Created
October 29, 2024 13:10
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Logfiles for GitLab pipeline https://bbpgitlab.epfl.ch/hpc/cellular/nrn/-/pipelines/237020 (:no_entry:) running on GitHub PR neuronsimulator/nrn#3146.
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| [0KRunning with gitlab-runner 15.5.0 (0d4137b8)[0;m | |
| [0K on BB5 map runner pnPo3yJy[0;m | |
| section_start:1730201925:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1730201925:resolve_secrets [0Ksection_start:1730201925: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-executor3260706978, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
| Runner ID 29, project root hpc, project name nrn | |
| Pipeline ID 237020, build ref , job ID 1469759 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020, 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_J1469759_PROD_P2160_CP0_C0 | |
| Job parameters: memory=160G, cpus_per_task=8, duration=2:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos= reservation= | |
| Not executing the chown -R | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 2605588 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1469759_PROD_P2160_CP0_C0 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020 --time=2:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020 --ntasks=2 --jobid=2605588 --cpus-per-task=8 --mem=160G | |
| section_end:1730201926:prepare_executor [0Ksection_start:1730201926:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Using git from spack modules | |
| Running on r1i5n29 via bbpv1.epfl.ch... | |
| section_end:1730201931:prepare_script [0Ksection_start:1730201931: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:1730201932:get_sources [0Ksection_start:1730201932: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=53691 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading cache.zip from https://bbpobjectstorage.epfl.ch/gitlab-runners-cache/project/2160/build%3Aneuron%3Anmodl%3Aintel%3Alegacy-1-non_protected[0;m | |
| [32;1mSuccessfully extracted cache[0;m | |
| section_end:1730201940:restore_cache [0Ksection_start:1730201940:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| Using git from spack modules | |
| [32;1mDownloading artifacts for build:nmodl (1469758)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=53811 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=1469758 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
| section_end:1730201941:download_artifacts [0Ksection_start:1730201941: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/P237020/J1469759/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469759/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469759/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469759/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469759/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/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/P237020/J1469757/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:151 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:216 bind: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:233 flags: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:240 aliases: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
| _builtin debug: False | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
| --- concretizer: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469759/spack-config/concretizer.yaml:2 reuse: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
| [32;1m$ 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 (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020/J1469759_local_config) | |
| [32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron%oneapi ~rx3d~caliper~gpu+coreneuron~legacy-unit~openmp~shared~sympy+tests build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^/urvvbyvfypytz5immoeuctjif5gcob4h | |
| [32;1m$ 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=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020 | |
| [32;1m$ 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/bbpcihpcproj12/2605588/ccache | |
| Config file: /nvme/bbpcihpcproj12/2605588/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: Tue Oct 29 12:39:06 2024 | |
| Local storage: | |
| Cache size (GB): 0.45 / 0.51 (87.92%) | |
| Files: 7699 | |
| 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 | |
| - ^/urvvbyvfypytz5immoeuctjif5gcob4h | |
| Concretized | |
| -------------------------------- | |
| - d7hi6gi neuron@git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=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 | |
| - wlrxxmi ^libsonata-report@git.b42e72121c5c299188601f914da0c3f3d0f196ca=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 | |
| [+] urvvbyv ^nmodl@git.ffe4f68d642a007a8abdf0dc6cf4dbffcc9ae47f=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/P237020, but it is owned by 0 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zlib-ng-2.1.4-z7jpg7 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zstd-1.5.5-aivjoo | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/bison-3.8.2-qcx3sg (external bison-3.8.2-yn5fbwgteilgqg6b62shkhkjg3hlwmrq) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/boost-1.83.0-2quv7w (external boost-1.83.0-rd65pstwb56uftszduzg7lsiq4za4lnn) | |
| ==> cmake@3.27.7 : has external module in ['cmake/3.27.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes (external cmake-3.27.7-b5zzpr3mwm7jxv6bvvrs6zpeg62cfhbu) | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/flex-2.6.3-edx4lf (external flex-2.6.3-77vzaxsa3g7wr3omktr4skpetx5ds4pt) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/bzip2-1.0.8-vdqwmg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libiconv-1.17-nv4xh4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/xz-5.4.1-wwn5en | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gmake-4.4.1-swjylu | |
| ==> hpe-mpi@2.27.p1.hmpt : has external module in ['hpe-mpi/2.27.p1.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/hpe-mpi-2.27.p1.hmpt-6rr256 (external hpe-mpi-2.27.p1.hmpt-h6t3hgbguhacajbyzlp43xpawsnreb3m) | |
| ==> ninja@1.11.1 : has external module in ['ninja/1.11.1'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ninja-1.11.1-nxtlgo (external ninja-1.11.1-omn6mm4a3zsbpbkptvdwxs6kkrh6yafw) | |
| ==> python@3.11.6 : has external module in ['python/3.11.6'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m (external python-3.11.6-5wl76vphfvpcapfaipipf7xn2xylnc4o) | |
| ==> intel-oneapi-mkl@2023.2.0 : has external module in ['intel-oneapi-mkl/2023.2.0'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/intel-oneapi-mkl-2023.2.0-twl2n4 (external intel-oneapi-mkl-2023.2.0-w2ldcy2y2urm3uaa7omu3w7nhwsqt433) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/catch2-3.4.0-pywly2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/fmt-10.1.1-evtttr | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libxml2-2.10.3-oh2g4i | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pigz-2.7-dwjcgu | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/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/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/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/py-coverage-7.2.6-wuxetk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-markupsafe-2.1.3-r3ehtm | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pluggy-1.0.0-6su7kv | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-find-libpython-0.3.1-5dylnc | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-iniconfig-2.0.0-mvxx6g | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/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/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-mpi4py-3.1.4-x733hw | |
| [+] /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-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-pybind11-2.11.1-tabj2m | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpmath-1.2.1-4fflyi | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid | |
| [+] /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.b42e72121c5c299188601f914da0c3f3d0f196ca=develop-wlrxxmi5bv2kjljtsv4r6rdhsnvvuj25 [45/49] | |
| ==> No binary for libsonata-report-git.b42e72121c5c299188601f914da0c3f3d0f196ca=develop-wlrxxmi5bv2kjljtsv4r6rdhsnvvuj25 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.b42e72121c5c299188601f914da0c3f3d0f196ca=develop-wlrxxmi5bv2kjljtsv4r6rdhsnvvuj25 | |
