a ...<max> suffix to tell
CMake that the project does not need compatibility with older versions.
-- Building CoreNEURON
-- Found Git: /usr/bin/git (found version "2.37.0 (Apple Git-136)")
-- Found Perl: /usr/bin/perl (found version "5.30.3")
-- Could NOT find nmodl (missing: nmodl_BINARY nmodl_INCLUDE nmodl_PYTHONPATH)
-- Sub-project : using nmodl from from /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/nmodl
-- CHECKING FOR FLEX/BISON
-- Found BISON: /opt/homebrew/opt/bison/bin/bison (found suitable version "3.8.2", minimum required is "3.0")
-- Adding Flex include path as : /opt/homebrew/opt/flex/include/
-- NMODL_TEST_FORMATTING: OFF
-- NMODL_GIT_HOOKS: OFF
-- NMODL_GIT_COMMIT_HOOKS:
-- NMODL_GIT_PUSH_HOOKS: courtesy-msg
-- NMODL_STATIC_ANALYSIS: OFF
-- NMODL_TEST_STATIC_ANALYSIS: OFF
-- 3rd party project: using eigen from "ext/eigen"
-- 3rd party project: using fmt from "ext/fmt"
-- Version: 10.2.1
-- Build type: Custom
-- 3rd party project: using json from "ext/json"
-- Using the multi-header code from /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/nmodl/ext/json/include/
-- 3rd party project: using pybind11 from "ext/pybind11"
-- pybind11 v2.11.1
CMake Warning (dev) at external/nmodl/ext/pybind11/tools/FindPythonLibsNew.cmake:98 (find_package):
Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules
are removed. Run "cmake --help-policy CMP0148" for policy details. Use
the cmake_policy command to set the policy and suppress this warning.
Call Stack (most recent call first):
external/nmodl/ext/pybind11/tools/pybind11Tools.cmake:50 (find_package)
external/nmodl/ext/pybind11/tools/pybind11Common.cmake:188 (include)
external/nmodl/ext/pybind11/CMakeLists.txt:210 (include)
This warning is for project developers. Use -Wno-dev to suppress it.
-- Found PythonInterp: /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/venv/bin/python (found suitable version "3.10.13", minimum required is "3.6")
-- Found PythonLibs: /opt/homebrew/opt/python@3.10/Frameworks/Python.framework/Versions/3.10/lib/libpython3.10.dylib
-- 3rd party project: using spdlog from "ext/spdlog"
-- Build spdlog: 1.13.0
CMake Warning (dev) at external/nmodl/ext/spdlog/CMakeLists.txt:91 (option):
Policy CMP0077 is not set: option() honors normal variables. Run "cmake
--help-policy CMP0077" for policy details. Use the cmake_policy command to
set the policy and suppress this warning.
For compatibility with older versions of CMake, option is clearing the
normal variable 'SPDLOG_FMT_EXTERNAL'.
This warning is for project developers. Use -Wno-dev to suppress it.
-- Build type: Custom
-- CHECKING FOR PYTHON
CMake Warning (dev) at external/nmodl/CMakeLists.txt:173 (find_package):
Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules
are removed. Run "cmake --help-policy CMP0148" for policy details. Use
the cmake_policy command to set the policy and suppress this warning.
This warning is for project developers. Use -Wno-dev to suppress it.
-- Found PythonInterp: /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/venv/bin/python (found suitable version "3.10.13", minimum required is "3.8")
--
-- Configured NMODL 0.0 (70553cc 2024-05-01 23:16:44 +0200)
--
-- You can now build NMODL using:
-- cmake --build . --parallel 8 [--target TARGET]
-- You might want to adjust the number of parallel build jobs for your system.
-- Some non-default targets you might want to build:
-- --------------------+--------------------------------------------------------
-- Target | Description
-- --------------------+--------------------------------------------------------
-- test | Run unit tests
-- install | Will install NMODL to: /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/install
-- --------------------+--------------------------------------------------------
-- Build option | Status
-- --------------------+--------------------------------------------------------
-- CXX COMPILER | /usr/bin/g++
-- COMPILE FLAGS | -O1 -g -openmp-simd
-- Build Type | Custom
-- Python Bindings | OFF
-- Flex | /opt/homebrew/opt/flex/bin/flex
-- Bison | /opt/homebrew/opt/bison/bin/bison
-- Python | /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/venv/bin/python
-- Linked against | ON
-- --------------------+--------------------------------------------------------
-- See documentation : https://github.com/BlueBrain/nmodl/
-- --------------------+--------------------------------------------------------
--
--
-- CoreNEURON is enabled with following build configuration:
-- --------------------+--------------------------------------------------------
-- Build option | Status
-- --------------------+--------------------------------------------------------
-- CXX COMPILER | /usr/bin/g++
-- COMPILE FLAGS | -O1 -g -openmp-simd -std=c++17 -DCORENEURON_BUILD -DCORENRN_BUILD=1 -DEIGEN_DONT_PARALLELIZE -DNRNMPI=1 -DLAYOUT=0 -DDISABLE_HOC_EXP -DENABLE_SPLAYTREE_QUEUING -fno-omit-frame-pointer -shared-libsan -fsanitize=address -fsanitize-address-use-after-scope
-- Build Type | SHARED
-- MPI | ON
-- DYNAMIC | OFF
-- INC | /opt/homebrew/Cellar/open-mpi/5.0.1/include
-- OpenMP | ON
-- NMODL PATH | /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/bin/nmodl
-- NMODL FLAGS |
-- GPU Support | OFF
-- Auto Timeout | ON
-- Wrap exp() | OFF
-- SplayTree Queue | ON
-- NetReceive Buffer | ON
-- Caliper | OFF
-- Likwid | OFF
-- Unit Tests | ON
-- Reporting | OFF
-- --------------------+--------------------------------------------------------
--
Extracting link flags from target 'nrngnu', beware that this can be fragile. Got:
Extracting link flags from target 'sparse13', beware that this can be fragile. Got:
Generating link flags from name 'nrnpython', beware that this can be fragile. Got: -lnrnpython
Extracting link flags from target 'Threads::Threads', beware that this can be fragile. Got: -lnrnpython
Generating link flags from path /opt/homebrew/Cellar/open-mpi/5.0.1/lib/libmpi.dylib Got: /opt/homebrew/Cellar/open-mpi/5.0.1/lib/libmpi.dylib -Wl,-rpath,/opt/homebrew/Cellar/open-mpi/5.0.1/lib
-- Sub-module : missing /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/catch2 : running git submodule update --init
Submodule 'external/catch2' (https://github.com/catchorg/Catch2.git) registered for path 'external/catch2'
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/external/catch2'...
