Created
July 12, 2024 13:09
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Logfiles for GitLab pipeline https://bbpgitlab.epfl.ch/hpc/cellular/nrn/-/pipelines/221542 (:no_entry:) running on GitHub PR neuronsimulator/nrn#2959.
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[0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m | |
[0K on BB5 map runner pnPo3yJy[0;m | |
section_start:1720789250:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
section_end:1720789250:resolve_secrets [0Ksection_start:1720789250: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-executor3980145573, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
Runner ID 29, project root hpc, project name nrn | |
Pipeline ID 221542, build ref , job ID 1346664 | |
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542, 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_J1346664_PROD_P2160_CP0_C2 | |
Job parameters: memory=160G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos= reservation= | |
Not executing the chown -R | |
sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
Submitted batch job 2302181 | |
job state: R | |
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1346664_PROD_P2160_CP0_C2 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542 --time=2:00:00 --wrap="sleep infinity" | |
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542 --ntasks=2 --jobid=2302181 --cpus-per-task=8 --mem=160G | |
section_end:1720789252:prepare_executor [0Ksection_start:1720789252:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
Using git from spack modules | |
Running on r1i5n32 via bbpv1.epfl.ch... | |
section_end:1720789254:prepare_script [0Ksection_start:1720789254: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:1720789255:get_sources [0Ksection_start:1720789255: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=178193 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:1720789260:restore_cache [0Ksection_start:1720789260:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
Using git from spack modules | |
[32;1mDownloading artifacts for build:nmodl (1346663)...[0;m | |
Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=178608 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
Downloading artifacts from coordinator... ok [0;m id[0;m=1346663 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
section_end:1720789261:download_artifacts [0Ksection_start:1720789261: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/P221542/J1346664/spack-config/config.yaml:2 build_stage: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346664/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346664/spack-build | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346664/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346664/spack-source-cache | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/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/P221542/J1346661/spack/etc/spack/defaults/config.yaml:18 extensions: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:151 locks: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:216 bind: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:233 flags: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:240 aliases: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
_builtin debug: False | |
[32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
--- concretizer: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346664/spack-config/concretizer.yaml:2 reuse: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
[32;1m$ 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 (${XDG_CONFIG_HOME})"[0;m | |
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542/J1346664_local_config) | |
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
Preparing to install neuron%oneapi ~rx3d~caliper~gpu+coreneuron~legacy-unit~openmp~shared~sympy+tests build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^/l4xmhngqjsfvhchruhc53a7hs374de62 | |
[32;1m$ 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=${CCACHE_BASEDIR}[0;m | |
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542 | |
[32;1m$ 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/bbpcihpcproj12/2302181/ccache | |
Config file: /nvme/bbpcihpcproj12/2302181/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: Fri Jul 12 15:01:07 2024 | |
Local storage: | |
Cache size (GB): 0.46 / 0.51 (90.44%) | |
Files: 11204 | |
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 | |
- ^/l4xmhngqjsfvhchruhc53a7hs374de62 | |
Concretized | |
-------------------------------- | |
- 65zmuzj neuron@git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b=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 | |
[+] l4xmhng ^nmodl@git.332c8b37cee59cc8b9777ef7194d7bc2a0c73646=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/P221542, 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/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/cli11-2.3.2-ud3ech | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/nlohmann-json-3.9.1-teske2 | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pigz-2.7-dwjcgu | |
[+] /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/libyaml-0.2.5-bzl4xc | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/fmt-10.1.1-evtttr | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/readline-8.2-pdugg7 | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pip-23.1.2-77ku3v | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libxml2-2.10.3-oh2g4i | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/hdf5-1.14.3-5o77ye | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/tar-1.34-zz4acm | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/spdlog-1.12.0-ihotvb | |
[+] /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-numpy-1.26.1-elr5pn | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-packaging-23.1-uqml2t | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gettext-0.22.3-nbi5w5 | |
==> Installing libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8=develop-fz3oxtcl57lk2z5alhm3jvnsf6bsoiul [35/49] | |
==> No binary for libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8=develop-fz3oxtcl57lk2z5alhm3jvnsf6bsoiul found: installing from source | |
==> No patches needed for libsonata-report | |
==> libsonata-report: Executing phase: 'cmake' | |
==> libsonata-report: Executing phase: 'build' | |
==> libsonata-report: Executing phase: 'install' | |
==> libsonata-report: Successfully installed libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8=develop-fz3oxtcl57lk2z5alhm3jvnsf6bsoiul | |
Stage: 2.24s. Cmake: 5.06s. Build: 1.60s. Install: 0.11s. Post-install: 0.36s. Total: 9.55s | |
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/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-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-markupsafe-2.1.3-r3ehtm | |
[+] /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-mpi4py-3.1.4-x733hw | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-coverage-7.2.6-wuxetk | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pluggy-1.0.0-6su7kv | |
[+] /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-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/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_gcc-12.3.0-skylake/nmodl-git.332c8b37cee59cc8b9777ef7194d7bc2a0c73646_develop-l4xmhn | |
[+] /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.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b=develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r [49/49] | |
==> No binary for neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b=develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r 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' | |
8 errors found in build log: | |
2680 [ 33%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/io/phase3.cpp.o | |
2681 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-bu | |
ild-65zmuzj/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/oneapi/icpx | |
-DCORENEURON_BUILD -DCORENRN_BUILD=1 -DDISABLE_HOC_EXP -DDISABLE_T | |
IMEOUT -DEIGEN_DONT_PARALLELIZE -DENABLE_SONATA_REPORTS -DENABLE_S | |
PLAYTREE_QUEUING -DHAVE_MALLOC_H -DLAYOUT=0 -DMPICH_SKIP_MPICXX=1 | |
-DMPI_NO_CPPBIND=1 -DNRNMPI=1 -DNRNMPI_DYNAMICLOAD=1 -DOMPI_SKIP_M | |
PICXX=1 -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P22 | |
1542/software/install_oneapi-2023.2.0-skylake/libsonata-report-git | |
.5602aadfa710d6766ce23cd151a1855190271bd8_develop-fz3oxt/include - | |
I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J134 | |
6664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef | |
163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/ | |
src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542 | |
/J1346664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de | |
0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack | |
-build-65zmuzj/generated -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map | |
_jobs/bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage-neur | |
on-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4u | |
vet4e4pd2wqkpibal5pf4r/spack-src/external/CLI11/include -isystem / | |
gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J13466 | |
64/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef16 | |
3bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/ex | |
ternal/Random123/include -march=skylake -mtune=skylake -fopenmp-si | |
md -g -O1 -fp-model precise -std=c++17 -Wno-unknown-pragmas -MD - | |
MT src/coreneuron/CMakeFiles/coreneuron-core.dir/io/phase3.cpp.o - | |
MF CMakeFiles/coreneuron-core.dir/io/phase3.cpp.o.d -o CMakeFiles/ | |
coreneuron-core.dir/io/phase3.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitla | |
b_map_jobs/bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage | |
-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmu | |
zjg4uvet4e4pd2wqkpibal5pf4r/spack-src/src/coreneuron/io/phase3.cpp | |
2682 [ 33%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/io/prcellstate.cpp.o | |
2683 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-bu | |
ild-65zmuzj/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/oneapi/icpx | |
-DCORENEURON_BUILD -DCORENRN_BUILD=1 -DDISABLE_HOC_EXP -DDISABLE_T | |
IMEOUT -DEIGEN_DONT_PARALLELIZE -DENABLE_SONATA_REPORTS -DENABLE_S | |
PLAYTREE_QUEUING -DHAVE_MALLOC_H -DLAYOUT=0 -DMPICH_SKIP_MPICXX=1 | |
-DMPI_NO_CPPBIND=1 -DNRNMPI=1 -DNRNMPI_DYNAMICLOAD=1 -DOMPI_SKIP_M | |
PICXX=1 -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P22 | |
1542/software/install_oneapi-2023.2.0-skylake/libsonata-report-git | |
.5602aadfa710d6766ce23cd151a1855190271bd8_develop-fz3oxt/include - | |
I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J134 | |
6664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef | |
163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/ | |
src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542 | |
/J1346664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de | |
0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack | |
-build-65zmuzj/generated -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map | |
_jobs/bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage-neur | |
on-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4u | |
vet4e4pd2wqkpibal5pf4r/spack-src/external/CLI11/include -isystem / | |
gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J13466 | |
64/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef16 | |
3bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/ex | |
ternal/Random123/include -march=skylake -mtune=skylake -fopenmp-si | |
md -g -O1 -fp-model precise -std=c++17 -Wno-unknown-pragmas -MD - | |
MT src/coreneuron/CMakeFiles/coreneuron-core.dir/io/prcellstate.cp | |
p.o -MF CMakeFiles/coreneuron-core.dir/io/prcellstate.cpp.o.d -o C | |
MakeFiles/coreneuron-core.dir/io/prcellstate.cpp.o -c /gpfs/bbp.cs | |
cs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346664/spack-bu | |
ild/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3 | |
b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/src/coreneuro | |
n/io/prcellstate.cpp | |
2684 [ 33%] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/ | |
rxd_intracellular.cpp.o | |
2685 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-bu | |
ild-65zmuzj/src/nrnpython && /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/oneapi/icpx - | |
DCORENRN_BUILD=0 -DHAVE_CONFIG_H -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CP | |
PBIND=1 -DNRN_ENABLE_THREADS -DOMPI_SKIP_MPICXX=1 -DUSE_PYTHON -I/ | |
gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J13466 | |
64/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef16 | |
3bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/sr | |
c/nrnpython/.. -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro | |
j12/P221542/J1346664/spack-build/spack-stage-neuron-git.9d5cc88478 | |
de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal | |
5pf4r/spack-src/src/nrnpython/../oc -I/gpfs/bbp.cscs.ch/ssd/gitlab | |
_map_jobs/bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage- | |
neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuz | |
jg4uvet4e4pd2wqkpibal5pf4r/spack-src/src/nrnpython/../nrnoc -I/gpf | |
s/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346664/ | |
spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bc | |
ca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/src/n | |
rnpython/../ivoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcp | |
roj12/P221542/J1346664/spack-build/spack-stage-neuron-git.9d5cc884 | |
78de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpib | |
al5pf4r/spack-src/src/nrnpython/../nrniv -I/gpfs/bbp.cscs.ch/ssd/g | |
itlab_map_jobs/bbpcihpcproj12/P221542/J1346664/spack-build/spack-s | |
tage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-6 | |
5zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/src/nrnpython/../nrnmpi | |
-I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J13 | |
46664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4e | |
f163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-bui | |
ld-65zmuzj/src/nrnpython -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b | |
bpcihpcproj12/P221542/J1346664/spack-build/spack-stage-neuron-git. | |
9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4p | |
d2wqkpibal5pf4r/spack-build-65zmuzj/src/oc -I/gpfs/bbp.cscs.ch/ssd | |
/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346664/spack-build/spack | |
-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop | |
-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/src/nrnpython/../ivos | |
-I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/instal | |
l_gcc-12.3.0-skylake/python-3.11.6-bj4i6m/include/python3.11 -I/gp | |
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346664 | |
/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163b | |
cca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/exte | |
rnal/eigen -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/ | |
P221542/J1346664/spack-build/spack-stage-neuron-git.9d5cc88478de17 | |
f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4 | |
r/spack-build-65zmuzj/src/nrniv/oc_generated -I/gpfs/bbp.cscs.ch/s | |
sd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346664/spack-build/spa | |
ck-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_devel | |
op-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/external/fmt/include | |
-isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P22 | |
1542/J1346664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01 | |
b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/s | |
pack-src/external/nanobind/include -march=skylake -mtune=skylake - | |
fopenmp-simd -g -O1 -fp-model precise -std=c++17 -fPIC -MD -MT sr | |
c/nrnpython/CMakeFiles/nrnpython.dir/rxd_intracellular.cpp.o -MF C | |
MakeFiles/nrnpython.dir/rxd_intracellular.cpp.o.d -o CMakeFiles/nr | |
npython.dir/rxd_intracellular.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitla | |
b_map_jobs/bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage | |
-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmu | |
zjg4uvet4e4pd2wqkpibal5pf4r/spack-src/src/nrnpython/rxd_intracellu | |
lar.cpp | |
>> 2686 ../../../spack-src/src/nrnpython/nrnpy_nrn.cpp:2123:9: error: indi | |
rection requires pointer operand ('neuron::container::generic_data | |
_handle' invalid) | |
2687 *d = new_x; | |
2688 ^~ | |
>> 2689 ../../../spack-src/src/nrnpython/nrnpy_nrn.cpp:2303:24: error: no | |
matching function for call to 'nrn_hocobj_handle' | |
2690 return nrn_hocobj_handle(d); | |
2691 ^~~~~~~~~~~~~~~~~ | |
2692 ../../../spack-src/src/nrnpython/nrnpython.h:94:11: note: candidat | |
e function not viable: no known conversion from 'const neuron::con | |
tainer::generic_data_handle' to 'neuron::container::data_handle<do | |
uble>' for 1st argument | |
2693 PyObject* nrn_hocobj_handle(neuron::container::data_handle<double> | |
d); | |
2694 ^ | |
>> 2695 ../../../spack-src/src/nrnpython/nrnpy_nrn.cpp:2403:13: error: ind | |
irection requires pointer operand ('neuron::container::generic_dat | |
a_handle' invalid) | |
2696 *d = new_x; | |
2697 ^~ | |
2698 3 errors generated. | |
>> 2699 make[2]: *** [src/nrnpython/CMakeFiles/nrnpython.dir/build.make:10 | |
7: src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_nrn.cpp.o] Error 1 | |
2700 make[2]: *** Waiting for unfinished jobs.... | |
2701 [ 34%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/io/reports/nrnreport.cpp.o | |
2702 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-bu | |
ild-65zmuzj/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/oneapi/icpx | |
-DCORENEURON_BUILD -DCORENRN_BUILD=1 -DDISABLE_HOC_EXP -DDISABLE_T | |
IMEOUT -DEIGEN_DONT_PARALLELIZE -DENABLE_SONATA_REPORTS -DENABLE_S | |
PLAYTREE_QUEUING -DHAVE_MALLOC_H -DLAYOUT=0 -DMPICH_SKIP_MPICXX=1 | |
-DMPI_NO_CPPBIND=1 -DNRNMPI=1 -DNRNMPI_DYNAMICLOAD=1 -DOMPI_SKIP_M | |
PICXX=1 -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P22 | |
1542/software/install_oneapi-2023.2.0-skylake/libsonata-report-git | |
.5602aadfa710d6766ce23cd151a1855190271bd8_develop-fz3oxt/include - | |
I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J134 | |
6664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef | |
163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/ | |
src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542 | |
/J1346664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de | |
0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack | |
-build-65zmuzj/generated -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map | |
_jobs/bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage-neur | |
on-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4u | |
vet4e4pd2wqkpibal5pf4r/spack-src/external/CLI11/include -isystem / | |
gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J13466 | |
64/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef16 | |
3bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/ex | |
ternal/Random123/include -march=skylake -mtune=skylake -fopenmp-si | |
md -g -O1 -fp-model precise -std=c++17 -Wno-unknown-pragmas -MD - | |
MT src/coreneuron/CMakeFiles/coreneuron-core.dir/io/reports/nrnrep | |
ort.cpp.o -MF CMakeFiles/coreneuron-core.dir/io/reports/nrnreport. | |
cpp.o.d -o CMakeFiles/coreneuron-core.dir/io/reports/nrnreport.cpp | |
.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542 | |
/J1346664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de | |
0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack | |
-src/src/coreneuron/io/reports/nrnreport.cpp | |
2703 [ 34%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/io/reports/report_configuration_parser.cpp.o | |
2704 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-bu | |
ild-65zmuzj/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/oneapi/icpx | |
-DCORENEURON_BUILD -DCORENRN_BUILD=1 -DDISABLE_HOC_EXP -DDISABLE_T | |
IMEOUT -DEIGEN_DONT_PARALLELIZE -DENABLE_SONATA_REPORTS -DENABLE_S | |
PLAYTREE_QUEUING -DHAVE_MALLOC_H -DLAYOUT=0 -DMPICH_SKIP_MPICXX=1 | |
-DMPI_NO_CPPBIND=1 -DNRNMPI=1 -DNRNMPI_DYNAMICLOAD=1 -DOMPI_SKIP_M | |
PICXX=1 -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P22 | |
1542/software/install_oneapi-2023.2.0-skylake/libsonata-report-git | |
.5602aadfa710d6766ce23cd151a1855190271bd8_develop-fz3oxt/include - | |
I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J134 | |
6664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef | |
163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/ | |
src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542 | |
/J1346664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de | |
0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack | |
-build-65zmuzj/generated -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map | |
_jobs/bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage-neur | |
on-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4u | |
vet4e4pd2wqkpibal5pf4r/spack-src/external/CLI11/include -isystem / | |
gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J13466 | |
64/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef16 | |
3bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/ex | |
ternal/Random123/include -march=skylake -mtune=skylake -fopenmp-si | |
md -g -O1 -fp-model precise -std=c++17 -Wno-unknown-pragmas -MD - | |
MT src/coreneuron/CMakeFiles/coreneuron-core.dir/io/reports/report | |
_configuration_parser.cpp.o -MF CMakeFiles/coreneuron-core.dir/io/ | |
reports/report_configuration_parser.cpp.o.d -o CMakeFiles/coreneur | |
on-core.dir/io/reports/report_configuration_parser.cpp.o -c /gpfs/ | |
bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346664/sp | |
ack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca | |
9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-src/src/cor | |
eneuron/io/reports/report_configuration_parser.cpp | |
2705 [ 34%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/io/reports/report_event.cpp.o | |
... | |
2819 [ 36%] Running nrnivmodl-core with internal mod files | |
2820 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/spack-bu | |