| Stage: 2.40s. Cmake: 5.05s. Build: 1.57s. Install: 0.11s. Post-install: 0.10s. Total: 9.39s | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_oneapi-2023.2.0-skylake/libsonata-report-git.b42e72121c5c299188601f914da0c3f3d0f196ca_develop-wlrxxm | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-cov-4.0.0-z5nf6n | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-sympy-1.11.1-t5tove | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_gcc-12.3.0-skylake/nmodl-git.ffe4f68d642a007a8abdf0dc6cf4dbffcc9ae47f_develop-urvvby | |
| ==> Installing neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=develop-d7hi6ginyd6zjrashffkbi2sal5yoluj [49/49] | |
| ==> No binary for neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=develop-d7hi6ginyd6zjrashffkbi2sal5yoluj found: installing from source | |
| ==> No patches needed for neuron | |
| ==> neuron: Executing phase: 'cmake' | |
| ==> neuron: Executing phase: 'build' | |
| ==> neuron: Executing phase: 'install' | |
| ==> neuron: Successfully installed neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=develop-d7hi6ginyd6zjrashffkbi2sal5yoluj | |
| Stage: 13.53s. Cmake: 1m 10.51s. Build: 9m 1.27s. Install: 23.56s. Post-install: 1.08s. Total: 10m 50.67s | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_oneapi-2023.2.0-skylake/neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee_develop-d7hi6g | |
| [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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined the installed hash to be d7hi6ginyd6zjrashffkbi2sal5yoluj | |
| [32;1m$ 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/bbpcihpcproj12/2605588/ccache | |
| Config file: /nvme/bbpcihpcproj12/2605588/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: Tue Oct 29 12:53:28 2024 | |
| Cacheable calls: 1012 / 1158 (87.39%) | |
| Hits: 965 / 1012 (95.36%) | |
| Direct: 535 / 965 (55.44%) | |
| Preprocessed: 430 / 965 (44.56%) | |
| Misses: 47 / 1012 ( 4.64%) | |
| Uncacheable calls: 146 / 1158 (12.61%) | |
| Autoconf compile/link: 5 / 146 ( 3.42%) | |
| Called for linking: 115 / 146 (78.77%) | |
| Called for preprocessing: 1 / 146 ( 0.68%) | |
| Compilation failed: 2 / 146 ( 1.37%) | |
| No input file: 23 / 146 (15.75%) | |
| Successful lookups: | |
| Direct: 535 / 1014 (52.76%) | |
| Preprocessed: 430 / 479 (89.77%) | |
| Local storage: | |
| Cache size (GB): 0.44 / 0.51 (86.57%) | |
| Files: 7555 | |
| Cleanups: 3 | |
| Hits: 965 / 1014 (95.17%) | |
| Misses: 49 / 1014 ( 4.83%) | |
| Reads: 2028 | |
| Writes: 449 | |
| [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:1730202811:step_script [0Ksection_start:1730202811:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| Using git from spack modules | |
| [32;1mCreating cache 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=74846 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%3Aneuron%3Anmodl%3Aintel%3Alegacy-1-non_protected[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1730202837:archive_cache [0Ksection_start:1730202837: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=75000 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=1469759 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=75044 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=1469759 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=75081 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=1469759 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| section_end:1730202839:upload_artifacts_on_success [0Ksection_start:1730202839: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:1730202840:cleanup_file_variables [0K[32;1mJob succeeded[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:1730201927:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1730201927:resolve_secrets [0Ksection_start:1730201927: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-executor3059226017, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
| Runner ID 29, project root hpc, project name nrn | |
| Pipeline ID 237020, build ref , job ID 1469761 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020, 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_J1469761_PROD_P2160_CP7_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 2605590 | |
| job state: PD | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1469761_PROD_P2160_CP7_C8 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020 --time=2:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020 --ntasks=2 --jobid=2605590 --cpus-per-task=8 --mem=160G | |
| section_end:1730201929:prepare_executor [0Ksection_start:1730201929:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Using git from spack modules | |
| Running on r1i5n31 via bbpv1.epfl.ch... | |
| section_end:1730201933:prepare_script [0Ksection_start:1730201933: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:1730201934:get_sources [0Ksection_start:1730201934: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=106032 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:1730201939:restore_cache [0Ksection_start:1730201939:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| Using git from spack modules | |
| [32;1mDownloading artifacts for build:nmodl (1469758)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=106152 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=1469758 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
| section_end:1730201940:download_artifacts [0Ksection_start:1730201940: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/P237020/J1469761/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469761/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469761/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469761/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469761/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/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/P237020/J1469757/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:151 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:216 bind: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:233 flags: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:240 aliases: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
| _builtin debug: False | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
| --- concretizer: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469761/spack-config/concretizer.yaml:2 reuse: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
| [32;1m$ 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 (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020/J1469761_local_config) | |
| [32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron%nvhpc ~rx3d~caliper+gpu+coreneuron~legacy-unit~openmp~shared~sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^/urvvbyvfypytz5immoeuctjif5gcob4h | |
| [32;1m$ 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=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020 | |
| [32;1m$ 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/bbpcihpcproj12/2605590/ccache | |
| Config file: /nvme/bbpcihpcproj12/2605590/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: Tue Oct 29 12:39:06 2024 | |
| Local storage: | |
| Cache size (GB): 0.46 / 0.51 (89.73%) | |
| Files: 9137 | |
| 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 | |
| - ^/urvvbyvfypytz5immoeuctjif5gcob4h | |
| Concretized | |
| -------------------------------- | |
| - ertgsyl neuron@git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=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 | |
| - tz3fxvb ^libsonata-report@git.b42e72121c5c299188601f914da0c3f3d0f196ca=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 | |
| [+] urvvbyv ^nmodl@git.ffe4f68d642a007a8abdf0dc6cf4dbffcc9ae47f=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/P237020, but it is owned by 0 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zlib-ng-2.1.4-z7jpg7 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/zstd-1.5.5-aivjoo | |
| ==> bison@3.8.2 : has external module in ['bison/3.8.2'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/bison-3.8.2-qcx3sg (external bison-3.8.2-yn5fbwgteilgqg6b62shkhkjg3hlwmrq) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/boost-1.83.0-2quv7w (external boost-1.83.0-rd65pstwb56uftszduzg7lsiq4za4lnn) | |
| ==> cmake@3.27.7 : has external module in ['cmake/3.27.7'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cmake-3.27.7-slyoes (external cmake-3.27.7-b5zzpr3mwm7jxv6bvvrs6zpeg62cfhbu) | |