Submodule path 'external/catch2': checked out '8ac8190e494a381072c89f5e161b92a08d98b37b'
-- Found Python module 'pytest' with version(s): 8.1.1
-- Found Python module 'pytest_cov' with version(s): 5.0.0
-- Fetching git submodule test/rxd/testdata: running git submodule update --init;--recursive;--depth;1 -- test/rxd/testdata
Submodule 'test/rxd/testdata' (https://github.com/neuronsimulator/rxdtestdata) registered for path 'test/rxd/testdata'
Cloning into '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/test/rxd/testdata'...
From https://github.com/neuronsimulator/rxdtestdata
* branch 30c76babbbc2cff005fd3f6f649c8b81da41ee58 -> FETCH_HEAD
Submodule path 'test/rxd/testdata': checked out '30c76babbbc2cff005fd3f6f649c8b81da41ee58'
-- 3rd party project: using rxd/testdata from "test/rxd/testdata"
-- Found Python module 'mpi4py' with version(s): 3.1.6
-- Disabling coreneuron_modtests::fornetcon_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::direct_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::direct_hoc_gpu: gpu not enabled
-- Disabling coreneuron_modtests::spikes_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::spikes_file_mode_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::fast_imem_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::datareturn_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::test_units_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::test_netmove_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::test_pointer_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::test_watchrange_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::test_psolve_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::test_ba_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::test_nmodlrandom_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::test_nmodlrandom_syntax_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::test_natrans_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::array_variable_transfer_run_mode_0_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::array_variable_transfer_run_mode_1_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::array_variable_transfer_run_mode_2_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::array_variable_transfer_file_mode_py_gpu: gpu not enabled
-- Found Python module 'mpi4py' with version(s): 3.1.6
-- Disabling coreneuron_modtests::spikes_mpi_file_mode_py_gpu: gpu not enabled
-- Disabling coreneuron_modtests::test_subworlds_py_gpu: gpu not enabled
-- Disabling nmodl_tests_coreneuron::test_table_coreneuron_gpu: gpu not enabled
-- Disabling nmodl_tests_coreneuron::test_disc_coreneuron_gpu: gpu not enabled
-- Disabling nmodl_tests_coreneuron::test_function_table_coreneuron_gpu: gpu not enabled
-- Disabling nmodl_tests_coreneuron::test_kinetic_coreneuron_gpu: gpu not enabled
-- Disabling reduced_dentate::coreneuron_gpu: gpu not enabled
-- Disabling external_ringtest::coreneuron_gpu_mpi_offline_saverestore: gpu not enabled
-- Disabling external_ringtest::coreneuron_gpu_mpi: gpu not enabled
-- Disabling external_ringtest::coreneuron_gpu_mpi_python: gpu not enabled
-- Disabling external_ringtest::coreneuron_gpu_mpi_offline: gpu not enabled
-- Disabling external_ringtest::coreneuron_gpu_mpi_threads: gpu not enabled
-- Disabling external_ringtest::coreneuron_gpu_mpi_threads_python: gpu not enabled
-- Disabling testcorenrn_bbcore::coreneuron_gpu_online: gpu not enabled
-- Disabling testcorenrn_bbcore::coreneuron_gpu_online_psolve_alternate: gpu not enabled
-- Disabling testcorenrn_bbcore::coreneuron_gpu_offline: gpu not enabled
-- Disabling testcorenrn_conc::coreneuron_gpu_online: gpu not enabled
-- Disabling testcorenrn_conc::coreneuron_gpu_online_psolve_alternate: gpu not enabled
-- Disabling testcorenrn_conc::coreneuron_gpu_offline: gpu not enabled
-- Disabling testcorenrn_deriv::coreneuron_gpu_online: gpu not enabled
-- Disabling testcorenrn_deriv::coreneuron_gpu_online_psolve_alternate: gpu not enabled
-- Disabling testcorenrn_deriv::coreneuron_gpu_offline: gpu not enabled
-- Disabling testcorenrn_gf::coreneuron_gpu_online: gpu not enabled
-- Disabling testcorenrn_gf::coreneuron_gpu_online_psolve_alternate: gpu not enabled
-- Disabling testcorenrn_gf::coreneuron_gpu_offline: gpu not enabled
-- Disabling testcorenrn_kin::coreneuron_gpu_online: gpu not enabled
-- Disabling testcorenrn_kin::coreneuron_gpu_online_psolve_alternate: gpu not enabled
-- Disabling testcorenrn_kin::coreneuron_gpu_offline: gpu not enabled
-- Disabling testcorenrn_patstim::coreneuron_gpu_offline_saverestore: gpu not enabled
-- Disabling testcorenrn_patstim::coreneuron_gpu_offline: gpu not enabled
-- Disabling testcorenrn_vecplay::coreneuron_gpu_online: gpu not enabled
-- Disabling testcorenrn_vecplay::coreneuron_gpu_online_psolve_alternate: gpu not enabled
-- Disabling testcorenrn_vecplay::coreneuron_gpu_offline: gpu not enabled
-- Disabling testcorenrn_vecevent::coreneuron_gpu_online: gpu not enabled
-- Disabling testcorenrn_vecevent::coreneuron_gpu_online_psolve_alternate: gpu not enabled
-- Disabling testcorenrn_vecevent::coreneuron_gpu_offline: gpu not enabled
-- Disabling testcorenrn_watch::coreneuron_gpu_online: gpu not enabled
-- Disabling testcorenrn_watch::coreneuron_gpu_online_psolve_alternate: gpu not enabled
-- Disabling testcorenrn_watch::coreneuron_gpu_offline: gpu not enabled
-- Found OpenSSL: /opt/homebrew/Cellar/openssl@3/3.2.0_1/lib/libcrypto.dylib (found version "3.2.0")
--
-- Configured NEURON 9.0.0
--
-- You can now build NEURON using:
-- cmake --build . --parallel 8 [--target TARGET]
-- You might want to adjust the number of parallel build jobs for your system.