ild-65zmuzj/bin && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage | |
_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmak | |
e -E env NMODLHOME= /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc | |
proj12/P221542/J1346664/spack-build/spack-stage-neuron-git.9d5cc88 | |
478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpi | |
bal5pf4r/spack-build-65zmuzj/bin/nrnivmodl-core -b STATIC -m /gpfs | |
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/i | |
nstall_gcc-12.3.0-skylake/nmodl-git.332c8b37cee59cc8b9777ef7194d7b | |
c2a0c73646_develop-l4xmhn/bin/nmodl -n internal -p 4 . | |
2821 WARNING: No mod files found in '/gpfs/bbp.cscs.ch/ssd/gitlab_map_j | |
obs/bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage-neuron | |
-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uve | |
t4e4pd2wqkpibal5pf4r/spack-build-65zmuzj/bin', compiling default o | |
nes only! | |
2822 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4 | |
pd2wqkpibal5pf4r/spack-build-65zmuzj/share/coreneuron/nrnivmodl_co | |
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro | |
j12/P221542/J1346664/spack-build/spack-stage-neuron-git.9d5cc88478 | |
de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal | |
5pf4r/spack-build-65zmuzj MECHLIB_SUFFIX=internal NMODL_BINARY=/gp | |
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software | |
/install_gcc-12.3.0-skylake/nmodl-git.332c8b37cee59cc8b9777ef7194d | |
7bc2a0c73646_develop-l4xmhn/bin/nmodl MODS_PATH=x86_64/corenrn/mod | |
2c BUILD_TYPE=STATIC NRN_PRCELLSTATE=0 | |
2823 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
/bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage-neuron-gi | |
t.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e | |
4pd2wqkpibal5pf4r/spack-build-65zmuzj/bin' | |
2824 make[3]: warning: -j4 forced in submake: resetting jobserver mode. | |
>> 2825 make[3]: xcrun: No such file or directory | |
2826 Default NMODL flags: | |
>> 2827 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director | |
y | |
2828 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado | |
ws <extern_neuron_var> definition in NMODL_GLOBAL | |
2829 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado | |
ws <extern_neuron_var> definition in NMODL_GLOBAL | |
2830 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado | |
ws <extern_neuron_var> definition in NMODL_GLOBAL | |
2831 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit | |
h cnexp solver | |
2832 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4 | |
pd2wqkpibal5pf4r/spack-build-65zmuzj' | |
>> 2833 make[1]: *** [CMakeFiles/Makefile2:2545: src/nrnpython/CMakeFiles/ | |
nrnpython.dir/all] Error 2 | |
2834 make[1]: *** Waiting for unfinished jobs.... | |
2835 x86_64/corenrn/mod2c/expsyn.cpp:280:9: warning: loop not vectorize | |
d: the optimizer was unable to perform the requested transformatio | |
n; the transformation might be disabled or specified as part of an | |
unsupported transformation ordering [-Wpass-failed=transform-warn | |
ing] | |
2836 #pragma omp simd | |
2837 ^ | |
2838 x86_64/corenrn/mod2c/expsyn.cpp:314:13: warning: loop not vectoriz | |
ed: the optimizer was unable to perform the requested transformati | |
on; the transformation might be disabled or specified as part of a | |
n unsupported transformation ordering [-Wpass-failed=transform-war | |
ning] | |
2839 #pragma omp simd | |
... | |
2897 => Binary creating x86_64/special-core | |
2898 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4 | |
pd2wqkpibal5pf4r/spack-build-65zmuzj/bin' | |
2899 [INFO] MOD files built successfully for CoreNEURON | |
2900 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4 | |
pd2wqkpibal5pf4r/spack-build-65zmuzj' | |
2901 [ 37%] Built target nrniv-core | |
2902 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4 | |
pd2wqkpibal5pf4r/spack-build-65zmuzj' | |
>> 2903 make: *** [Makefile:169: all] Error 2 | |
See build log for details: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346664/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-65zmuzjg4uvet4e4pd2wqkpibal5pf4r/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: r1i5n32: task 0: Exited with exit code 1 | |
section_end:1720789638:step_script [0Ksection_start:1720789638: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=192303 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=1346664 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=192349 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=1346664 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=192466 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=1346664 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
section_end:1720789639:upload_artifacts_on_failure [0Ksection_start:1720789639: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:1720789640: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:1720789251:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
section_end:1720789251:resolve_secrets [0Ksection_start:1720789251: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-executor2101731502, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
Runner ID 29, project root hpc, project name nrn | |
Pipeline ID 221542, build ref , job ID 1346666 | |
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542, 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_J1346666_PROD_P2160_CP2_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 2302183 | |
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_J1346666_PROD_P2160_CP2_C6 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542 --time=2:00:00 --wrap="sleep infinity" | |
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542 --ntasks=2 --jobid=2302183 --cpus-per-task=8 --mem=160G | |
section_end:1720789255:prepare_executor [0Ksection_start:1720789255:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
Using git from spack modules | |
Running on r1i5n17 via bbpv1.epfl.ch... | |
section_end:1720789259:prepare_script [0Ksection_start:1720789259: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:1720789259:get_sources [0Ksection_start:1720789259: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=248091 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:1720789265:restore_cache [0Ksection_start:1720789265:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
Using git from spack modules | |
[32;1mDownloading artifacts for build:nmodl (1346663)...[0;m | |
Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=248310 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
Downloading artifacts from coordinator... ok [0;m id[0;m=1346663 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
section_end:1720789266:download_artifacts [0Ksection_start:1720789266: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/P221542/J1346666/spack-config/config.yaml:2 build_stage: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346666/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346666/spack-build | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346666/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346666/spack-source-cache | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/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/P221542/J1346661/spack/etc/spack/defaults/config.yaml:18 extensions: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:151 locks: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:216 bind: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:233 flags: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:240 aliases: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
_builtin debug: False | |
[32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
--- concretizer: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346666/spack-config/concretizer.yaml:2 reuse: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
[32;1m$ 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 (${XDG_CONFIG_HOME})"[0;m | |
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542/J1346666_local_config) | |
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
Preparing to install neuron%nvhpc ~rx3d~caliper+gpu+coreneuron~legacy-unit~openmp~shared~sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^/l4xmhngqjsfvhchruhc53a7hs374de62 | |
[32;1m$ 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=${CCACHE_BASEDIR}[0;m | |
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542 | |
[32;1m$ 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/bbpcihpcproj12/2302183/ccache | |
Config file: /nvme/bbpcihpcproj12/2302183/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: Fri Jul 12 15:01:12 2024 | |
Local storage: | |
Cache size (GB): 0.46 / 0.51 (89.70%) | |
Files: 11670 | |
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 | |
- ^/l4xmhngqjsfvhchruhc53a7hs374de62 | |
Concretized | |
-------------------------------- | |
- eysvb4i neuron@git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b=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 | |
[+] l4xmhng ^nmodl@git.332c8b37cee59cc8b9777ef7194d7bc2a0c73646=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/P221542, 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/libyaml-0.2.5-bzl4xc | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/readline-8.2-pdugg7 | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pigz-2.7-dwjcgu | |
[+] /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/libxml2-2.10.3-oh2g4i | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/binutils-2.41-tj3mv5 | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pkgconf-1.9.5-e533uu | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/nlohmann-json-3.9.1-teske2 | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/catch2-3.4.0-pywly2 | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pluggy-1.0.0-6su7kv | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-iniconfig-2.0.0-mvxx6g | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pip-23.1.2-77ku3v | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/spdlog-1.12.0-ihotvb | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/tar-1.34-zz4acm | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/hdf5-1.14.3-5o77ye | |
[+] /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-mpi4py-3.1.4-x733hw | |
[+] /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-pyyaml-5.4.1-2inh3r | |
[+] /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-numpy-1.26.1-elr5pn | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-packaging-23.1-uqml2t | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-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/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/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_gcc-12.3.0-skylake/nmodl-git.332c8b37cee59cc8b9777ef7194d7bc2a0c73646_develop-l4xmhn | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-cov-4.0.0-z5nf6n | |
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6cwi | |
==> Installing neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b=develop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf [50/50] | |
==> No binary for neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b=develop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf 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' | |
8 errors found in build log: | |
2864 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/utils/memory.cpp.o | |
2865 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346666/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/spack-bu | |
ild-eysvb4i/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ | |
-DCORENEURON_BUILD -DCORENEURON_CUDA_PROFILING -DCORENEURON_ENABLE | |
_GPU -DCORENEURON_USE_BOOST_POOL -DCORENRN_BUILD=1 -DDISABLE_HOC_E | |
XP -DDISABLE_TIMEOUT -DEIGEN_DONT_PARALLELIZE -DEIGEN_DONT_VECTORI | |
ZE=1 -DENABLE_SONATA_REPORTS -DENABLE_SPLAYTREE_QUEUING -DHAVE_MAL | |
LOC_H -DLAYOUT=0 -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIND=1 -DNRNMPI | |
=1 -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-0 | |
1/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb/ta | |
rgets/x86_64-linux/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
/bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libson | |
ata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az | |
6cwi/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj1 | |
2/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478de | |
17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5 | |
kwf/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc | |
proj12/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88 | |
478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d | |
64mi5kwf/spack-build-eysvb4i/generated -isystem /gpfs/bbp.cscs.ch/ | |
ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346666/spack-build/sp | |
ack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_deve | |
lop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/spack-src/external/CLI11/incl | |
ude -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/ | |
P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478de17 | |
f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kw | |
f/spack-src/external/Random123/include -isystem /gpfs/bbp.cscs.ch/ | |
ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake | |
/boost-1.83.0-2quv7w/include -tp haswell -g -O1 -fno-omit-frame-po | |
inter --c++17 --diag_suppress=111,550 -cuda -gpu=cuda12.0,lineinf | |
o,cc70,cc80 -acc -MD -MT src/coreneuron/CMakeFiles/coreneuron-core | |
.dir/utils/memory.cpp.o -MF CMakeFiles/coreneuron-core.dir/utils/m | |
emory.cpp.o.d -o CMakeFiles/coreneuron-core.dir/utils/memory.cpp.o | |
-c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J | |
1346666/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b | |
4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/spack-s | |
rc/src/coreneuron/utils/memory.cpp | |
2866 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/utils/memory_utils.cpp.o | |
2867 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346666/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/spack-bu | |
ild-eysvb4i/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ | |
-DCORENEURON_BUILD -DCORENEURON_CUDA_PROFILING -DCORENEURON_ENABLE | |
_GPU -DCORENEURON_USE_BOOST_POOL -DCORENRN_BUILD=1 -DDISABLE_HOC_E | |
XP -DDISABLE_TIMEOUT -DEIGEN_DONT_PARALLELIZE -DEIGEN_DONT_VECTORI | |
ZE=1 -DENABLE_SONATA_REPORTS -DENABLE_SPLAYTREE_QUEUING -DHAVE_MAL | |
LOC_H -DLAYOUT=0 -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIND=1 -DNRNMPI | |
=1 -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-0 | |
1/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb/ta | |
rgets/x86_64-linux/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
/bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libson | |
ata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az | |
6cwi/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj1 | |
2/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478de | |
17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5 | |
kwf/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc | |
proj12/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88 | |
478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d | |
64mi5kwf/spack-build-eysvb4i/generated -isystem /gpfs/bbp.cscs.ch/ | |
ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346666/spack-build/sp | |
ack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_deve | |
lop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/spack-src/external/CLI11/incl | |
ude -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/ | |
P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478de17 | |
f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kw | |
f/spack-src/external/Random123/include -isystem /gpfs/bbp.cscs.ch/ | |
ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake | |
/boost-1.83.0-2quv7w/include -tp haswell -g -O1 -fno-omit-frame-po | |
inter --c++17 --diag_suppress=111,550 -cuda -gpu=cuda12.0,lineinf | |
o,cc70,cc80 -acc -MD -MT src/coreneuron/CMakeFiles/coreneuron-core | |
.dir/utils/memory_utils.cpp.o -MF CMakeFiles/coreneuron-core.dir/u | |
tils/memory_utils.cpp.o.d -o CMakeFiles/coreneuron-core.dir/utils/ | |
memory_utils.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcih | |
pcproj12/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc | |
88478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj | |
6d64mi5kwf/spack-src/src/coreneuron/utils/memory_utils.cpp | |
2868 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/utils/nrn_stats.cpp.o | |
2869 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346666/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/spack-bu | |
ild-eysvb4i/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ | |
-DCORENEURON_BUILD -DCORENEURON_CUDA_PROFILING -DCORENEURON_ENABLE | |
_GPU -DCORENEURON_USE_BOOST_POOL -DCORENRN_BUILD=1 -DDISABLE_HOC_E | |
XP -DDISABLE_TIMEOUT -DEIGEN_DONT_PARALLELIZE -DEIGEN_DONT_VECTORI | |
ZE=1 -DENABLE_SONATA_REPORTS -DENABLE_SPLAYTREE_QUEUING -DHAVE_MAL | |
LOC_H -DLAYOUT=0 -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIND=1 -DNRNMPI | |
=1 -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-0 | |
1/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb/ta | |
rgets/x86_64-linux/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
/bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libson | |
ata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az | |
6cwi/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj1 | |
2/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478de | |
17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5 | |
kwf/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc | |
proj12/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88 | |
478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d | |
64mi5kwf/spack-build-eysvb4i/generated -isystem /gpfs/bbp.cscs.ch/ | |
ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346666/spack-build/sp | |
ack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_deve | |
lop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/spack-src/external/CLI11/incl | |
ude -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/ | |
P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478de17 | |
f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kw | |
f/spack-src/external/Random123/include -isystem /gpfs/bbp.cscs.ch/ | |
ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake | |
/boost-1.83.0-2quv7w/include -tp haswell -g -O1 -fno-omit-frame-po | |
inter --c++17 --diag_suppress=111,550 -cuda -gpu=cuda12.0,lineinf | |
o,cc70,cc80 -acc -MD -MT src/coreneuron/CMakeFiles/coreneuron-core | |
.dir/utils/nrn_stats.cpp.o -MF CMakeFiles/coreneuron-core.dir/util | |
s/nrn_stats.cpp.o.d -o CMakeFiles/coreneuron-core.dir/utils/nrn_st | |
ats.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/ | |
P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478de17 | |
f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kw | |
f/spack-src/src/coreneuron/utils/nrn_stats.cpp | |
>> 2870 "../../../spack-src/src/nrnpython/nrnpy_nrn.cpp", line 2123: error | |
: no operator "*" matches these operands | |
2871 operand types are: * neuron::container::generic_data_h | |
andle | |
2872 *d = new_x; | |
2873 ^ | |
2874 | |
>> 2875 "../../../spack-src/src/nrnpython/nrnpy_nrn.cpp", line 2303: error | |
: no suitable user-defined conversion from "const neuron::containe | |
r::generic_data_handle" to "neuron::container::data_handle<double> | |
" exists | |
2876 return nrn_hocobj_handle(d); | |
2877 ^ | |
2878 | |
>> 2879 "../../../spack-src/src/nrnpython/nrnpy_nrn.cpp", line 2403: error | |
: no operator "*" matches these operands | |
2880 operand types are: * neuron::container::generic_data_h | |
andle | |
2881 *d = new_x; | |
2882 ^ | |
2883 | |
2884 3 errors detected in the compilation of "../../../spack-src/src/nr | |
npython/nrnpy_nrn.cpp". | |
>> 2885 make[2]: *** [src/nrnpython/CMakeFiles/nrnpython.dir/build.make:10 | |
7: src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_nrn.cpp.o] Error 2 | |
2886 make[2]: *** Waiting for unfinished jobs.... | |
2887 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/utils/nrnoc_aux.cpp.o | |
2888 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346666/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/spack-bu | |
ild-eysvb4i/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ | |
-DCORENEURON_BUILD -DCORENEURON_CUDA_PROFILING -DCORENEURON_ENABLE | |
_GPU -DCORENEURON_USE_BOOST_POOL -DCORENRN_BUILD=1 -DDISABLE_HOC_E | |
XP -DDISABLE_TIMEOUT -DEIGEN_DONT_PARALLELIZE -DEIGEN_DONT_VECTORI | |
ZE=1 -DENABLE_SONATA_REPORTS -DENABLE_SPLAYTREE_QUEUING -DHAVE_MAL | |
LOC_H -DLAYOUT=0 -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIND=1 -DNRNMPI | |
=1 -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-0 | |
1/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb/ta | |
rgets/x86_64-linux/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
/bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libson | |
ata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az | |
6cwi/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj1 | |
2/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478de | |
17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5 | |
kwf/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc | |
proj12/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88 | |
478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d | |
64mi5kwf/spack-build-eysvb4i/generated -isystem /gpfs/bbp.cscs.ch/ | |
ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346666/spack-build/sp | |
ack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_deve | |
lop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/spack-src/external/CLI11/incl | |
ude -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/ | |
P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478de17 | |
f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kw | |
f/spack-src/external/Random123/include -isystem /gpfs/bbp.cscs.ch/ | |
ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake | |
/boost-1.83.0-2quv7w/include -tp haswell -g -O1 -fno-omit-frame-po | |
inter --c++17 --diag_suppress=111,550 -cuda -gpu=cuda12.0,lineinf | |
o,cc70,cc80 -acc -MD -MT src/coreneuron/CMakeFiles/coreneuron-core | |
.dir/utils/nrnoc_aux.cpp.o -MF CMakeFiles/coreneuron-core.dir/util | |
s/nrnoc_aux.cpp.o.d -o CMakeFiles/coreneuron-core.dir/utils/nrnoc_ | |
aux.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/ | |
P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478de17 | |
f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kw | |
f/spack-src/src/coreneuron/utils/nrnoc_aux.cpp | |
2889 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/utils/nrntimeout.cpp.o | |
2890 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346666/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/spack-bu | |
ild-eysvb4i/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ | |
-DCORENEURON_BUILD -DCORENEURON_CUDA_PROFILING -DCORENEURON_ENABLE | |
_GPU -DCORENEURON_USE_BOOST_POOL -DCORENRN_BUILD=1 -DDISABLE_HOC_E | |
XP -DDISABLE_TIMEOUT -DEIGEN_DONT_PARALLELIZE -DEIGEN_DONT_VECTORI | |
ZE=1 -DENABLE_SONATA_REPORTS -DENABLE_SPLAYTREE_QUEUING -DHAVE_MAL | |
LOC_H -DLAYOUT=0 -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIND=1 -DNRNMPI | |
=1 -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-0 | |
1/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb/ta | |
rgets/x86_64-linux/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
/bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libson | |
ata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az | |
6cwi/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj1 | |
2/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478de | |
17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5 | |
kwf/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc | |
proj12/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88 | |
478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d | |
64mi5kwf/spack-build-eysvb4i/generated -isystem /gpfs/bbp.cscs.ch/ | |
ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346666/spack-build/sp | |
ack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_deve | |
lop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/spack-src/external/CLI11/incl | |
ude -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/ | |
P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478de17 | |
f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kw | |
f/spack-src/external/Random123/include -isystem /gpfs/bbp.cscs.ch/ | |
ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake | |
/boost-1.83.0-2quv7w/include -tp haswell -g -O1 -fno-omit-frame-po | |
inter --c++17 --diag_suppress=111,550 -cuda -gpu=cuda12.0,lineinf | |
o,cc70,cc80 -acc -MD -MT src/coreneuron/CMakeFiles/coreneuron-core | |
.dir/utils/nrntimeout.cpp.o -MF CMakeFiles/coreneuron-core.dir/uti | |
ls/nrntimeout.cpp.o.d -o CMakeFiles/coreneuron-core.dir/utils/nrnt | |
imeout.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj | |
12/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478d | |
e17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi | |
5kwf/spack-src/src/coreneuron/utils/nrntimeout.cpp | |
2891 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/utils/progressbar/progressbar.cpp.o | |
... | |
2963 [ 28%] Running nrnivmodl-core with internal mod files | |
2964 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346666/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/spack-bu | |
ild-eysvb4i/bin && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage | |
_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmak | |
e -E env NMODLHOME= /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc | |
proj12/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88 | |
478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d | |
64mi5kwf/spack-build-eysvb4i/bin/nrnivmodl-core -b STATIC -m /gpfs | |
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/i | |
nstall_gcc-12.3.0-skylake/nmodl-git.332c8b37cee59cc8b9777ef7194d7b | |
c2a0c73646_develop-l4xmhn/bin/nmodl -n internal -p 4 . | |
2965 WARNING: No mod files found in '/gpfs/bbp.cscs.ch/ssd/gitlab_map_j | |
obs/bbpcihpcproj12/P221542/J1346666/spack-build/spack-stage-neuron | |
-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3 | |
hddj4kw4fj6d64mi5kwf/spack-build-eysvb4i/bin', compiling default o | |
nes only! | |
2966 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346666/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj | |
4kw4fj6d64mi5kwf/spack-build-eysvb4i/share/coreneuron/nrnivmodl_co | |
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro | |
j12/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478 | |
de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64m | |
i5kwf/spack-build-eysvb4i MECHLIB_SUFFIX=internal NMODL_BINARY=/gp | |
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software | |
/install_gcc-12.3.0-skylake/nmodl-git.332c8b37cee59cc8b9777ef7194d | |
7bc2a0c73646_develop-l4xmhn/bin/nmodl MODS_PATH=x86_64/corenrn/mod | |
2c BUILD_TYPE=STATIC NRN_PRCELLSTATE=0 | |
2967 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
/bbpcihpcproj12/P221542/J1346666/spack-build/spack-stage-neuron-gi | |
t.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hdd | |
j4kw4fj6d64mi5kwf/spack-build-eysvb4i/bin' | |
2968 make[3]: warning: -j4 forced in submake: resetting jobserver mode. | |
>> 2969 make[3]: xcrun: No such file or directory | |
2970 Default NMODL flags: | |
>> 2971 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director | |
y | |
2972 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado | |
ws <extern_neuron_var> definition in NMODL_GLOBAL | |
2973 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado | |
ws <extern_neuron_var> definition in NMODL_GLOBAL | |
2974 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado | |
ws <extern_neuron_var> definition in NMODL_GLOBAL | |
2975 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit | |
h cnexp solver | |
2976 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346666/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj | |
4kw4fj6d64mi5kwf/spack-build-eysvb4i' | |
>> 2977 make[1]: *** [CMakeFiles/Makefile2:2774: src/nrnpython/CMakeFiles/ | |
nrnpython.dir/all] Error 2 | |
2978 make[1]: *** Waiting for unfinished jobs.... | |
2979 => Binary creating x86_64/special-core | |
2980 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346 | |
666/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef1 | |
63bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/spack-build | |
-eysvb4i/share/coreneuron/coreneuron.cpp: | |
2981 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_ | |
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: warning: /nvme/bbp | |
cihpcproj12/2302183/pgcudafatRiZ-b0ssbCi3.o: missing .note.GNU-sta | |
ck section implies executable stack | |
2982 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_ | |
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: NOTE: This behavio | |
ur is deprecated and will be removed in a future version of the li | |
nker | |
2983 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346666/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj | |
4kw4fj6d64mi5kwf/spack-build-eysvb4i/bin' | |
2984 [INFO] MOD files built successfully for CoreNEURON | |
2985 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346666/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj | |
4kw4fj6d64mi5kwf/spack-build-eysvb4i' | |
2986 [ 29%] Built target nrniv-core | |
2987 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346666/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj | |
4kw4fj6d64mi5kwf/spack-build-eysvb4i' | |
>> 2988 make: *** [Makefile:169: all] Error 2 | |
See build log for details: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346666/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-eysvb4isoxo3hddj4kw4fj6d64mi5kwf/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: r1i5n17: task 0: Exited with exit code 1 | |
section_end:1720789696:step_script [0Ksection_start:1720789696: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=261720 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=1346666 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=261764 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=1346666 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=261817 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=1346666 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
section_end:1720789698:upload_artifacts_on_failure [0Ksection_start:1720789698: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:1720789698: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:1720789253:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
section_end:1720789253:resolve_secrets [0Ksection_start:1720789253: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-executor3163030976, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
Runner ID 29, project root hpc, project name nrn | |
Pipeline ID 221542, build ref , job ID 1346668 | |
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542, 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_J1346668_PROD_P2160_CP5_C1 | |
Job parameters: memory=160G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos= reservation= | |
Not executing the chown -R | |
sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
Submitted batch job 2302185 | |
job state: PD | |
job state: R | |
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1346668_PROD_P2160_CP5_C1 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542 --time=2:00:00 --wrap="sleep infinity" | |
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542 --ntasks=2 --jobid=2302185 --cpus-per-task=8 --mem=160G | |
section_end:1720789255:prepare_executor [0Ksection_start:1720789255:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
Using git from spack modules | |
Running on r1i4n17 via bbpv1.epfl.ch... | |
section_end:1720789259:prepare_script [0Ksection_start:1720789259: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:1720789259:get_sources [0Ksection_start:1720789259: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=193153 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:1720789265:restore_cache [0Ksection_start:1720789265:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
Using git from spack modules | |
[32;1mDownloading artifacts for build:nmodl (1346663)...[0;m | |
Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=193276 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
Downloading artifacts from coordinator... ok [0;m id[0;m=1346663 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
section_end:1720789265:download_artifacts [0Ksection_start:1720789265: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/P221542/J1346668/spack-config/config.yaml:2 build_stage: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-build | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-source-cache | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/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/P221542/J1346661/spack/etc/spack/defaults/config.yaml:18 extensions: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:151 locks: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:216 bind: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:233 flags: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:240 aliases: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
_builtin debug: False | |
[32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
--- concretizer: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-config/concretizer.yaml:2 reuse: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
[32;1m$ 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 (${XDG_CONFIG_HOME})"[0;m | |
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542/J1346668_local_config) | |
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
Preparing to install neuron%nvhpc ~rx3d+caliper+gpu+coreneuron~legacy-unit+openmp~shared~sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^caliper+cuda cuda_arch=70 ^/l4xmhngqjsfvhchruhc53a7hs374de62 | |
[32;1m$ 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=${CCACHE_BASEDIR}[0;m | |
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542 | |
[32;1m$ 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/bbpcihpcproj12/2302185/ccache | |
Config file: /nvme/bbpcihpcproj12/2302185/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: Fri Jul 12 15:01:11 2024 | |
Local storage: | |
Cache size (GB): 0.47 / 0.51 (92.03%) | |
Files: 12239 | |
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 | |
- ^/l4xmhngqjsfvhchruhc53a7hs374de62 | |
- ^caliper+cuda cuda_arch=70 | |
Concretized | |
-------------------------------- | |
- n53pois neuron@git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b=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 | |
[+] l4xmhng ^nmodl@git.332c8b37cee59cc8b9777ef7194d7bc2a0c73646=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/P221542, 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/adiak-0.4.0-hficqq | |
[+] /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/pigz-2.7-dwjcgu | |
[+] /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/fmt-10.1.1-evtttr | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libxml2-2.10.3-oh2g4i | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/binutils-2.41-tj3mv5 | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/catch2-3.4.0-pywly2 | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/nlohmann-json-3.9.1-teske2 | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/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/libunwind-1.6.2-7xnekx | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libyaml-0.2.5-bzl4xc | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpmath-1.2.1-4fflyi | |
[+] /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-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/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-pyyaml-5.4.1-2inh3r | |
[+] /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-sympy-1.11.1-t5tove | |
[+] /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-coverage-7.2.6-wuxetk | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gettext-0.22.3-nbi5w5 | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-7.3.2-lrf2u3 | |
[+] /gpfs/bbp.cscs.ch/ssd/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/P221542/software/install_gcc-12.3.0-skylake/nmodl-git.332c8b37cee59cc8b9777ef7194d7bc2a0c73646_develop-l4xmhn | |
[+] /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: 2.76s. Cmake: 9.21s. Build: 8.02s. Install: 1.11s. Post-install: 0.17s. Total: 21.53s | |
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp | |
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6cwi | |
==> Installing neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b=develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd [55/55] | |
==> No binary for neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b=develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd 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' | |
8 errors found in build log: | |
2871 [ 28%] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/ | |
rxd_intracellular.cpp.o | |
2872 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346668/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-bu | |
ild-n53pois/src/nrnpython && /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ - | |
DCORENRN_BUILD=0 -DHAVE_CONFIG_H -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CP | |
PBIND=1 -DNRN_CALIPER -DNRN_ENABLE_THREADS -DNRN_PROFILING -DOMPI_ | |
SKIP_MPICXX=1 -DUSE_PYTHON -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
/bbpcihpcproj12/P221542/software/install_gcc-12.3.0-skylake/calipe | |
r-2.11.0-vjj3tp/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bb | |
pcihpcproj12/P221542/J1346668/spack-build/spack-stage-neuron-git.9 | |
d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyo | |
axdh5qhoe7odnd/spack-src/src/nrnpython/.. -I/gpfs/bbp.cscs.ch/ssd/ | |
gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-build/spack- | |
stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop- | |
n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-src/src/nrnpython/../oc -I/ | |
gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J13466 | |
68/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef16 | |
3bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-src/sr | |
c/nrnpython/../nrnoc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpci | |
hpcproj12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5c | |
c88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxd | |
h5qhoe7odnd/spack-src/src/nrnpython/../ivoc -I/gpfs/bbp.cscs.ch/ss | |
d/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-build/spac | |
k-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develo | |
p-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-src/src/nrnpython/../nrni | |
v -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J | |
1346668/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b | |
4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-s | |
rc/src/nrnpython/../nrnmpi -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
/bbpcihpcproj12/P221542/J1346668/spack-build/spack-stage-neuron-gi | |
t.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvg | |
fyoaxdh5qhoe7odnd/spack-build-n53pois/src/nrnpython -I/gpfs/bbp.cs | |
cs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-bu | |
ild/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3 | |
b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-build-n53pois/src | |
/oc -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542 | |
/J1346668/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de | |
0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack | |
-src/src/nrnpython/../ivos -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-0 | |
2-01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i | |
6m/include/python3.11 -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc | |
ihpcproj12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5 | |
cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoax | |
dh5qhoe7odnd/spack-src/external/eigen -I/gpfs/bbp.cscs.ch/ssd/gitl | |
ab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-build/spack-stag | |
e-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53p | |
oiswbe6dwvgfyoaxdh5qhoe7odnd/spack-build-n53pois/src/nrniv/oc_gene | |
rated -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P2215 | |
42/J1346668/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9 | |
de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spa | |
ck-src/external/fmt/include -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_ | |
map_jobs/bbpcihpcproj12/P221542/J1346668/spack-build/spack-stage-n | |
euron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53pois | |
wbe6dwvgfyoaxdh5qhoe7odnd/spack-src/external/nanobind/include -tp | |
haswell -g -O1 -fno-omit-frame-pointer --c++17 -fPIC --diag_suppr | |
ess=1,47,111,128,170,174,177,186,541,550,816,2465 -noswitcherror - | |
MD -MT src/nrnpython/CMakeFiles/nrnpython.dir/rxd_intracellular.cp | |
p.o -MF CMakeFiles/nrnpython.dir/rxd_intracellular.cpp.o.d -o CMak | |
eFiles/nrnpython.dir/rxd_intracellular.cpp.o -c /gpfs/bbp.cscs.ch/ | |
ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-build/sp | |
ack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_deve | |
lop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-src/src/nrnpython/rxd_i | |
ntracellular.cpp | |
2873 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/utils/nrnoc_aux.cpp.o | |
2874 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346668/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-bu | |
ild-n53pois/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ | |
-DCORENEURON_BUILD -DCORENEURON_CUDA_PROFILING -DCORENEURON_ENABLE | |
_GPU -DCORENEURON_PREFER_OPENMP_OFFLOAD -DCORENEURON_USE_BOOST_POO | |
L -DCORENRN_BUILD=1 -DDISABLE_HOC_EXP -DDISABLE_TIMEOUT -DEIGEN_DO | |
NT_PARALLELIZE -DEIGEN_DONT_VECTORIZE=1 -DENABLE_SONATA_REPORTS -D | |
ENABLE_SPLAYTREE_QUEUING -DHAVE_MALLOC_H -DLAYOUT=0 -DMPICH_SKIP_M | |
PICXX=1 -DMPI_NO_CPPBIND=1 -DNRNMPI=1 -DNRN_CALIPER -DNRN_PROFILIN | |
G -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01 | |
/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb/tar | |
gets/x86_64-linux/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libsona | |
ta-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6 | |
cwi/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12 | |
/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc88478de1 | |
7f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7od | |
nd/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcp | |
roj12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc884 | |
78de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qh | |
oe7odnd/spack-build-n53pois/generated -isystem /gpfs/bbp.cscs.ch/s | |
sd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_gcc-12. | |
3.0-skylake/caliper-2.11.0-vjj3tp/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-build | |
/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_d | |
evelop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-src/external/CLI11/i | |
nclude -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj | |
12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc88478d | |
e17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7 | |
odnd/spack-src/external/Random123/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skyl | |
ake/boost-1.83.0-2quv7w/include -tp haswell -mp -g -O1 -fno-omit- | |
frame-pointer --c++17 --diag_suppress=111,550 -cuda -gpu=cuda12.0 | |
,lineinfo,cc70,cc80 -mp=gpu -MD -MT src/coreneuron/CMakeFiles/core | |
neuron-core.dir/utils/nrnoc_aux.cpp.o -MF CMakeFiles/coreneuron-co | |
re.dir/utils/nrnoc_aux.cpp.o.d -o CMakeFiles/coreneuron-core.dir/u | |