| ==> cuda@12.0.0 : has external module in ['cuda/12.0.0'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/cuda-12.0.0-ucajzb (external cuda-12.0.0-3fsjp3mjnqnrrtfa6vspkddejnyei5sa) | |
| ==> flex@2.6.3 : has external module in ['flex/2.6.3'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/flex-2.6.3-edx4lf (external flex-2.6.3-77vzaxsa3g7wr3omktr4skpetx5ds4pt) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/bzip2-1.0.8-vdqwmg | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libiconv-1.17-nv4xh4 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/xz-5.4.1-wwn5en | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/ncurses-6.4-6kdbhv | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gmake-4.4.1-swjylu | |
| ==> hpe-mpi@2.27.p1.hmpt : has external module in ['hpe-mpi/2.27.p1.hmpt'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/hpe-mpi-2.27.p1.hmpt-6rr256 (external hpe-mpi-2.27.p1.hmpt-h6t3hgbguhacajbyzlp43xpawsnreb3m) | |
| ==> ninja@1.11.1 : has external module in ['ninja/1.11.1'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/ninja-1.11.1-nxtlgo (external ninja-1.11.1-omn6mm4a3zsbpbkptvdwxs6kkrh6yafw) | |
| ==> python@3.11.6 : has external module in ['python/3.11.6'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/python-3.11.6-bj4i6m (external python-3.11.6-5wl76vphfvpcapfaipipf7xn2xylnc4o) | |
| ==> intel-oneapi-mkl@2023.2.0 : has external module in ['intel-oneapi-mkl/2023.2.0'] | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_externals/install_gcc-12.3.0-skylake/intel-oneapi-mkl-2023.2.0-twl2n4 (external intel-oneapi-mkl-2023.2.0-w2ldcy2y2urm3uaa7omu3w7nhwsqt433) | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/fmt-10.1.1-evtttr | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pkgconf-1.9.5-e533uu | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/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/libyaml-0.2.5-bzl4xc | |
| [+] /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/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-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/spdlog-1.12.0-ihotvb | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libxml2-2.10.3-oh2g4i | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/binutils-2.41-tj3mv5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/hdf5-1.14.3-5o77ye | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/tar-1.34-zz4acm | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pyyaml-5.4.1-2inh3r | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pybind11-2.11.1-tabj2m | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-markupsafe-2.1.3-r3ehtm | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-iniconfig-2.0.0-mvxx6g | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-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-pluggy-1.0.0-6su7kv | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-find-libpython-0.3.1-5dylnc | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-numpy-1.26.1-elr5pn | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gettext-0.22.3-nbi5w5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-sympy-1.11.1-t5tove | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-7.3.2-lrf2u3 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_gcc-12.3.0-skylake/nmodl-git.ffe4f68d642a007a8abdf0dc6cf4dbffcc9ae47f_develop-urvvby | |
| [+] /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/P237020/software/install_nvhpc-23.1-skylake/libsonata-report-git.b42e72121c5c299188601f914da0c3f3d0f196ca_develop-tz3fxv | |
| ==> Installing neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=develop-ertgsyllebdi6c6qp6thoskfwztst3kj [50/50] | |
| ==> No binary for neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=develop-ertgsyllebdi6c6qp6thoskfwztst3kj found: installing from source | |
| ==> No patches needed for neuron | |
| ==> neuron: Executing phase: 'cmake' | |
| ==> neuron: Executing phase: 'build' | |
| ==> neuron: Executing phase: 'install' | |
| ==> neuron: Successfully installed neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=develop-ertgsyllebdi6c6qp6thoskfwztst3kj | |
| Stage: 13.67s. Cmake: 1m 52.64s. Build: 23m 6.05s. Install: 23.38s. Post-install: 1.30s. Total: 25m 37.70s | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_nvhpc-23.1-skylake/neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee_develop-ertgsy | |
| [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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined the installed hash to be ertgsyllebdi6c6qp6thoskfwztst3kj | |
| [32;1m$ 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/bbpcihpcproj12/2605590/ccache | |
| Config file: /nvme/bbpcihpcproj12/2605590/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: Tue Oct 29 13:08:15 2024 | |
| Cacheable calls: 988 / 1093 (90.39%) | |
| Hits: 957 / 988 (96.86%) | |
| Direct: 512 / 957 (53.50%) | |
| Preprocessed: 445 / 957 (46.50%) | |
| Misses: 31 / 988 ( 3.14%) | |
| Uncacheable calls: 105 / 1093 ( 9.61%) | |
| Autoconf compile/link: 5 / 105 ( 4.76%) | |
| Called for linking: 87 / 105 (82.86%) | |
| Called for preprocessing: 2 / 105 ( 1.90%) | |
| Compilation failed: 2 / 105 ( 1.90%) | |
| No input file: 8 / 105 ( 7.62%) | |
| Preprocessing failed: 1 / 105 ( 0.95%) | |
| Successful lookups: | |
| Direct: 512 / 991 (51.66%) | |
| Preprocessed: 445 / 478 (93.10%) | |
| Local storage: | |
| Cache size (GB): 0.46 / 0.51 (89.70%) | |
| Files: 9205 | |
| Cleanups: 1 | |
| Hits: 957 / 990 (96.67%) | |
| Misses: 33 / 990 ( 3.33%) | |
| Reads: 1981 | |
| Writes: 432 | |
| [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:1730203697:step_script [0Ksection_start:1730203697:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| Using git from spack modules | |
| [32;1mCreating cache 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=150908 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%3Aneuron%3Anmodl%3Anvhpc%3Aacc%3Alegacy-1-non_protected[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1730203728:archive_cache [0Ksection_start:1730203728: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=151058 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=1469761 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=151099 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=1469761 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=151141 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=1469761 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| section_end:1730203730:upload_artifacts_on_success [0Ksection_start:1730203730: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:1730203731:cleanup_file_variables [0K[32;1mJob succeeded[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:1730201928:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1730201928:resolve_secrets [0Ksection_start:1730201928: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-executor1855409794, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
| Runner ID 29, project root hpc, project name nrn | |
| Pipeline ID 237020, build ref , job ID 1469763 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020, 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_J1469763_PROD_P2160_CP9_C12 | |
| 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 2605592 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1469763_PROD_P2160_CP9_C12 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020 --time=2:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020 --ntasks=2 --jobid=2605592 --cpus-per-task=8 --mem=160G | |
| section_end:1730201930:prepare_executor [0Ksection_start:1730201930:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Using git from spack modules | |
| Running on r1i5n1 via bbpv1.epfl.ch... | |
| section_end:1730201935:prepare_script [0Ksection_start:1730201935: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:1730201936:get_sources [0Ksection_start:1730201936: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=301759 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:1730201942:restore_cache [0Ksection_start:1730201942:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| Using git from spack modules | |
| [32;1mDownloading artifacts for build:nmodl (1469758)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=301967 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=1469758 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
