Created
June 27, 2024 15:45
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Logfiles for GitLab pipeline https://bbpgitlab.epfl.ch/hpc/cellular/nrn/-/pipelines/219308 (:no_entry:) running on GitHub PR neuronsimulator/nrn#2948.
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| [0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1719502658:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1719502658:resolve_secrets [0Ksection_start:1719502658:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 15.5.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3541242252, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
| Runner ID 29, project root hpc, project name nrn | |
| Pipeline ID 219308, build ref , job ID 1333471 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308, 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_J1333471_PROD_P2160_CP0_C0 | |
| 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 2276474 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1333471_PROD_P2160_CP0_C0 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308 --time=2:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308 --ntasks=2 --jobid=2276474 --cpus-per-task=8 --mem=160G | |
| section_end:1719502659:prepare_executor [0Ksection_start:1719502659:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Using git from spack modules | |
| Running on r1i6n32 via bbpv1.epfl.ch... | |
| section_end:1719502661:prepare_script [0Ksection_start:1719502661:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| Using git from spack modules | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1719502662:get_sources [0Ksection_start:1719502662:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| Using git from spack modules | |
| [32;1mChecking cache for build:neuron:nmodl:intel:legacy-1-non_protected...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=45232 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1719502668:restore_cache [0Ksection_start:1719502668:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| Using git from spack modules | |
| [32;1mDownloading artifacts for build:nmodl (1333470)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=45647 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=1333470 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
| section_end:1719502668:download_artifacts [0Ksection_start:1719502668:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| Using git from spack modules | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config add concretizer:reuse:false[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333471/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333471/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333471/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333471/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333471/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/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/P219308/J1333468/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:151 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:216 bind: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:233 flags: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:240 aliases: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
| _builtin debug: False | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
| --- concretizer: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333471/spack-config/concretizer.yaml:2 reuse: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308/J1333471_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = ssh://git@bbpgitlab.epfl.ch/ | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron%oneapi ~rx3d~caliper~gpu+coreneuron~legacy-unit~openmp~shared~sympy+tests build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^/ixoq64rwe3feip5rdbbtw2mc7jszelrr | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Cache directory: /nvme/bbpcihpcproj12/2276474/ccache | |
| Config file: /nvme/bbpcihpcproj12/2276474/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: Thu Jun 27 17:37:54 2024 | |
| Local storage: | |
| Cache size (GB): 0.46 / 0.51 (89.71%) | |
| Files: 7883 | |
| Hits: 0 | |
| Misses: 0 | |
| Reads: 0 | |
| Writes: 0 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - neuron%oneapi~caliper+coreneuron~gpu~legacy-unit~openmp~rx3d~shared~sympy+tests build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy | |
| - ^/ixoq64rwe3feip5rdbbtw2mc7jszelrr | |
| Concretized | |
| -------------------------------- | |
| - knjww4l neuron@git.cf0f054a0dea412a4406a45bab955a3c486f76e0=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 | |
| [+] ixoq64r ^nmodl@git.7beaee9751e233f775a177c819d727abde7e4495=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 | |
| [32;1m$ set -o pipefail[0;m | |
| [32;1m$ (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[0;m | |
| ==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308, 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/pigz-2.7-dwjcgu | |
| [+] /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/libyaml-0.2.5-bzl4xc | |
| [+] /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/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/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/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/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-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/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/hdf5-1.14.3-5o77ye | |
| [+] /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-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-pyyaml-5.4.1-2inh3r | |
| [+] /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-pybind11-2.11.1-tabj2m | |
| [+] /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-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-fz3oxtcl57lk2z5alhm3jvnsf6bsoiul [44/49] | |
| ==> 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: 3.51s. Cmake: 5.03s. Build: 1.63s. Install: 0.11s. Post-install: 0.36s. Total: 10.81s | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/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/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/gitlab_map_jobs/bbpcihpcproj12/P219308/software/install_gcc-12.3.0-skylake/nmodl-git.7beaee9751e233f775a177c819d727abde7e4495_develop-ixoq64 | |
| [+] /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.cf0f054a0dea412a4406a45bab955a3c486f76e0=develop-knjww4lr7p34zecualuvhwhcs2nyjurf [49/49] | |
| ==> No binary for neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0=develop-knjww4lr7p34zecualuvhwhcs2nyjurf 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' | |
| 3 errors found in build log: | |
| 401 [ 2%] Generating share/nrn/lib/hoc/attshape.hoc | |
| 402 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333471/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-knjww4lr7p34zecualuvhwhcs2nyjurf/spack-s | |
| rc/share/lib/hoc/attshape.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
| s/bbpcihpcproj12/P219308/J1333471/spack-build/spack-stage-neuron-g | |
| it.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34ze | |
| cualuvhwhcs2nyjurf/spack-build-knjww4l/share/nrn/lib/hoc/attshape. | |
| hoc | |
| 403 [ 2%] Generating share/nrn/demo/dend3/control.hoc | |
| 404 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333471/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-knjww4lr7p34zecualuvhwhcs2nyjurf/spack-s | |
| rc/share/demo/dend3/control.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_j | |
| obs/bbpcihpcproj12/P219308/J1333471/spack-build/spack-stage-neuron | |
| -git.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34 | |
| zecualuvhwhcs2nyjurf/spack-build-knjww4l/share/nrn/demo/dend3/cont | |
| rol.hoc | |
| 405 [ 2%] Linking CXX static library ../../lib/libsparse13.a | |
| 406 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1 | |
| 333471/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45b | |
| ab955a3c486f76e0_develop-knjww4lr7p34zecualuvhwhcs2nyjurf/spack-bu | |
| ild-knjww4l/src/sparse13 && /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 -P CMakeFiles/sparse13.dir/cmake_clean_target.cmake | |
| >> 407 make[2]: *** No rule to make target '/gpfs/bbp.cscs.ch/ssd/gitlab_ | |
| map_jobs/bbpcihpcproj12/P219308/J1333471/spack-build/spack-stage-n | |
| euron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4l | |
| r7p34zecualuvhwhcs2nyjurf/spack-src/src/nrnoc/cabcode.h', needed b | |
| y 'include/cabcode.h'. Stop. | |
| 408 make[2]: *** Waiting for unfinished jobs.... | |
| 409 [ 2%] Generating share/nrn/demo/dend3/dend3.nrn | |
| 410 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333471/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-knjww4lr7p34zecualuvhwhcs2nyjurf/spack-s | |
| rc/share/demo/dend3/dend3.nrn /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
| s/bbpcihpcproj12/P219308/J1333471/spack-build/spack-stage-neuron-g | |
| it.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34ze | |
| cualuvhwhcs2nyjurf/spack-build-knjww4l/share/nrn/demo/dend3/dend3. | |
| nrn | |
| 411 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1 | |
| 333471/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45b | |
| ab955a3c486f76e0_develop-knjww4lr7p34zecualuvhwhcs2nyjurf/spack-bu | |
| ild-knjww4l/src/sparse13 && /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/sparse13.dir/link.txt - | |
| -verbose=1 | |
| 412 [ 2%] Generating share/nrn/demo/dynchan.ses | |
| 413 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333471/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-knjww4lr7p34zecualuvhwhcs2nyjurf/spack-s | |
| rc/share/demo/dynchan.ses /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bb | |
| pcihpcproj12/P219308/J1333471/spack-build/spack-stage-neuron-git.c | |
| f0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34zecual | |
| uvhwhcs2nyjurf/spack-build-knjww4l/share/nrn/demo/dynchan.ses | |
| ... | |
| 417 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333471/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-knjww4lr7p34zecualuvhwhcs2nyjurf/spack-s | |
| rc/share/demo/dend3/syn3.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
| /bbpcihpcproj12/P219308/J1333471/spack-build/spack-stage-neuron-gi | |
| t.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34zec | |
| ualuvhwhcs2nyjurf/spack-build-knjww4l/share/nrn/demo/dend3/syn3.ho | |
| c | |
| 418 [ 2%] Generating share/nrn/lib/hoc/binfo.hoc | |
| 419 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333471/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-knjww4lr7p34zecualuvhwhcs2nyjurf/spack-s | |
| rc/share/lib/hoc/binfo.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b | |
| bpcihpcproj12/P219308/J1333471/spack-build/spack-stage-neuron-git. | |
| cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34zecua | |
| luvhwhcs2nyjurf/spack-build-knjww4l/share/nrn/lib/hoc/binfo.hoc | |
| 420 [ 2%] Generating share/nrn/lib/hoc/celbild.hoc | |
| 421 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333471/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-knjww4lr7p34zecualuvhwhcs2nyjurf/spack-s | |
| rc/share/lib/hoc/celbild.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
| /bbpcihpcproj12/P219308/J1333471/spack-build/spack-stage-neuron-gi | |
| t.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34zec | |
| ualuvhwhcs2nyjurf/spack-build-knjww4l/share/nrn/lib/hoc/celbild.ho | |
| c | |
| 422 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333471/spack-build/spack-stage-neuron-git | |
| .cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34zecu | |
| aluvhwhcs2nyjurf/spack-build-knjww4l' | |
| >> 423 make[1]: *** [CMakeFiles/Makefile2:1317: CMakeFiles/copy_headers_t | |
| o_build.dir/all] Error 2 | |
| 424 make[1]: *** Waiting for unfinished jobs.... | |
| 425 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_compilers/install_ | |
| gcc-4.8.5-haswell/binutils-2.41-o6yabj/bin/ar qc ../../lib/libspar | |
| se13.a CMakeFiles/sparse13.dir/spalloc.cpp.o CMakeFiles/sparse13.d | |
| ir/spbuild.cpp.o CMakeFiles/sparse13.dir/spfactor.cpp.o CMakeFiles | |
| /sparse13.dir/spoutput.cpp.o CMakeFiles/sparse13.dir/spsolve.cpp.o | |
| CMakeFiles/sparse13.dir/sputils.cpp.o | |
| 426 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_compilers/install_ | |
| gcc-4.8.5-haswell/binutils-2.41-o6yabj/bin/ranlib ../../lib/libspa | |
| rse13.a | |
| 427 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333471/spack-build/spack-stage-neuron-git | |
| .cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34zecu | |
| aluvhwhcs2nyjurf/spack-build-knjww4l' | |
| 428 [ 2%] Generating share/nrn/lib/hoc/celbild/celbild1.hoc | |
| 429 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333471/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-knjww4lr7p34zecualuvhwhcs2nyjurf/spack-s | |
| rc/share/lib/hoc/celbild/celbild1.hoc /gpfs/bbp.cscs.ch/ssd/gitlab | |
| _map_jobs/bbpcihpcproj12/P219308/J1333471/spack-build/spack-stage- | |
| neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4 | |
| lr7p34zecualuvhwhcs2nyjurf/spack-build-knjww4l/share/nrn/lib/hoc/c | |
| elbild/celbild1.hoc | |
| ... | |
| 1029 [ 15%] Generating share/nrn/lib/shape.cm1 | |
| 1030 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333471/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-knjww4lr7p34zecualuvhwhcs2nyjurf/spack-s | |
| rc/share/lib/shape.cm1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci | |
| hpcproj12/P219308/J1333471/spack-build/spack-stage-neuron-git.cf0f | |
| 054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34zecualuvh | |
| whcs2nyjurf/spack-build-knjww4l/share/nrn/lib/shape.cm1 | |
| 1031 [ 15%] Copying /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj1 | |
| 2/P219308/J1333471/spack-build/spack-stage-neuron-git.cf0f054a0dea | |
| 412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34zecualuvhwhcs2nyj | |
| urf/spack-src/share/lib to /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b | |
| bpcihpcproj12/P219308/J1333471/spack-build/spack-stage-neuron-git. | |
| cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34zecua | |
| luvhwhcs2nyjurf/spack-build-knjww4l/share/nrn/lib | |
| 1032 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333471/spack-build/spack-stage-neuron-git | |
| .cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34zecu | |
| aluvhwhcs2nyjurf/spack-build-knjww4l' | |
| 1033 [ 15%] Built target copy_share_lib_to_build | |
| 1034 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333471/spack-build/spack-stage-neuron-git | |
| .cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34zecu | |
| aluvhwhcs2nyjurf/spack-build-knjww4l' | |
| >> 1035 make: *** [Makefile:169: all] Error 2 | |
| See build log for details: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333471/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-knjww4lr7p34zecualuvhwhcs2nyjurf/spack-build-out.txt | |
| [32;1m$ set +o pipefail[0;m | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| srun: error: r1i6n32: task 0: Exited with exit code 1 | |
| section_end:1719502931:step_script [0Ksection_start:1719502931:upload_artifacts_on_failure [0K[0K[36;1mUploading artifacts for failed job[0;m[0;m | |
| Using git from spack modules | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=54687 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=1333471 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=54745 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=1333471 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=54853 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=1333471 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| section_end:1719502932:upload_artifacts_on_failure [0Ksection_start:1719502932:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| Using git from spack modules | |
| section_end:1719502933:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1 | |
| [0;m |
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Learn more about bidirectional Unicode characters
| [0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1719502659:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1719502659:resolve_secrets [0Ksection_start:1719502659:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 15.5.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor921086672, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
| Runner ID 29, project root hpc, project name nrn | |
| Pipeline ID 219308, build ref , job ID 1333473 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308, 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_J1333473_PROD_P2160_CP2_C3 | |
| 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 2276476 | |
| job state: PD | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1333473_PROD_P2160_CP2_C3 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308 --time=2:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308 --ntasks=2 --jobid=2276476 --cpus-per-task=8 --mem=160G | |
| section_end:1719502661:prepare_executor [0Ksection_start:1719502661:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Using git from spack modules | |
| Running on r1i5n18 via bbpv1.epfl.ch... | |
| section_end:1719502665:prepare_script [0Ksection_start:1719502665:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| Using git from spack modules | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1719502666:get_sources [0Ksection_start:1719502666:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| Using git from spack modules | |
| [32;1mChecking cache for build:neuron:nmodl:nvhpc:acc:legacy-1-non_protected...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=103910 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1719502671:restore_cache [0Ksection_start:1719502671:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| Using git from spack modules | |
| [32;1mDownloading artifacts for build:nmodl (1333470)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=104027 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=1333470 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
| section_end:1719502672:download_artifacts [0Ksection_start:1719502672:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| Using git from spack modules | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config add concretizer:reuse:false[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333473/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333473/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333473/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333473/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333473/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/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/P219308/J1333468/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:151 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:216 bind: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:233 flags: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:240 aliases: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
| _builtin debug: False | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
| --- concretizer: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333473/spack-config/concretizer.yaml:2 reuse: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308/J1333473_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = ssh://git@bbpgitlab.epfl.ch/ | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron%nvhpc ~rx3d~caliper+gpu+coreneuron~legacy-unit~openmp~shared~sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^/ixoq64rwe3feip5rdbbtw2mc7jszelrr | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Cache directory: /nvme/bbpcihpcproj12/2276476/ccache | |
| Config file: /nvme/bbpcihpcproj12/2276476/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: Thu Jun 27 17:37:58 2024 | |
| Local storage: | |
| Cache size (GB): 0.46 / 0.51 (89.07%) | |
| Files: 9914 | |
| Hits: 0 | |
| Misses: 0 | |
| Reads: 0 | |
| Writes: 0 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| 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 | |
| - ^/ixoq64rwe3feip5rdbbtw2mc7jszelrr | |
| Concretized | |
| -------------------------------- | |
| - xnog5rk neuron@git.cf0f054a0dea412a4406a45bab955a3c486f76e0=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 | |
| [+] ixoq64r ^nmodl@git.7beaee9751e233f775a177c819d727abde7e4495=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 | |
| [32;1m$ set -o pipefail[0;m | |
| [32;1m$ (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[0;m | |
| ==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308, 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/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/libyaml-0.2.5-bzl4xc | |
| [+] /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/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/pigz-2.7-dwjcgu | |
| [+] /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-mpi4py-3.1.4-x733hw | |
| [+] /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-coverage-7.2.6-wuxetk | |
| [+] /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-setuptools-68.0.0-p3xbqx | |
| [+] /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/hdf5-1.14.3-5o77ye | |
| [+] /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/libxml2-2.10.3-oh2g4i | |
| [+] /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-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/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-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-pybind11-2.11.1-tabj2m | |
| [+] /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-cov-4.0.0-z5nf6n | |
| [+] /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/gitlab_map_jobs/bbpcihpcproj12/P219308/software/install_gcc-12.3.0-skylake/nmodl-git.7beaee9751e233f775a177c819d727abde7e4495_develop-ixoq64 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/software/install_nvhpc-23.1-skylake/libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6cwi | |
| ==> Installing neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0=develop-xnog5rkx2scy7m64kd7j2pbeerddmdcs [50/50] | |
| ==> No binary for neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0=develop-xnog5rkx2scy7m64kd7j2pbeerddmdcs 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' | |
| 3 errors found in build log: | |
| 488 | |
| 489 "../../../spack-src/src/sparse13/sputils.cpp", line 82: warning: f | |
| unction "ComplexCondition" was declared but never referenced [decl | |
| ared_but_not_referenced] | |
| 490 static RealNumber ComplexCondition(MatrixPtr Matrix, RealNumber | |
| NormOfMatrix, int* pError); | |
| 491 ^ | |
| 492 | |
| 493 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333473/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pbeerddmdcs/spack-s | |
| rc/share/demo/dynclamp.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b | |
| bpcihpcproj12/P219308/J1333473/spack-build/spack-stage-neuron-git. | |
| cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m64k | |
| d7j2pbeerddmdcs/spack-build-xnog5rk/share/nrn/demo/dynclamp.hoc | |
| >> 494 make[2]: *** No rule to make target '/gpfs/bbp.cscs.ch/ssd/gitlab_ | |
| map_jobs/bbpcihpcproj12/P219308/J1333473/spack-build/spack-stage-n | |
| euron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rk | |
| x2scy7m64kd7j2pbeerddmdcs/spack-src/src/nrnoc/cabcode.h', needed b | |
| y 'include/cabcode.h'. Stop. | |
| 495 make[2]: *** Waiting for unfinished jobs.... | |
| 496 [ 1%] Generating share/nrn/lib/hoc/attshape.hoc | |
| 497 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333473/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pbeerddmdcs/spack-s | |
| rc/share/lib/hoc/attshape.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
| s/bbpcihpcproj12/P219308/J1333473/spack-build/spack-stage-neuron-g | |
| it.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m | |
| 64kd7j2pbeerddmdcs/spack-build-xnog5rk/share/nrn/lib/hoc/attshape. | |
| hoc | |
| 498 [ 1%] Generating include/cabvars.h | |
| 499 [ 1%] Linking CXX static library ../../lib/libsparse13.a | |
| 500 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333473/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pbeerddmdcs/spack-s | |
| rc/src/nrnoc/cabvars.h /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci | |
| hpcproj12/P219308/J1333473/spack-build/spack-stage-neuron-git.cf0f | |
| 054a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2 | |
| pbeerddmdcs/spack-build-xnog5rk/include/cabvars.h | |
| ... | |
| 507 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333473/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pbeerddmdcs/spack-s | |
| rc/share/lib/hoc/celbild/celbild1.hoc /gpfs/bbp.cscs.ch/ssd/gitlab | |
| _map_jobs/bbpcihpcproj12/P219308/J1333473/spack-build/spack-stage- | |
| neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-xnog5r | |
| kx2scy7m64kd7j2pbeerddmdcs/spack-build-xnog5rk/share/nrn/lib/hoc/c | |
| elbild/celbild1.hoc | |
| 508 [ 1%] Generating share/nrn/demo/dynclamp.ses | |
| 509 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333473/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pbeerddmdcs/spack-s | |
| rc/share/demo/dynclamp.ses /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b | |
| bpcihpcproj12/P219308/J1333473/spack-build/spack-stage-neuron-git. | |
| cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m64k | |
| d7j2pbeerddmdcs/spack-build-xnog5rk/share/nrn/demo/dynclamp.ses | |
| 510 [ 1%] Generating share/nrn/demo/hh.hoc | |
| 511 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333473/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pbeerddmdcs/spack-s | |
| rc/share/demo/hh.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihp | |
| cproj12/P219308/J1333473/spack-build/spack-stage-neuron-git.cf0f05 | |
| 4a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pb | |
| eerddmdcs/spack-build-xnog5rk/share/nrn/demo/hh.hoc | |
| 512 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333473/spack-build/spack-stage-neuron-git | |
| .cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m64 | |
| kd7j2pbeerddmdcs/spack-build-xnog5rk' | |
| >> 513 make[1]: *** [CMakeFiles/Makefile2:1483: CMakeFiles/copy_headers_t | |
| o_build.dir/all] Error 2 | |
| 514 make[1]: *** Waiting for unfinished jobs.... | |
| 515 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1 | |
| 333473/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45b | |
| ab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pbeerddmdcs/spack-bu | |
| ild-xnog5rk/src/sparse13 && /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/sparse13.dir/link.txt - | |
| -verbose=1 | |
| 516 [ 1%] Generating share/nrn/demo/nomodel.hoc | |
| 517 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333473/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pbeerddmdcs/spack-s | |
| rc/share/demo/nomodel.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bb | |