-- Some non-default targets you might want to build:
-- --------------+--------------------------------------------------------------
-- Target | Description
-- --------------+--------------------------------------------------------------
-- install | Will install NEURON to: /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/install
-- | Change the install location of NEURON using:
-- | cmake <src_path> -DCMAKE_INSTALL_PREFIX=<install_path>
-- docs | Build full docs. Calls targets: doxygen, notebooks, sphinx, notebooks-clean
-- uninstall | Removes files installed by make install (todo)
-- --------------+--------------------------------------------------------------
-- Build option | Status
-- --------------+--------------------------------------------------------------
-- C COMPILER | /usr/bin/gcc
-- CXX COMPILER | /usr/bin/g++
-- BUILD_TYPE | Custom (allowed: Custom;Debug;Release;RelWithDebInfo;Fast;FastDebug)
-- COMPILE FLAGS | -O1 -g -openmp-simd -fno-omit-frame-pointer -shared-libsan -fsanitize=address -fsanitize-address-use-after-scope -O1 -g -openmp-simd
-- Shared | ON
-- MPI | ON
-- DYNAMIC | OFF
-- INC | /opt/homebrew/Cellar/open-mpi/5.0.1/include
-- LIB | /opt/homebrew/Cellar/open-mpi/5.0.1/lib/libmpi.dylib
-- Python | ON
-- DYNAMIC | OFF
-- MODULE | ON
-- python3.10 (default)
-- EXE | /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/venv/bin/python
-- INC | /opt/homebrew/opt/python@3.10/Frameworks/Python.framework/Versions/3.10/include/python3.10
-- LIB | /opt/homebrew/opt/python@3.10/Frameworks/Python.framework/Versions/3.10/lib/libpython3.10.dylib
-- Readline | /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/lib/libreadline.tbd
-- Curses | /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/lib/libcurses.tbd;/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/lib/libform.tbd
-- RX3D | OFF
-- Interviews | OFF
-- CoreNEURON | ON
-- PATH | /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/coreneuron
-- LINK FLAGS | -lcorenrnmech -Wl,-rpath,/opt/homebrew/Cellar/open-mpi/5.0.1/lib /opt/homebrew/Cellar/open-mpi/5.0.1/lib/libmpi.dylib
-- Tests | ON
-- --------------+--------------------------------------------------------------
-- See documentation : https://www.neuron.yale.edu/neuron/
-- --------------+--------------------------------------------------------------
--
-- Configuring done (25.4s)
-- Generating done (0.1s)
-- Build files have been written to: /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build
$ ccache -z
Statistics zeroed
$ ccache -vs 2>/dev/null
Cache directory: /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/ccache
Config file: /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/ccache/ccache.conf
System config file: /opt/homebrew/Cellar/ccache/4.9/etc/ccache.conf
Stats updated: Mon Jun 17 16:32:32 2024
Local storage:
Cache size (GiB): 0.0 / 5.0 ( 0.00%)
Files: 0
Hits: 0
Misses: 0
Reads: 0
Writes: 0
$ cmake --build . --parallel
[0/2] Re-checking globbed directories...
[1/1930] Generating share/nrn/demo/demo.hoc
[2/1930] Generating share/nrn/demo/dend3.ses
[3/1930] Generating share/nrn/demo/cycle.hoc
[4/1930] Generating share/nrn/demo/d3init.hoc
[5/1930] Generating share/nrn/demo/demo.ses
[6/1930] Generating share/nrn/demo/dend3/control.hoc
[7/1930] Generating share/nrn/demo/dend3/dend3.nrn
[8/1930] Generating share/nrn/demo/dend3/syn3.hoc
[9/1930] Generating share/nrn/demo/dynclamp.hoc
[10/1930] Generating share/nrn/demo/dynclamp.ses
[11/1930] Generating share/nrn/demo/dynchan.ses
[12/1930] Generating share/nrn/demo/hh.ses
[13/1930] Update hh.mod for CoreNEURON compatibility
[14/1930] Generating share/nrn/demo/nomodel.hoc
[15/1930] Generating share/nrn/demo/pyramid.nrn
[16/1930] Generating share/nrn/demo/pyramid.ses
[17/1930] Generating share/nrn/demo/hh.hoc
[18/1930] Generating share/nrn/demo/reconst.hoc
[19/1930] Generating share/nrn/demo/release.hoc
[20/1930] Generating share/nrn/demo/release.ses
[21/1930] Generating share/nrn/demo/release/cachan1.mod
[22/1930] Generating share/nrn/demo/release/cabpump.mod
[23/1930] Generating share/nrn/demo/release/camchan.mod
[24/1930] Generating share/nrn/demo/release/khhchan.mod
[25/1930] Generating share/nrn/demo/release/capump.mod
[26/1930] Generating share/nrn/demo/release/nachan.mod
[27/1930] Generating share/nrn/demo/release/invlfire.mod
[28/1930] Generating share/nrn/demo/release/nacaex.mod
[29/1930] Generating share/nrn/demo/release/release.mod
[30/1930] Generating share/nrn/demo/singhh.hoc
[31/1930] Generating share/nrn/demo/sync/cell.hoc
[32/1930] Generating share/nrn/demo/singhh.ses
[33/1930] Generating share/nrn/demo/sync/demosync.hoc
[34/1930] Generating share/nrn/demo/singhhchan.hoc
[35/1930] Generating share/nrn/demo/sync/spkplot.hoc
[36/1930] Generating share/nrn/demo/sync/synchronize.hoc
[37/1930] Generating share/nrn/demo/sync/init.hoc
[38/1930] Generating share/nrn/demo/sync/start.ses
[39/1930] Generating share/nrn/demo/testca.hoc
[40/1930] Generating share/nrn/lib/auditscripts/notes
[41/1930] Generating share/nrn/lib/auditscripts/gettarname
[42/1930] Generating share/nrn/lib/auditscripts/hocaudit.sh
[43/1930] Generating share/nrn/lib/auditscripts/saveaudit
[44/1930] Generating share/nrn/lib/helpdict
[45/1930] Generating share/nrn/lib/cleanup
[46/1930] Generating share/nrn/lib/hoc/attshape.hoc
[47/1930] Generating share/nrn/lib/auditscripts/retrieve.sh
[48/1930] Generating share/nrn/lib/hoc/atoltool.hoc
[49/1930] Generating share/nrn/lib/hoc/binfo.hoc
[50/1930] Generating share/nrn/lib/hoc/celbild.hoc
[51/1930] Generating share/nrn/lib/hoc/celbild/celbild1.hoc
[52/1930] Generating share/nrn/lib/hoc/celbild/celgeom.hoc
[53/1930] Generating share/nrn/lib/hoc/celbild/celmang.hoc
[54/1930] Generating share/nrn/lib/hoc/celbild/celmemb.hoc
[55/1930] Generating share/nrn/lib/hoc/celbild/celset.hoc
[56/1930] Generating share/nrn/lib/hoc/celbild/celtopol.hoc
[57/1930] Generating share/nrn/lib/hoc/chanbild.hoc
[58/1930] Generating share/nrn/lib/hoc/chanbild/chanbild1.hoc
[59/1930] Generating share/nrn/lib/hoc/celbild/inhomofn.hoc
[60/1930] Generating share/nrn/lib/hoc/celbild/psubset.hoc
[61/1930] Generating share/nrn/lib/hoc/chanbild/const.hoc
[62/1930] Generating share/nrn/lib/hoc/chanbild/exp.hoc
[63/1930] Generating share/nrn/lib/hoc/chanbild/gategui.hoc
[64/1930] Generating share/nrn/lib/hoc/chanbild/kschanbg.hoc
[65/1930] Generating share/nrn/lib/hoc/chanbild/kstrans.hoc
[66/1930] Generating share/nrn/lib/hoc/chanbild/linoid.hoc