| section_end:1730201943:download_artifacts [0Ksection_start:1730201943: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/P237020/J1469763/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469763/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469763/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469763/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469763/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/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/P237020/J1469757/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:151 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:216 bind: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:233 flags: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:240 aliases: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
| _builtin debug: False | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
| --- concretizer: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469763/spack-config/concretizer.yaml:2 reuse: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
| [32;1m$ 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 (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020/J1469763_local_config) | |
| [32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron%nvhpc ~rx3d+caliper+gpu+coreneuron~legacy-unit+openmp~shared~sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^caliper+cuda cuda_arch=70 ^/urvvbyvfypytz5immoeuctjif5gcob4h | |
| [32;1m$ 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=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020 | |
| [32;1m$ 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/bbpcihpcproj12/2605592/ccache | |
| Config file: /nvme/bbpcihpcproj12/2605592/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: Tue Oct 29 12:39:08 2024 | |
| Local storage: | |
| Cache size (GB): 0.46 / 0.51 (90.24%) | |
| Files: 9603 | |
| 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 | |
| - ^/urvvbyvfypytz5immoeuctjif5gcob4h | |
| - ^caliper+cuda cuda_arch=70 | |
| Concretized | |
| -------------------------------- | |
| - jdotvze neuron@git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=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 | |
| - tz3fxvb ^libsonata-report@git.b42e72121c5c299188601f914da0c3f3d0f196ca=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 | |
| [+] urvvbyv ^nmodl@git.ffe4f68d642a007a8abdf0dc6cf4dbffcc9ae47f=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/P237020, 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/catch2-3.4.0-pywly2 | |
| [+] /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/papi-6.0.0.1-vol6np | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/adiak-0.4.0-hficqq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pigz-2.7-dwjcgu | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/hdf5-1.14.3-5o77ye | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libunwind-1.6.2-7xnekx | |
| [+] /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/libyaml-0.2.5-bzl4xc | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/libxml2-2.10.3-oh2g4i | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/binutils-2.41-tj3mv5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/nlohmann-json-3.9.1-teske2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/readline-8.2-pdugg7 | |
| [+] /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-pip-23.1.2-77ku3v | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/spdlog-1.12.0-ihotvb | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/tar-1.34-zz4acm | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pyyaml-5.4.1-2inh3r | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-coverage-7.2.6-wuxetk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-numpy-1.26.1-elr5pn | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pybind11-2.11.1-tabj2m | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-find-libpython-0.3.1-5dylnc | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpi4py-3.1.4-x733hw | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-packaging-23.1-uqml2t | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-setuptools-68.0.0-p3xbqx | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-iniconfig-2.0.0-mvxx6g | |
| ==> Installing libsonata-report-git.b42e72121c5c299188601f914da0c3f3d0f196ca=develop-tz3fxvbaiiukzdxyc6zhwxeagg7xqfii [44/55] | |
| ==> No binary for libsonata-report-git.b42e72121c5c299188601f914da0c3f3d0f196ca=develop-tz3fxvbaiiukzdxyc6zhwxeagg7xqfii 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.b42e72121c5c299188601f914da0c3f3d0f196ca=develop-tz3fxvbaiiukzdxyc6zhwxeagg7xqfii | |
| Stage: 2.04s. Cmake: 4.43s. Build: 1.37s. Install: 0.11s. Post-install: 0.11s. Total: 8.28s | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_nvhpc-23.1-skylake/libsonata-report-git.b42e72121c5c299188601f914da0c3f3d0f196ca_develop-tz3fxv | |
| [+] /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-pluggy-1.0.0-6su7kv | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpmath-1.2.1-4fflyi | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/elfutils-0.189-a46bi6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-7.3.2-lrf2u3 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-sympy-1.11.1-t5tove | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-cov-4.0.0-z5nf6n | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_gcc-12.3.0-skylake/nmodl-git.ffe4f68d642a007a8abdf0dc6cf4dbffcc9ae47f_develop-urvvby | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp | |
| ==> Installing neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=develop-jdotvzejq5su43sqp33r7ab2ykywonkb [55/55] | |
| ==> No binary for neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=develop-jdotvzejq5su43sqp33r7ab2ykywonkb found: installing from source | |
| ==> No patches needed for neuron | |
| ==> neuron: Executing phase: 'cmake' | |
| ==> neuron: Executing phase: 'build' | |
| ==> neuron: Executing phase: 'install' | |
| ==> neuron: Successfully installed neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=develop-jdotvzejq5su43sqp33r7ab2ykywonkb | |
| Stage: 13.64s. Cmake: 3m 43.72s. Build: 32m 49.05s. Install: 20.31s. Post-install: 0.91s. Total: 37m 8.28s | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_nvhpc-23.1-skylake/neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee_develop-jdotvz | |
| [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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined the installed hash to be jdotvzejq5su43sqp33r7ab2ykywonkb | |
| [32;1m$ 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/bbpcihpcproj12/2605592/ccache | |
| Config file: /nvme/bbpcihpcproj12/2605592/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: Tue Oct 29 13:20:05 2024 | |
| Cacheable calls: 1014 / 1140 (88.95%) | |
| Hits: 979 / 1014 (96.55%) | |
| Direct: 536 / 979 (54.75%) | |
| Preprocessed: 443 / 979 (45.25%) | |
| Misses: 35 / 1014 ( 3.45%) | |
| Uncacheable calls: 126 / 1140 (11.05%) | |
| Autoconf compile/link: 5 / 126 ( 3.97%) | |
| Called for linking: 100 / 126 (79.37%) | |
| Called for preprocessing: 2 / 126 ( 1.59%) | |
| Compilation failed: 2 / 126 ( 1.59%) | |
| No input file: 16 / 126 (12.70%) | |
| Preprocessing failed: 1 / 126 ( 0.79%) | |
| Successful lookups: | |
| Direct: 536 / 1013 (52.91%) | |
| Preprocessed: 443 / 476 (93.07%) | |
| Local storage: | |
| Cache size (GB): 0.47 / 0.51 (91.38%) | |
| Files: 9849 | |
| Cleanups: 2 | |
| Hits: 979 / 1012 (96.74%) | |
| Misses: 33 / 1012 ( 3.26%) | |
| Reads: 2025 | |
| Writes: 430 | |
| [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:1730204407:step_script [0Ksection_start:1730204407:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| Using git from spack modules | |
| [32;1mCreating cache 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=51804 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%3Aneuron%3Anmodl%3Anvhpc%3Aomp%3Alegacy-1-non_protected[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1730204430:archive_cache [0Ksection_start:1730204430: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=51975 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=1469763 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=52013 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=1469763 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=52055 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=1469763 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| section_end:1730204432:upload_artifacts_on_success [0Ksection_start:1730204432: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:1730204433:cleanup_file_variables [0K[32;1mJob succeeded[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:1730201929:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1730201929:resolve_secrets [0Ksection_start:1730201929: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-executor2762807792, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