| pcihpcproj12/P219308/J1333473/spack-build/spack-stage-neuron-git.c | |
| f0f054a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd | |
| 7j2pbeerddmdcs/spack-build-xnog5rk/share/nrn/demo/nomodel.hoc | |
| 518 [ 1%] Generating share/nrn/demo/hh.ses | |
| 519 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333473/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pbeerddmdcs/spack-s | |
| rc/share/demo/hh.ses /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihp | |
| cproj12/P219308/J1333473/spack-build/spack-stage-neuron-git.cf0f05 | |
| 4a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pb | |
| eerddmdcs/spack-build-xnog5rk/share/nrn/demo/hh.ses | |
| ... | |
| 1112 [ 12%] Generating share/nrn/lib/shape.cm1 | |
| 1113 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333473/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pbeerddmdcs/spack-s | |
| rc/share/lib/shape.cm1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci | |
| hpcproj12/P219308/J1333473/spack-build/spack-stage-neuron-git.cf0f | |
| 054a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2 | |
| pbeerddmdcs/spack-build-xnog5rk/share/nrn/lib/shape.cm1 | |
| 1114 [ 12%] Copying /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj1 | |
| 2/P219308/J1333473/spack-build/spack-stage-neuron-git.cf0f054a0dea | |
| 412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pbeerddm | |
| dcs/spack-src/share/lib to /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b | |
| bpcihpcproj12/P219308/J1333473/spack-build/spack-stage-neuron-git. | |
| cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m64k | |
| d7j2pbeerddmdcs/spack-build-xnog5rk/share/nrn/lib | |
| 1115 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333473/spack-build/spack-stage-neuron-git | |
| .cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m64 | |
| kd7j2pbeerddmdcs/spack-build-xnog5rk' | |
| 1116 [ 12%] Built target copy_share_lib_to_build | |
| 1117 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333473/spack-build/spack-stage-neuron-git | |
| .cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m64 | |
| kd7j2pbeerddmdcs/spack-build-xnog5rk' | |
| >> 1118 make: *** [Makefile:169: all] Error 2 | |
| See build log for details: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333473/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-xnog5rkx2scy7m64kd7j2pbeerddmdcs/spack-build-out.txt | |
| [32;1m$ set +o pipefail[0;m | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| srun: error: r1i5n18: task 0: Exited with exit code 1 | |
| section_end:1719502921:step_script [0Ksection_start:1719502921:upload_artifacts_on_failure [0K[0K[36;1mUploading artifacts for failed job[0;m[0;m | |
| Using git from spack modules | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=108580 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=1333473 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=108619 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=1333473 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=108660 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=1333473 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| section_end:1719502922:upload_artifacts_on_failure [0Ksection_start:1719502922:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| Using git from spack modules | |
| section_end:1719502923:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1 | |
| [0;m |
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| [0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1719502661:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1719502661:resolve_secrets [0Ksection_start:1719502661:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 15.5.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor546495145, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
| Runner ID 29, project root hpc, project name nrn | |
| Pipeline ID 219308, build ref , job ID 1333475 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308, 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_J1333475_PROD_P2160_CP4_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 2276478 | |
| 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_J1333475_PROD_P2160_CP4_C5 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308 --time=2:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308 --ntasks=2 --jobid=2276478 --cpus-per-task=8 --mem=160G | |
| section_end:1719502665:prepare_executor [0Ksection_start:1719502665:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Using git from spack modules | |
| Running on r1i5n20 via bbpv1.epfl.ch... | |
| section_end:1719502668:prepare_script [0Ksection_start:1719502668:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| Using git from spack modules | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1719502669:get_sources [0Ksection_start:1719502669:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| Using git from spack modules | |
| [32;1mChecking cache for build:neuron:nmodl:nvhpc:omp:legacy-1-non_protected...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=146598 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1719502674:restore_cache [0Ksection_start:1719502674:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| Using git from spack modules | |
| [32;1mDownloading artifacts for build:nmodl (1333470)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=146717 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=1333470 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
| section_end:1719502675:download_artifacts [0Ksection_start:1719502675:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| Using git from spack modules | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config add concretizer:reuse:false[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333475/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333475/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333475/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333475/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333475/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/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/P219308/J1333468/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:151 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:216 bind: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:233 flags: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:240 aliases: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
| _builtin debug: False | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
| --- concretizer: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333475/spack-config/concretizer.yaml:2 reuse: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308/J1333475_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = ssh://git@bbpgitlab.epfl.ch/ | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron%nvhpc ~rx3d+caliper+gpu+coreneuron~legacy-unit+openmp~shared~sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^caliper+cuda cuda_arch=70 ^/ixoq64rwe3feip5rdbbtw2mc7jszelrr | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Cache directory: /nvme/bbpcihpcproj12/2276478/ccache | |
| Config file: /nvme/bbpcihpcproj12/2276478/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: Thu Jun 27 17:38:01 2024 | |
| Local storage: | |
| Cache size (GB): 0.45 / 0.51 (88.75%) | |
| Files: 10530 | |
| Hits: 0 | |
| Misses: 0 | |
| Reads: 0 | |
| Writes: 0 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| 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 | |
| - ^/ixoq64rwe3feip5rdbbtw2mc7jszelrr | |
| - ^caliper+cuda cuda_arch=70 | |
| Concretized | |
| -------------------------------- | |
| - pykwqwo neuron@git.cf0f054a0dea412a4406a45bab955a3c486f76e0=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 | |
| [+] ixoq64r ^nmodl@git.7beaee9751e233f775a177c819d727abde7e4495=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 | |
| [32;1m$ set -o pipefail[0;m | |
| [32;1m$ (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[0;m | |
| ==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308, 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/hdf5-1.14.3-5o77ye | |
| [+] /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/cli11-2.3.2-ud3ech | |
| [+] /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/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/libxml2-2.10.3-oh2g4i | |
| [+] /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/adiak-0.4.0-hficqq | |
| [+] /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/libunwind-1.6.2-7xnekx | |
| [+] /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/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-pyyaml-5.4.1-2inh3r | |
| [+] /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-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-pluggy-1.0.0-6su7kv | |
| [+] /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-setuptools-68.0.0-p3xbqx | |
| [+] /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/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-markupsafe-2.1.3-r3ehtm | |
| [+] /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/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/software/install_gcc-12.3.0-skylake/nmodl-git.7beaee9751e233f775a177c819d727abde7e4495_develop-ixoq64 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/software/install_nvhpc-23.1-skylake/libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6cwi | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/software/install_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp | |
| ==> Installing neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0=develop-pykwqwo6q33kgj6ywna7hsanc5rdwqfb [55/55] | |
| ==> No binary for neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0=develop-pykwqwo6q33kgj6ywna7hsanc5rdwqfb 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' | |
| 3 errors found in build log: | |
| 435 ^ | |
| 436 | |
| 437 "../../../spack-src/src/sparse13/spsolve.cpp", line 60: warning: f | |
| unction "SolveComplexTransposedMatrix" was declared but never refe | |
| renced [declared_but_not_referenced] | |
| 438 static void SolveComplexTransposedMatrix(MatrixPtr Matrix, RealV | |
| ector RHS, RealVector Solution, std::optional<RealVector> iRHS = s | |
| td::nullopt, std::optional<RealVector> iSolution = std::nullopt); | |
| 439 ^ | |
| 440 | |
| >> 441 make[2]: *** No rule to make target '/gpfs/bbp.cscs.ch/ssd/gitlab_ | |
| map_jobs/bbpcihpcproj12/P219308/J1333475/spack-build/spack-stage-n | |
| euron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-pykwqwo | |
| 6q33kgj6ywna7hsanc5rdwqfb/spack-src/src/nrnoc/cabcode.h', needed b | |
| y 'include/cabcode.h'. Stop. | |
| 442 make[2]: *** Waiting for unfinished jobs.... | |
| 443 [ 0%] Building CXX object src/sparse13/CMakeFiles/sparse13.dir/sp | |
| utils.cpp.o | |
| 444 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1 | |
| 333475/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45b | |
| ab955a3c486f76e0_develop-pykwqwo6q33kgj6ywna7hsanc5rdwqfb/spack-bu | |
| ild-pykwqwo/src/sparse13 && /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333468/spack/lib/spack/env/nvhpc/nvc++ -D | |
| HAVE_CONFIG_H -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIND=1 -DNRN_CALIP | |
| ER -DNRN_PROFILING -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/gi | |
| tlab_map_jobs/bbpcihpcproj12/P219308/software/install_gcc-12.3.0-s | |
| kylake/caliper-2.11.0-vjj3tp/include -tp haswell -g -O1 -fno-omit- | |
| frame-pointer --c++17 -fPIC -MD -MT src/sparse13/CMakeFiles/spars | |
| e13.dir/sputils.cpp.o -MF CMakeFiles/sparse13.dir/sputils.cpp.o.d | |
| -o CMakeFiles/sparse13.dir/sputils.cpp.o -c /gpfs/bbp.cscs.ch/ssd/ | |
| gitlab_map_jobs/bbpcihpcproj12/P219308/J1333475/spack-build/spack- | |
| stage-neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop- | |
| pykwqwo6q33kgj6ywna7hsanc5rdwqfb/spack-src/src/sparse13/sputils.cp | |
| p | |
| 445 [ 0%] Generating share/nrn/lib/cleanup | |
| 446 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333475/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-pykwqwo6q33kgj6ywna7hsanc5rdwqfb/spack-s | |
| rc/share/lib/cleanup /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihp | |
| cproj12/P219308/J1333475/spack-build/spack-stage-neuron-git.cf0f05 | |
| 4a0dea412a4406a45bab955a3c486f76e0_develop-pykwqwo6q33kgj6ywna7hsa | |
| nc5rdwqfb/spack-build-pykwqwo/share/nrn/lib/cleanup | |
| 447 [ 0%] Generating share/nrn/demo/dend3/syn3.hoc | |
| ... | |
| 502 static RealNumber ComplexCondition(MatrixPtr Matrix, RealNumber | |
| NormOfMatrix, int* pError); | |
| 503 ^ | |
| 504 | |
| 505 [ 0%] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/Binomial. | |
| cpp.o | |
| 506 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1 | |
| 333475/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45b | |
| ab955a3c486f76e0_develop-pykwqwo6q33kgj6ywna7hsanc5rdwqfb/spack-bu | |
| ild-pykwqwo/src/gnu && /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci | |
| hpcproj12/P219308/J1333468/spack/lib/spack/env/nvhpc/nvc++ -DHAVE_ | |
| CONFIG_H -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIND=1 -DNRN_CALIPER -D | |
| NRN_PROFILING -DOMPI_SKIP_MPICXX=1 -DR123_USE_INTRIN_H=0 -I/gpfs/b | |
| bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/software/ins | |
| tall_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp/include -isystem /gp | |
| fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333475 | |