[67/1930] Generating share/nrn/lib/hoc/chanbild/ksstate.hoc
[68/1930] Generating share/nrn/lib/hoc/chanbild/ksgate.hoc
[69/1930] Generating share/nrn/lib/hoc/chanbild/kstgui.hoc
[70/1930] Generating share/nrn/lib/hoc/corenrn.hoc
[71/1930] Generating share/nrn/lib/hoc/chanbild/properties.hoc
[72/1930] Generating share/nrn/lib/hoc/chanbild/table.hoc
[73/1930] Generating share/nrn/lib/hoc/funfit.hoc
[74/1930] Generating share/nrn/lib/hoc/chanbild/sigmoid.hoc
[75/1930] Generating share/nrn/lib/hoc/family.hoc
[76/1930] Generating share/nrn/lib/hoc/electrod.hoc
[77/1930] Generating share/nrn/lib/hoc/gatherv.hoc
[78/1930] Generating share/nrn/lib/hoc/impedanc.hoc
[79/1930] Generating share/nrn/lib/hoc/grapher.hoc
[80/1930] Generating share/nrn/lib/hoc/import3d/import3d_gui.hoc
[81/1930] Generating share/nrn/lib/hoc/impedanx.hoc
[82/1930] Generating share/nrn/lib/hoc/import3d/import3d_sec.hoc
[83/1930] Generating share/nrn/lib/hoc/import3d/read_morphml.hoc
[84/1930] Generating share/nrn/lib/hoc/import3d/read_nlcda.hoc
[85/1930] Generating share/nrn/lib/hoc/import3d/read_nlcda3.hoc
[86/1930] Generating share/nrn/lib/hoc/import3d.hoc
[87/1930] Generating share/nrn/lib/hoc/import3d/read_nts.hoc
[88/1930] Generating share/nrn/lib/hoc/inserter.hoc
[89/1930] Generating share/nrn/lib/hoc/import3d/read_swc.hoc
[90/1930] Generating share/nrn/lib/hoc/lincir/elmbase.hoc
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[93/1930] Generating share/nrn/lib/hoc/lincir/lincir1.hoc
[94/1930] Generating share/nrn/lib/hoc/lincir/lingraph.hoc
[95/1930] Generating share/nrn/lib/hoc/lincir/linmech.hoc
[96/1930] Generating share/nrn/lib/hoc/mkcurve.hoc
[97/1930] Generating share/nrn/lib/hoc/loadbal.hoc
[98/1930] Generating share/nrn/lib/hoc/logax.hoc
[99/1930] Generating share/nrn/lib/hoc/macload.hoc
[100/1930] Generating share/nrn/lib/hoc/mulfit.hoc
[101/1930] Generating share/nrn/lib/hoc/mulfit/clampfit.hoc
[102/1930] Generating share/nrn/lib/hoc/mulfit/e_norm.hoc
[103/1930] Generating share/nrn/lib/hoc/modlunit.hoc
[104/1930] Generating share/nrn/lib/hoc/mknrndll.hoc
[105/1930] Generating share/nrn/lib/hoc/movierun.hoc
[106/1930] Generating share/nrn/lib/hoc/mulfit/e_actpot.hoc
[107/1930] Generating share/nrn/lib/hoc/mulfit/eonerun.hoc
[108/1930] Generating share/nrn/lib/hoc/mulfit/e_xy.hoc
[109/1930] Generating share/nrn/lib/hoc/mulfit/eonefunc.hoc
[110/1930] Generating share/nrn/lib/hoc/mulfit/e_y.hoc
[111/1930] Generating share/nrn/lib/hoc/mulfit/eoneprim.hoc
[112/1930] Generating share/nrn/lib/hoc/mulfit/eparmlst.hoc
[113/1930] Generating share/nrn/lib/hoc/mulfit/fitparm.hoc
[114/1930] Generating share/nrn/lib/hoc/mulfit/optwrap.hoc
[115/1930] Generating share/nrn/lib/hoc/mulfit/mulfit1.hoc
[116/1930] Generating share/nrn/lib/hoc/mview.hoc
[117/1930] Generating share/nrn/lib/hoc/mview/allpp.hoc
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[476/1930] Building CXX object src/coreneuron/CMakeFiles/coreneuron-core.dir/utils/vrecord.cpp.o
[477/1930] -- NMODL : GENERATING AST CLASSES WITH PYTHON GENERATOR! --
[478/1930] Building CXX object external/nmodl/src/printer/CMakeFiles/printer.dir/nmodl_printer.cpp.o
[479/1930] Building CXX object external/nmodl/ext/spdlog/CMakeFiles/spdlog.dir/src/cfg.cpp.o
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29 | %name-prefix "Verbatim_"
| ^~~~~~~~~~~~~~~~~~~~~~~~
| %define api.prefix {Verbatim_}
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[481/1930] Building CXX object external/nmodl/src/utils/CMakeFiles/util.dir/common_utils.cpp.o
[482/1930] Building CXX object external/nmodl/src/printer/CMakeFiles/printer.dir/code_printer.cpp.o
[483/1930] -- NMODL : GENERATING DIFFERENTIAL EQUATION PARSER WITH BISON! --
../../../../../external/nmodl/src/parser/diffeq.yy:56.1-40: warning: deprecated directive: '%define parser_class_name {DiffeqParser}', use '%define api.parser.class {DiffeqParser}' [-Wdeprecated]
56 | %define parser_class_name {DiffeqParser}
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| %define api.parser.class {DiffeqParser}
../../../../../external/nmodl/src/parser/diffeq.yy: warning: 2 shift/reduce conflicts [-Wconflicts-sr]
../../../../../external/nmodl/src/parser/diffeq.yy: note: rerun with option '-Wcounterexamples' to generate conflict counterexamples
../../../../../external/nmodl/src/parser/diffeq.yy: warning: fix-its can be applied. Rerun with option '--update'. [-Wother]
[484/1930] Building CXX object external/nmodl/src/utils/CMakeFiles/util.dir/file_library.cpp.o
[485/1930] -- NMODL : GENERATING UNIT PARSER WITH BISON! --
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49 | %define parser_class_name {UnitParser}
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| %define api.parser.class {UnitParser}
../../../../../external/nmodl/src/parser/unit.yy: warning: fix-its can be applied. Rerun with option '--update'. [-Wother]
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52 | %define parser_class_name {CParser}
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| %define api.parser.class {CParser}
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64 | %define parser_class_name {NmodlParser}
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| %define api.parser.class {NmodlParser}
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[573/1930] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/symbol.cpp.o
[574/1930] Generating ../oc/hocusr.h
[575/1930] cd /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/src/nrniv && true
[576/1930] Generating ../../share/nrn/nrnmain.cpp
[577/1930] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/version.cpp.o
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[591/1930] -- NMODL : GENERATING VERBATIM LEXER WITH FLEX! --
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[619/1930] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/diffeq_context.cpp.o
[620/1930] Building CXX object external/nmodl/src/codegen/CMakeFiles/codegen.dir/codegen_neuron_cpp_visitor.cpp.o
[621/1930] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/verbatim_parser.cpp.o
[622/1930] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/c11_driver.cpp.o
[623/1930] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/unit_driver.cpp.o
[624/1930] Building CXX object external/nmodl/src/codegen/CMakeFiles/codegen.dir/codegen_cpp_visitor.cpp.o