tils/nrnoc_aux.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpc | |
ihpcproj12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5 | |
cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoax | |
dh5qhoe7odnd/spack-src/src/coreneuron/utils/nrnoc_aux.cpp | |
2875 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/utils/nrntimeout.cpp.o | |
2876 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346668/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-bu | |
ild-n53pois/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ | |
-DCORENEURON_BUILD -DCORENEURON_CUDA_PROFILING -DCORENEURON_ENABLE | |
_GPU -DCORENEURON_PREFER_OPENMP_OFFLOAD -DCORENEURON_USE_BOOST_POO | |
L -DCORENRN_BUILD=1 -DDISABLE_HOC_EXP -DDISABLE_TIMEOUT -DEIGEN_DO | |
NT_PARALLELIZE -DEIGEN_DONT_VECTORIZE=1 -DENABLE_SONATA_REPORTS -D | |
ENABLE_SPLAYTREE_QUEUING -DHAVE_MALLOC_H -DLAYOUT=0 -DMPICH_SKIP_M | |
PICXX=1 -DMPI_NO_CPPBIND=1 -DNRNMPI=1 -DNRN_CALIPER -DNRN_PROFILIN | |
G -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01 | |
/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb/tar | |
gets/x86_64-linux/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libsona | |
ta-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6 | |
cwi/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12 | |
/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc88478de1 | |
7f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7od | |
nd/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcp | |
roj12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc884 | |
78de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qh | |
oe7odnd/spack-build-n53pois/generated -isystem /gpfs/bbp.cscs.ch/s | |
sd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_gcc-12. | |
3.0-skylake/caliper-2.11.0-vjj3tp/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-build | |
/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_d | |
evelop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-src/external/CLI11/i | |
nclude -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj | |
12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc88478d | |
e17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7 | |
odnd/spack-src/external/Random123/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skyl | |
ake/boost-1.83.0-2quv7w/include -tp haswell -mp -g -O1 -fno-omit- | |
frame-pointer --c++17 --diag_suppress=111,550 -cuda -gpu=cuda12.0 | |
,lineinfo,cc70,cc80 -mp=gpu -MD -MT src/coreneuron/CMakeFiles/core | |
neuron-core.dir/utils/nrntimeout.cpp.o -MF CMakeFiles/coreneuron-c | |
ore.dir/utils/nrntimeout.cpp.o.d -o CMakeFiles/coreneuron-core.dir | |
/utils/nrntimeout.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b | |
bpcihpcproj12/P221542/J1346668/spack-build/spack-stage-neuron-git. | |
9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfy | |
oaxdh5qhoe7odnd/spack-src/src/coreneuron/utils/nrntimeout.cpp | |
>> 2877 "../../../spack-src/src/nrnpython/nrnpy_nrn.cpp", line 2123: error | |
: no operator "*" matches these operands | |
2878 operand types are: * neuron::container::generic_data_h | |
andle | |
2879 *d = new_x; | |
2880 ^ | |
2881 | |
>> 2882 "../../../spack-src/src/nrnpython/nrnpy_nrn.cpp", line 2303: error | |
: no suitable user-defined conversion from "const neuron::containe | |
r::generic_data_handle" to "neuron::container::data_handle<double> | |
" exists | |
2883 return nrn_hocobj_handle(d); | |
2884 ^ | |
2885 | |
>> 2886 "../../../spack-src/src/nrnpython/nrnpy_nrn.cpp", line 2403: error | |
: no operator "*" matches these operands | |
2887 operand types are: * neuron::container::generic_data_h | |
andle | |
2888 *d = new_x; | |
2889 ^ | |
2890 | |
2891 3 errors detected in the compilation of "../../../spack-src/src/nr | |
npython/nrnpy_nrn.cpp". | |
>> 2892 make[2]: *** [src/nrnpython/CMakeFiles/nrnpython.dir/build.make:10 | |
7: src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_nrn.cpp.o] Error 2 | |
2893 make[2]: *** Waiting for unfinished jobs.... | |
2894 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/utils/progressbar/progressbar.cpp.o | |
2895 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346668/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-bu | |
ild-n53pois/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ | |
-DCORENEURON_BUILD -DCORENEURON_CUDA_PROFILING -DCORENEURON_ENABLE | |
_GPU -DCORENEURON_PREFER_OPENMP_OFFLOAD -DCORENEURON_USE_BOOST_POO | |
L -DCORENRN_BUILD=1 -DDISABLE_HOC_EXP -DDISABLE_TIMEOUT -DEIGEN_DO | |
NT_PARALLELIZE -DEIGEN_DONT_VECTORIZE=1 -DENABLE_SONATA_REPORTS -D | |
ENABLE_SPLAYTREE_QUEUING -DHAVE_MALLOC_H -DLAYOUT=0 -DMPICH_SKIP_M | |
PICXX=1 -DMPI_NO_CPPBIND=1 -DNRNMPI=1 -DNRN_CALIPER -DNRN_PROFILIN | |
G -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01 | |
/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb/tar | |
gets/x86_64-linux/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libsona | |
ta-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6 | |
cwi/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12 | |
/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc88478de1 | |
7f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7od | |
nd/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcp | |
roj12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc884 | |
78de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qh | |
oe7odnd/spack-build-n53pois/generated -isystem /gpfs/bbp.cscs.ch/s | |
sd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_gcc-12. | |
3.0-skylake/caliper-2.11.0-vjj3tp/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-build | |
/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_d | |
evelop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-src/external/CLI11/i | |
nclude -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj | |
12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc88478d | |
e17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7 | |
odnd/spack-src/external/Random123/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skyl | |
ake/boost-1.83.0-2quv7w/include -tp haswell -mp -g -O1 -fno-omit- | |
frame-pointer --c++17 --diag_suppress=111,550 -cuda -gpu=cuda12.0 | |
,lineinfo,cc70,cc80 -mp=gpu -MD -MT src/coreneuron/CMakeFiles/core | |
neuron-core.dir/utils/progressbar/progressbar.cpp.o -MF CMakeFiles | |
/coreneuron-core.dir/utils/progressbar/progressbar.cpp.o.d -o CMak | |
eFiles/coreneuron-core.dir/utils/progressbar/progressbar.cpp.o -c | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346 | |
668/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef1 | |
63bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-src/s | |
rc/coreneuron/utils/progressbar/progressbar.cpp | |
2896 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/utils/randoms/nrnran123.cpp.o | |
2897 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346668/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-bu | |
ild-n53pois/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ | |
-DCORENEURON_BUILD -DCORENEURON_CUDA_PROFILING -DCORENEURON_ENABLE | |
_GPU -DCORENEURON_PREFER_OPENMP_OFFLOAD -DCORENEURON_USE_BOOST_POO | |
L -DCORENRN_BUILD=1 -DDISABLE_HOC_EXP -DDISABLE_TIMEOUT -DEIGEN_DO | |
NT_PARALLELIZE -DEIGEN_DONT_VECTORIZE=1 -DENABLE_SONATA_REPORTS -D | |
ENABLE_SPLAYTREE_QUEUING -DHAVE_MALLOC_H -DLAYOUT=0 -DMPICH_SKIP_M | |
PICXX=1 -DMPI_NO_CPPBIND=1 -DNRNMPI=1 -DNRN_CALIPER -DNRN_PROFILIN | |
G -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01 | |
/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb/tar | |
gets/x86_64-linux/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libsona | |
ta-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6 | |
cwi/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12 | |
/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc88478de1 | |
7f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7od | |
nd/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcp | |
roj12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc884 | |
78de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qh | |
oe7odnd/spack-build-n53pois/generated -isystem /gpfs/bbp.cscs.ch/s | |
sd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_gcc-12. | |
3.0-skylake/caliper-2.11.0-vjj3tp/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-build | |
/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_d | |
evelop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-src/external/CLI11/i | |
nclude -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj | |
12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc88478d | |
e17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7 | |
odnd/spack-src/external/Random123/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skyl | |
ake/boost-1.83.0-2quv7w/include -tp haswell -mp -g -O1 -fno-omit- | |
frame-pointer --c++17 --diag_suppress=111,550 -cuda -gpu=cuda12.0 | |
,lineinfo,cc70,cc80 -mp=gpu -MD -MT src/coreneuron/CMakeFiles/core | |
neuron-core.dir/utils/randoms/nrnran123.cpp.o -MF CMakeFiles/coren | |
euron-core.dir/utils/randoms/nrnran123.cpp.o.d -o CMakeFiles/coren | |
euron-core.dir/utils/randoms/nrnran123.cpp.o -c /gpfs/bbp.cscs.ch/ | |
ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-build/sp | |
ack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_deve | |
lop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-src/src/coreneuron/util | |
s/randoms/nrnran123.cpp | |
2898 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/utils/string_utils.cpp.o | |
... | |
2948 [ 28%] Running nrnivmodl-core with internal mod files | |
2949 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346668/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-bu | |
ild-n53pois/bin && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage | |
_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmak | |
e -E env NMODLHOME= /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc | |
proj12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc88 | |
478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5q | |
hoe7odnd/spack-build-n53pois/bin/nrnivmodl-core -b STATIC -m /gpfs | |
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/i | |
nstall_gcc-12.3.0-skylake/nmodl-git.332c8b37cee59cc8b9777ef7194d7b | |
c2a0c73646_develop-l4xmhn/bin/nmodl -n internal -p 4 . | |
2950 WARNING: No mod files found in '/gpfs/bbp.cscs.ch/ssd/gitlab_map_j | |
obs/bbpcihpcproj12/P221542/J1346668/spack-build/spack-stage-neuron | |
-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6d | |
wvgfyoaxdh5qhoe7odnd/spack-build-n53pois/bin', compiling default o | |
nes only! | |
2951 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346668/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgf | |
yoaxdh5qhoe7odnd/spack-build-n53pois/share/coreneuron/nrnivmodl_co | |
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro | |
j12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc88478 | |
de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe | |
7odnd/spack-build-n53pois MECHLIB_SUFFIX=internal NMODL_BINARY=/gp | |
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software | |
/install_gcc-12.3.0-skylake/nmodl-git.332c8b37cee59cc8b9777ef7194d | |
7bc2a0c73646_develop-l4xmhn/bin/nmodl MODS_PATH=x86_64/corenrn/mod | |
2c BUILD_TYPE=STATIC NRN_PRCELLSTATE=0 | |
2952 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
/bbpcihpcproj12/P221542/J1346668/spack-build/spack-stage-neuron-gi | |
t.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvg | |
fyoaxdh5qhoe7odnd/spack-build-n53pois/bin' | |
2953 make[3]: warning: -j4 forced in submake: resetting jobserver mode. | |
>> 2954 make[3]: xcrun: No such file or directory | |
2955 Default NMODL flags: | |
>> 2956 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director | |
y | |
2957 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado | |
ws <extern_neuron_var> definition in NMODL_GLOBAL | |
2958 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado | |
ws <extern_neuron_var> definition in NMODL_GLOBAL | |
2959 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado | |
ws <extern_neuron_var> definition in NMODL_GLOBAL | |
2960 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit | |
h cnexp solver | |
2961 "../../../spack-src/external/eigen/Eigen/src/Core/arch/AVX/PacketM | |
ath.h", line 984: warning: integer conversion resulted in a change | |
of sign [integer_sign_change] | |
2962 const __m128i sign_mask = _mm_set1_epi16(static_cast<numext::u | |
int16_t>(0x8000)); | |
... | |
2974 | |
2975 "../../../spack-src/external/eigen/Eigen/src/Core/arch/AVX/PacketM | |
ath.h", line 1443: warning: integer conversion resulted in a chang | |
e of sign [integer_sign_change] | |
2976 Packet8bf sign_mask = _mm_set1_epi16(static_cast<numext::uint1 | |
6_t>(0x8000)); | |
2977 ^ | |
2978 | |
2979 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346668/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgf | |
yoaxdh5qhoe7odnd/spack-build-n53pois' | |
>> 2980 make[1]: *** [CMakeFiles/Makefile2:2774: src/nrnpython/CMakeFiles/ | |
nrnpython.dir/all] Error 2 | |
2981 make[1]: *** Waiting for unfinished jobs.... | |
2982 => Binary creating x86_64/special-core | |
2983 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346 | |
668/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef1 | |
63bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/spack-build | |
-n53pois/share/coreneuron/coreneuron.cpp: | |
2984 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_ | |
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: warning: /nvme/bbp | |
cihpcproj12/2302185/pgcudafatYKoXwdXUakZb.o: missing .note.GNU-sta | |
ck section implies executable stack | |
2985 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_ | |
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: NOTE: This behavio | |
ur is deprecated and will be removed in a future version of the li | |
nker | |
2986 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346668/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgf | |
yoaxdh5qhoe7odnd/spack-build-n53pois/bin' | |
2987 [INFO] MOD files built successfully for CoreNEURON | |
2988 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346668/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgf | |
yoaxdh5qhoe7odnd/spack-build-n53pois' | |
2989 [ 29%] Built target nrniv-core | |
2990 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346668/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgf | |
yoaxdh5qhoe7odnd/spack-build-n53pois' | |
>> 2991 make: *** [Makefile:169: all] Error 2 | |
See build log for details: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346668/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-n53poiswbe6dwvgfyoaxdh5qhoe7odnd/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: r1i4n17: task 0: Exited with exit code 1 | |
section_end:1720789637:step_script [0Ksection_start:1720789637: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=201895 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=1346668 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=201935 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=1346668 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=201975 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=1346668 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
section_end:1720789639:upload_artifacts_on_failure [0Ksection_start:1720789639: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:1720789640: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:1720789253:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
section_end:1720789253:resolve_secrets [0Ksection_start:1720789253: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-executor3278846370, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
Runner ID 29, project root hpc, project name nrn | |
Pipeline ID 221542, build ref , job ID 1346669 | |
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542, 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_J1346669_PROD_P2160_CP6_C8 | |
Job parameters: memory=160G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos= reservation= | |
Not executing the chown -R | |
sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
Submitted batch job 2302186 | |
job state: PD | |
job state: R | |
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1346669_PROD_P2160_CP6_C8 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542 --time=2:00:00 --wrap="sleep infinity" | |
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542 --ntasks=2 --jobid=2302186 --cpus-per-task=8 --mem=160G | |
section_end:1720789256:prepare_executor [0Ksection_start:1720789256:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
Using git from spack modules | |
Running on r1i6n17 via bbpv1.epfl.ch... | |
section_end:1720789258:prepare_script [0Ksection_start:1720789258: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:1720789259:get_sources [0Ksection_start:1720789259: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=28675 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:1720789265:restore_cache [0Ksection_start:1720789265:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
Using git from spack modules | |
[32;1mDownloading artifacts for build:nmodl (1346663)...[0;m | |
Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=28797 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
Downloading artifacts from coordinator... ok [0;m id[0;m=1346663 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
section_end:1720789266:download_artifacts [0Ksection_start:1720789266: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/P221542/J1346669/spack-config/config.yaml:2 build_stage: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346669/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346669/spack-build | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346669/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346669/spack-source-cache | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/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/P221542/J1346661/spack/etc/spack/defaults/config.yaml:18 extensions: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:151 locks: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:216 bind: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:233 flags: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:240 aliases: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
_builtin debug: False | |
[32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
--- concretizer: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346669/spack-config/concretizer.yaml:2 reuse: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
[32;1m$ 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 (${XDG_CONFIG_HOME})"[0;m | |
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542/J1346669_local_config) | |
[32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
Preparing to install neuron%nvhpc ~rx3d+caliper+gpu+coreneuron~legacy-unit+openmp~shared+sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^caliper+cuda cuda_arch=70 ^/l4xmhngqjsfvhchruhc53a7hs374de62 | |
[32;1m$ 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=${CCACHE_BASEDIR}[0;m | |
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542 | |
[32;1m$ 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/bbpcihpcproj12/2302186/ccache | |
Config file: /nvme/bbpcihpcproj12/2302186/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: Fri Jul 12 15:01:11 2024 | |
Local storage: | |
Cache size (GB): 0.48 / 0.51 (93.53%) | |
Files: 12014 | |
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 | |
- ^/l4xmhngqjsfvhchruhc53a7hs374de62 | |
- ^caliper+cuda cuda_arch=70 | |
Concretized | |
-------------------------------- | |
- yshrgek neuron@git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b=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 | |
[+] l4xmhng ^nmodl@git.332c8b37cee59cc8b9777ef7194d7bc2a0c73646=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/P221542, 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/papi-6.0.0.1-vol6np | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/catch2-3.4.0-pywly2 | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/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/adiak-0.4.0-hficqq | |
[+] /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/libunwind-1.6.2-7xnekx | |
[+] /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/cli11-2.3.2-ud3ech | |
[+] /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/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/py-coverage-7.2.6-wuxetk | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pluggy-1.0.0-6su7kv | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-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-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-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-pybind11-2.11.1-tabj2m | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-markupsafe-2.1.3-r3ehtm | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpi4py-3.1.4-x733hw | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-numpy-1.26.1-elr5pn | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-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/gettext-0.22.3-nbi5w5 | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid | |
[+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-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/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/P221542/software/install_gcc-12.3.0-skylake/nmodl-git.332c8b37cee59cc8b9777ef7194d7bc2a0c73646_develop-l4xmhn | |
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libsonata-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6cwi | |
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp | |
==> Installing neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b=develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa [55/55] | |
==> No binary for neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b=develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa 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' | |
8 errors found in build log: | |