| /spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45bab955a | |
| 3c486f76e0_develop-pykwqwo6q33kgj6ywna7hsanc5rdwqfb/spack-src/exte | |
| rnal/Random123/include -tp haswell -g -O1 -fno-omit-frame-pointer | |
| --c++17 -fPIC -MD -MT src/gnu/CMakeFiles/nrngnu.dir/Binomial.cpp. | |
| o -MF CMakeFiles/nrngnu.dir/Binomial.cpp.o.d -o CMakeFiles/nrngnu. | |
| dir/Binomial.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcih | |
| pcproj12/P219308/J1333475/spack-build/spack-stage-neuron-git.cf0f0 | |
| 54a0dea412a4406a45bab955a3c486f76e0_develop-pykwqwo6q33kgj6ywna7hs | |
| anc5rdwqfb/spack-src/src/gnu/Binomial.cpp | |
| 507 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333475/spack-build/spack-stage-neuron-git | |
| .cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-pykwqwo6q33kgj6y | |
| wna7hsanc5rdwqfb/spack-build-pykwqwo' | |
| >> 508 make[1]: *** [CMakeFiles/Makefile2:1483: CMakeFiles/copy_headers_t | |
| o_build.dir/all] Error 2 | |
| 509 make[1]: *** Waiting for unfinished jobs.... | |
| 510 [ 0%] Generating share/nrn/demo/dynclamp.hoc | |
| 511 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333475/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-pykwqwo6q33kgj6ywna7hsanc5rdwqfb/spack-s | |
| rc/share/demo/dynclamp.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b | |
| bpcihpcproj12/P219308/J1333475/spack-build/spack-stage-neuron-git. | |
| cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-pykwqwo6q33kgj6yw | |
| na7hsanc5rdwqfb/spack-build-pykwqwo/share/nrn/demo/dynclamp.hoc | |
| 512 [ 1%] Generating share/nrn/lib/hoc/atoltool.hoc | |
| 513 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333475/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-pykwqwo6q33kgj6ywna7hsanc5rdwqfb/spack-s | |
| rc/share/lib/hoc/atoltool.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
| s/bbpcihpcproj12/P219308/J1333475/spack-build/spack-stage-neuron-g | |
| it.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-pykwqwo6q33kgj | |
| 6ywna7hsanc5rdwqfb/spack-build-pykwqwo/share/nrn/lib/hoc/atoltool. | |
| hoc | |
| 514 [ 1%] Linking CXX static library ../../lib/libsparse13.a | |
| ... | |
| 1188 [ 13%] Generating share/nrn/lib/shape.cm1 | |
| 1189 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333475/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-pykwqwo6q33kgj6ywna7hsanc5rdwqfb/spack-s | |
| rc/share/lib/shape.cm1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci | |
| hpcproj12/P219308/J1333475/spack-build/spack-stage-neuron-git.cf0f | |
| 054a0dea412a4406a45bab955a3c486f76e0_develop-pykwqwo6q33kgj6ywna7h | |
| sanc5rdwqfb/spack-build-pykwqwo/share/nrn/lib/shape.cm1 | |
| 1190 [ 13%] Copying /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj1 | |
| 2/P219308/J1333475/spack-build/spack-stage-neuron-git.cf0f054a0dea | |
| 412a4406a45bab955a3c486f76e0_develop-pykwqwo6q33kgj6ywna7hsanc5rdw | |
| qfb/spack-src/share/lib to /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b | |
| bpcihpcproj12/P219308/J1333475/spack-build/spack-stage-neuron-git. | |
| cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-pykwqwo6q33kgj6yw | |
| na7hsanc5rdwqfb/spack-build-pykwqwo/share/nrn/lib | |
| 1191 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333475/spack-build/spack-stage-neuron-git | |
| .cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-pykwqwo6q33kgj6y | |
| wna7hsanc5rdwqfb/spack-build-pykwqwo' | |
| 1192 [ 13%] Built target copy_share_lib_to_build | |
| 1193 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333475/spack-build/spack-stage-neuron-git | |
| .cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-pykwqwo6q33kgj6y | |
| wna7hsanc5rdwqfb/spack-build-pykwqwo' | |
| >> 1194 make: *** [Makefile:169: all] Error 2 | |
| See build log for details: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333475/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-pykwqwo6q33kgj6ywna7hsanc5rdwqfb/spack-build-out.txt | |
| [32;1m$ set +o pipefail[0;m | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| srun: error: r1i5n20: task 0: Exited with exit code 1 | |
| section_end:1719502949:step_script [0Ksection_start:1719502949:upload_artifacts_on_failure [0K[0K[36;1mUploading artifacts for failed job[0;m[0;m | |
| Using git from spack modules | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=151606 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=1333475 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=151645 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=1333475 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=151686 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=1333475 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| section_end:1719502951:upload_artifacts_on_failure [0Ksection_start:1719502951:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| Using git from spack modules | |
| section_end:1719502952:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1 | |
| [0;m |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| [0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1719502662:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1719502662:resolve_secrets [0Ksection_start:1719502662:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 15.5.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3646675735, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
| Runner ID 29, project root hpc, project name nrn | |
| Pipeline ID 219308, build ref , job ID 1333476 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308, 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_J1333476_PROD_P2160_CP5_C6 | |
| 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 2276479 | |
| 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_J1333476_PROD_P2160_CP5_C6 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308 --time=2:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308 --ntasks=2 --jobid=2276479 --cpus-per-task=8 --mem=160G | |
| section_end:1719502665:prepare_executor [0Ksection_start:1719502665:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Using git from spack modules | |
| Running on r1i5n21 via bbpv1.epfl.ch... | |
| section_end:1719502668:prepare_script [0Ksection_start:1719502668:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| Using git from spack modules | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1719502669:get_sources [0Ksection_start:1719502669:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| Using git from spack modules | |
| [32;1mChecking cache for build:neuron:nmodl:nvhpc:omp-1-non_protected...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=16333 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1719502674:restore_cache [0Ksection_start:1719502674:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| Using git from spack modules | |
| [32;1mDownloading artifacts for build:nmodl (1333470)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=16451 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=1333470 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
| section_end:1719502675:download_artifacts [0Ksection_start:1719502675:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| Using git from spack modules | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config add concretizer:reuse:false[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333476/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333476/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333476/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333476/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333476/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/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/P219308/J1333468/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:151 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:216 bind: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:233 flags: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:240 aliases: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
| _builtin debug: False | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
| --- concretizer: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333476/spack-config/concretizer.yaml:2 reuse: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308/J1333476_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = ssh://git@bbpgitlab.epfl.ch/ | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron%nvhpc ~rx3d+caliper+gpu+coreneuron~legacy-unit+openmp~shared+sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^caliper+cuda cuda_arch=70 ^/ixoq64rwe3feip5rdbbtw2mc7jszelrr | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Cache directory: /nvme/bbpcihpcproj12/2276479/ccache | |
| Config file: /nvme/bbpcihpcproj12/2276479/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: Thu Jun 27 17:38:01 2024 | |
| Local storage: | |
| Cache size (GB): 0.46 / 0.51 (89.01%) | |
| Files: 10486 | |
| Hits: 0 | |
| Misses: 0 | |
| Reads: 0 | |
| Writes: 0 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| 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 | |
| - ^/ixoq64rwe3feip5rdbbtw2mc7jszelrr | |
| - ^caliper+cuda cuda_arch=70 | |
| Concretized | |
| -------------------------------- | |
| - vrmqa2y neuron@git.cf0f054a0dea412a4406a45bab955a3c486f76e0=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 | |
| [+] ixoq64r ^nmodl@git.7beaee9751e233f775a177c819d727abde7e4495=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 | |
| [32;1m$ set -o pipefail[0;m | |
| [32;1m$ (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[0;m | |
| ==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308, 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/cli11-2.3.2-ud3ech | |
| [+] /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/pigz-2.7-dwjcgu | |
| [+] /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/libyaml-0.2.5-bzl4xc | |
| [+] /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/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/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/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-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-mpmath-1.2.1-4fflyi | |
| [+] /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-numpy-1.26.1-elr5pn | |
| [+] /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-pluggy-1.0.0-6su7kv | |
| [+] /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-coverage-7.2.6-wuxetk | |
| [+] /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-find-libpython-0.3.1-5dylnc | |
| [+] /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-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/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/elfutils-0.189-a46bi6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/software/install_gcc-12.3.0-skylake/nmodl-git.7beaee9751e233f775a177c819d727abde7e4495_develop-ixoq64 | |
| [+] /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 caliper-2.11.0-vjj3tplvh6es4rqhqhzfqqelewsp44m2 [54/55] | |
| ==> 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: 3.04s. Cmake: 9.29s. Build: 7.87s. Install: 1.06s. Post-install: 0.18s. Total: 21.73s | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/software/install_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/software/install_nvhpc-23.1-skylake/libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6cwi | |
| ==> Installing neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0=develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd [55/55] | |
| ==> No binary for neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0=develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd 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' | |
| 3 errors found in build log: | |
| 469 [ 0%] Generating include/nrnmpidec.h | |
| 470 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333476/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd/spack-s | |
| rc/src/nrnmpi/nrnmpidec.h /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bb | |
| pcihpcproj12/P219308/J1333476/spack-build/spack-stage-neuron-git.c | |
| f0f054a0dea412a4406a45bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mf | |
| s4l5bj73fbjghd/spack-build-vrmqa2y/include/nrnmpidec.h | |
| 471 [ 0%] [BISON][modlunitparser] Building parser with bison 3.8.2 | |
| 472 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_ | |
| gcc-12.3.0-skylake/bison-3.8.2-qcx3sg/bin/bison --defines=src/nrni | |
| v/modlunit_generated/parse1.hpp -o src/nrniv/modlunit_generated/pa | |
| rse1.cpp ../spack-src/src/modlunit/parse1.ypp | |
| 473 [ 1%] Generating share/nrn/lib/hoc/atoltool.hoc | |
| 474 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333476/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd/spack-s | |
| rc/share/lib/hoc/atoltool.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
| s/bbpcihpcproj12/P219308/J1333476/spack-build/spack-stage-neuron-g | |
| it.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-vrmqa2yk4u56og | |
| n3mfs4l5bj73fbjghd/spack-build-vrmqa2y/share/nrn/lib/hoc/atoltool. | |
| hoc | |
| >> 475 make[2]: *** No rule to make target '/gpfs/bbp.cscs.ch/ssd/gitlab_ | |
| map_jobs/bbpcihpcproj12/P219308/J1333476/spack-build/spack-stage-n | |
| euron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-vrmqa2y | |
| k4u56ogn3mfs4l5bj73fbjghd/spack-src/src/nrnoc/cabcode.h', needed b | |
| y 'include/cabcode.h'. Stop. | |
| 476 make[2]: *** Waiting for unfinished jobs.... | |