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[626/1930] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/diffeq/diffeq_parser.cpp.o
[627/1930] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/unit/unit_parser.cpp.o
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[629/1930] Building CXX object external/nmodl/src/codegen/CMakeFiles/codegen.dir/codegen_coreneuron_cpp_visitor.cpp.o
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[638/1930] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/after_cvode_to_cnexp_visitor.cpp.o
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[654/1930] Linking CXX static library lib/liblexer.a
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[656/1930] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/var_usage_visitor.cpp.o
[657/1930] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/kinetic_block_visitor.cpp.o
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[663/1930] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/lookup_visitor.cpp.o
[664/1930] Linking CXX static library lib/libpyembed.a
[665/1930] Linking CXX static library lib/libpywrapper.a
[666/1930] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/json_visitor.cpp.o
[667/1930] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/verbatim_var_rename_visitor.cpp.o
[668/1930] Linking CXX executable bin/nocmodl
[669/1930] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/rxd_marching_cubes.cpp.o
[670/1930] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/rxd_llgramarea.cpp.o
[671/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/benchmark/catch_chronometer.cpp.o
[672/1930] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/visitor_utils.cpp.o
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[674/1930] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/nmodl_visitor.cpp.o
[675/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/benchmark/detail/catch_benchmark_function.cpp.o
[676/1930] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/sympy_conductance_visitor.cpp.o
[677/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/generators/catch_generator_exception.cpp.o
[678/1930] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/checkparent_visitor.cpp.o
[679/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/benchmark/detail/catch_analyse.cpp.o
[680/1930] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/rxd_intracellular.cpp.o
[681/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/benchmark/detail/catch_run_for_at_least.cpp.o
[682/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/generators/catch_generators.cpp.o
[683/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/benchmark/detail/catch_stats.cpp.o
[684/1930] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/rxd_vol.cpp.o
[685/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/generators/catch_generators_random.cpp.o
[686/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_automake.cpp.o
[687/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_common_base.cpp.o
[688/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_compact.cpp.o
[689/1930] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/symtab_visitor.cpp.o
[690/1930] Generating ../nrnoc/expsyn.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/expsyn.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/expsyn.cpp
Thread Safe
[691/1930] Generating ../nrnoc/feature.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/feature.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/feature.cpp
Notice: VERBATIM blocks are not thread safe
[692/1930] Generating ../nrnoc/hh.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/hh.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/hh.cpp
Thread Safe
[693/1930] Generating ../nrnoc/exp2syn.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/exp2syn.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/exp2syn.cpp
Thread Safe
[694/1930] Generating ../nrnoc/apcount.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/apcount.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/apcount.cpp
Thread Safe
[695/1930] Generating ../nrnoc/intfire1.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/intfire1.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/intfire1.cpp
Thread Safe
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Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/intfire2.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/intfire2.cpp
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[697/1930] Generating ../nrnoc/intfire4.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/intfire4.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/intfire4.cpp
Thread Safe
[698/1930] Generating ../nrnoc/netstim.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/netstim.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/netstim.cpp
Thread Safe
[699/1930] Generating ../nrnoc/oclmp.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/oclmp.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/oclmp.cpp
Thread Safe
[700/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_event_listener.cpp.o
[701/1930] Generating ../nrnoc/passive.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/passive.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/passive.cpp
Thread Safe
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Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/pattern.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/pattern.cpp
Thread Safe
Notice: ARTIFICIAL_CELL is a synonym for POINT_PROCESS which hints that it
only affects and is affected by discrete events. As such it is not
located in a section and is not associated with an integrator
[703/1930] Generating ../nrnoc/ppmark.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/ppmark.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/ppmark.cpp
Thread Safe
[704/1930] Generating ../nrnoc/stim.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/stim.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/stim.cpp
Thread Safe
[705/1930] Generating ../nrnoc/syn.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/syn.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/syn.cpp
Thread Safe
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Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/vclmp.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/vclmp.cpp
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Notice: LINEAR is not thread safe.