2883 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/utils/utils.cpp.o | |
2884 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346669/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/spack-bu | |
ild-yshrgek/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ | |
-DCORENEURON_BUILD -DCORENEURON_CUDA_PROFILING -DCORENEURON_ENABLE | |
_GPU -DCORENEURON_PREFER_OPENMP_OFFLOAD -DCORENEURON_USE_BOOST_POO | |
L -DCORENRN_BUILD=1 -DDISABLE_HOC_EXP -DDISABLE_TIMEOUT -DEIGEN_DO | |
NT_PARALLELIZE -DEIGEN_DONT_VECTORIZE=1 -DENABLE_SONATA_REPORTS -D | |
ENABLE_SPLAYTREE_QUEUING -DHAVE_MALLOC_H -DLAYOUT=0 -DMPICH_SKIP_M | |
PICXX=1 -DMPI_NO_CPPBIND=1 -DNRNMPI=1 -DNRN_CALIPER -DNRN_PROFILIN | |
G -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01 | |
/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb/tar | |
gets/x86_64-linux/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libsona | |
ta-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6 | |
cwi/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12 | |
/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc88478de1 | |
7f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7i | |
pa/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcp | |
roj12/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc884 | |
78de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6 | |
g5l7ipa/spack-build-yshrgek/generated -isystem /gpfs/bbp.cscs.ch/s | |
sd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_gcc-12. | |
3.0-skylake/caliper-2.11.0-vjj3tp/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346669/spack-build | |
/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_d | |
evelop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/spack-src/external/CLI11/i | |
nclude -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj | |
12/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc88478d | |
e17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l | |
7ipa/spack-src/external/Random123/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skyl | |
ake/boost-1.83.0-2quv7w/include -tp haswell -mp -g -O1 -fno-omit- | |
frame-pointer --c++17 --diag_suppress=111,550 -cuda -gpu=cuda12.0 | |
,lineinfo,cc70,cc80 -mp=gpu -MD -MT src/coreneuron/CMakeFiles/core | |
neuron-core.dir/utils/utils.cpp.o -MF CMakeFiles/coreneuron-core.d | |
ir/utils/utils.cpp.o.d -o CMakeFiles/coreneuron-core.dir/utils/uti | |
ls.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P | |
221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc88478de17f | |
01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa | |
/spack-src/src/coreneuron/utils/utils.cpp | |
2885 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/utils/vrecord.cpp.o | |
2886 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346669/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/spack-bu | |
ild-yshrgek/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ | |
-DCORENEURON_BUILD -DCORENEURON_CUDA_PROFILING -DCORENEURON_ENABLE | |
_GPU -DCORENEURON_PREFER_OPENMP_OFFLOAD -DCORENEURON_USE_BOOST_POO | |
L -DCORENRN_BUILD=1 -DDISABLE_HOC_EXP -DDISABLE_TIMEOUT -DEIGEN_DO | |
NT_PARALLELIZE -DEIGEN_DONT_VECTORIZE=1 -DENABLE_SONATA_REPORTS -D | |
ENABLE_SPLAYTREE_QUEUING -DHAVE_MALLOC_H -DLAYOUT=0 -DMPICH_SKIP_M | |
PICXX=1 -DMPI_NO_CPPBIND=1 -DNRNMPI=1 -DNRN_CALIPER -DNRN_PROFILIN | |
G -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01 | |
/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb/tar | |
gets/x86_64-linux/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libsona | |
ta-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6 | |
cwi/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12 | |
/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc88478de1 | |
7f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7i | |
pa/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcp | |
roj12/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc884 | |
78de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6 | |
g5l7ipa/spack-build-yshrgek/generated -isystem /gpfs/bbp.cscs.ch/s | |
sd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_gcc-12. | |
3.0-skylake/caliper-2.11.0-vjj3tp/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346669/spack-build | |
/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_d | |
evelop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/spack-src/external/CLI11/i | |
nclude -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj | |
12/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc88478d | |
e17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l | |
7ipa/spack-src/external/Random123/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skyl | |
ake/boost-1.83.0-2quv7w/include -tp haswell -mp -g -O1 -fno-omit- | |
frame-pointer --c++17 --diag_suppress=111,550 -cuda -gpu=cuda12.0 | |
,lineinfo,cc70,cc80 -mp=gpu -MD -MT src/coreneuron/CMakeFiles/core | |
neuron-core.dir/utils/vrecord.cpp.o -MF CMakeFiles/coreneuron-core | |
.dir/utils/vrecord.cpp.o.d -o CMakeFiles/coreneuron-core.dir/utils | |
/vrecord.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpr | |
oj12/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc8847 | |
8de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g | |
5l7ipa/spack-src/src/coreneuron/utils/vrecord.cpp | |
2887 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/mpi/core/resolve.cpp.o | |
2888 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346669/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/spack-bu | |
ild-yshrgek/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ | |
-DCORENEURON_BUILD -DCORENEURON_CUDA_PROFILING -DCORENEURON_ENABLE | |
_GPU -DCORENEURON_PREFER_OPENMP_OFFLOAD -DCORENEURON_USE_BOOST_POO | |
L -DCORENRN_BUILD=1 -DDISABLE_HOC_EXP -DDISABLE_TIMEOUT -DEIGEN_DO | |
NT_PARALLELIZE -DEIGEN_DONT_VECTORIZE=1 -DENABLE_SONATA_REPORTS -D | |
ENABLE_SPLAYTREE_QUEUING -DHAVE_MALLOC_H -DLAYOUT=0 -DMPICH_SKIP_M | |
PICXX=1 -DMPI_NO_CPPBIND=1 -DNRNMPI=1 -DNRN_CALIPER -DNRN_PROFILIN | |
G -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01 | |
/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb/tar | |
gets/x86_64-linux/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libsona | |
ta-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6 | |
cwi/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12 | |
/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc88478de1 | |
7f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7i | |
pa/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcp | |
roj12/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc884 | |
78de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6 | |
g5l7ipa/spack-build-yshrgek/generated -isystem /gpfs/bbp.cscs.ch/s | |
sd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_gcc-12. | |
3.0-skylake/caliper-2.11.0-vjj3tp/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346669/spack-build | |
/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_d | |
evelop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/spack-src/external/CLI11/i | |
nclude -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj | |
12/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc88478d | |
e17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l | |
7ipa/spack-src/external/Random123/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skyl | |
ake/boost-1.83.0-2quv7w/include -tp haswell -mp -g -O1 -fno-omit- | |
frame-pointer --c++17 --diag_suppress=111,550 -cuda -gpu=cuda12.0 | |
,lineinfo,cc70,cc80 -mp=gpu -MD -MT src/coreneuron/CMakeFiles/core | |
neuron-core.dir/mpi/core/resolve.cpp.o -MF CMakeFiles/coreneuron-c | |
ore.dir/mpi/core/resolve.cpp.o.d -o CMakeFiles/coreneuron-core.dir | |
/mpi/core/resolve.cpp.o -c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/b | |
bpcihpcproj12/P221542/J1346669/spack-build/spack-stage-neuron-git. | |
9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv | |
6gdwbwh6g5l7ipa/spack-src/src/coreneuron/mpi/core/resolve.cpp | |
>> 2889 "../../../spack-src/src/nrnpython/nrnpy_nrn.cpp", line 2123: error | |
: no operator "*" matches these operands | |
2890 operand types are: * neuron::container::generic_data_h | |
andle | |
2891 *d = new_x; | |
2892 ^ | |
2893 | |
>> 2894 "../../../spack-src/src/nrnpython/nrnpy_nrn.cpp", line 2303: error | |
: no suitable user-defined conversion from "const neuron::containe | |
r::generic_data_handle" to "neuron::container::data_handle<double> | |
" exists | |
2895 return nrn_hocobj_handle(d); | |
2896 ^ | |
2897 | |
>> 2898 "../../../spack-src/src/nrnpython/nrnpy_nrn.cpp", line 2403: error | |
: no operator "*" matches these operands | |
2899 operand types are: * neuron::container::generic_data_h | |
andle | |
2900 *d = new_x; | |
2901 ^ | |
2902 | |
2903 3 errors detected in the compilation of "../../../spack-src/src/nr | |
npython/nrnpy_nrn.cpp". | |
>> 2904 make[2]: *** [src/nrnpython/CMakeFiles/nrnpython.dir/build.make:10 | |
7: src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_nrn.cpp.o] Error 2 | |
2905 make[2]: *** Waiting for unfinished jobs.... | |
2906 [ 28%] Building CXX object src/coreneuron/CMakeFiles/coreneuron-co | |
re.dir/__/__/coreneuron/config/config.cpp.o | |
2907 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346669/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/spack-bu | |
ild-yshrgek/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/gitlab_map_job | |
s/bbpcihpcproj12/P221542/J1346661/spack/lib/spack/env/nvhpc/nvc++ | |
-DCORENEURON_BUILD -DCORENEURON_CUDA_PROFILING -DCORENEURON_ENABLE | |
_GPU -DCORENEURON_PREFER_OPENMP_OFFLOAD -DCORENEURON_USE_BOOST_POO | |
L -DCORENRN_BUILD=1 -DDISABLE_HOC_EXP -DDISABLE_TIMEOUT -DEIGEN_DO | |
NT_PARALLELIZE -DEIGEN_DONT_VECTORIZE=1 -DENABLE_SONATA_REPORTS -D | |
ENABLE_SPLAYTREE_QUEUING -DHAVE_MALLOC_H -DLAYOUT=0 -DMPICH_SKIP_M | |
PICXX=1 -DMPI_NO_CPPBIND=1 -DNRNMPI=1 -DNRN_CALIPER -DNRN_PROFILIN | |
G -DOMPI_SKIP_MPICXX=1 -I/gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01 | |
/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb/tar | |
gets/x86_64-linux/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/software/install_nvhpc-23.1-skylake/libsona | |
ta-report-git.5602aadfa710d6766ce23cd151a1855190271bd8_develop-az6 | |
cwi/include -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12 | |
/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc88478de1 | |
7f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7i | |
pa/spack-src/src -I/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcp | |
roj12/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc884 | |
78de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6 | |
g5l7ipa/spack-build-yshrgek/generated -isystem /gpfs/bbp.cscs.ch/s | |
sd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_gcc-12. | |
3.0-skylake/caliper-2.11.0-vjj3tp/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346669/spack-build | |
/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_d | |
evelop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/spack-src/external/CLI11/i | |
nclude -isystem /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj | |
12/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc88478d | |
e17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l | |
7ipa/spack-src/external/Random123/include -isystem /gpfs/bbp.cscs. | |
ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skyl | |
ake/boost-1.83.0-2quv7w/include -tp haswell -mp -g -O1 -fno-omit- | |
frame-pointer --c++17 --diag_suppress=111,550 -cuda -gpu=cuda12.0 | |
,lineinfo,cc70,cc80 -mp=gpu -MD -MT src/coreneuron/CMakeFiles/core | |
neuron-core.dir/__/__/coreneuron/config/config.cpp.o -MF CMakeFile | |
s/coreneuron-core.dir/__/__/coreneuron/config/config.cpp.o.d -o CM | |
akeFiles/coreneuron-core.dir/__/__/coreneuron/config/config.cpp.o | |
-c /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346669/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/spack-bu | |
ild-yshrgek/coreneuron/config/config.cpp | |
2908 [ 28%] Linking CXX static library ../../lib/libcoreneuron-core.a | |
2909 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346669/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/spack-bu | |
ild-yshrgek/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024- | |
02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyo | |
es/bin/cmake -P CMakeFiles/coreneuron-core.dir/cmake_clean_target. | |
cmake | |
2910 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346669/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/spack-bu | |
ild-yshrgek/src/coreneuron && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024- | |
02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyo | |
es/bin/cmake -E cmake_link_script CMakeFiles/coreneuron-core.dir/l | |
ink.txt --verbose=1 | |
... | |
2948 [ 28%] Running nrnivmodl-core with internal mod files | |
2949 cd /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1 | |
346669/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4 | |
ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/spack-bu | |
ild-yshrgek/bin && /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage | |
_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes/bin/cmak | |
e -E env NMODLHOME= /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpc | |
proj12/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc88 | |
478de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh | |
6g5l7ipa/spack-build-yshrgek/bin/nrnivmodl-core -b STATIC -m /gpfs | |
/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/i | |
nstall_gcc-12.3.0-skylake/nmodl-git.332c8b37cee59cc8b9777ef7194d7b | |
c2a0c73646_develop-l4xmhn/bin/nmodl -n internal -p 4 . | |
2950 WARNING: No mod files found in '/gpfs/bbp.cscs.ch/ssd/gitlab_map_j | |
obs/bbpcihpcproj12/P221542/J1346669/spack-build/spack-stage-neuron | |
-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7k | |
jgnbv6gdwbwh6g5l7ipa/spack-build-yshrgek/bin', compiling default o | |
nes only! | |
2951 [INFO] Running: make -j4 -f /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346669/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnb | |
v6gdwbwh6g5l7ipa/spack-build-yshrgek/share/coreneuron/nrnivmodl_co | |
re_makefile ROOT=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcpro | |
j12/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc88478 | |
de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5 | |
l7ipa/spack-build-yshrgek MECHLIB_SUFFIX=internal NMODL_BINARY=/gp | |
fs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software | |
/install_gcc-12.3.0-skylake/nmodl-git.332c8b37cee59cc8b9777ef7194d | |
7bc2a0c73646_develop-l4xmhn/bin/nmodl MODS_PATH=x86_64/corenrn/mod | |
2c BUILD_TYPE=STATIC NRN_PRCELLSTATE=0 | |
2952 make[3]: Entering directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs | |
/bbpcihpcproj12/P221542/J1346669/spack-build/spack-stage-neuron-gi | |
t.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgn | |
bv6gdwbwh6g5l7ipa/spack-build-yshrgek/bin' | |
2953 make[3]: warning: -j4 forced in submake: resetting jobserver mode. | |
>> 2954 make[3]: xcrun: No such file or directory | |
2955 Default NMODL flags: | |
>> 2956 diff: x86_64/corenrn/mod2c/_mod_func.cpp: No such file or director | |
y | |
2957 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado | |
ws <extern_neuron_var> definition in NMODL_GLOBAL | |
2958 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado | |
ws <extern_neuron_var> definition in NMODL_GLOBAL | |
2959 [NMODL] [warning] :: SYMTAB :: t [Argument] in init_sequence shado | |
ws <extern_neuron_var> definition in NMODL_GLOBAL | |
2960 [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced wit | |
h cnexp solver | |
2961 "../../../spack-src/external/eigen/Eigen/src/Core/arch/AVX/PacketM | |
ath.h", line 984: warning: integer conversion resulted in a change | |
of sign [integer_sign_change] | |
2962 const __m128i sign_mask = _mm_set1_epi16(static_cast<numext::u | |
int16_t>(0x8000)); | |
... | |
2974 | |
2975 "../../../spack-src/external/eigen/Eigen/src/Core/arch/AVX/PacketM | |
ath.h", line 1443: warning: integer conversion resulted in a chang | |
e of sign [integer_sign_change] | |
2976 Packet8bf sign_mask = _mm_set1_epi16(static_cast<numext::uint1 | |
6_t>(0x8000)); | |
2977 ^ | |
2978 | |
2979 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346669/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnb | |
v6gdwbwh6g5l7ipa/spack-build-yshrgek' | |
>> 2980 make[1]: *** [CMakeFiles/Makefile2:2774: src/nrnpython/CMakeFiles/ | |
nrnpython.dir/all] Error 2 | |
2981 make[1]: *** Waiting for unfinished jobs.... | |
2982 => Binary creating x86_64/special-core | |
2983 /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346 | |
669/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef1 | |
63bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/spack-build | |
-yshrgek/share/coreneuron/coreneuron.cpp: | |
2984 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_ | |
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: warning: /nvme/bbp | |
cihpcproj12/2302186/pgcudafatTOTihD_gxxRM.o: missing .note.GNU-sta | |
ck section implies executable stack | |
2985 /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_ | |
gcc-12.3.0-skylake/binutils-2.41-vvcm5q/bin/ld: NOTE: This behavio | |
ur is deprecated and will be removed in a future version of the li | |
nker | |
2986 make[3]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346669/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnb | |
v6gdwbwh6g5l7ipa/spack-build-yshrgek/bin' | |
2987 [INFO] MOD files built successfully for CoreNEURON | |
2988 make[2]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346669/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnb | |
v6gdwbwh6g5l7ipa/spack-build-yshrgek' | |
2989 [ 29%] Built target nrniv-core | |
2990 make[1]: Leaving directory '/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/ | |
bbpcihpcproj12/P221542/J1346669/spack-build/spack-stage-neuron-git | |
.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnb | |
v6gdwbwh6g5l7ipa/spack-build-yshrgek' | |
>> 2991 make: *** [Makefile:169: all] Error 2 | |
See build log for details: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346669/spack-build/spack-stage-neuron-git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b_develop-yshrgekpyu7kjgnbv6gdwbwh6g5l7ipa/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: r1i6n17: task 0: Exited with exit code 1 | |
section_end:1720789634:step_script [0Ksection_start:1720789634: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=35938 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=1346669 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=35980 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=1346669 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=36023 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=1346669 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
section_end:1720789636:upload_artifacts_on_failure [0Ksection_start:1720789636: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:1720789637: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:1720788897:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
section_end:1720788897:resolve_secrets [0Ksection_start:1720788897: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-executor3705950290, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
Runner ID 29, project root hpc, project name nrn | |
Pipeline ID 221542, build ref , job ID 1346663 | |
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542, 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_J1346663_PROD_P2160_CP4_C6 | |
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 2302167 | |
job state: R | |
sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1346663_PROD_P2160_CP4_C6 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542 --time=1:00:00 --wrap="sleep infinity" | |
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542 --ntasks=2 --jobid=2302167 --cpus-per-task=8 --mem=160G | |
section_end:1720788898:prepare_executor [0Ksection_start:1720788898:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
Using git from spack modules | |
Running on r1i5n32 via bbpv1.epfl.ch... | |
section_end:1720788902:prepare_script [0Ksection_start:1720788902: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:1720788903:get_sources [0Ksection_start:1720788903: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=173739 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:1720788908:restore_cache [0Ksection_start:1720788908:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
Using git from spack modules | |
[32;1mDownloading artifacts for spack_setup (1346661)...[0;m | |
Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=173870 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
Downloading artifacts from coordinator... ok [0;m id[0;m=1346661 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
section_end:1720788909:download_artifacts [0Ksection_start:1720788909: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/P221542/J1346663/spack-config/config.yaml:2 build_stage: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346663/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346663/spack-build | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346663/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346663/spack-source-cache | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/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/P221542/J1346661/spack/etc/spack/defaults/config.yaml:18 extensions: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:151 locks: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:216 bind: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:233 flags: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:240 aliases: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
_builtin debug: False | |
[32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
--- concretizer: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346663/spack-config/concretizer.yaml:2 reuse: False | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