| 477 "../../../spack-src/src/sparse13/sputils.cpp", line 874: warning: | |
| variable "Norm" was declared but never referenced [declared_but_no | |
| t_referenced] | |
| 478 RealNumber Norm, nr, ni; | |
| 479 ^ | |
| 480 | |
| 481 Remark: individual warnings can be suppressed with "--diag_suppres | |
| s <warning-name>" | |
| ... | |
| 532 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1 | |
| 333476/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45b | |
| ab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd/spack-bu | |
| ild-vrmqa2y/src/sparse13 && /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 -P CMakeFiles/sparse13.dir/cmake_clean_target.cmake | |
| 533 [ 1%] Generating share/nrn/lib/hoc/attshape.hoc | |
| 534 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333476/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd/spack-s | |
| rc/share/lib/hoc/attshape.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
| s/bbpcihpcproj12/P219308/J1333476/spack-build/spack-stage-neuron-g | |
| it.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-vrmqa2yk4u56og | |
| n3mfs4l5bj73fbjghd/spack-build-vrmqa2y/share/nrn/lib/hoc/attshape. | |
| hoc | |
| 535 [ 1%] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/DiscUnif. | |
| cpp.o | |
| 536 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1 | |
| 333476/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45b | |
| ab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd/spack-bu | |
| ild-vrmqa2y/src/gnu && /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci | |
| hpcproj12/P219308/J1333468/spack/lib/spack/env/nvhpc/nvc++ -DHAVE_ | |
| CONFIG_H -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIND=1 -DNRN_CALIPER -D | |
| NRN_PROFILING -DOMPI_SKIP_MPICXX=1 -DR123_USE_INTRIN_H=0 -I/gpfs/b | |
| bp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/software/ins | |
| tall_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp/include -isystem /gp | |
| fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333476 | |
| /spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45bab955a | |
| 3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd/spack-src/exte | |
| rnal/Random123/include -tp haswell -g -O1 -fno-omit-frame-pointer | |
| --c++17 -fPIC -MD -MT src/gnu/CMakeFiles/nrngnu.dir/DiscUnif.cpp. | |
| o -MF CMakeFiles/nrngnu.dir/DiscUnif.cpp.o.d -o CMakeFiles/nrngnu. | |
| dir/DiscUnif.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcih | |
| pcproj12/P219308/J1333476/spack-build/spack-stage-neuron-git.cf0f0 | |
| 54a0dea412a4406a45bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5 | |
| bj73fbjghd/spack-src/src/gnu/DiscUnif.cpp | |
| 537 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333476/spack-build/spack-stage-neuron-git | |
| .cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3 | |
| mfs4l5bj73fbjghd/spack-build-vrmqa2y' | |
| >> 538 make[1]: *** [CMakeFiles/Makefile2:1483: CMakeFiles/copy_headers_t | |
| o_build.dir/all] Error 2 | |
| 539 make[1]: *** Waiting for unfinished jobs.... | |
| 540 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1 | |
| 333476/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45b | |
| ab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd/spack-bu | |
| ild-vrmqa2y/src/nrniv && sed /^#/d neuron.tmp1 > neuron.tmp2 | |
| 541 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1 | |
| 333476/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45b | |
| ab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd/spack-bu | |
| ild-vrmqa2y/src/sparse13 && /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/sparse13.dir/link.txt - | |
| -verbose=1 | |
| 542 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1 | |
| 333476/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45b | |
| ab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd/spack-bu | |
| ild-vrmqa2y/src/nrniv && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01 | |
| /stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m/b | |
| in/python3.11 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12 | |
| /P219308/J1333476/spack-build/spack-stage-neuron-git.cf0f054a0dea4 | |
| 12a4406a45bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjg | |
| hd/spack-src/src/oc/mk_hocusr_h.py < neuron.tmp2 > /gpfs/bbp.cscs. | |
| ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333476/spack-build | |
| /spack-stage-neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0_d | |
| evelop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd/spack-build-vrmqa2y/src/oc | |
| /hocusr.h | |
| 543 [ 1%] Generating share/nrn/demo/hh.hoc | |
| 544 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333476/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd/spack-s | |
| rc/share/demo/hh.hoc /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihp | |
| cproj12/P219308/J1333476/spack-build/spack-stage-neuron-git.cf0f05 | |
| 4a0dea412a4406a45bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5b | |
| j73fbjghd/spack-build-vrmqa2y/share/nrn/demo/hh.hoc | |
| ... | |
| 1212 [ 13%] Generating share/nrn/lib/shape.cm1 | |
| 1213 /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_differ | |
| ent /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J | |
| 1333476/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45 | |
| bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd/spack-s | |
| rc/share/lib/shape.cm1 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci | |
| hpcproj12/P219308/J1333476/spack-build/spack-stage-neuron-git.cf0f | |
| 054a0dea412a4406a45bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l | |
| 5bj73fbjghd/spack-build-vrmqa2y/share/nrn/lib/shape.cm1 | |
| 1214 [ 13%] Copying /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj1 | |
| 2/P219308/J1333476/spack-build/spack-stage-neuron-git.cf0f054a0dea | |
| 412a4406a45bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbj | |
| ghd/spack-src/share/lib to /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b | |
| bpcihpcproj12/P219308/J1333476/spack-build/spack-stage-neuron-git. | |
| cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3m | |
| fs4l5bj73fbjghd/spack-build-vrmqa2y/share/nrn/lib | |
| 1215 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333476/spack-build/spack-stage-neuron-git | |
| .cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3 | |
| mfs4l5bj73fbjghd/spack-build-vrmqa2y' | |
| 1216 [ 13%] Built target copy_share_lib_to_build | |
| 1217 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
| bbpcihpcproj12/P219308/J1333476/spack-build/spack-stage-neuron-git | |
| .cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3 | |
| mfs4l5bj73fbjghd/spack-build-vrmqa2y' | |
| >> 1218 make: *** [Makefile:169: all] Error 2 | |
| See build log for details: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333476/spack-build/spack-stage-neuron-git.cf0f054a0dea412a4406a45bab955a3c486f76e0_develop-vrmqa2yk4u56ogn3mfs4l5bj73fbjghd/spack-build-out.txt | |
| [32;1m$ set +o pipefail[0;m | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| srun: error: r1i5n21: task 0: Exited with exit code 1 | |
| section_end:1719502964:step_script [0Ksection_start:1719502964:upload_artifacts_on_failure [0K[0K[36;1mUploading artifacts for failed job[0;m[0;m | |
| Using git from spack modules | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=22681 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=1333476 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=22720 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=1333476 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=22758 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=1333476 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| section_end:1719502966:upload_artifacts_on_failure [0Ksection_start:1719502966:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| Using git from spack modules | |
| section_end:1719502966:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1 | |
| [0;m |
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| [0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1719502321:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1719502321:resolve_secrets [0Ksection_start:1719502321:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 15.5.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor3422937151, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
| Runner ID 29, project root hpc, project name nrn | |
| Pipeline ID 219308, build ref , job ID 1333470 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308, 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_J1333470_PROD_P2160_CP0_C0 | |
| 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 2276470 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1333470_PROD_P2160_CP0_C0 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308 --ntasks=2 --jobid=2276470 --cpus-per-task=8 --mem=160G | |
| section_end:1719502323:prepare_executor [0Ksection_start:1719502323:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Using git from spack modules | |
| Running on r1i6n32 via bbpv1.epfl.ch... | |
| section_end:1719502325:prepare_script [0Ksection_start:1719502325:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| Using git from spack modules | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1719502326:get_sources [0Ksection_start:1719502326:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| Using git from spack modules | |
| [32;1mChecking cache for build:nmodl-1-non_protected...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=41436 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| cache.zip is up to date [0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1719502330:restore_cache [0Ksection_start:1719502330:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| Using git from spack modules | |
| [32;1mDownloading artifacts for spack_setup (1333468)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=41553 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=1333468 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
| section_end:1719502331:download_artifacts [0Ksection_start:1719502331:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| Using git from spack modules | |
| [32;1m$ SPACK_BUILD="${PWD}/spack-build"[0;m | |
| [32;1m$ env -0 | sort -z | xargs -0 -L 1 echo > initial_environment.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export SPACK_USER_CONFIG_PATH=${PWD}/spack-config[0;m | |
| [32;1m$ mkdir ${SPACK_USER_CONFIG_PATH}[0;m | |
| [32;1m$ cat > ${SPACK_USER_CONFIG_PATH}/config.yaml << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config add concretizer:reuse:false[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame config[0;m | |
| --- config: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333470/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333470/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333470/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333470/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333470/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/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/P219308/J1333468/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:151 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:216 bind: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:233 flags: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:240 aliases: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
| _builtin debug: False | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
| --- concretizer: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333470/spack-config/concretizer.yaml:2 reuse: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308/J1333470_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = ssh://git@bbpgitlab.epfl.ch/ | |
| [32;1m$ SPACK_FULL_SPEC="${SPACK_PACKAGE}${SPACK_PACKAGE_COMPILER:+%}${SPACK_PACKAGE_COMPILER} ${SPACK_PACKAGE_SPEC} ${SPACK_PACKAGE_DEPENDENCIES} ${SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB}"[0;m | |
| [32;1m$ echo "Preparing to install ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install nmodl%gcc ~legacy-unit | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ module load unstable ccache[0;m | |
| [32;1m$ export CCACHE_BASEDIR=$(realpath -P ${CI_BUILDS_DIR})[0;m | |
| [32;1m$ echo CCACHE_BASEDIR=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308 | |
| [32;1m$ export CCACHE_MAXSIZE=512M[0;m | |
| [32;1m$ export CCACHE_DIR="${TMPDIR}/ccache"[0;m | |
| [32;1m$ mkdir -p ${CCACHE_DIR}[0;m | |
| [32;1m$ if [ -f ${CI_PROJECT_DIR}/ccache.tar ]; then[0;m | |
| [32;1m$ tar -C "${CCACHE_DIR}" -xf "${CI_PROJECT_DIR}/ccache.tar"[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ ccache --zero-stats[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Cache directory: /nvme/bbpcihpcproj12/2276470/ccache | |
| Config file: /nvme/bbpcihpcproj12/2276470/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: Thu Jun 27 17:32:16 2024 | |
| Local storage: | |
| Cache size (GB): 0.44 / 0.51 (86.19%) | |
| Files: 5315 | |
| Hits: 0 | |
| Misses: 0 | |
| Reads: 0 | |
| Writes: 0 | |
| [32;1m$ fi[0;m | |
| [32;1m$ module load unstable git ${SPACK_EXTRA_MODULES}[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} spec -Il ${SPACK_FULL_SPEC}[0;m | |
| Input spec | |
| -------------------------------- | |
| - nmodl%gcc~legacy-unit | |
| Concretized | |
| -------------------------------- | |