| Runner ID 29, project root hpc, project name nrn | |
| Pipeline ID 237020, build ref , job ID 1469764 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020, 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_J1469764_PROD_P2160_CP10_C13 | |
| 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 2605593 | |
| 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_J1469764_PROD_P2160_CP10_C13 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020 --time=2:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020 --ntasks=2 --jobid=2605593 --cpus-per-task=8 --mem=160G | |
| section_end:1730201933:prepare_executor [0Ksection_start:1730201933:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Using git from spack modules | |
| Running on r1i5n2 via bbpv1.epfl.ch... | |
| section_end:1730201936:prepare_script [0Ksection_start:1730201936: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:1730201937:get_sources [0Ksection_start:1730201937: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=242196 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:1730201942:restore_cache [0Ksection_start:1730201942:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| Using git from spack modules | |
| [32;1mDownloading artifacts for build:nmodl (1469758)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=242613 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=1469758 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
| section_end:1730201943:download_artifacts [0Ksection_start:1730201943: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/P237020/J1469764/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469764/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469764/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469764/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469764/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/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/P237020/J1469757/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:151 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:216 bind: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:233 flags: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:240 aliases: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
| _builtin debug: False | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
| --- concretizer: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469764/spack-config/concretizer.yaml:2 reuse: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
| [32;1m$ 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 (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020/J1469764_local_config) | |
| [32;1m$ 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 ${SPACK_FULL_SPEC}"[0;m | |
| Preparing to install neuron%nvhpc ~rx3d+caliper+gpu+coreneuron~legacy-unit+openmp~shared+sympy+tests~unified build_type=FastDebug model_tests=channel-benchmark,olfactory,tqperf-heavy ^caliper+cuda cuda_arch=70 ^/urvvbyvfypytz5immoeuctjif5gcob4h | |
| [32;1m$ 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=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020 | |
| [32;1m$ 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/bbpcihpcproj12/2605593/ccache | |
| Config file: /nvme/bbpcihpcproj12/2605593/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: Tue Oct 29 12:39:09 2024 | |
| Local storage: | |
| Cache size (GB): 0.47 / 0.51 (91.86%) | |
| Files: 9870 | |
| 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 | |
| - ^/urvvbyvfypytz5immoeuctjif5gcob4h | |
| - ^caliper+cuda cuda_arch=70 | |
| Concretized | |
| -------------------------------- | |
| - 4mmn3yd neuron@git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=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 | |
| - tz3fxvb ^libsonata-report@git.b42e72121c5c299188601f914da0c3f3d0f196ca=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 | |
| [+] urvvbyv ^nmodl@git.ffe4f68d642a007a8abdf0dc6cf4dbffcc9ae47f=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/P237020, 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/libunwind-1.6.2-7xnekx | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/papi-6.0.0.1-vol6np | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/adiak-0.4.0-hficqq | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/pigz-2.7-dwjcgu | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/readline-8.2-pdugg7 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/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/libxml2-2.10.3-oh2g4i | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/catch2-3.4.0-pywly2 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/binutils-2.41-tj3mv5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/hdf5-1.14.3-5o77ye | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/cli11-2.3.2-ud3ech | |
| [+] /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-pluggy-1.0.0-6su7kv | |
| [+] /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-markupsafe-2.1.3-r3ehtm | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-coverage-7.2.6-wuxetk | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-mpmath-1.2.1-4fflyi | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-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-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-numpy-1.26.1-elr5pn | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-iniconfig-2.0.0-mvxx6g | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/gettext-0.22.3-nbi5w5 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pybind11-2.11.1-tabj2m | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-find-libpython-0.3.1-5dylnc | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-jinja2-3.1.2-7valid | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pyyaml-5.4.1-2inh3r | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-sympy-1.11.1-t5tove | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-pytest-7.3.2-lrf2u3 | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/elfutils-0.189-a46bi6 | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_gcc-12.3.0-skylake/nmodl-git.ffe4f68d642a007a8abdf0dc6cf4dbffcc9ae47f_develop-urvvby | |
| [+] /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://mirror.spack.io/_source-cache/archive/b8/b86b733cbb73495d5f3fe06e6a9885ec77365c8aa9195e7654581180adc2217c.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: 0.62s. Cmake: 9.46s. Build: 9.11s. Install: 1.16s. Post-install: 0.19s. Total: 20.87s | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_gcc-12.3.0-skylake/caliper-2.11.0-vjj3tp | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_nvhpc-23.1-skylake/libsonata-report-git.b42e72121c5c299188601f914da0c3f3d0f196ca_develop-tz3fxv | |
| ==> Installing neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=develop-4mmn3ydan72swwznbxtn6mkiwgx4h7cn [55/55] | |
| ==> No binary for neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=develop-4mmn3ydan72swwznbxtn6mkiwgx4h7cn found: installing from source | |
| ==> No patches needed for neuron | |
| ==> neuron: Executing phase: 'cmake' | |
| ==> neuron: Executing phase: 'build' | |
| ==> neuron: Executing phase: 'install' | |
| ==> neuron: Successfully installed neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee=develop-4mmn3ydan72swwznbxtn6mkiwgx4h7cn | |
| Stage: 26.36s. Cmake: 2m 12.58s. Build: 28m 42.68s. Install: 44.44s. Post-install: 3.83s. Total: 32m 14.95s | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_nvhpc-23.1-skylake/neuron-git.cda3bc9b659b135d1d42c9a3e7daec8d060322ee_develop-4mmn3y | |
| [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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined the installed hash to be 4mmn3ydan72swwznbxtn6mkiwgx4h7cn | |
| [32;1m$ 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/bbpcihpcproj12/2605593/ccache | |
| Config file: /nvme/bbpcihpcproj12/2605593/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: Tue Oct 29 13:15:30 2024 | |
| Cacheable calls: 1151 / 1289 (89.29%) | |
| Hits: 1116 / 1151 (96.96%) | |
| Direct: 670 / 1116 (60.04%) | |
| Preprocessed: 446 / 1116 (39.96%) | |