[32;1m$ 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 (${XDG_CONFIG_HOME})"[0;m | |
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542/J1346663_local_config) | |
[32;1m$ 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=${CCACHE_BASEDIR}[0;m | |
CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542 | |
[32;1m$ 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/bbpcihpcproj12/2302167/ccache | |
Config file: /nvme/bbpcihpcproj12/2302167/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: Fri Jul 12 14:55:18 2024 | |
Local storage: | |
Cache size (GB): 0.45 / 0.51 (87.53%) | |
Files: 5812 | |
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 | |
-------------------------------- | |
- l4xmhng nmodl@git.332c8b37cee59cc8b9777ef7194d7bc2a0c73646=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/P221542, 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-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-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-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-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 | |
==> Installing nmodl-git.332c8b37cee59cc8b9777ef7194d7bc2a0c73646=develop-l4xmhngqjsfvhchruhc53a7hs374de62 [19/19] | |
==> No binary for nmodl-git.332c8b37cee59cc8b9777ef7194d7bc2a0c73646=develop-l4xmhngqjsfvhchruhc53a7hs374de62 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.332c8b37cee59cc8b9777ef7194d7bc2a0c73646=develop-l4xmhngqjsfvhchruhc53a7hs374de62 | |
Stage: 42.47s. Cmake: 1.88s. Build: 1m 36.77s. Install: 0.75s. Post-install: 0.12s. Total: 2m 22.19s | |
[+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/software/install_gcc-12.3.0-skylake/nmodl-git.332c8b37cee59cc8b9777ef7194d7bc2a0c73646_develop-l4xmhn | |
[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 ${SPACK_INSTALLED_HASH}"[0;m | |
Determined the installed hash to be l4xmhngqjsfvhchruhc53a7hs374de62 | |
[32;1m$ 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/bbpcihpcproj12/2302167/ccache | |
Config file: /nvme/bbpcihpcproj12/2302167/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: Fri Jul 12 15:00:20 2024 | |
Cacheable calls: 139 / 166 (83.73%) | |
Hits: 137 / 139 (98.56%) | |
Direct: 28 / 137 (20.44%) | |
Preprocessed: 109 / 137 (79.56%) | |
Misses: 2 / 139 ( 1.44%) | |
Uncacheable calls: 27 / 166 (16.27%) | |
Called for linking: 24 / 27 (88.89%) | |
No input file: 3 / 27 (11.11%) | |
Successful lookups: | |
Direct: 28 / 139 (20.14%) | |
Preprocessed: 109 / 111 (98.20%) | |
Local storage: | |
Cache size (GB): 0.45 / 0.51 (87.54%) | |
Files: 5816 | |
Hits: 137 / 139 (98.56%) | |
Misses: 2 / 139 ( 1.44%) | |
Reads: 278 | |
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:1720789222:step_script [0Ksection_start:1720789222: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=177036 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:1720789244:archive_cache [0Ksection_start:1720789244: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=177177 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=1346663 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=177216 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=1346663 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=177252 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=1346663 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
section_end:1720789246:upload_artifacts_on_success [0Ksection_start:1720789246: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:1720789246: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:1720788798:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
section_end:1720788798:resolve_secrets [0Ksection_start:1720788798:prepare_executor [0K[0K[36;1mPreparing the "shell" executor[0;m[0;m | |
[0KUsing Shell executor...[0;m | |
section_end:1720788798:prepare_executor [0Ksection_start:1720788798:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
Running on bbpmacglr01.bbp.epfl.ch... | |
section_end:1720788798:prepare_script [0Ksection_start:1720788798: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/P221542/J1346660/hpc/cellular/nrn/.git/ | |
[32;1mCreated fresh repository.[0;m | |
[32;1mChecking out 9d5cc884 as enh/leite/py-segment-nanobind2...[0;m | |
[32;1mSkipping Git submodules setup[0;m | |
section_end:1720788800:get_sources [0Ksection_start:1720788800:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
[32;1mChecking cache for mac_m1_cmake_build: [cmake, ON, OFF, OFF, address]-enh/leite/py-segment-nanobind2-1-non_protected...[0;m | |
Runtime platform [0;m arch[0;m=arm64 os[0;m=darwin pid[0;m=25576 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:1720788800:restore_cache [0Ksection_start:1720788800: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/tmphu_m2u3s | |
Processing /private/var/folders/dm/mrnbn5ld56v61w1_hpbmskfw0000gp/T/tmphu_m2u3s/setuptools-68.2.2-py3-none-any.whl | |
Processing /private/var/folders/dm/mrnbn5ld56v61w1_hpbmskfw0000gp/T/tmphu_m2u3s/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/P221542/J1346660/hpc/cellular/nrn/external/nmodl'... | |
From https://github.com/BlueBrain/nmodl | |
* branch 79101467912f9690b6c40a1d3eed7315e3ea9bc4 -> FETCH_HEAD | |
Submodule path 'external/nmodl': checked out '79101467912f9690b6c40a1d3eed7315e3ea9bc4' | |
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/P221542/J1346660/hpc/cellular/nrn/external/nmodl/cmake/hpc-coding-conventions'... | |
Cloning into '/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/ext/backward'... | |
Cloning into '/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/ext/catch2'... | |
Cloning into '/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/ext/cli11'... | |
Cloning into '/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/ext/eigen'... | |
Cloning into '/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/ext/fmt'... | |
Cloning into '/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/ext/json'... | |
Cloning into '/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/ext/pybind11'... | |
Cloning into '/Users/gitlab-runner/builds/2/P221542/J1346660/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-0.9.8-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) | |
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Collecting pytest<=8.1.1 (from -r external/nmodl/requirements.txt (line 12)) | |
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Using cached jupyter-1.0.0-py2.py3-none-any.whl.metadata (995 bytes) | |
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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)) | |
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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)) | |
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Collecting mpmath<1.4,>=1.1.0 (from sympy>=1.3->-r external/nmodl/requirements.txt (line 8)) | |
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Collecting coverage>=5.2.1 (from coverage[toml]>=5.2.1->pytest-cov->-r external/nmodl/requirements.txt (line 13)) | |
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Collecting tornado>=6.2 (from jupyter-client->-r external/nmodl/requirements.txt (line 17)) | |
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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, scipy, 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-2024.7.4 cffi-1.16.0 charset-normalizer-3.3.2 comm-0.2.2 coverage-7.6.0 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-6.29.5 ipython-8.26.0 ipywidgets-8.1.3 isoduration-20.11.0 jedi-0.19.1 json5-0.9.25 jsonpointer-3.0.0 jsonschema-4.23.0 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-0.19.0 scikit-build-core-0.9.8 scipy-1.14.0 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-1.13.0 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 -> 24.1.2 | |
[notice] To update, run: /Users/gitlab-runner/builds/2/P221542/J1346660/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) | |
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Using cached pyparsing-3.1.2-py3-none-any.whl.metadata (5.1 kB) | |
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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: | |
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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-4.53.1 kiwisolver-1.4.5 matplotlib-3.9.1 mpi4py-3.1.6 numpy-1.26.4 pillow-10.4.0 pip-24.1.2 pyparsing-3.1.2 scikit-build-0.18.0 setuptools-70.3.0 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 | |
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 ${cmake_args[@]}"[0;m | |
Building with -G Ninja -DCMAKE_BUILD_TYPE=Custom -DCMAKE_C_FLAGS=-O1 -g -DCMAKE_CXX_FLAGS=-O1 -g -DNRN_SANITIZERS=address -DCMAKE_C_COMPILER=gcc -DCMAKE_C_COMPILER_LAUNCHER=ccache -DCMAKE_CXX_COMPILER=g++ -DCMAKE_CXX_COMPILER_LAUNCHER=ccache -DCMAKE_INSTALL_PREFIX=/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/install -DNRN_ENABLE_TESTS=ON -DNRN_ENABLE_PERFORMANCE_TESTS=OFF -DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DPYTHON_EXECUTABLE=/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/venv/bin/python | |
[32;1m$ 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/P221542/J1346660/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/P221542/J1346660/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/P221542/J1346660/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" | |
-- Sub-module : missing /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/fmt : running git submodule update --init | |
Submodule 'external/fmt' (https://github.com/fmtlib/fmt) registered for path 'external/fmt' | |
Cloning into '/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/fmt'... | |
Submodule path 'external/fmt': checked out 'e69e5f977d458f2650bb346dadf2ad30c5320281' | |
-- Version: 10.2.1 | |
-- Build type: Custom | |
-- 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/P221542/J1346660/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/P221542/J1346660/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/P221542/J1346660/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/P221542/J1346660/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/P221542/J1346660/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)") | |
-- Could NOT find nmodl (missing: nmodl_BINARY) | |
-- Sub-project : using nmodl from from /Users/gitlab-runner/builds/2/P221542/J1346660/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 json from "ext/json" | |
-- Using the multi-header code from /Users/gitlab-runner/builds/2/P221542/J1346660/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/P221542/J1346660/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/P221542/J1346660/hpc/cellular/nrn/venv/bin/python3.10 (found suitable version "3.10.13", minimum required is "3.8") found components: Interpreter | |
-- | |
-- Configured NMODL 0.0 (7910146 2024-07-05 16:14:29 +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/P221542/J1346660/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/P221542/J1346660/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/P221542/J1346660/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: | |
Extracting link flags from target 'fmt::fmt', beware that this can be fragile. Got: | |
For 'nrnpython' going to see TARGET 'fmt::fmt' recursively. | |
Extracting link flags from target 'fmt::fmt', beware that this can be fragile. Got: /opt/homebrew/opt/python@3.10/Frameworks/Python.framework/Versions/3.10/lib/libpython3.10.dylib;fmt::fmt;nanobind | |
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;fmt::fmt;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;fmt::fmt;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;fmt::fmt;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/P221542/J1346660/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/P221542/J1346660/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/P221542/J1346660/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/P221542/J1346660/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/P221542/J1346660/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/P221542/J1346660/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 (27.2s) | |
-- Generating done (0.1s) | |
-- Build files have been written to: /Users/gitlab-runner/builds/2/P221542/J1346660/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/P221542/J1346660/hpc/cellular/nrn/ccache | |
Config file: /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/ccache/ccache.conf | |
System config file: /opt/homebrew/Cellar/ccache/4.9/etc/ccache.conf | |
Stats updated: Fri Jul 12 14:54:46 2024 | |
Local storage: | |
Cache size (GiB): 0.0 / 5.0 ( 0.00%) | |
Files: 0 | |
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[32;1m$ cmake --build . --parallel[0;m | |
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../../../../../external/nmodl/src/parser/verbatim.yy:29.1-24: warning: deprecated directive: '%name-prefix "Verbatim_"', use '%define api.prefix {Verbatim_}' [-Wdeprecated] | |
29 | %name-prefix "Verbatim_" | |
| ^~~~~~~~~~~~~~~~~~~~~~~~ | |
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In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/printer/code_printer.hpp:17: | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/fmt/include/fmt/format.h:41: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/memory:682: | |
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/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:57:5: warning: delete called on 'nmodl::utils::Blame' that is abstract but has non-virtual destructor [-Wdelete-abstract-non-virtual-dtor] | |
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CodePrinter(std::unique_ptr<utils::Blame> blame) | |
^ | |
1 warning generated. | |
[483/1936] -- NMODL : GENERATING DIFFERENTIAL EQUATION PARSER WITH BISON! -- | |
../../../../../external/nmodl/src/parser/diffeq.yy:56.1-40: warning: deprecated directive: '%define parser_class_name {DiffeqParser}', use '%define api.parser.class {DiffeqParser}' [-Wdeprecated] | |
56 | %define parser_class_name {DiffeqParser} | |
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | |
| %define api.parser.class {DiffeqParser} | |
../../../../../external/nmodl/src/parser/diffeq.yy: warning: 2 shift/reduce conflicts [-Wconflicts-sr] | |
../../../../../external/nmodl/src/parser/diffeq.yy: note: rerun with option '-Wcounterexamples' to generate conflict counterexamples | |
../../../../../external/nmodl/src/parser/diffeq.yy: warning: fix-its can be applied. Rerun with option '--update'. [-Wother] | |
[484/1936] Building CXX object external/nmodl/ext/spdlog/CMakeFiles/spdlog.dir/src/cfg.cpp.o | |
[485/1936] -- NMODL : GENERATING UNIT PARSER WITH BISON! -- | |
../../../../../external/nmodl/src/parser/unit.yy:49.1-38: warning: deprecated directive: '%define parser_class_name {UnitParser}', use '%define api.parser.class {UnitParser}' [-Wdeprecated] | |
49 | %define parser_class_name {UnitParser} | |
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | |
| %define api.parser.class {UnitParser} | |
../../../../../external/nmodl/src/parser/unit.yy: warning: fix-its can be applied. Rerun with option '--update'. [-Wother] | |
[486/1936] Linking CXX static library lib/libspdlog.a | |
[487/1936] Building CXX object external/nmodl/src/utils/CMakeFiles/util.dir/file_library.cpp.o | |
[488/1936] -- NMODL : GENERATING C (11) PARSER WITH BISON! -- | |
../../../../../external/nmodl/src/parser/c11.yy:52.1-35: warning: deprecated directive: '%define parser_class_name {CParser}', use '%define api.parser.class {CParser}' [-Wdeprecated] | |
52 | %define parser_class_name {CParser} | |
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | |
| %define api.parser.class {CParser} | |
../../../../../external/nmodl/src/parser/c11.yy: warning: fix-its can be applied. Rerun with option '--update'. [-Wother] | |
[489/1936] Building CXX object external/nmodl/src/utils/CMakeFiles/util.dir/string_utils.cpp.o | |
[490/1936] Generating ../../../../lib/nmodl/__init__.py | |
[491/1936] Generating ../../../../lib/nmodl/_binwrapper.py | |
[492/1936] Generating ../../../../lib/nmodl/ast.py | |
[493/1936] Generating ../../../../lib/nmodl/dsl.py | |
[494/1936] Building CXX object external/nmodl/src/utils/CMakeFiles/util.dir/perf_stat.cpp.o | |
[495/1936] Generating ../../../../lib/nmodl/ode.py | |
[496/1936] Generating ../../../../lib/nmodl/symtab.py | |
[497/1936] Building CXX object external/nmodl/src/utils/CMakeFiles/util.dir/table_data.cpp.o | |
[498/1936] Generating ../../../../lib/nmodl/visitor.py | |
[499/1936] Building CXX object external/nmodl/src/utils/CMakeFiles/util.dir/__/config/config.cpp.o | |
[500/1936] Building CXX object src/sparse13/CMakeFiles/sparse13.dir/spbuild.cpp.o | |
[501/1936] Building CXX object src/sparse13/CMakeFiles/sparse13.dir/spalloc.cpp.o | |
[502/1936] Building CXX object src/sparse13/CMakeFiles/sparse13.dir/spfactor.cpp.o | |
[503/1936] Building CXX object src/sparse13/CMakeFiles/sparse13.dir/spoutput.cpp.o | |
[504/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/ACG.cpp.o | |
[505/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/Binomial.cpp.o | |
[506/1936] -- NMODL : GENERATING NMODL_CORE PARSER WITH BISON! -- | |
../../../../../external/nmodl/src/parser/nmodl.yy:64.1-39: warning: deprecated directive: '%define parser_class_name {NmodlParser}', use '%define api.parser.class {NmodlParser}' [-Wdeprecated] | |
64 | %define parser_class_name {NmodlParser} | |
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | |
| %define api.parser.class {NmodlParser} | |
../../../../../external/nmodl/src/parser/nmodl.yy: warning: 3 shift/reduce conflicts [-Wconflicts-sr] | |
../../../../../external/nmodl/src/parser/nmodl.yy: note: rerun with option '-Wcounterexamples' to generate conflict counterexamples | |
../../../../../external/nmodl/src/parser/nmodl.yy: warning: fix-its can be applied. Rerun with option '--update'. [-Wother] | |
[507/1936] Building CXX object src/sparse13/CMakeFiles/sparse13.dir/spsolve.cpp.o | |
[508/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/DiscUnif.cpp.o | |
[509/1936] Building CXX object src/sparse13/CMakeFiles/sparse13.dir/sputils.cpp.o | |
[510/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/Erlang.cpp.o | |
[511/1936] Linking CXX static library lib/libsparse13.a | |
[512/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/Geom.cpp.o | |
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[514/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/isaac64.cpp.o | |
[515/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/Isaac64RNG.cpp.o | |
[516/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/LogNorm.cpp.o | |
[517/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/MCellRan4RNG.cpp.o | |
[518/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/mcran4.cpp.o | |
[519/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/MLCG.cpp.o | |
[520/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/NegExp.cpp.o | |
[521/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/nrnisaac.cpp.o | |
[522/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/Normal.cpp.o | |
[523/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/Poisson.cpp.o | |
[524/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/Rand.cpp.o | |
[525/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/Random.cpp.o | |
[526/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/RndInt.cpp.o | |
[527/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/Uniform.cpp.o | |
[528/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/RNG.cpp.o | |
[529/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/Weibull.cpp.o | |
[530/1936] [FLEX][modlunitlexer] Building scanner with flex 2.6.4 | |
[531/1936] Building CXX object src/nrnpython/CMakeFiles/rxdmath.dir/rxdmath.cpp.o | |
[532/1936] Linking CXX shared library lib/librxdmath.dylib | |
ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
[533/1936] [BISON][nocmodlparser] Building parser with bison 3.8.2 | |
../src/nmodl/diffeq.ypp: warning: 5 shift/reduce conflicts [-Wconflicts-sr] | |
../src/nmodl/diffeq.ypp: note: rerun with option '-Wcounterexamples' to generate conflict counterexamples | |
[534/1936] [FLEX][nocmodllexer] Building scanner with flex 2.6.4 | |
[535/1936] Building CXX object src/gnu/CMakeFiles/nrngnu.dir/nrnran123.cpp.o | |
[536/1936] Linking CXX static library lib/libnrngnu.a | |
[537/1936] [BISON][modlunitparser] Building parser with bison 3.8.2 | |
[538/1936] [BISON][ocparser] Building parser with bison 3.8.2 | |
../src/oc/parse.ypp: warning: 108 shift/reduce conflicts [-Wconflicts-sr] | |
../src/oc/parse.ypp: note: rerun with option '-Wcounterexamples' to generate conflict counterexamples | |
[539/1936] [BISON][nocmodlparser] Building parser with bison 3.8.2 | |
../src/nmodl/parse1.ypp: warning: 3 shift/reduce conflicts [-Wconflicts-sr] | |
../src/nmodl/parse1.ypp: note: rerun with option '-Wcounterexamples' to generate conflict counterexamples | |
[540/1936] Building CXX object external/nmodl/src/printer/CMakeFiles/printer.dir/json_printer.cpp.o | |
[541/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/__/modlunit/consist.cpp.o | |
[542/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/__/modlunit/declare.cpp.o | |
[543/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/__/modlunit/init.cpp.o | |
[544/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/__/modlunit/io.cpp.o | |
[545/1936] cd /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/build/src/nrnoc && /opt/homebrew/Cellar/cmake/3.28.1/bin/cmake -E env PROJECT_VERSION=9.0.0 bash /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/git2nrnversion_h.sh /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn > nrnversion.h.tmp && /opt/homebrew/Cellar/cmake/3.28.1/bin/cmake -E copy_if_different nrnversion.h.tmp nrnversion.h | |
fatal: No names found, cannot describe anything. | |
[546/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/__/modlunit/kinunit.cpp.o | |
[547/1936] Building CXX object external/nmodl/src/pybind/CMakeFiles/pyembed.dir/pyembed.cpp.o | |
[548/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/__/modlunit/list.cpp.o | |