| - ixoq64r nmodl@git.7beaee9751e233f775a177c819d727abde7e4495=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 | |
| [32;1m$ set -o pipefail[0;m | |
| [32;1m$ (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[0;m | |
| ==> Warning: Expected user 904556 to own /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308, 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/nlohmann-json-3.9.1-teske2 | |
| [+] /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/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-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-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.7beaee9751e233f775a177c819d727abde7e4495=develop-ixoq64rwe3feip5rdbbtw2mc7jszelrr [19/19] | |
| ==> No binary for nmodl-git.7beaee9751e233f775a177c819d727abde7e4495=develop-ixoq64rwe3feip5rdbbtw2mc7jszelrr 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.7beaee9751e233f775a177c819d727abde7e4495=develop-ixoq64rwe3feip5rdbbtw2mc7jszelrr | |
| Stage: 42.40s. Cmake: 2.72s. Build: 1m 37.13s. Install: 1.41s. Post-install: 0.34s. Total: 2m 24.27s | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/software/install_gcc-12.3.0-skylake/nmodl-git.7beaee9751e233f775a177c819d727abde7e4495_develop-ixoq64 | |
| [32;1m$ set +o pipefail[0;m | |
| [32;1m$ chmod -R g+rX "${SPACK_BUILD}"[0;m | |
| [32;1m$ if [[ ${install_failed} == 1 ]]; then exit 1; fi[0;m | |
| [32;1m$ SPACK_INSTALLED_HASH=$(spack ${SPACK_EXTRA_FLAGS} find --format "{hash}" /$(sed -ne '${s/.*-//;p}' log))[0;m | |
| [32;1m$ echo "Determined the installed hash to be ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined the installed hash to be ixoq64rwe3feip5rdbbtw2mc7jszelrr | |
| [32;1m$ SPACK_STAGE_DIR=$(spack location -s "${SPACK_FULL_SPEC}")[0;m | |
| [32;1m$ SPACK_BUILD_DIR=$(spack location -b "${SPACK_FULL_SPEC}")[0;m | |
| [32;1m$ SPACK_SOURCE_DIR=${SPACK_STAGE_DIR}/spack-src[0;m | |
| [32;1m$ if [ ${SPACK_USE_CCACHE+x} ]; then[0;m | |
| [32;1m$ ccache --cleanup[0;m | |
| [32;1m$ ccache --show-stats --verbose[0;m | |
| Cache directory: /nvme/bbpcihpcproj12/2276470/ccache | |
| Config file: /nvme/bbpcihpcproj12/2276470/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: Thu Jun 27 17:37:06 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): 0.44 / 0.51 (86.19%) | |
| Files: 5319 | |
| Hits: 136 / 138 (98.55%) | |
| Misses: 2 / 138 ( 1.45%) | |
| Reads: 276 | |
| Writes: 4 | |
| [32;1m$ tar -C "${CCACHE_DIR}" -cf "${CI_PROJECT_DIR}/ccache.tar" .[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ touch ${SPACK_STAGE_DIR}/spack-configure-args.txt[0;m | |
| [32;1m$ cp ${SPACK_STAGE_DIR}/spack-{build-env,build-out,configure-args}.txt ${CI_PROJECT_DIR}/[0;m | |
| [32;1m$ echo "SPACK_BUILD_DIR=${SPACK_BUILD_DIR}" > ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_FULL_SPEC=${SPACK_FULL_SPEC}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_SOURCE_DIR=${SPACK_SOURCE_DIR}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ SPACK_PACKAGE_SLUGIFY=$(echo -n ${SPACK_PACKAGE} | tr -c '[:alnum:]' '_' | tr '[:lower:]' '[:upper:]')[0;m | |
| [32;1m$ echo "${SPACK_PACKAGE_SLUGIFY}_INSTALLED_HASH=${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ echo "SPACK_PACKAGE_DEPENDENCY_ON_PREVIOUS_JOB=^/${SPACK_INSTALLED_HASH}" >> ${CI_PROJECT_DIR}/spack_build_info.env[0;m | |
| [32;1m$ num_failures=$(module load unstable python-dev; python -c "from lxml import etree; xml = etree.parse('${CI_PROJECT_DIR}/install.xml'); print(sum(1 for _ in xml.getroot().iter('failure')) + sum(1 for _ in xml.getroot().iter('error')))")[0;m | |
| [32;1m$ if [[ ${num_failures} > 0 ]]; then exit ${num_failures}; fi[0;m | |
| section_end:1719502628:step_script [0Ksection_start:1719502628:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| Using git from spack modules | |
| [32;1mCreating cache build:nmodl-1-non_protected...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=44072 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| ccache.tar: found 1 matching files and directories[0;m | |
| Uploading cache.zip to https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/2160/build%3Anmodl-1-non_protected[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1719502650:archive_cache [0Ksection_start:1719502650:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| Using git from spack modules | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=44195 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| initial_environment.env: found 1 matching files and directories[0;m | |
| spack-build-env.txt: found 1 matching files and directories[0;m | |
| spack-build-out.txt: found 1 matching files and directories[0;m | |
| spack-configure-args.txt: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=1333470 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=44236 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| install.xml: found 1 matching files and directories[0;m | |
| Uploading artifacts as "junit" to coordinator... ok[0;m id[0;m=1333470 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=44275 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_build_info.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=1333470 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| section_end:1719502653:upload_artifacts_on_success [0Ksection_start:1719502653:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| Using git from spack modules | |
| section_end:1719502653:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| [0KRunning with gitlab-runner 15.4.0 (43b2dc3d)[0;m | |
| [0K on macos-arm64 vGzz-bdp[0;m | |
| section_start:1719502212:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1719502212:resolve_secrets [0Ksection_start:1719502212:prepare_executor [0K[0K[36;1mPreparing the "shell" executor[0;m[0;m | |
| [0KUsing Shell executor...[0;m | |
| section_end:1719502212:prepare_executor [0Ksection_start:1719502212:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on bbpmacglr01.bbp.epfl.ch... | |
| section_end:1719502212:prepare_script [0Ksection_start:1719502212:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| [32;1mFetching changes with git depth set to 20...[0;m | |
| Initialized empty Git repository in /Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/.git/ | |
| [32;1mCreated fresh repository.[0;m | |
| [32;1mChecking out cf0f054a as header-hygiene-cabcode...[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1719502214:get_sources [0Ksection_start:1719502214:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for mac_m1_cmake_build: [cmake, ON, OFF, OFF, address]-header-hygiene-cabcode-1-non_protected...[0;m | |
| Runtime platform [0;m arch[0;m=arm64 os[0;m=darwin pid[0;m=61800 revision[0;m=43b2dc3d version[0;m=15.4.0 | |
| No URL provided, cache will not be downloaded from shared cache server. Instead a local version of cache will be extracted.[0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1719502214:restore_cache [0Ksection_start:1719502214:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [32;1m$ cat > resolve_shim.py << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ real_python=$(python3 resolve_shim.py)[0;m | |
| [32;1m$ echo "python3=$(command -v python3) is really ${real_python}"[0;m | |
| python3=/opt/homebrew/bin/python3 is really /opt/homebrew/Cellar/python@3.10/3.10.13_1/Frameworks/Python.framework/Versions/3.10/Resources/Python.app/Contents/MacOS/Python | |
| [32;1m$ PYTHONEXECUTABLE=${real_python} ${real_python} -mvenv venv[0;m | |
| [32;1m$ venv/bin/python3 -m ensurepip --upgrade --default-pip[0;m | |
| Looking in links: /var/folders/dm/mrnbn5ld56v61w1_hpbmskfw0000gp/T/tmptlqhid4z | |
| Processing /private/var/folders/dm/mrnbn5ld56v61w1_hpbmskfw0000gp/T/tmptlqhid4z/setuptools-68.2.2-py3-none-any.whl | |
| Processing /private/var/folders/dm/mrnbn5ld56v61w1_hpbmskfw0000gp/T/tmptlqhid4z/pip-23.3.1-py3-none-any.whl | |
| Installing collected packages: setuptools, pip | |
| Successfully installed pip-23.3.1 setuptools-68.2.2 | |
| [32;1m$ git submodule update --init --recursive --force --depth 1 -- external/nmodl[0;m | |
| Submodule 'external/nmodl' (https://github.com/BlueBrain/nmodl) registered for path 'external/nmodl' | |
| Cloning into '/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/external/nmodl'... | |
| From https://github.com/BlueBrain/nmodl | |
| * branch c5ecfea39cbd53ffcc248b1dcf732c1e0ae1ffc4 -> FETCH_HEAD | |
| Submodule path 'external/nmodl': checked out 'c5ecfea39cbd53ffcc248b1dcf732c1e0ae1ffc4' | |
| 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' | |
| Cloning into '/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/external/nmodl/cmake/hpc-coding-conventions'... | |
| Cloning into '/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/external/nmodl/ext/backward'... | |
| Cloning into '/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/external/nmodl/ext/catch2'... | |
| Cloning into '/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/external/nmodl/ext/cli11'... | |
| Cloning into '/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/external/nmodl/ext/eigen'... | |
| Cloning into '/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/external/nmodl/ext/fmt'... | |
| Cloning into '/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/external/nmodl/ext/json'... | |
| Cloning into '/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/external/nmodl/ext/pybind11'... | |
| Cloning into '/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/external/nmodl/ext/spdlog'... | |
| From https://github.com/BlueBrain/hpc-coding-conventions | |
| * branch f8f8d69a66c23978d1c9c5dce62de79466f26e5d -> FETCH_HEAD | |
| Submodule path 'external/nmodl/cmake/hpc-coding-conventions': checked out 'f8f8d69a66c23978d1c9c5dce62de79466f26e5d' | |
| 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 3e9dfa2866941655c56877882565e7577de6fc7b -> FETCH_HEAD | |
| Submodule path 'external/nmodl/ext/pybind11': checked out '3e9dfa2866941655c56877882565e7577de6fc7b' | |
| From https://github.com/gabime/spdlog | |
| * branch 7c02e204c92545f869e2f04edaab1f19fe8b19fd -> FETCH_HEAD | |
| Submodule path 'external/nmodl/ext/spdlog': checked out '7c02e204c92545f869e2f04edaab1f19fe8b19fd' | |
| [32;1m$ venv/bin/pip install --upgrade -r external/nmodl/requirements.txt[0;m | |
| 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 | |
| Collecting scikit-build-core (from -r external/nmodl/requirements.txt (line 2)) | |
| Using cached scikit_build_core-0.9.6-py3-none-any.whl.metadata (19 kB) | |
| Collecting setuptools-scm>=8.0 (from -r external/nmodl/requirements.txt (line 3)) | |
| Using cached setuptools_scm-8.1.0-py3-none-any.whl.metadata (6.6 kB) | |
| Collecting Jinja2>=2.9.3 (from -r external/nmodl/requirements.txt (line 4)) | |
| Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB) | |
| Collecting PyYAML>=3.13 (from -r external/nmodl/requirements.txt (line 5)) | |
| Using cached PyYAML-6.0.1-cp310-cp310-macosx_11_0_arm64.whl.metadata (2.1 kB) | |
| Collecting find_libpython (from -r external/nmodl/requirements.txt (line 7)) | |
| Using cached find_libpython-0.4.0-py3-none-any.whl.metadata (2.8 kB) | |
| Collecting sympy>=1.3 (from -r external/nmodl/requirements.txt (line 8)) | |
| Using cached sympy-1.12.1-py3-none-any.whl.metadata (12 kB) | |
| Collecting pytest<=8.1.1 (from -r external/nmodl/requirements.txt (line 12)) | |
| Using cached pytest-8.1.1-py3-none-any.whl.metadata (7.6 kB) | |
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| Using cached pytest_cov-5.0.0-py3-none-any.whl.metadata (27 kB) | |
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| Using cached numpy-2.0.0-cp310-cp310-macosx_11_0_arm64.whl.metadata (114 kB) | |
| Collecting jupyter-client (from -r external/nmodl/requirements.txt (line 16)) | |
| Using cached jupyter_client-8.6.2-py3-none-any.whl.metadata (8.3 kB) | |
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| Using cached jupyter-1.0.0-py2.py3-none-any.whl.metadata (995 bytes) | |
| Collecting myst_parser<2.0.0 (from -r external/nmodl/requirements.txt (line 18)) | |
| Using cached myst_parser-1.0.0-py3-none-any.whl.metadata (5.5 kB) | |
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| Using cached mistune-2.0.5-py2.py3-none-any.whl.metadata (1.5 kB) | |
| Collecting nbconvert (from -r external/nmodl/requirements.txt (line 20)) | |
| Using cached nbconvert-7.16.4-py3-none-any.whl.metadata (8.5 kB) | |
| Collecting nbsphinx>=0.3.2 (from -r external/nmodl/requirements.txt (line 21)) | |
| Using cached nbsphinx-0.9.4-py3-none-any.whl.metadata (2.1 kB) | |
| Collecting sphinxcontrib-applehelp<1.0.3 (from -r external/nmodl/requirements.txt (line 22)) | |
| Using cached sphinxcontrib_applehelp-1.0.2-py2.py3-none-any.whl.metadata (1.4 kB) | |
| Collecting sphinxcontrib-htmlhelp<=2.0.0 (from -r external/nmodl/requirements.txt (line 23)) | |
| Using cached sphinxcontrib_htmlhelp-2.0.0-py2.py3-none-any.whl.metadata (1.6 kB) | |
| Collecting sphinx<6 (from -r external/nmodl/requirements.txt (line 24)) | |
| Using cached sphinx-5.3.0-py3-none-any.whl.metadata (6.4 kB) | |
| Collecting sphinx-rtd-theme (from -r external/nmodl/requirements.txt (line 25)) | |
| Using cached sphinx_rtd_theme-2.0.0-py2.py3-none-any.whl.metadata (4.4 kB) | |
| Collecting docutils<0.20 (from -r external/nmodl/requirements.txt (line 26)) | |
| Using cached docutils-0.19-py3-none-any.whl.metadata (2.7 kB) | |
| Collecting exceptiongroup>=1.0 (from scikit-build-core->-r external/nmodl/requirements.txt (line 2)) | |