[707/1930] Generating ../nrnoc/svclmp.cpp
Translating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/svclmp.mod into /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/nrnoc/svclmp.cpp
Thread Safe
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[709/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_cumulative_base.cpp.o
[710/1930] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/sympy_solver_visitor.cpp.o
[711/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/apwindow.cpp.o
[712/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_registrars.cpp.o
[713/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/axis.cpp.o
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[717/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/checkpnt.cpp.o
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[723/1930] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_sonarqube.cpp.o
[724/1930] Linking CXX executable bin/nmodl
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[732/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/graph.cpp.o
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[734/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/idraw.cpp.o
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[736/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/mymath.cpp.o
/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/src/ivoc/mymath.cpp:2:14: warning: '#pragma FENV_ACCESS' is not supported on this target - ignored [-Wignored-pragmas]
#pragma STDC FENV_ACCESS ON
^
1 warning generated.
[737/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/ivocmain.cpp.o
[738/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/oc2iv.cpp.o
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[745/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/ocfile.cpp.o
[746/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/ocpicker.cpp.o
[747/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/ocnoiv1.cpp.o
[748/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/ocobserv.cpp.o
[749/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/oclist.cpp.o
[750/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/ivoc.cpp.o
[751/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/ivocvect.cpp.o
[752/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/matrix.cpp.o
[753/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/rect.cpp.o
[754/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/octimer.cpp.o
[755/1930] Running nrnivmodl-core with internal mod files
WARNING: No mod files found in '/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/bin', compiling default ones only!
[INFO] Running: make -j4 -f /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/share/coreneuron/nrnivmodl_core_makefile ROOT=/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build MECHLIB_SUFFIX=internal NMODL_BINARY=/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/bin/nmodl MODS_PATH=arm64/corenrn/mod2c BUILD_TYPE=SHARED NRN_PRCELLSTATE=0
Default NMODL flags:
diff: arm64/corenrn/mod2c/_mod_func.cpp: No such file or directory
[NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shadows <extern_neuron_var> definition in NMODL_GLOBAL
[NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shadows <extern_neuron_var> definition in NMODL_GLOBAL
[NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shadows <extern_neuron_var> definition in NMODL_GLOBAL
[NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced with cnexp solver
ld: warning: -undefined dynamic_lookup may not work with chained fixups
=> Binary creating arm64/special-core
[INFO] MOD files built successfully for CoreNEURON
[756/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/ocpointer.cpp.o
[757/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/pwman.cpp.o
[758/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/rubband.cpp.o
[759/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/scene.cpp.o
[760/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/scenepic.cpp.o
[761/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/ocptrvector.cpp.o
[762/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/symchoos.cpp.o
[763/1930] Building CXX object test/coreneuron/unit/cmdline_interface/CMakeFiles/cmd_interface_test_bin.dir/test_cmdline_interface.cpp.o
[764/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/utility.cpp.o
[765/1930] Building CXX object test/coreneuron/unit/interleave_info/CMakeFiles/interleave_info_bin.dir/check_constructors.cpp.o
[766/1930] Building CXX object test/coreneuron/unit/random/CMakeFiles/random_test_bin.dir/test_random.cpp.o
[767/1930] Building CXX object test/coreneuron/unit/alignment/CMakeFiles/alignment_test_bin.dir/alignment.cpp.o
[768/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/xyview.cpp.o
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[1175/1930] Generating nrniv_pydef_nrnpython_check_sys_stdout.encoding/check_sys_attr.hoc
[1176/1930] Generating nrniv_pydef_nrnpython_check_sys_stdout.encoding/dump_sys_attr.py
[1177/1930] Generating ../tests/ringtest/reference_data/spk1.100ms.std.ref
[1178/1930] Generating ../tests/testcorenrn/reference/out_conc.spk
[1179/1930] Generating ../tests/testcorenrn/reference/out_gf.spk
[1180/1930] Generating ../tests/testcorenrn/reference/out_bbcore.spk
[1181/1930] Generating ../tests/testcorenrn/reference/out_deriv.spk
[1182/1930] Generating ../tests/testcorenrn/reference/out_vecplay.spk
[1183/1930] Generating ../tests/testcorenrn/reference/out_patstim.spk
[1184/1930] Generating ../tests/testcorenrn/reference/out_kin.spk
[1185/1930] Generating ../tests/testcorenrn/reference/out_vecevent.spk
[1186/1930] Generating ../tests/testcorenrn/reference/out_watch.spk
[1187/1930] Generating ../tests/testcorenrn/reference/out_netstimdirect.spk
[1188/1930] Building CXX object test/api/CMakeFiles/vclamp_cpp.dir/vclamp.cpp.o
[1189/1930] Building CXX object test/CMakeFiles/testneuron.dir/unit_tests/container/mechanism.cpp.o
[1190/1930] Building CXX object test/CMakeFiles/nrn-benchmarks.dir/benchmarks/threads/test_multicore.cpp.o
[1191/1930] Building CXX object test/CMakeFiles/testneuron.dir/unit_tests/container/container.cpp.o
[1192/1930] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/ocmatrix.cpp.o
[1193/1930] Building CXX object test/CMakeFiles/testneuron.dir/unit_tests/container/node.cpp.o
[1194/1930] Linking CXX shared library lib/libnrniv.dylib
ld: warning: -undefined dynamic_lookup may not work with chained fixups
[1195/1930] Generating inithoc.cpp
[1196/1930] Generating nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/unitstest.mod