[549/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/__/modlunit/model.cpp.o | |
[550/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/__/modlunit/nrnunit.cpp.o | |
[551/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/__/modlunit/passn.cpp.o | |
[552/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/__/modlunit/symbol.cpp.o | |
[553/1936] Building CXX object src/coreneuron/CMakeFiles/coreneuron-core.dir/apps/corenrn_parameters.cpp.o | |
[554/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/__/modlunit/units1.cpp.o | |
[555/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/__/modlunit/version.cpp.o | |
[556/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/modlunit_generated/lex.cpp.o | |
[557/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/__/modlunit/units.cpp.o | |
[558/1936] Building CXX object src/nrniv/CMakeFiles/modlunit.dir/modlunit_generated/parse1.cpp.o | |
[559/1936] Linking CXX executable bin/modlunit | |
[560/1936] Linking CXX static library lib/libcoreneuron-core.a | |
[561/1936] Building CXX object external/nmodl/src/utils/CMakeFiles/util.dir/logger.cpp.o | |
[562/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/consist.cpp.o | |
[563/1936] Linking CXX static library lib/libutil.a | |
[564/1936] -- NMODL : GENERATING NMODL LEXER WITH FLEX! -- | |
../../../../../external/nmodl/src/lexer/nmodl.ll:503: warning, -s option given but default rule can be matched | |
[565/1936] -- NMODL : GENERATING VERBATIM LEXER WITH FLEX! -- | |
[566/1936] -- NMODL : GENERATING DIFFERENTIAL EQUATION LEXER WITH FLEX! -- | |
../../../../../external/nmodl/src/lexer/diffeq.ll:100: warning, -s option given but default rule can be matched | |
[567/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/discrete.cpp.o | |
[568/1936] -- NMODL : GENERATING C(11) LEXER WITH FLEX! -- | |
[569/1936] -- NMODL : GENERATING UNIT LEXER WITH FLEX! -- | |
../../../../../external/nmodl/src/lexer/unit.ll:171: warning, -s option given but default rule can be matched | |
[570/1936] Linking CXX static library lib/libpyembed.a | |
[571/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/deriv.cpp.o | |
[572/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/init.cpp.o | |
[573/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/kinetic.cpp.o | |
[574/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/list.cpp.o | |
[575/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/io.cpp.o | |
[576/1936] Building CXX object external/nmodl/src/codegen/CMakeFiles/codegen.dir/codegen_transform_visitor.cpp.o | |
[577/1936] Building CXX object external/nmodl/src/pybind/CMakeFiles/pywrapper.dir/wrapper.cpp.o | |
[578/1936] Building CXX object src/nrnpython/CMakeFiles/nanobind.dir/__/__/external/nanobind/src/nb_combined.cpp.o | |
[579/1936] Building CXX object external/nmodl/src/codegen/CMakeFiles/codegen.dir/codegen_acc_visitor.cpp.o | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/codegen/codegen_acc_visitor.cpp:8: | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/codegen/codegen_acc_visitor.hpp:15: | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/codegen/codegen_coreneuron_cpp_visitor.hpp:18: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/algorithm:653: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/functional:500: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__functional/function.h:20: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/shared_ptr.h:25: | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:57:5: warning: delete called on 'nmodl::utils::Blame' that is abstract but has non-virtual destructor [-Wdelete-abstract-non-virtual-dtor] | |
delete __ptr; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:318:7: note: in instantiation of member function 'std::default_delete<nmodl::utils::Blame>::operator()' requested here | |
__ptr_.second()(__tmp); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:272:19: note: in instantiation of member function 'std::unique_ptr<nmodl::utils::Blame>::reset' requested here | |
~unique_ptr() { reset(); } | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/printer/code_printer.hpp:55:5: note: in instantiation of member function 'std::unique_ptr<nmodl::utils::Blame>::~unique_ptr' requested here | |
CodePrinter(std::unique_ptr<utils::Blame> blame) | |
^ | |
1 warning generated. | |
[580/1936] Building CXX object external/nmodl/src/codegen/CMakeFiles/codegen.dir/codegen_info.cpp.o | |
[581/1936] Building CXX object external/nmodl/src/codegen/CMakeFiles/codegen.dir/codegen_compatibility_visitor.cpp.o | |
[582/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/modtoken.cpp.o | |
[583/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/token_mapping.cpp.o | |
[584/1936] Building CXX object external/nmodl/src/codegen/CMakeFiles/codegen.dir/codegen_helper_visitor.cpp.o | |
[585/1936] Building CXX object external/nmodl/src/codegen/CMakeFiles/codegen.dir/codegen_utils.cpp.o | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/codegen/codegen_utils.cpp:8: | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/codegen/codegen_utils.hpp:16: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/string:522: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/algorithm:653: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/functional:500: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__functional/function.h:20: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/shared_ptr.h:25: | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:57:5: warning: delete called on 'nmodl::utils::Blame' that is abstract but has non-virtual destructor [-Wdelete-abstract-non-virtual-dtor] | |
delete __ptr; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:318:7: note: in instantiation of member function 'std::default_delete<nmodl::utils::Blame>::operator()' requested here | |
__ptr_.second()(__tmp); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:272:19: note: in instantiation of member function 'std::unique_ptr<nmodl::utils::Blame>::reset' requested here | |
~unique_ptr() { reset(); } | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/printer/code_printer.hpp:55:5: note: in instantiation of member function 'std::unique_ptr<nmodl::utils::Blame>::~unique_ptr' requested here | |
CodePrinter(std::unique_ptr<utils::Blame> blame) | |
^ | |
1 warning generated. | |
[586/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/nmodl_utils.cpp.o | |
[587/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/verbatim_lexer.cpp.o | |
[588/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/diffeq_base_lexer.cpp.o | |
[589/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/modl.cpp.o | |
[590/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/c11_base_lexer.cpp.o | |
[591/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/unit_base_lexer.cpp.o | |
[592/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/diffeq_driver.cpp.o | |
[593/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/nmodl_base_lexer.cpp.o | |
[594/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/diffeq_context.cpp.o | |
[595/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/verbatim_parser.cpp.o | |
[596/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/c11_driver.cpp.o | |
[597/1936] Building CXX object external/nmodl/src/codegen/CMakeFiles/codegen.dir/codegen_neuron_cpp_visitor.cpp.o | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/codegen/codegen_neuron_cpp_visitor.cpp:8: | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/codegen/codegen_neuron_cpp_visitor.hpp:18: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/algorithm:653: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/functional:500: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__functional/function.h:20: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/shared_ptr.h:25: | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:57:5: warning: delete called on 'nmodl::utils::Blame' that is abstract but has non-virtual destructor [-Wdelete-abstract-non-virtual-dtor] | |
delete __ptr; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:318:7: note: in instantiation of member function 'std::default_delete<nmodl::utils::Blame>::operator()' requested here | |
__ptr_.second()(__tmp); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:272:19: note: in instantiation of member function 'std::unique_ptr<nmodl::utils::Blame>::reset' requested here | |
~unique_ptr() { reset(); } | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/printer/code_printer.hpp:55:5: note: in instantiation of member function 'std::unique_ptr<nmodl::utils::Blame>::~unique_ptr' requested here | |
CodePrinter(std::unique_ptr<utils::Blame> blame) | |
^ | |
1 warning generated. | |
[598/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/unit_driver.cpp.o | |
[599/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/diffeq/diffeq_parser.cpp.o | |
[600/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/c/c11_parser.cpp.o | |
[601/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/nmodl_driver.cpp.o | |
[602/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/unit/unit_parser.cpp.o | |
[603/1936] Building CXX object external/nmodl/src/codegen/CMakeFiles/codegen.dir/codegen_coreneuron_cpp_visitor.cpp.o | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/codegen/codegen_coreneuron_cpp_visitor.cpp:8: | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/codegen/codegen_coreneuron_cpp_visitor.hpp:18: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/algorithm:653: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/functional:500: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__functional/function.h:20: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/shared_ptr.h:25: | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:57:5: warning: delete called on 'nmodl::utils::Blame' that is abstract but has non-virtual destructor [-Wdelete-abstract-non-virtual-dtor] | |
delete __ptr; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:318:7: note: in instantiation of member function 'std::default_delete<nmodl::utils::Blame>::operator()' requested here | |
__ptr_.second()(__tmp); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:272:19: note: in instantiation of member function 'std::unique_ptr<nmodl::utils::Blame>::reset' requested here | |
~unique_ptr() { reset(); } | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/printer/code_printer.hpp:55:5: note: in instantiation of member function 'std::unique_ptr<nmodl::utils::Blame>::~unique_ptr' requested here | |
CodePrinter(std::unique_ptr<utils::Blame> blame) | |
^ | |
1 warning generated. | |
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In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/codegen/codegen_cpp_visitor.cpp:7: | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/codegen/codegen_cpp_visitor.hpp:18: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/algorithm:653: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/functional:500: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__functional/function.h:20: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/shared_ptr.h:25: | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:57:5: warning: delete called on 'nmodl::utils::Blame' that is abstract but has non-virtual destructor [-Wdelete-abstract-non-virtual-dtor] | |
delete __ptr; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:318:7: note: in instantiation of member function 'std::default_delete<nmodl::utils::Blame>::operator()' requested here | |
__ptr_.second()(__tmp); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:272:19: note: in instantiation of member function 'std::unique_ptr<nmodl::utils::Blame>::reset' requested here | |
~unique_ptr() { reset(); } | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/printer/code_printer.hpp:55:5: note: in instantiation of member function 'std::unique_ptr<nmodl::utils::Blame>::~unique_ptr' requested here | |
CodePrinter(std::unique_ptr<utils::Blame> blame) | |
^ | |
1 warning generated. | |
[605/1936] Building CXX object external/nmodl/src/symtab/CMakeFiles/symtab.dir/symbol_properties.cpp.o | |
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[610/1936] Building CXX object external/nmodl/src/symtab/CMakeFiles/symtab.dir/symbol_table.cpp.o | |
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[615/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/defuse_analyze_visitor.cpp.o | |
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[617/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/index_remover.cpp.o | |
[618/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/parser/nmodl/nmodl_parser.cpp.o | |
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[620/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/loop_unroll_visitor.cpp.o | |
[621/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/localize_visitor.cpp.o | |
[622/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/neuron_solve_visitor.cpp.o | |
[623/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/perf_visitor.cpp.o | |
[624/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/inline_visitor.cpp.o | |
[625/1936] Building CXX object external/nmodl/src/CMakeFiles/nmodl.dir/main.cpp.o | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/main.cpp:8: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/string:522: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/algorithm:653: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/functional:500: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__functional/function.h:20: | |
In file included from /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/shared_ptr.h:25: | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:57:5: warning: delete called on 'nmodl::utils::Blame' that is abstract but has non-virtual destructor [-Wdelete-abstract-non-virtual-dtor] | |
delete __ptr; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:318:7: note: in instantiation of member function 'std::default_delete<nmodl::utils::Blame>::operator()' requested here | |
__ptr_.second()(__tmp); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__memory/unique_ptr.h:272:19: note: in instantiation of member function 'std::unique_ptr<nmodl::utils::Blame>::reset' requested here | |
~unique_ptr() { reset(); } | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nmodl/src/printer/code_printer.hpp:55:5: note: in instantiation of member function 'std::unique_ptr<nmodl::utils::Blame>::~unique_ptr' requested here | |
CodePrinter(std::unique_ptr<utils::Blame> blame) | |
^ | |
1 warning generated. | |
[626/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/semantic_analysis_visitor.cpp.o | |
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[632/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/units_visitor.cpp.o | |
[633/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/steadystate_visitor.cpp.o | |
[634/1936] Building CXX object external/nmodl/src/lexer/CMakeFiles/lexer.dir/__/ast/ast.cpp.o | |
[635/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/verbatim_var_rename_visitor.cpp.o | |
[636/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/ast_visitor.cpp.o | |
[637/1936] Linking CXX static library lib/liblexer.a | |
[638/1936] Linking CXX static library lib/libsymtab.a | |
[639/1936] Linking CXX static library lib/libpywrapper.a | |
[640/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/sympy_conductance_visitor.cpp.o | |
[641/1936] Linking CXX static library lib/libnanobind.a | |
[642/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/noccout.cpp.o | |
[643/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/sympy_replace_solutions_visitor.cpp.o | |
[644/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/checkparent_visitor.cpp.o | |
[645/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/parsact.cpp.o | |
[646/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/netrec_discon.cpp.o | |
[647/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/lookup_visitor.cpp.o | |
[648/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/nocpout.cpp.o | |
[649/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/modlunit/units.cpp.o | |
[650/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/json_visitor.cpp.o | |
[651/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/solve.cpp.o | |
[652/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/symbol.cpp.o | |
[653/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/simultan.cpp.o | |
[654/1936] Generating ../../share/nrn/nrnmain.cpp | |
[655/1936] Generating ../../include/nrnmpiuse.h | |
[656/1936] Generating ../oc/hocusr.h | |
[657/1936] Generating ../../include/nrncvode/nrnneosm.h | |
[658/1936] cd /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/build/src/nrniv && true | |
[659/1936] Generating ../../include/nrnconf.h | |
[660/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nmodl/version.cpp.o | |
[661/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/visitor_utils.cpp.o | |
[662/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/nocmodl_generated/lex.cpp.o | |
[663/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/nmodl_visitor.cpp.o | |
[664/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/nocmodl_generated/parse1.cpp.o | |
[665/1936] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/nocmodl_generated/diffeq.cpp.o | |
[666/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/sympy_solver_visitor.cpp.o | |
[667/1936] Building CXX object external/nmodl/src/visitors/CMakeFiles/visitor.dir/symtab_visitor.cpp.o | |
[668/1936] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_nrn.cpp.o | |
FAILED: src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_nrn.cpp.o | |
ccache /usr/bin/g++ -DCORENRN_BUILD=0 -DHAVE_CONFIG_H -DMPICH_SKIP_MPICXX=1 -DMPI_NO_CPPBIND=1 -DNRN_ASAN_ENABLED -DNRN_ENABLE_THREADS -DOMPI_SKIP_MPICXX=1 -DUSE_PYTHON -I/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/.. -I/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/../oc -I/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/../nrnoc -I/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/../ivoc -I/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/../nrniv -I/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/../nrnmpi -I/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/build/src/nrnpython -I/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/build/src/oc -I/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/../ivos -I/opt/homebrew/opt/python@3.10/Frameworks/Python.framework/Versions/3.10/include/python3.10 -I/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/eigen -I/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/build/src/nrniv/oc_generated -I/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/fmt/include -isystem /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/external/nanobind/include -O1 -g -openmp-simd -std=c++17 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk -fPIC -fno-omit-frame-pointer -shared-libsan -fsanitize=address -fsanitize-address-use-after-scope -MD -MT src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_nrn.cpp.o -MF src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_nrn.cpp.o.d -o src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_nrn.cpp.o -c /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<int (*(_object *&, _object *&))(_object *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<int (*)(_object *, _object *), _object *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:214:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = int (*)(_object *, _object *), Args = <_object *&, _object *&>] | |
return nrn::convert_cxx_exceptions(NPySecObj_contains, sec, obj); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<int (*(_object *&, _object *&))(_object *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<int (*(NPySecObj *&, _object *&, _object *&))(NPySecObj *, _object *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<int (*)(NPySecObj *, _object *, _object *), NPySecObj *&, _object *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:438:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = int (*)(NPySecObj *, _object *, _object *), Args = <NPySecObj *&, _object *&, _object *&>] | |
return nrn::convert_cxx_exceptions(NPySecObj_init, self, args, kwds); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<int (*(NPySecObj *&, _object *&, _object *&))(NPySecObj *, _object *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<int (*(NPyAllSegOfSecIter *&, _object *&, _object *&))(NPyAllSegOfSecIter *, _object *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<int (*)(NPyAllSegOfSecIter *, _object *, _object *), NPyAllSegOfSecIter *&, _object *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:456:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = int (*)(NPyAllSegOfSecIter *, _object *, _object *), Args = <NPyAllSegOfSecIter *&, _object *&, _object *&>] | |
return nrn::convert_cxx_exceptions(NPyAllSegOfSecIter_init, self, args, kwds); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<int (*(NPyAllSegOfSecIter *&, _object *&, _object *&))(NPyAllSegOfSecIter *, _object *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(_typeobject *&, _object *&, _object *&))(_typeobject *, _object *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(_typeobject *, _object *, _object *), _typeobject *&, _object *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:473:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(_typeobject *, _object *, _object *), Args = <_typeobject *&, _object *&, _object *&>] | |
return nrn::convert_cxx_exceptions(NPySecObj_new, type, args, kwds); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(_typeobject *&, _object *&, _object *&))(_typeobject *, _object *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(_object *&, _object *&, _object *&))(_object *, _object *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(_object *, _object *, _object *), _object *&, _object *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:498:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(_object *, _object *, _object *), Args = <_object *&, _object *&, _object *&>] | |