| Using cached exceptiongroup-1.2.1-py3-none-any.whl.metadata (6.6 kB) | |
| Collecting packaging>=21.3 (from scikit-build-core->-r external/nmodl/requirements.txt (line 2)) | |
| Using cached packaging-24.1-py3-none-any.whl.metadata (3.2 kB) | |
| Collecting pathspec>=0.10.1 (from scikit-build-core->-r external/nmodl/requirements.txt (line 2)) | |
| Using cached pathspec-0.12.1-py3-none-any.whl.metadata (21 kB) | |
| Collecting tomli>=1.2.2 (from scikit-build-core->-r external/nmodl/requirements.txt (line 2)) | |
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| Requirement already satisfied: setuptools in ./venv/lib/python3.10/site-packages (from setuptools-scm>=8.0->-r external/nmodl/requirements.txt (line 3)) (68.2.2) | |
| Collecting MarkupSafe>=2.0 (from Jinja2>=2.9.3->-r external/nmodl/requirements.txt (line 4)) | |
| Using cached MarkupSafe-2.1.5-cp310-cp310-macosx_10_9_universal2.whl.metadata (3.0 kB) | |
| Collecting mpmath<1.4.0,>=1.1.0 (from sympy>=1.3->-r external/nmodl/requirements.txt (line 8)) | |
| Using cached mpmath-1.3.0-py3-none-any.whl.metadata (8.6 kB) | |
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| Collecting pluggy<2.0,>=1.4 (from pytest<=8.1.1->-r external/nmodl/requirements.txt (line 12)) | |
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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)) | |
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| Collecting python-dateutil>=2.8.2 (from jupyter-client->-r external/nmodl/requirements.txt (line 16)) | |
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| Using cached pyzmq-26.0.3-cp310-cp310-macosx_10_15_universal2.whl.metadata (6.1 kB) | |
| Collecting tornado>=6.2 (from jupyter-client->-r external/nmodl/requirements.txt (line 16)) | |
| Using cached tornado-6.4.1-cp38-abi3-macosx_10_9_universal2.whl.metadata (2.5 kB) | |
| Collecting traitlets>=5.3 (from jupyter-client->-r external/nmodl/requirements.txt (line 16)) | |
| Using cached traitlets-5.14.3-py3-none-any.whl.metadata (10 kB) | |
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| 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-7.5.4 debugpy-1.8.2 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-4.2.3 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-6.0.0 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 -> 24.1.1 | |
| [notice] To update, run: /Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/venv/bin/python3 -m pip install --upgrade pip | |
| [32;1m$ venv/bin/pip install --upgrade pip -r nrn_requirements.txt[0;m | |
| Requirement already satisfied: pip in ./venv/lib/python3.10/site-packages (23.3.1) | |
| Collecting pip | |
| Using cached pip-24.1.1-py3-none-any.whl.metadata (3.6 kB) | |
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| Requirement already satisfied: setuptools in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 2)) (68.2.2) | |
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| Requirement already satisfied: packaging in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 10)) (24.1) | |
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| Collecting fonttools>=4.22.0 (from matplotlib->-r nrn_requirements.txt (line 5)) | |
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| Collecting kiwisolver>=1.3.1 (from matplotlib->-r nrn_requirements.txt (line 5)) | |
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| Collecting pillow>=8 (from matplotlib->-r nrn_requirements.txt (line 5)) | |
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| Collecting pyparsing>=2.3.1 (from matplotlib->-r nrn_requirements.txt (line 5)) | |
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| 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) | |
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| 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-24.1.1-py3-none-any.whl (1.8 MB) | |
| Using cached wheel-0.43.0-py3-none-any.whl (65 kB) | |
| Using cached setuptools-70.1.1-py3-none-any.whl (883 kB) | |
| Using cached scikit_build-0.18.0-py3-none-any.whl (85 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-24.1.1 pyparsing-3.1.2 scikit-build-0.18.0 setuptools-70.1.1 wheel-0.43.0 | |
| [32;1m$ source ./venv/bin/activate[0;m | |
| [32;1m$ export PYTHON=${PWD}/venv/bin/python[0;m | |
| [32;1m$ ${PYTHON} --version[0;m | |
| Python 3.10.13 | |
| [32;1m$ ${PYTHON} -c "import os,matplotlib; f = open(os.path.join(os.path.dirname(matplotlib.__file__), \"mpl-data/matplotlibrc\"),\"a\"); f.write(\"backend: TkAgg\");f.close();"[0;m | |
| [32;1m$ export CXX=${CXX:-g++}[0;m | |
| [32;1m$ export CC=${CC:-gcc}[0;m | |
| [32;1m$ brew install flex bison[0;m | |
| ==> Auto-updating Homebrew... | |
| Adjust how often this is run with HOMEBREW_AUTO_UPDATE_SECS or disable with | |
| HOMEBREW_NO_AUTO_UPDATE. Hide these hints with HOMEBREW_NO_ENV_HINTS (see `man brew`). | |
| ==> Homebrew collects anonymous analytics. | |
| Read the analytics documentation (and how to opt-out) here: | |
| https://docs.brew.sh/Analytics | |
| No analytics have been recorded yet (nor will be during this `brew` run). | |
| 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 | |
| [32;1m$ export PATH="/opt/homebrew/opt/flex/bin:/opt/homebrew/opt/bison/bin:$PATH"[0;m | |
| [32;1m$ export INSTALL_DIR=$(pwd)/install[0;m | |
| [32;1m$ echo $LANG[0;m | |
| [32;1m$ echo $LC_ALL[0;m | |
| [32;1m$ export PYTHONPATH=$(${PYTHON} -c "import site; print(\":\".join(site.getsitepackages()))")[0;m | |
| [32;1m$ ${PYTHON} -c 'import os,sys; os.set_blocking(sys.stdout.fileno(), True)'[0;m | |
| [32;1m$ cmake_args=(-G Ninja)[0;m | |
| [32;1m$ if [[ -n "${sanitizer}" ]]; then[0;m | |
| [32;1m$ cmake_args+=(-DCMAKE_BUILD_TYPE=Custom -DCMAKE_C_FLAGS="-O1 -g" -DCMAKE_CXX_FLAGS="-O1 -g" -DNRN_SANITIZERS=$(echo ${sanitizer} | sed -e 's/-/,/g'))[0;m | |
| [32;1m$ fi[0;m | |
| [32;1m$ 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})[0;m | |
| [32;1m$ cmake_args+=(-DPYTHON_EXECUTABLE="${PYTHON}")[0;m | |
| [32;1m$ mkdir build && cd build[0;m | |
| [32;1m$ echo "Building with ${cmake_args[@]}"[0;m | |
| Building with -G Ninja -DCMAKE_BUILD_TYPE=Custom -DCMAKE_C_FLAGS=-O1 -g -DCMAKE_CXX_FLAGS=-O1 -g -DNRN_SANITIZERS=address -DCMAKE_C_COMPILER=gcc -DCMAKE_C_COMPILER_LAUNCHER=ccache -DCMAKE_CXX_COMPILER=g++ -DCMAKE_CXX_COMPILER_LAUNCHER=ccache -DCMAKE_INSTALL_PREFIX=/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/install -DNRN_ENABLE_TESTS=ON -DNRN_ENABLE_PERFORMANCE_TESTS=OFF -DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DPYTHON_EXECUTABLE=/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/venv/bin/python | |
| [32;1m$ cmake .. "${cmake_args[@]}"[0;m | |
| -- 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/P219308/J1333467/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/P219308/J1333467/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/P219308/J1333467/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/P219308/J1333467/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") | |
| -- Sub-module : missing /Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/external/nanobind : running git submodule update --recursive;--depth;1 --init | |
| Submodule 'external/nanobind' (https://github.com/wjakob/nanobind) registered for path 'external/nanobind' | |
| Cloning into '/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/external/nanobind'... | |
| From https://github.com/wjakob/nanobind | |
| * branch 8d7f1ee0621c17fa370b704b2100ffa0243d5bfb -> FETCH_HEAD | |
| Submodule path 'external/nanobind': checked out '8d7f1ee0621c17fa370b704b2100ffa0243d5bfb' | |
| Submodule 'ext/robin_map' (https://github.com/Tessil/robin-map) registered for path 'external/nanobind/ext/robin_map' | |
| Cloning into '/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/external/nanobind/ext/robin_map'... | |
| From https://github.com/Tessil/robin-map | |
| * branch 188c45569cc2a5dd768077c193830b51d33a5020 -> FETCH_HEAD | |
| Submodule path 'external/nanobind/ext/robin_map': checked out '188c45569cc2a5dd768077c193830b51d33a5020' | |
| -- 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/P219308/J1333467/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/P219308/J1333467/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/P219308/J1333467/hpc/cellular/nrn/external/nmodl/ext/json/include/ | |
| -- 3rd party project: using pybind11 from "ext/pybind11" | |
| -- pybind11 v2.12.0 | |
| -- Found PythonInterp: /Users/gitlab-runner/builds/2/P219308/J1333467/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 | |
| -- Build type: Custom | |
| -- CHECKING FOR PYTHON | |
| -- Found Python: /Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/venv/bin/python3.10 (found suitable version "3.10.13", minimum required is "3.8") found components: Interpreter | |
| CMake Warning (dev) at external/nmodl/src/pybind/CMakeLists.txt:27 (configure_file): | |
| configure_file called with unknown argument(s): | |
| @ONLY@ | |
| This warning is for project developers. Use -Wno-dev to suppress it. | |
| -- | |
| -- Configured NMODL 0.0 (c5ecfea 2024-06-10 16:25:23 +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/P219308/J1333467/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/P219308/J1333467/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/P219308/J1333467/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: | |
| For 'nrnpython' going to see TARGET 'nanobind' recursively. | |
| Extracting link flags from target 'nanobind', beware that this can be fragile. Got: /opt/homebrew/opt/python@3.10/Frameworks/Python.framework/Versions/3.10/lib/libpython3.10.dylib;nanobind | |
| Extracting link flags from target 'nrnpython', beware that this can be fragile. Got: /opt/homebrew/opt/python@3.10/Frameworks/Python.framework/Versions/3.10/lib/libpython3.10.dylib;nanobind | |
| Extracting link flags from target 'Threads::Threads', beware that this can be fragile. Got: /opt/homebrew/opt/python@3.10/Frameworks/Python.framework/Versions/3.10/lib/libpython3.10.dylib;nanobind | |
| 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/P219308/J1333467/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/P219308/J1333467/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/P219308/J1333467/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/P219308/J1333467/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/P219308/J1333467/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/P219308/J1333467/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 (28.8s) | |
| -- Generating done (0.2s) | |
| -- Build files have been written to: /Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/build | |
| [32;1m$ ccache -z[0;m | |
| Statistics zeroed | |
| [32;1m$ ccache -vs 2>/dev/null[0;m | |
| Cache directory: /Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/ccache | |
| Config file: /Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/ccache/ccache.conf | |
| System config file: /opt/homebrew/Cellar/ccache/4.9/etc/ccache.conf | |
| Stats updated: Thu Jun 27 17:31:36 2024 | |
| Local storage: | |
| Cache size (GiB): 0.0 / 5.0 ( 0.00%) | |
| Files: 0 | |
| Hits: 0 | |
| Misses: 0 | |
| Reads: 0 | |
| Writes: 0 | |
| [32;1m$ cmake --build . --parallel[0;m | |
| [0/2] Re-checking globbed directories... | |
| ninja: error: '/Users/gitlab-runner/builds/2/P219308/J1333467/hpc/cellular/nrn/src/nrnoc/cabcode.h', needed by 'include/cabcode.h', missing and no known rule to make it | |
| section_end:1719502296:step_script [0Ksection_start:1719502296:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| section_end:1719502296:cleanup_file_variables [0K[31;1mERROR: Job failed: exit status 1 | |
| [0;m |
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| [0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1719502211:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1719502211:resolve_secrets [0Ksection_start:1719502211:prepare_executor [0K[0K[36;1mPreparing the "custom" executor[0;m[0;m | |
| [0KUsing Custom executor with driver BB5 PROD runner v0.0.3...[0;m | |
| BB5 PROD runner running on bbpv1.epfl.ch, version 15.5.0, user | |
| TMPDIR is /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/tmp/custom-executor275781607, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
| Runner ID 29, project root hpc, project name nrn | |
| Pipeline ID 219308, build ref , job ID 1333468 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308, optional exclusive flag , optional cpus per task flag --cpus-per-task=6, optional qos flag , optional reservation flag | |
| A slurm job will be created with name GL_J1333468_PROD_P2160_CP0_C0 | |
| Job parameters: memory=30750M, cpus_per_task=6, duration=1:00:00, constraint=cpu ntasks=1 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 2276469 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=1 --cpus-per-task=6 --mem=30750M --job-name=GL_J1333468_PROD_P2160_CP0_C0 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308 --ntasks=1 --jobid=2276469 --cpus-per-task=6 --mem=30750M | |
| section_end:1719502212:prepare_executor [0Ksection_start:1719502212:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Using git from spack modules | |
| Running on r1i6n32 via bbpv1.epfl.ch... | |
| section_end:1719502214:prepare_script [0Ksection_start:1719502214:get_sources [0K[0K[36;1mGetting source from Git repository[0;m[0;m | |
| Using git from spack modules | |
| [32;1mSkipping Git repository setup[0;m | |
| [32;1mSkipping Git checkout[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1719502215:get_sources [0Ksection_start:1719502215:step_script [0K[0K[36;1mExecuting "step_script" stage of the job script[0;m[0;m | |