[1197/1930] Generating nrnivmodl/8b70050800897334ac3dcf9bccbec23ce253950bb3247c96e6ab2f9c53f6288c/mcna.mod
[1198/1930] Generating nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/follower.mod
[1199/1930] Generating nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/gap.mod
[1200/1930] Generating nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/name_clashes.mod
[1201/1930] Generating nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/version_macros.mod
[1202/1930] Generating nrnivmodl/7378b0d1010df9fb9d314452ba3c6ac85ab5bcd507940792ff794d6831e1b453/opaque_token.mod
[1203/1930] Generating nrnivmodl/7378b0d1010df9fb9d314452ba3c6ac85ab5bcd507940792ff794d6831e1b453/ptr.mod
[1204/1930] Generating nrnivmodl/fb5fb42ddab2ff650e8e4e789eb94701174e41ce7edaa51ad58d4fd93f798b51/ppxsrc.mod
[1205/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/argpass.mod
[1206/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cabpump.mod
[1207/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cachan.mod
[1208/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cacum.mod
[1209/1930] Linking CXX executable bin/nrniv
[1210/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cacur.mod
[1211/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cadif.mod
[1212/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cadifusl.mod
[1213/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cagk.mod
[1214/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cagkftab.mod
[1215/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/capmp.mod
[1216/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/fh.mod
[1217/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/expsynspine.mod
[1218/1930] Linking CXX executable bin/test/nrn-benchmarks
[1219/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/gap.mod
[1220/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/fit1.mod
[1221/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/hh1.mod
[1222/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/ionleak.mod
[1223/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/inatest.mod
[1224/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/hhvect.mod
[1225/1930] Linking CXX executable bin/test/testneuron
[1226/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/nacur.mod
[1227/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/nadifl.mod
[1228/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/nacum.mod
[1229/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/nonlin.mod
[1230/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/order.mod
[1231/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/passiv.mod
[1232/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/obj_ex.mod
[1233/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/rchan.mod
[1234/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/standard.inc
[1235/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/str.mod
[1236/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/stim1.mod
[1237/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/trivial.mod
[1238/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/syn1.mod
[1239/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/tstdarray.mod
[1240/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/synpre.mod
[1241/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/tstextrn.mod
[1242/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/tstpnt1.mod
[1243/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/vclmp1.mod
[1244/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/tstpnt2.mod
[1245/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/tstvec.mod
[1246/1930] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/vlag.mod
[1247/1930] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/atest.mod
[1248/1930] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/rand.mod
[1249/1930] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/rand_art.mod
[1250/1930] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/rand_pp.mod
[1251/1930] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/sdata.inc
[1252/1930] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/sdata.mod
[1253/1930] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/sdata_pp.mod
[1254/1930] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/sdata_ppts.mod
[1255/1930] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/sdata_ts.mod
[1256/1930] Generating nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/follower.mod
[1257/1930] Generating nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/gap.mod
[1258/1930] Generating nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/name_clashes.mod
[1259/1930] Generating nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/unitstest.mod
[1260/1930] Generating nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/version_macros.mod
[1261/1930] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/cadif.mod
[1262/1930] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/disc.mod
[1263/1930] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/fornetcon.mod
[1264/1930] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/hhwatch.mod
[1265/1930] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/k3st.mod
[1266/1930] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/table.mod
[1267/1930] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/variabletypes.mod
[1268/1930] Running utility command for hoc_module
INFO:root:setup.py called with:setup.py build --cmake-build-dir /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build --disable-rx3d --without-nrnpython --build-lib=/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python build_ext --define=NRN_ASAN_ENABLED,USE_PYTHON,NRN_ENABLE_THREADS,CORENRN_BUILD=0
INFO:root:Setting SDKROOT=/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk
WARNING:root:You are building a wheel with a Python built for macOS >=12.0.0. Your wheel won't run on older versions, consider using an official Python build from python.org
WARNING:root:Setting MACOSX_DEPLOYMENT_TARGET=12.0
INFO:root:Extension common compile flags defaultdict(<class 'list'>, {'library_dirs': ['/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib'], 'libraries': ['nrniv'], 'language': 'c++'})
INFO:root:RX3D is DISABLED
/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/venv/lib/python3.10/site-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
!!
********************************************************************************
Requirements should be satisfied by a PEP 517 installer.
If you are using pip, you can try `pip install --use-pep517`.
********************************************************************************
!!