| Misses: 35 / 1151 ( 3.04%) | |
| Uncacheable calls: 138 / 1289 (10.71%) | |
| Autoconf compile/link: 5 / 138 ( 3.62%) | |
| Called for linking: 104 / 138 (75.36%) | |
| Called for preprocessing: 4 / 138 ( 2.90%) | |
| Compilation failed: 2 / 138 ( 1.45%) | |
| No input file: 22 / 138 (15.94%) | |
| Preprocessing failed: 1 / 138 ( 0.72%) | |
| Successful lookups: | |
| Direct: 670 / 1150 (58.26%) | |
| Preprocessed: 446 / 479 (93.11%) | |
| Local storage: | |
| Cache size (GB): 0.47 / 0.51 (91.73%) | |
| Files: 9952 | |
| Cleanups: 3 | |
| Hits: 1116 / 1149 (97.13%) | |
| Misses: 33 / 1149 ( 2.87%) | |
| Reads: 2298 | |
| Writes: 432 | |
| [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:1730204139:step_script [0Ksection_start:1730204139:archive_cache [0K[0K[36;1mSaving cache for successful job[0;m[0;m | |
| Using git from spack modules | |
| [32;1mCreating cache 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=291393 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%3Aneuron%3Anmodl%3Anvhpc%3Aomp-1-non_protected[0;m | |
| [32;1mCreated cache[0;m | |
| section_end:1730204164:archive_cache [0Ksection_start:1730204164: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=291643 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=1469764 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=291682 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=1469764 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=291720 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=1469764 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| section_end:1730204165:upload_artifacts_on_success [0Ksection_start:1730204165: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:1730204166:cleanup_file_variables [0K[32;1mJob succeeded[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:1730201582:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1730201582:resolve_secrets [0Ksection_start:1730201582: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-executor3279033699, slurm job id , CUSTOM_ENV_CI_RUNNER_TAGS is ["bb5_map"] | |
| Runner ID 29, project root hpc, project name nrn | |
| Pipeline ID 237020, build ref , job ID 1469758 | |
| Build dir /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020, 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_J1469758_PROD_P2160_CP0_C0 | |
| Job parameters: memory=160G, cpus_per_task=8, duration=1:00:00, constraint=cpu ntasks=2 account=proj9998 user=bbpcihpcproj12 partition=prod qos= reservation= | |
| Not executing the chown -R | |
| sbatch: INFO: Activating auto partition selection plugin, please report errors to HPC/CS | |
| sbatch: INFO: Job specifies cpu constraint, setting --constraint=[skl|clx] | |
| Submitted batch job 2605582 | |
| job state: R | |
| sbatch: sbatch -p prod -A proj9998 --ntasks=2 --cpus-per-task=8 --mem=160G --job-name=GL_J1469758_PROD_P2160_CP0_C0 -C cpu --no-requeue -D /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020 --time=1:00:00 --wrap="sleep infinity" | |
| srun: srun --mpi=none --chdir=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020 --ntasks=2 --jobid=2605582 --cpus-per-task=8 --mem=160G | |
| section_end:1730201584:prepare_executor [0Ksection_start:1730201584:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Using git from spack modules | |
| Running on r1i5n29 via bbpv1.epfl.ch... | |
| section_end:1730201588:prepare_script [0Ksection_start:1730201588: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:1730201589:get_sources [0Ksection_start:1730201589: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=49703 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:1730201594:restore_cache [0Ksection_start:1730201594:download_artifacts [0K[0K[36;1mDownloading artifacts[0;m[0;m | |
| Using git from spack modules | |
| [32;1mDownloading artifacts for spack_setup (1469757)...[0;m | |
| Runtime platform [0;m arch[0;m=amd64 os[0;m=linux pid[0;m=49842 revision[0;m=58ba2b95 version[0;m=14.2.0 | |
| Downloading artifacts from coordinator... ok [0;m id[0;m=1469757 responseStatus[0;m=200 OK token[0;m=glcbt-64 | |
| section_end:1730201595:download_artifacts [0Ksection_start:1730201595: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/P237020/J1469758/spack-config/config.yaml:2 build_stage: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469758/spack-config/config.yaml:3 - /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469758/spack-build | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469758/spack-config/config.yaml:4 source_cache: /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469758/spack-source-cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/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/P237020/J1469757/spack/etc/spack/defaults/config.yaml:18 extensions: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:19 - $spack/bluebrain/spack-scripting | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:37 template_dirs: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:38 - $spack/share/spack/templates | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:41 license_dir: $spack/etc/spack/licenses | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:81 test_stage: $user_cache_path/test | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:94 misc_cache: $user_cache_path/cache | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:100 connect_timeout: 10 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:105 verify_ssl: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:113 suppress_gpg_warnings: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:119 install_missing_compilers: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:124 checksum: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:129 deprecated: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:134 dirty: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:142 build_language: C | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:151 locks: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:156 url_fetch_method: urllib | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:185 concretizer: clingo | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:192 db_lock_timeout: 60 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:200 package_lock_timeout: null | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:205 shared_linking: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:210 type: rpath | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:216 bind: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:221 allow_sgid: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:227 install_status: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:231 binary_index_ttl: 600 | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:233 flags: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:235 keep_werror: none | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:240 aliases: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:241 concretise: concretize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:242 containerise: containerize | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/config.yaml:243 rm: remove | |
| _builtin debug: False | |
| [32;1m$ spack ${SPACK_EXTRA_FLAGS} config blame concretizer[0;m | |
| --- concretizer: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469758/spack-config/concretizer.yaml:2 reuse: False | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:23 targets: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:28 granularity: microarchitectures | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:32 host_compatible: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:38 unify: True | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:40 duplicates: | |
| /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/J1469757/spack/etc/spack/defaults/concretizer.yaml:44 strategy: minimal | |
| [32;1m$ 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 (${XDG_CONFIG_HOME})"[0;m | |
| Configuring git to use CI_JOB_TOKEN to access git@bbpgitlab.epfl.ch (/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs//bbpcihpcproj12/P237020/J1469758_local_config) | |
| [32;1m$ 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=${CCACHE_BASEDIR}[0;m | |
| CCACHE_BASEDIR=/gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020 | |
| [32;1m$ 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/bbpcihpcproj12/2605582/ccache | |