| [0;33mWARNING: Starting with version 14.0 the 'build_script' stage will be replaced with 'step_script': https://gitlab.com/gitlab-org/gitlab-runner/-/issues/26426[0;m | |
| Using git from spack modules | |
| [32;1m$ if [[ -n "${SPACK_ENV_FILE_URL}" && "${PARSE_GITHUB_PR_DESCRIPTIONS,,}" == "true" ]]; then[0;m | |
| [32;1m$ cat > parse_description.py << END_SCRIPT # collapsed multi-line command[0;m | |
| [32;1m$ cat parse_description.py[0;m | |
| import os | |
| import re | |
| import requests | |
| pr_info = requests.get("https://api.github.com/repos/{}/pulls/{}".format( | |
| os.environ['CI_EXTERNAL_PULL_REQUEST_TARGET_REPOSITORY'], | |
| os.environ['CI_EXTERNAL_PULL_REQUEST_IID']), | |
| headers={'Accept': 'application/vnd.github.v3+json'}) | |
| pr_body = pr_info.json()["body"] | |
| # match something like NEURON_BRANCH=foo/bar | |
| # special case for SPACK_DEPLOYMENT_SUFFIX=foo/bar | |
| pat = re.compile('^([A-Z0-9_]+)_([A-Z]+)=([A-Z0-9\-\_\/\+\.]+)$', re.IGNORECASE) | |
| def parse_term(m): | |
| ref_type = m.group(2).lower() | |
| is_deployment_suffix = ref_type == 'suffix' and m.group(1).lower() == 'spack_deployment' | |
| if ref_type not in {'branch', 'tag', 'ref'} and not is_deployment_suffix: return | |
| print(m.group(1).upper() + '_' + ref_type.upper() + '=' + m.group(3)) | |
| if pr_body is not None: | |
| for pr_body_line in pr_body.splitlines(): | |
| if not pr_body_line.startswith('CI_BRANCHES:'): continue | |
| for config_term in pr_body_line[12:].split(','): | |
| pat.sub(parse_term, config_term) | |
| [32;1m$ (module load unstable python-dev; python parse_description.py) > input_variables.env[0;m | |
| [32;1m$ else[0;m | |
| [32;1m$ cat input_variables.env[0;m | |
| [32;1m$ for var_to_unset in $(sed 's/^\(.*\?\)_\(BRANCH\|COMMIT\|TAG\)=.*$/\1_BRANCH\n\1_COMMIT\n\1_TAG/' input_variables.env); do # collapsed multi-line command[0;m | |
| [32;1m$ set -o allexport[0;m | |
| [32;1m$ . input_variables.env[0;m | |
| [32;1m$ set +o allexport[0;m | |
| [32;1m$ unset MODULEPATH[0;m | |
| [32;1m$ . /gpfs/bbp.cscs.ch/ssd/apps/bsd/${SPACK_DEPLOYMENT_SUFFIX}/config/modules.sh[0;m | |
| [32;1m$ echo "MODULEPATH=${MODULEPATH}" > spack_clone_variables.env[0;m | |
| [32;1m$ echo Preparing to clone Spack into ${PWD}[0;m | |
| Preparing to clone Spack into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P219308/J1333468 | |
| [32;1m$ if [[ -z "${SPACK_BRANCH}" && ( -n "${SPACK_COMMIT}" || -n "${SPACK_TAG}" ) ]]; then[0;m | |
| [32;1m$ echo Checking out the ${SPACK_BRANCH} of Spack...[0;m | |
| Checking out the develop of Spack... | |
| [32;1m$ module load unstable git[0;m | |
| [32;1m$ git clone -c feature.manyFiles=true --depth 1 --single-branch --branch ${SPACK_BRANCH} ${SPACK_URL} spack[0;m | |
| Cloning into 'spack'... | |
| Updating files: 15% (1714/11295) Updating files: 16% (1808/11295) Updating files: 17% (1921/11295) Updating files: 18% (2034/11295) Updating files: 19% (2147/11295) Updating files: 20% (2259/11295) Updating files: 21% (2372/11295) Updating files: 22% (2485/11295) Updating files: 23% (2598/11295) Updating files: 24% (2711/11295) Updating files: 25% (2824/11295) Updating files: 25% (2857/11295) Updating files: 26% (2937/11295) Updating files: 27% (3050/11295) Updating files: 28% (3163/11295) Updating files: 29% (3276/11295) Updating files: 30% (3389/11295) Updating files: 31% (3502/11295) Updating files: 32% (3615/11295) Updating files: 33% (3728/11295) Updating files: 34% (3841/11295) Updating files: 34% (3856/11295) Updating files: 35% (3954/11295) Updating files: 36% (4067/11295) Updating files: 37% (4180/11295) Updating files: 38% (4293/11295) Updating files: 39% (4406/11295) Updating files: 40% (4518/11295) Updating files: 41% (4631/11295) Updating files: 42% (4744/11295) Updating files: 43% (4857/11295) Updating files: 43% (4900/11295) Updating files: 44% (4970/11295) Updating files: 45% (5083/11295) Updating files: 46% (5196/11295) Updating files: 47% (5309/11295) Updating files: 48% (5422/11295) Updating files: 49% (5535/11295) Updating files: 50% (5648/11295) Updating files: 51% (5761/11295) Updating files: 51% (5815/11295) Updating files: 52% (5874/11295) Updating files: 53% (5987/11295) Updating files: 54% (6100/11295) Updating files: 55% (6213/11295) Updating files: 56% (6326/11295) Updating files: 57% (6439/11295) Updating files: 58% (6552/11295) Updating files: 59% (6665/11295) Updating files: 60% (6777/11295) Updating files: 60% (6835/11295) Updating files: 61% (6890/11295) Updating files: 62% (7003/11295) Updating files: 63% (7116/11295) Updating files: 64% (7229/11295) Updating files: 65% (7342/11295) Updating files: 66% (7455/11295) Updating files: 67% (7568/11295) Updating files: 68% (7681/11295) Updating files: 69% (7794/11295) Updating files: 70% (7907/11295) Updating files: 70% (7959/11295) Updating files: 71% (8020/11295) Updating files: 72% (8133/11295) Updating files: 73% (8246/11295) Updating files: 74% (8359/11295) Updating files: 75% (8472/11295) Updating files: 76% (8585/11295) Updating files: 77% (8698/11295) Updating files: 78% (8811/11295) Updating files: 79% (8924/11295) Updating files: 80% (9036/11295) Updating files: 81% (9149/11295) Updating files: 81% (9176/11295) Updating files: 82% (9262/11295) Updating files: 83% (9375/11295) Updating files: 84% (9488/11295) Updating files: 85% (9601/11295) Updating files: 86% (9714/11295) Updating files: 87% (9827/11295) Updating files: 88% (9940/11295) Updating files: 89% (10053/11295) Updating files: 90% (10166/11295) Updating files: 91% (10279/11295) Updating files: 92% (10392/11295) Updating files: 93% (10505/11295) Updating files: 93% (10579/11295) Updating files: 94% (10618/11295) Updating files: 95% (10731/11295) Updating files: 96% (10844/11295) Updating files: 97% (10957/11295) Updating files: 98% (11070/11295) Updating files: 99% (11183/11295) Updating files: 100% (11295/11295) Updating files: 100% (11295/11295), done. | |
| [32;1m$ export SPACK_ROOT=${PWD}/spack[0;m | |
| [32;1m$ export SPACK_RESOLVED_COMMIT=$(cd "${SPACK_ROOT}" && git rev-parse HEAD)[0;m | |
| [32;1m$ export SPACK_USER_CACHE_PATH="${CI_BUILDS_DIR}"[0;m | |
| [32;1m$ export SPACK_SYSTEM_CONFIG_PATH="/gpfs/bbp.cscs.ch/ssd/apps/bsd/${SPACK_DEPLOYMENT_SUFFIX}/config"[0;m | |
| [32;1m$ echo "SPACK_ROOT=${SPACK_ROOT}" >> spack_clone_variables.env[0;m | |
| [32;1m$ echo "SPACK_RESOLVED_COMMIT=${SPACK_RESOLVED_COMMIT}" >> spack_clone_variables.env[0;m | |
| [32;1m$ echo "SPACK_USER_CACHE_PATH=${SPACK_USER_CACHE_PATH}" >> spack_clone_variables.env[0;m | |
| [32;1m$ echo "SPACK_SYSTEM_CONFIG_PATH=${SPACK_SYSTEM_CONFIG_PATH}" >> spack_clone_variables.env[0;m | |
| [32;1m$ . ${SPACK_ROOT}/share/spack/setup-env.sh[0;m | |
| [32;1m$ export XDG_CONFIG_HOME=${CI_BUILDS_DIR}/J${CI_JOB_ID}_local_config[0;m | |
| [32;1m$ echo "Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P219308/J1333468_local_config) | |
| [32;1m$ mkdir -p "${XDG_CONFIG_HOME}/git"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = git@bbpgitlab.epfl.ch:" > "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ echo -e "[url \"https://gitlab-ci-token:${CI_JOB_TOKEN}@bbpgitlab.epfl.ch/\"]\n insteadOf = ssh://git@bbpgitlab.epfl.ch/" >> "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [32;1m$ cat "${XDG_CONFIG_HOME}/git/config"[0;m | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = git@bbpgitlab.epfl.ch: | |
| [url "https://gitlab-ci-token:[MASKED]@bbpgitlab.epfl.ch/"] | |
| insteadOf = ssh://git@bbpgitlab.epfl.ch/ | |
| [32;1m$ env -0 | sed -nz '/^CUSTOM_ENV_/d;/^[^=]\+_\(BRANCH\|COMMIT\|TAG\)=.\+/p' | xargs -0t spack ${SPACK_EXTRA_FLAGS} configure-pipeline --ignore-packages CI_BUILD CI_COMMIT CI_DEFAULT GITLAB_PIPELINES SPACK SPACK_RESOLVED ${SPACK_SETUP_IGNORE_PACKAGE_VARIABLES} --write-commit-file=commit-mapping.env[0;m | |
| spack configure-pipeline --ignore-packages CI_BUILD CI_COMMIT CI_DEFAULT GITLAB_PIPELINES SPACK SPACK_RESOLVED BLUECONFIGS --write-commit-file=commit-mapping.env CI_COMMIT_BRANCH=header-hygiene-cabcode SPACK_RESOLVED_COMMIT=2856bae2dabc30357ab311f452f86ae5a5c88041 GITLAB_PIPELINES_BRANCH=main NEURON_COMMIT=cf0f054a0dea412a4406a45bab955a3c486f76e0 NMODL_BRANCH=master LIBSONATA_REPORT_BRANCH=master SPACK_BRANCH=develop CI_DEFAULT_BRANCH=master BLUECONFIGS_BRANCH=main | |
| ==> CI_COMMIT: ignoring CI_COMMIT_BRANCH=header-hygiene-cabcode | |
| ==> SPACK_RESOLVED: ignoring SPACK_RESOLVED_COMMIT=2856bae2dabc30357ab311f452f86ae5a5c88041 | |
| ==> GITLAB_PIPELINES: ignoring GITLAB_PIPELINES_BRANCH=main | |
| ==> SPACK: ignoring SPACK_BRANCH=develop | |
| ==> CI_DEFAULT: ignoring CI_DEFAULT_BRANCH=master | |
| ==> BLUECONFIGS: ignoring BLUECONFIGS_BRANCH=main | |
| ==> nmodl: resolved branch master to 7beaee9751e233f775a177c819d727abde7e4495 | |
| ==> libsonata-report: resolved branch master to 5602aadfa710d6766ce23cd151a1855190271bd8 | |
| ==> adding config: packages:neuron:require: '@git.cf0f054a0dea412a4406a45bab955a3c486f76e0=develop' | |
| ==> adding config: packages:nmodl:require: '@git.7beaee9751e233f775a177c819d727abde7e4495=develop' | |
| ==> adding config: packages:libsonata-report:require: '@git.5602aadfa710d6766ce23cd151a1855190271bd8=develop' | |
| [32;1m$ (cd "${SPACK_ROOT}" && git diff)[0;m | |
| [32;1m$ cat commit-mapping.env[0;m | |
| NEURON_COMMIT=cf0f054a0dea412a4406a45bab955a3c486f76e0 | |
| NMODL_COMMIT=7beaee9751e233f775a177c819d727abde7e4495 | |
| LIBSONATA_REPORT_COMMIT=5602aadfa710d6766ce23cd151a1855190271bd8 | |
| [32;1m$ echo "SPACK_BRANCH=${SPACK_BRANCH}" >> commit-mapping.env[0;m | |
| [32;1m$ echo "SPACK_DEPLOYMENT_SUFFIX=${SPACK_DEPLOYMENT_SUFFIX}" >> commit-mapping.env[0;m | |
| [32;1m$ cat commit-mapping.env >> spack_clone_variables.env[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} spec -IL ninja[0;m | |
| ==> Warning: Expected user 904556 to own /nvme/bbpcihpcproj12, but it is owned by 0 | |
| ==> Fetching https://mirror.spack.io/bootstrap/github-actions/v0.5/build_cache/linux-centos7-x86_64-gcc-10.2.1-patchelf-0.18.0-afv7arjarb7nzmlh7c5slkfxykybuqce.spec.json | |
| ==> Fetching https://mirror.spack.io/bootstrap/github-actions/v0.5/build_cache/linux-centos7-x86_64/gcc-10.2.1/patchelf-0.18.0/linux-centos7-x86_64-gcc-10.2.1-patchelf-0.18.0-afv7arjarb7nzmlh7c5slkfxykybuqce.spack | |
| ==> Installing "patchelf@=0.18.0%gcc@=10.2.1 ldflags="-static-libstdc++ -static-libgcc" build_system=autotools arch=linux-centos7-x86_64" from a buildcache | |
| ==> Fetching https://mirror.spack.io/bootstrap/github-actions/v0.5/build_cache/linux-centos7-x86_64-gcc-10.2.1-clingo-bootstrap-spack-t4yf34cuvquqp5xd66zybmcfyhwbdlsf.spec.json | |
| ==> Fetching https://mirror.spack.io/bootstrap/github-actions/v0.5/build_cache/linux-centos7-x86_64/gcc-10.2.1/clingo-bootstrap-spack/linux-centos7-x86_64-gcc-10.2.1-clingo-bootstrap-spack-t4yf34cuvquqp5xd66zybmcfyhwbdlsf.spack | |
| ==> Installing "clingo-bootstrap@=spack%gcc@=10.2.1~docs+ipo+optimized+python+static_libstdcpp build_system=cmake build_type=Release generator=make patches=bebb819,ec99431 arch=linux-centos7-x86_64" from a buildcache | |
| Input spec | |
| -------------------------------- | |
| - ninja | |
| Concretized | |
| -------------------------------- | |
| [e] omn6mm4a3zsbpbkptvdwxs6kkrh6yafw ninja@1.11.1%gcc@12.3.0+re2c build_system=generic arch=linux-rhel7-skylake | |
| [32;1m$ echo "SPACK_SETUP_COMMIT_MAPPING_URL=${CI_API_V4_URL}/projects/${CI_PROJECT_ID}/jobs/${CI_JOB_ID}/artifacts/commit-mapping.env" >> spack_clone_variables.env[0;m | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config --scope site add "config:ccache:true"[0;m | |
| [32;1m$ echo "SPACK_USE_CCACHE=true" >> spack_clone_variables.env[0;m | |
| [32;1m$ echo "BLUECONFIGS_BRANCH=${BLUECONFIGS_BRANCH}" >> commit-mapping.env[0;m | |
| [32;1m$ echo "BLUECONFIGS_BRANCH=${BLUECONFIGS_BRANCH}" >> spack_clone_variables.env[0;m | |
| section_end:1719502317:step_script [0Ksection_start:1719502317:upload_artifacts_on_success [0K[0K[36;1mUploading artifacts for successful job[0;m[0;m | |
| Using git from spack modules | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=40622 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| commit-mapping.env: found 1 matching files and directories[0;m | |
| input_variables.env: found 1 matching files and directories[0;m | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "archive" to coordinator... ok[0;m id[0;m=1333468 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| [32;1mUploading artifacts...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=40646 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| spack_clone_variables.env: found 1 matching files and directories[0;m | |
| Uploading artifacts as "dotenv" to coordinator... ok[0;m id[0;m=1333468 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| section_end:1719502319:upload_artifacts_on_success [0Ksection_start:1719502319:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
| Using git from spack modules | |
| section_end:1719502319:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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| Log was not fetched because job had status: skipped |
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| Log was not fetched because job had status: skipped |
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| Log was not fetched because job had status: skipped |
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