dist.fetch_build_eggs(dist.setup_requires)
WARNING setuptools_scm.pyproject_reading toml section missing 'pyproject.toml does not contain a tool.setuptools_scm section'
Traceback (most recent call last):
File "/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/venv/lib/python3.10/site-packages/setuptools_scm/_integration/pyproject_reading.py", line 36, in read_pyproject
section = defn.get("tool", {})[tool_name]
KeyError: 'setuptools_scm'
/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/venv/lib/python3.10/site-packages/setuptools_scm/git.py:167: UserWarning: "/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn" is shallow and may cause errors
warnings.warn(f'"{wd.path}" is shallow and may cause errors')
INFO:root:running build
INFO:root:running build_py
INFO:root:copying share/lib/python/neuron/hclass3.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron
INFO:root:copying share/lib/python/neuron/expect_hocerr.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron
INFO:root:copying share/lib/python/neuron/psection.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron
INFO:root:copying share/lib/python/neuron/config.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron
INFO:root:copying share/lib/python/neuron/units.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron
INFO:root:copying share/lib/python/neuron/sections.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron
INFO:root:copying share/lib/python/neuron/__init__.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron
INFO:root:copying share/lib/python/neuron/coreneuron.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron
INFO:root:copying share/lib/python/neuron/doc.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron
INFO:root:copying share/lib/python/neuron/gui.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron
INFO:root:copying share/lib/python/neuron/nonvint_block_supervisor.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron
INFO:root:creating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/neuroml
INFO:root:copying share/lib/python/neuron/neuroml/metadata.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/neuroml
INFO:root:copying share/lib/python/neuron/neuroml/morphml.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/neuroml
INFO:root:copying share/lib/python/neuron/neuroml/xml2nrn.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/neuroml
INFO:root:copying share/lib/python/neuron/neuroml/__init__.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/neuroml
INFO:root:copying share/lib/python/neuron/neuroml/neuroml.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/neuroml
INFO:root:copying share/lib/python/neuron/neuroml/rdxml.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/neuroml
INFO:root:copying share/lib/python/neuron/neuroml/biophysics.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/neuroml
INFO:root:creating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/tests
INFO:root:copying share/lib/python/neuron/tests/_subclass.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/tests
INFO:root:copying share/lib/python/neuron/tests/test_all.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/tests
INFO:root:copying share/lib/python/neuron/tests/__init__.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/tests
INFO:root:copying share/lib/python/neuron/tests/test_neuron.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/tests
INFO:root:copying share/lib/python/neuron/tests/test_vector.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/tests
INFO:root:copying share/lib/python/neuron/tests/test_rxd.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/tests
INFO:root:creating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/tests/utils
INFO:root:copying share/lib/python/neuron/tests/utils/coreneuron_available.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/tests/utils
INFO:root:copying share/lib/python/neuron/tests/utils/__init__.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/tests/utils
INFO:root:copying share/lib/python/neuron/tests/utils/strtobool.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/tests/utils
INFO:root:copying share/lib/python/neuron/tests/utils/capture_stdout.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/tests/utils
INFO:root:copying share/lib/python/neuron/tests/utils/checkresult.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/tests/utils
INFO:root:creating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/rxdException.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/options.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/plugins.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/rxdsection.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/species.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/rxdmath.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/rate.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/region.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/multiCompartmentReaction.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/constants.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/dimension3.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/__init__.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/section1d.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/export.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/initializer.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/rangevar.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/geometry.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/rxd.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/generalizedReaction.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/nodelist.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/node.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/gui.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:copying share/lib/python/neuron/rxd/reaction.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/rxd
INFO:root:creating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/crxd
INFO:root:copying share/lib/python/neuron/crxd/__init__.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/crxd
INFO:root:creating /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/gui2
INFO:root:copying share/lib/python/neuron/gui2/setup_threejs.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/gui2
INFO:root:copying share/lib/python/neuron/gui2/config.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/gui2
INFO:root:copying share/lib/python/neuron/gui2/__init__.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/gui2
INFO:root:copying share/lib/python/neuron/gui2/rangevar.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/gui2
INFO:root:copying share/lib/python/neuron/gui2/plotshape.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/gui2
INFO:root:copying share/lib/python/neuron/gui2/utilities.py -> /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/gui2
INFO:root:running build_ext
INFO:root:==> Building Python extensions
INFO:root:building 'neuron.hoc' extension
INFO:root:/usr/bin/gcc -Wno-unused-result -Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -fno-omit-frame-pointer -shared-libsan -fsanitize=address -fsanitize-address-use-after-scope -DNRN_ASAN_ENABLED=1 -DUSE_PYTHON=1 -DNRN_ENABLE_THREADS=1 -DCORENRN_BUILD=0=1 -Isrc -Isrc/oc -Isrc/nrnpython -Isrc/nrnmpi -I/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/src -I/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/src/oc -I/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/src/nrnpython -I/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/src/nrnmpi -I/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/venv/include -I/opt/homebrew/opt/python@3.10/Frameworks/Python.framework/Versions/3.10/include/python3.10 -c src/nrnpython/inithoc.cpp -o /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/src/nrnpython/inithoc.o -fno-omit-frame-pointer -shared-libsan -fsanitize=address -fsanitize-address-use-after-scope -std=c++17
INFO:root:/usr/bin/g++ -bundle -undefined dynamic_lookup -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -fno-omit-frame-pointer -shared-libsan -fsanitize=address -fsanitize-address-use-after-scope -Wl,-rpath,/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib/clang/14.0.0/lib/darwin -fno-omit-frame-pointer -shared-libsan -fsanitize=address -fsanitize-address-use-after-scope /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/src/nrnpython/inithoc.o -L/Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib -lnrniv -o /Users/gitlab-runner/builds/2/P217394/J1321683/hpc/cellular/nrn/build/lib/python/neuron/hoc.cpython-310-darwin.so -fno-omit-frame-pointer -shared-libsan -fsanitize=address -fsanitize-address-use-after-scope -Wl,-rpath,/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib/clang/14.0.0/lib/darwin -Wl,-rpath,@loader_path/../../
ld: warning: -undefined dynamic_lookup may not work with chained fixups
INFO:root:running build_scripts
INFO:root:creating build/scripts-3.10
INFO:root:copying and adjusting share/lib/python/scripts/nrniv -> build/scripts-3.10
INFO:root:copying and adjusting share/lib/python/scripts/nrngui -> build/scripts-3.10
INFO:root:copying and adjusting share/lib/python/scripts/nmodl -> build/scripts-3.10
INFO:root:copying and adjusting share/lib/python/scripts/nrniv-core -> build/scripts-3.10
INFO:root:copying and adjusting share/lib/python/scripts/nrnpyenv.sh -> build/scripts-3.10
INFO:root:copying and adjusting share/lib/python/scripts/nrnivmodl-core -> build/scripts-3.10
INFO:root:copying and adjusting share/lib/python/scripts/neurondemo -> build/scripts-3.10
INFO:root:copying and adjusting share/lib/python/scripts/nrnivmodl -> build/scripts-3.10
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test-neuron-nmodl-intel-legacy.txt
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test-neuron-nmodl-nvhpc-acc-legacy.txt
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test-neuron-nmodl-nvhpc-omp-legacy.txt
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test-neuron-nmodl-nvhpc-omp.txt
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