| Config file: /nvme/bbpcihpcproj12/2605582/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: Tue Oct 29 12:33:21 2024 | |
| Local storage: | |
| Cache size (GB): 0.46 / 0.51 (89.44%) | |
| Files: 8350 | |
| 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 | |
| -------------------------------- | |
| - urvvbyv nmodl@git.ffe4f68d642a007a8abdf0dc6cf4dbffcc9ae47f=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/P237020, 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-pybind11-2.11.1-tabj2m | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-find-libpython-0.3.1-5dylnc | |
| [+] /gpfs/bbp.cscs.ch/ssd/apps/bsd/2024-02-01/stage_applications/install_gcc-12.3.0-skylake/py-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.ffe4f68d642a007a8abdf0dc6cf4dbffcc9ae47f=develop-urvvbyvfypytz5immoeuctjif5gcob4h [19/19] | |
| ==> No binary for nmodl-git.ffe4f68d642a007a8abdf0dc6cf4dbffcc9ae47f=develop-urvvbyvfypytz5immoeuctjif5gcob4h 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.ffe4f68d642a007a8abdf0dc6cf4dbffcc9ae47f=develop-urvvbyvfypytz5immoeuctjif5gcob4h | |
| Stage: 45.00s. Cmake: 2.00s. Build: 1m 33.66s. Install: 0.86s. Post-install: 0.13s. Total: 2m 21.84s | |
| [+] /gpfs/bbp.cscs.ch/ssd/gitlab_map_jobs/bbpcihpcproj12/P237020/software/install_gcc-12.3.0-skylake/nmodl-git.ffe4f68d642a007a8abdf0dc6cf4dbffcc9ae47f_develop-urvvby | |
| [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 ${SPACK_INSTALLED_HASH}"[0;m | |
| Determined the installed hash to be urvvbyvfypytz5immoeuctjif5gcob4h | |
| [32;1m$ 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/bbpcihpcproj12/2605582/ccache | |
| Config file: /nvme/bbpcihpcproj12/2605582/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: Tue Oct 29 12:38:14 2024 | |
| Cacheable calls: 145 / 172 (84.30%) | |
| Hits: 143 / 145 (98.62%) | |
| Direct: 28 / 143 (19.58%) | |
| Preprocessed: 115 / 143 (80.42%) | |
| Misses: 2 / 145 ( 1.38%) | |
| Uncacheable calls: 27 / 172 (15.70%) | |
| Called for linking: 24 / 27 (88.89%) | |
| No input file: 3 / 27 (11.11%) | |
| Successful lookups: | |
| Direct: 28 / 145 (19.31%) | |
| Preprocessed: 115 / 117 (98.29%) | |
| Local storage: | |
| Cache size (GB): 0.46 / 0.51 (89.44%) | |
| Files: 8354 | |
| Hits: 143 / 145 (98.62%) | |
| Misses: 2 / 145 ( 1.38%) | |
| Reads: 290 | |
| 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:1730201896:step_script [0Ksection_start:1730201896: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=52726 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:1730201920:archive_cache [0Ksection_start:1730201920: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=52882 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=1469758 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=52923 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=1469758 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=52965 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=1469758 responseStatus[0;m=201 Created token[0;m=glcbt-64 | |
| section_end:1730201922:upload_artifacts_on_success [0Ksection_start:1730201922: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:1730201923: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:1730201473:resolve_secrets [0K[0K[36;1mResolving secrets[0;m[0;m | |
| section_end:1730201473:resolve_secrets [0Ksection_start:1730201473:prepare_executor [0K[0K[36;1mPreparing the "shell" executor[0;m[0;m | |
| [0KUsing Shell executor...[0;m | |
| section_end:1730201473:prepare_executor [0Ksection_start:1730201473:prepare_script [0K[0K[36;1mPreparing environment[0;m[0;m | |
| Running on bbpmacglr01.bbp.epfl.ch... | |
| section_end:1730201473:prepare_script [0Ksection_start:1730201473: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/1/P237020/J1469756/hpc/cellular/nrn/.git/ | |
| [32;1mCreated fresh repository.[0;m | |
| [32;1mChecking out cda3bc9b as leite/balanced_files...[0;m | |
| [32;1mSkipping Git submodules setup[0;m | |
| section_end:1730201475:get_sources [0Ksection_start:1730201475:restore_cache [0K[0K[36;1mRestoring cache[0;m[0;m | |
| [32;1mChecking cache for mac_m1_cmake_build: [cmake, ON, OFF, OFF, address]-leite/balanced_files-1-non_protected...[0;m | |
| Runtime platform [0;m arch[0;m=arm64 os[0;m=darwin pid[0;m=65033 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:1730201475:restore_cache [0Ksection_start:1730201475: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/tmp4t2wv5b_ | |
| Processing /private/var/folders/dm/mrnbn5ld56v61w1_hpbmskfw0000gp/T/tmp4t2wv5b_/setuptools-68.2.2-py3-none-any.whl | |
| Processing /private/var/folders/dm/mrnbn5ld56v61w1_hpbmskfw0000gp/T/tmp4t2wv5b_/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/1/P237020/J1469756/hpc/cellular/nrn/external/nmodl'... | |
| From https://github.com/BlueBrain/nmodl | |
| * branch e6250014dd2c5ae5d9cb30af6920668835b31137 -> FETCH_HEAD | |
| Submodule path 'external/nmodl': checked out 'e6250014dd2c5ae5d9cb30af6920668835b31137' | |
| 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/dlfcn-win32' (https://github.com/dlfcn-win32/dlfcn-win32) registered for path 'external/nmodl/ext/dlfcn-win32' | |
| 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/1/P237020/J1469756/hpc/cellular/nrn/external/nmodl/cmake/hpc-coding-conventions'... | |
| Cloning into '/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/external/nmodl/ext/backward'... | |
| Cloning into '/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/external/nmodl/ext/catch2'... | |
| Cloning into '/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/external/nmodl/ext/cli11'... | |
| Cloning into '/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/external/nmodl/ext/dlfcn-win32'... | |
| Cloning into '/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/external/nmodl/ext/eigen'... | |
| Cloning into '/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/external/nmodl/ext/fmt'... | |
| Cloning into '/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/external/nmodl/ext/json'... | |
| Cloning into '/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/external/nmodl/ext/pybind11'... | |
| Cloning into '/Users/gitlab-runner/builds/1/P237020/J1469756/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' | |
| Submodule path 'external/nmodl/ext/dlfcn-win32': checked out '048bff80f2bd00bb651bcc3357cb6f76e3d76fd5' | |
| 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 0c9fce2ffefecfdce794e1859584e25877b7b592 -> FETCH_HEAD | |
| Submodule path 'external/nmodl/ext/fmt': checked out '0c9fce2ffefecfdce794e1859584e25877b7b592' | |
| 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' | |
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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, 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, 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-3.0.2 PyYAML-6.0.2 alabaster-0.7.16 anyio-4.6.2.post1 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-24.2.0 babel-2.16.0 beautifulsoup4-4.12.3 bleach-6.1.0 certifi-2024.8.30 cffi-1.17.1 charset-normalizer-3.4.0 comm-0.2.2 coverage-7.6.4 debugpy-1.8.7 decorator-5.1.1 defusedxml-0.7.1 docutils-0.19 exceptiongroup-1.2.2 executing-2.1.0 fastjsonschema-2.20.0 find_libpython-0.4.0 fqdn-1.5.1 h11-0.14.0 httpcore-1.0.6 httpx-0.27.2 idna-3.10 imagesize-1.4.1 iniconfig-2.0.0 ipykernel-6.29.5 ipython-8.29.0 ipywidgets-8.1.5 isoduration-20.11.0 jedi-0.19.1 json5-0.9.25 jsonpointer-3.0.0 jsonschema-4.23.0 jsonschema-specifications-2024.10.1 jupyter-1.1.1 jupyter-client-8.6.3 jupyter-console-6.6.3 jupyter-core-5.7.2 jupyter-events-0.10.0 jupyter-lsp-2.2.5 jupyter-server-2.14.2 jupyter-server-terminals-0.5.3 jupyterlab-4.2.5 jupyterlab-pygments-0.3.0 jupyterlab-server-2.27.3 jupyterlab-widgets-3.0.13 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-0.9.5 nest-asyncio-1.6.0 notebook-7.2.2 notebook-shim-0.2.4 numpy-2.1.2 overrides-7.7.0 packaging-24.1 pandocfilters-1.5.1 parso-0.8.4 pathspec-0.12.1 pexpect-4.9.0 platformdirs-4.3.6 pluggy-1.5.0 prometheus-client-0.21.0 prompt-toolkit-3.0.48 psutil-6.1.0 ptyprocess-0.7.0 pure-eval-0.2.3 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-26.2.0 referencing-0.35.1 requests-2.32.3 rfc3339-validator-0.1.4 rfc3986-validator-0.1.1 rpds-py-0.20.0 scikit-build-core-0.10.7 scipy-1.14.1 send2trash-1.8.3 setuptools-scm-8.1.0 six-1.16.0 sniffio-1.3.1 snowballstemmer-2.2.0 soupsieve-2.6 sphinx-5.3.0 sphinx-rtd-theme-2.0.0 sphinxcontrib-applehelp-1.0.2 sphinxcontrib-devhelp-2.0.0 sphinxcontrib-htmlhelp-2.0.0 sphinxcontrib-jquery-4.1 sphinxcontrib-jsmath-1.0.1 sphinxcontrib-qthelp-2.0.0 sphinxcontrib-serializinghtml-2.0.0 stack-data-0.6.3 sympy-1.13.3 terminado-0.18.1 tinycss2-1.4.0 tomli-2.0.2 tornado-6.4.1 traitlets-5.14.3 types-python-dateutil-2.9.0.20241003 typing-extensions-4.12.2 uri-template-1.3.0 urllib3-2.2.3 wcwidth-0.2.13 webcolors-24.8.0 webencodings-0.5.1 websocket-client-1.8.0 widgetsnbextension-4.0.13 | |