return nrn::convert_cxx_exceptions(nrnpy_newsecobj, self, args, kwds); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(_object *&, _object *&, _object *&))(_object *, _object *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<int (*(NPyMechObj *&, _object *&, _object *&))(NPyMechObj *, _object *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<int (*)(NPyMechObj *, _object *, _object *), NPyMechObj *&, _object *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:674:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = int (*)(NPyMechObj *, _object *, _object *), Args = <NPyMechObj *&, _object *&, _object *&>] | |
return nrn::convert_cxx_exceptions(NPyMechObj_init, self, args, kwds); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<int (*(NPyMechObj *&, _object *&, _object *&))(NPyMechObj *, _object *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<int (*(NPyRangeVar *&, _object *&, _object *&))(NPyRangeVar *, _object *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<int (*)(NPyRangeVar *, _object *, _object *), NPyRangeVar *&, _object *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:682:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = int (*)(NPyRangeVar *, _object *, _object *), Args = <NPyRangeVar *&, _object *&, _object *&>] | |
return nrn::convert_cxx_exceptions(NPyRangeVar_init, self, args, kwds); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<int (*(NPyRangeVar *&, _object *&, _object *&))(NPyRangeVar *, _object *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPySecObj *&))(NPySecObj *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPySecObj *), NPySecObj *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:692:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPySecObj *), Args = <NPySecObj *&>] | |
return nrn::convert_cxx_exceptions(NPySecObj_name, self); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPySecObj *&))(NPySecObj *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPySecObj *&, _object *&))(NPySecObj *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPySecObj *, _object *), NPySecObj *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:739:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPySecObj *, _object *), Args = <NPySecObj *&, _object *&>] | |
return nrn::convert_cxx_exceptions(NPySecObj_pt3dclear, self, args); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPySecObj *&, _object *&))(NPySecObj *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(_object *&))(_object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(_object *), _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:959:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(_object *), Args = <_object *&>] | |
return nrn::convert_cxx_exceptions(pysec_repr, p); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(_object *&))(_object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(_object *&, _object *&))(_object *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(_object *, _object *), _object *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1012:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(_object *, _object *), Args = <_object *&, _object *&>] | |
return nrn::convert_cxx_exceptions(nrnpy_set_psection, self, args); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(_object *&, _object *&))(_object *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPySecObj *const &))(NPySecObj *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPySecObj *), NPySecObj *const &>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1162:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPySecObj *), Args = <NPySecObj *const &>] | |
return nrn::convert_cxx_exceptions(pysec_children, self); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPySecObj *const &))(NPySecObj *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<long (*(_object *&))(_object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<long (*)(_object *), _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1230:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = long (*)(_object *), Args = <_object *&>] | |
return nrn::convert_cxx_exceptions(pysec_hash, self); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<long (*(_object *&))(_object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPySegObj *&, _object *&, int &))(NPySegObj *, _object *, int)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPySegObj *, _object *, int), NPySegObj *&, _object *&, int &>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1256:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPySegObj *, _object *, int), Args = <NPySegObj *&, _object *&, int &>] | |
return nrn::convert_cxx_exceptions(pyseg_richcmp, self, other, op); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPySegObj *&, _object *&, int &))(NPySegObj *, _object *, int)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPySecObj *&, _object *&, int &))(NPySecObj *, _object *, int)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPySecObj *, _object *, int), NPySecObj *&, _object *&, int &>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1279:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPySecObj *, _object *, int), Args = <NPySecObj *&, _object *&, int &>] | |
return nrn::convert_cxx_exceptions(pysec_richcmp, self, other, op); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPySecObj *&, _object *&, int &))(NPySecObj *, _object *, int)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPyMechObj *&))(NPyMechObj *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPyMechObj *), NPyMechObj *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1313:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPyMechObj *), Args = <NPyMechObj *&>] | |
return nrn::convert_cxx_exceptions(NPyMechObj_name, self); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPyMechObj *&))(NPyMechObj *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPyMechFunc *&))(NPyMechFunc *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPyMechFunc *), NPyMechFunc *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1326:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPyMechFunc *), Args = <NPyMechFunc *&>] | |
return nrn::convert_cxx_exceptions(NPyMechFunc_name, self); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPyMechFunc *&))(NPyMechFunc *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPyMechFunc *&, _object *&))(NPyMechFunc *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPyMechFunc *, _object *), NPyMechFunc *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1356:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPyMechFunc *, _object *), Args = <NPyMechFunc *&, _object *&>] | |
return nrn::convert_cxx_exceptions(NPyMechFunc_call, self, args); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPyMechFunc *&, _object *&))(NPyMechFunc *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPyRangeVar *&))(NPyRangeVar *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPyRangeVar *), NPyRangeVar *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1435:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPyRangeVar *), Args = <NPyRangeVar *&>] | |
return nrn::convert_cxx_exceptions(NPyRangeVar_name, self); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPyRangeVar *&))(NPyRangeVar *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPyAllSegOfSecIter *&))(NPyAllSegOfSecIter *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPyAllSegOfSecIter *), NPyAllSegOfSecIter *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1645:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPyAllSegOfSecIter *), Args = <NPyAllSegOfSecIter *&>] | |
return nrn::convert_cxx_exceptions(allseg_of_sec_iter, self); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPyAllSegOfSecIter *&))(NPyAllSegOfSecIter *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPySegOfSecIter *&))(NPySegOfSecIter *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPySegOfSecIter *), NPySegOfSecIter *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1697:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPySegOfSecIter *), Args = <NPySegOfSecIter *&>] | |
return nrn::convert_cxx_exceptions(seg_of_sec_next, self); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPySegOfSecIter *&))(NPySegOfSecIter *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPySegObj *&))(NPySegObj *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPySegObj *), NPySegObj *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1718:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPySegObj *), Args = <NPySegObj *&>] | |
return nrn::convert_cxx_exceptions(seg_point_processes, self); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPySegObj *&))(NPySegObj *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2123:9: error: indirection requires pointer operand ('neuron::container::generic_data_handle' invalid) | |
*d = new_x; | |
^~ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPyMechOfSegIter *&))(NPyMechOfSegIter *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPyMechOfSegIter *), NPyMechOfSegIter *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2170:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPyMechOfSegIter *), Args = <NPyMechOfSegIter *&>] | |
return nrn::convert_cxx_exceptions(mech_of_seg_next, self); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPyMechOfSegIter *&))(NPyMechOfSegIter *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPyVarOfMechIter *&))(NPyVarOfMechIter *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPyVarOfMechIter *), NPyVarOfMechIter *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2210:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPyVarOfMechIter *), Args = <NPyVarOfMechIter *&>] | |
return nrn::convert_cxx_exceptions(var_of_mech_next, self); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPyVarOfMechIter *&))(NPyVarOfMechIter *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2303:24: error: no matching function for call to 'nrn_hocobj_handle' | |
return nrn_hocobj_handle(d); | |
^~~~~~~~~~~~~~~~~ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpython.h:94:11: note: candidate function not viable: no known conversion from 'const neuron::container::generic_data_handle' to 'neuron::container::data_handle<double>' for 1st argument | |
PyObject* nrn_hocobj_handle(neuron::container::data_handle<double> d); | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPySegObj *&, _object *&))(NPySegObj *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPySegObj *, _object *), NPySegObj *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2331:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPySegObj *, _object *), Args = <NPySegObj *&, _object *&>] | |
return nrn::convert_cxx_exceptions(segment_getattro, self, pyname); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPySegObj *&, _object *&))(NPySegObj *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2403:13: error: indirection requires pointer operand ('neuron::container::generic_data_handle' invalid) | |
*d = new_x; | |
^~ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<int (*(NPySegObj *&, _object *&, _object *&))(NPySegObj *, _object *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<int (*)(NPySegObj *, _object *, _object *), NPySegObj *&, _object *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2439:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = int (*)(NPySegObj *, _object *, _object *), Args = <NPySegObj *&, _object *&, _object *&>] | |
return nrn::convert_cxx_exceptions(segment_setattro, self, pyname, value); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<int (*(NPySegObj *&, _object *&, _object *&))(NPySegObj *, _object *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(NPyMechObj *&, _object *&))(NPyMechObj *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(NPyMechObj *, _object *), NPyMechObj *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2603:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(NPyMechObj *, _object *), Args = <NPyMechObj *&, _object *&>] | |
return nrn::convert_cxx_exceptions(mech_getattro, self, pyname); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(NPyMechObj *&, _object *&))(NPyMechObj *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(_object *&, long &))(_object *, long)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(_object *, long), _object *&, long &>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2747:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(_object *, long), Args = <_object *&, long &>] | |
return nrn::convert_cxx_exceptions(rv_getitem, self, ix); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(_object *&, long &))(_object *, long)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<int (*(_object *&, long &, _object *&))(_object *, long, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<int (*)(_object *, long, _object *), _object *&, long &, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2800:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = int (*)(_object *, long, _object *), Args = <_object *&, long &, _object *&>] | |
return nrn::convert_cxx_exceptions(rv_setitem, self, ix, value); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<int (*(_object *&, long &, _object *&))(_object *, long, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
29 warnings and 3 errors generated. | |
[669/1936] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/nrnpython.cpp.o | |
[670/1936] Linking CXX static library lib/libvisitor.a | |
[671/1936] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/rxd_intracellular.cpp.o | |
[672/1936] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_p2h.cpp.o | |
[673/1936] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/grids.cpp.o | |
[674/1936] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/rxd_vol.cpp.o | |
[675/1936] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/rxd_extracellular.cpp.o | |
[676/1936] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_hoc.cpp.o | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_hoc.cpp:9: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(_object *&, _object *&))(_object *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(_object *, _object *), _object *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_hoc.cpp:169:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(_object *, _object *), Args = <_object *&, _object *&>] | |
return nrn::convert_cxx_exceptions(nrnexec, self, args); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(_object *&, _object *&))(_object *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
In file included from /Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_hoc.cpp:9: | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:32:39: warning: 'result_of<_object *(*(PyHocObject *&, _object *&))(PyHocObject *, _object *)>' is deprecated [-Wdeprecated-declarations] | |
using return_type = typename std::result_of<F(Args...)>::type; | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/convert_cxx_exceptions.hpp:40:17: note: in instantiation of template class 'nrn::convert_cxx_exceptions_trait<_object *(*)(PyHocObject *, _object *), PyHocObject *&, _object *&>' requested here | |
static typename convert_cxx_exceptions_trait<F, Args...>::return_type convert_cxx_exceptions( | |
^ | |
/Users/gitlab-runner/builds/2/P221542/J1346660/hpc/cellular/nrn/src/nrnpython/nrnpy_hoc.cpp:2458:12: note: while substituting deduced template arguments into function template 'convert_cxx_exceptions' [with F = _object *(*)(PyHocObject *, _object *), Args = <PyHocObject *&, _object *&>] | |
return nrn::convert_cxx_exceptions(hocobj_same, pself, args); | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/type_traits:4009:34: note: 'result_of<_object *(*(PyHocObject *&, _object *&))(PyHocObject *, _object *)>' has been explicitly marked deprecated here | |
template <class _Callable> class _LIBCPP_DEPRECATED_IN_CXX17 result_of; | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1066:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' | |
# define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | |
^ | |
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk/usr/include/c++/v1/__config:1043:48: note: expanded from macro '_LIBCPP_DEPRECATED' | |
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) | |
^ | |
2 warnings generated. | |
[677/1936] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/rxd.cpp.o | |
ninja: build stopped: subcommand failed. | |
section_end:1720788928:step_script [0Ksection_start:1720788928:cleanup_file_variables [0K[0K[36;1mCleaning up project directory and file based variables[0;m[0;m | |
section_end:1720788928: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:1720788795:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
section_end:1720788795:resolve_secrets [0Ksection_start:1720788795: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-executor2969973773, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
Runner ID 29, project root hpc, project name nrn | |
Pipeline ID 221542, build ref , job ID 1346661 | |
Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542, 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_J1346661_PROD_P2160_CP4_C4 | |
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 2302164 | |
job state: R | |
sbatch: sbatch -p prod -A proj9998 --ntasks=1 --cpus-per-task=6 --mem=30750M --job-name=GL_J1346661_PROD_P2160_CP4_C4 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542 --time=1:00:00 --wrap="sleep infinity" | |
srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542 --ntasks=1 --jobid=2302164 --cpus-per-task=6 --mem=30750M | |
section_end:1720788796:prepare_executor [0Ksection_start:1720788796:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
Using git from spack modules | |
Running on r1i5n17 via bbpv1.epfl.ch... | |
section_end:1720788799:prepare_script [0Ksection_start:1720788799: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:1720788800:get_sources [0Ksection_start:1720788800: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 ${PWD}[0;m | |
Preparing to clone Spack into /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P221542/J1346661 | |
[32;1m$ if [[ -z "${SPACK_BRANCH}" && ( -n "${SPACK_COMMIT}" || -n "${SPACK_TAG}" ) ]]; then[0;m | |
[32;1m$ echo Checking out the ${SPACK_BRANCH} of Spack...[0;m | |
Checking out the develop of Spack... | |
[32;1m$ module load unstable git[0;m | |
[32;1m$ git clone -c feature.manyFiles=true --depth 1 --single-branch --branch ${SPACK_BRANCH} ${SPACK_URL} spack[0;m | |
Cloning into 'spack'... | |
Updating files: 19% (2239/11295) 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: 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: 32% (3684/11295) Updating files: 33% (3728/11295) Updating files: 34% (3841/11295) 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% (4940/11295) 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: 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% (6845/11295) 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: 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: 78% (8918/11295) Updating files: 79% (8924/11295) Updating files: 80% (9036/11295) Updating files: 81% (9149/11295) 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: 94% (10618/11295) Updating files: 94% (10644/11295) 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 (${XDG_CONFIG_HOME})"[0;m | |
Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P221542/J1346661_local_config) | |
[32;1m$ 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 ${SPACK_SETUP_IGNORE_PACKAGE_VARIABLES} --write-commit-file=commit-mapping.env[0;m | |
spack configure-pipeline --ignore-packages CI_BUILD CI_COMMIT CI_DEFAULT GITLAB_PIPELINES SPACK SPACK_RESOLVED BLUECONFIGS --write-commit-file=commit-mapping.env CI_COMMIT_BRANCH=enh/leite/py-segment-nanobind2 SPACK_RESOLVED_COMMIT=9d288164dc8e0d6f899357304b17a47e0017c974 GITLAB_PIPELINES_BRANCH=main NEURON_COMMIT=9d5cc88478de17f01b9de0b4ef163bcca9b28c3b NMODL_BRANCH=master LIBSONATA_REPORT_BRANCH=master SPACK_BRANCH=develop CI_DEFAULT_BRANCH=master BLUECONFIGS_BRANCH=main | |
==> CI_COMMIT: ignoring CI_COMMIT_BRANCH=enh/leite/py-segment-nanobind2 | |
==> SPACK_RESOLVED: ignoring SPACK_RESOLVED_COMMIT=9d288164dc8e0d6f899357304b17a47e0017c974 | |
==> GITLAB_PIPELINES: ignoring GITLAB_PIPELINES_BRANCH=main | |
==> SPACK: ignoring SPACK_BRANCH=develop | |
==> CI_DEFAULT: ignoring CI_DEFAULT_BRANCH=master | |
==> BLUECONFIGS: ignoring BLUECONFIGS_BRANCH=main | |
==> nmodl: resolved branch master to 332c8b37cee59cc8b9777ef7194d7bc2a0c73646 | |
==> libsonata-report: resolved branch master to 5602aadfa710d6766ce23cd151a1855190271bd8 | |
==> adding config: packages:neuron:require: '@git.9d5cc88478de17f01b9de0b4ef163bcca9b28c3b=develop' | |
==> adding config: packages:nmodl:require: '@git.332c8b37cee59cc8b9777ef7194d7bc2a0c73646=develop' | |
==> adding config: packages:libsonata-report:require: '@git.5602aadfa710d6766ce23cd151a1855190271bd8=develop' | |
[32;1m$ (cd "${SPACK_ROOT}" && git diff)[0;m | |
[32;1m$ cat commit-mapping.env[0;m | |
NEURON_COMMIT=9d5cc88478de17f01b9de0b4ef163bcca9b28c3b | |
NMODL_COMMIT=332c8b37cee59cc8b9777ef7194d7bc2a0c73646 | |
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:1720788891:step_script [0Ksection_start:1720788891: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=241553 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=1346661 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=241575 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=1346661 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
section_end:1720788892:upload_artifacts_on_success [0Ksection_start:1720788892: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:1720788893:cleanup_file_variables [0K[32;1mJob succeeded[0;m |
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