| [notice] A new release of pip is available: 23.3.1 -> 24.3.1 | |
| [notice] To update, run: /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/venv/bin/python3 -m pip install --upgrade pip | |
| [32;1m$ venv/bin/pip install --upgrade pip -r nrn_requirements.txt[0;m | |
| Requirement already satisfied: pip in ./venv/lib/python3.10/site-packages (23.3.1) | |
| Collecting pip | |
| Using cached pip-24.3.1-py3-none-any.whl.metadata (3.7 kB) | |
| Collecting wheel (from -r nrn_requirements.txt (line 1)) | |
| Using cached wheel-0.44.0-py3-none-any.whl.metadata (2.3 kB) | |
| Requirement already satisfied: setuptools_scm in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 2)) (8.1.0) | |
| Requirement already satisfied: setuptools<=70.3.0 in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 3)) (68.2.2) | |
| Collecting setuptools<=70.3.0 (from -r nrn_requirements.txt (line 3)) | |
| Using cached setuptools-70.3.0-py3-none-any.whl.metadata (5.8 kB) | |
| Collecting scikit-build (from -r nrn_requirements.txt (line 4)) | |
| Using cached scikit_build-0.18.1-py3-none-any.whl.metadata (18 kB) | |
| Collecting matplotlib (from -r nrn_requirements.txt (line 5)) | |
| Using cached matplotlib-3.9.2-cp310-cp310-macosx_11_0_arm64.whl.metadata (11 kB) | |
| Requirement already satisfied: ipython in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 6)) (8.29.0) | |
| Collecting cython (from -r nrn_requirements.txt (line 7)) | |
| Using cached Cython-3.0.11-py2.py3-none-any.whl.metadata (3.2 kB) | |
| Requirement already satisfied: packaging in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 8)) (24.1) | |
| Requirement already satisfied: pytest<=8.1.1 in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 9)) (8.1.1) | |
| Requirement already satisfied: pytest-cov in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 10)) (5.0.0) | |
| Collecting mpi4py<4 (from -r nrn_requirements.txt (line 11)) | |
| Using cached mpi4py-3.1.6-cp310-cp310-macosx_12_0_arm64.whl | |
| Requirement already satisfied: numpy in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 12)) (2.1.2) | |
| Requirement already satisfied: find_libpython in ./venv/lib/python3.10/site-packages (from -r nrn_requirements.txt (line 13)) (0.4.0) | |
| Requirement already satisfied: tomli>=1 in ./venv/lib/python3.10/site-packages (from setuptools_scm->-r nrn_requirements.txt (line 2)) (2.0.2) | |
| Collecting distro (from scikit-build->-r nrn_requirements.txt (line 4)) | |
| Using cached distro-1.9.0-py3-none-any.whl.metadata (6.8 kB) | |
| Collecting contourpy>=1.0.1 (from matplotlib->-r nrn_requirements.txt (line 5)) | |
| Using cached contourpy-1.3.0-cp310-cp310-macosx_11_0_arm64.whl.metadata (5.4 kB) | |
| Collecting cycler>=0.10 (from matplotlib->-r nrn_requirements.txt (line 5)) | |
| Using cached cycler-0.12.1-py3-none-any.whl.metadata (3.8 kB) | |
| Collecting fonttools>=4.22.0 (from matplotlib->-r nrn_requirements.txt (line 5)) | |
| Using cached fonttools-4.54.1-cp310-cp310-macosx_11_0_arm64.whl.metadata (163 kB) | |
| Collecting kiwisolver>=1.3.1 (from matplotlib->-r nrn_requirements.txt (line 5)) | |
| Using cached kiwisolver-1.4.7-cp310-cp310-macosx_11_0_arm64.whl.metadata (6.3 kB) | |
| Collecting pillow>=8 (from matplotlib->-r nrn_requirements.txt (line 5)) | |
| Using cached pillow-11.0.0-cp310-cp310-macosx_11_0_arm64.whl.metadata (9.1 kB) | |
| Collecting pyparsing>=2.3.1 (from matplotlib->-r nrn_requirements.txt (line 5)) | |
| Using cached pyparsing-3.2.0-py3-none-any.whl.metadata (5.0 kB) | |
| Requirement already satisfied: python-dateutil>=2.7 in ./venv/lib/python3.10/site-packages (from matplotlib->-r nrn_requirements.txt (line 5)) (2.9.0.post0) | |
| Requirement already satisfied: decorator in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 6)) (5.1.1) | |
| Requirement already satisfied: jedi>=0.16 in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 6)) (0.19.1) | |
| Requirement already satisfied: matplotlib-inline in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 6)) (0.1.7) | |
| Requirement already satisfied: prompt-toolkit<3.1.0,>=3.0.41 in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 6)) (3.0.48) | |
| Requirement already satisfied: pygments>=2.4.0 in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 6)) (2.18.0) | |
| Requirement already satisfied: stack-data in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 6)) (0.6.3) | |
| Requirement already satisfied: traitlets>=5.13.0 in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 6)) (5.14.3) | |
| Requirement already satisfied: exceptiongroup in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 6)) (1.2.2) | |
| Requirement already satisfied: typing-extensions>=4.6 in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 6)) (4.12.2) | |
| Requirement already satisfied: pexpect>4.3 in ./venv/lib/python3.10/site-packages (from ipython->-r nrn_requirements.txt (line 6)) (4.9.0) | |
| Requirement already satisfied: iniconfig in ./venv/lib/python3.10/site-packages (from pytest<=8.1.1->-r nrn_requirements.txt (line 9)) (2.0.0) | |
| Requirement already satisfied: pluggy<2.0,>=1.4 in ./venv/lib/python3.10/site-packages (from pytest<=8.1.1->-r nrn_requirements.txt (line 9)) (1.5.0) | |
| Requirement already satisfied: coverage>=5.2.1 in ./venv/lib/python3.10/site-packages (from coverage[toml]>=5.2.1->pytest-cov->-r nrn_requirements.txt (line 10)) (7.6.4) | |
| Requirement already satisfied: parso<0.9.0,>=0.8.3 in ./venv/lib/python3.10/site-packages (from jedi>=0.16->ipython->-r nrn_requirements.txt (line 6)) (0.8.4) | |
| Requirement already satisfied: ptyprocess>=0.5 in ./venv/lib/python3.10/site-packages (from pexpect>4.3->ipython->-r nrn_requirements.txt (line 6)) (0.7.0) | |
| Requirement already satisfied: wcwidth in ./venv/lib/python3.10/site-packages (from prompt-toolkit<3.1.0,>=3.0.41->ipython->-r nrn_requirements.txt (line 6)) (0.2.13) | |
| Requirement already satisfied: six>=1.5 in ./venv/lib/python3.10/site-packages (from python-dateutil>=2.7->matplotlib->-r nrn_requirements.txt (line 5)) (1.16.0) | |
| Requirement already satisfied: executing>=1.2.0 in ./venv/lib/python3.10/site-packages (from stack-data->ipython->-r nrn_requirements.txt (line 6)) (2.1.0) | |
| Requirement already satisfied: asttokens>=2.1.0 in ./venv/lib/python3.10/site-packages (from stack-data->ipython->-r nrn_requirements.txt (line 6)) (2.4.1) | |
| Requirement already satisfied: pure-eval in ./venv/lib/python3.10/site-packages (from stack-data->ipython->-r nrn_requirements.txt (line 6)) (0.2.3) | |
| Using cached pip-24.3.1-py3-none-any.whl (1.8 MB) | |
| Using cached wheel-0.44.0-py3-none-any.whl (67 kB) | |
| Using cached setuptools-70.3.0-py3-none-any.whl (931 kB) | |
| Using cached scikit_build-0.18.1-py3-none-any.whl (85 kB) | |
| Using cached matplotlib-3.9.2-cp310-cp310-macosx_11_0_arm64.whl (7.8 MB) | |
| Using cached Cython-3.0.11-py2.py3-none-any.whl (1.2 MB) | |
| Using cached contourpy-1.3.0-cp310-cp310-macosx_11_0_arm64.whl (249 kB) | |
| Using cached cycler-0.12.1-py3-none-any.whl (8.3 kB) | |
| Using cached fonttools-4.54.1-cp310-cp310-macosx_11_0_arm64.whl (2.3 MB) | |
| Using cached kiwisolver-1.4.7-cp310-cp310-macosx_11_0_arm64.whl (64 kB) | |
| Using cached pillow-11.0.0-cp310-cp310-macosx_11_0_arm64.whl (3.0 MB) | |
| Using cached pyparsing-3.2.0-py3-none-any.whl (106 kB) | |
| Using cached distro-1.9.0-py3-none-any.whl (20 kB) | |
| Installing collected packages: wheel, setuptools, pyparsing, pip, pillow, mpi4py, kiwisolver, fonttools, distro, cython, cycler, contourpy, scikit-build, matplotlib | |
| Attempting uninstall: setuptools | |
| Found existing installation: setuptools 68.2.2 | |
| Uninstalling setuptools-68.2.2: | |
| Successfully uninstalled setuptools-68.2.2 | |
| Attempting uninstall: pip | |
| Found existing installation: pip 23.3.1 | |
| Uninstalling pip-23.3.1: | |
| Successfully uninstalled pip-23.3.1 | |
| Successfully installed contourpy-1.3.0 cycler-0.12.1 cython-3.0.11 distro-1.9.0 fonttools-4.54.1 kiwisolver-1.4.7 matplotlib-3.9.2 mpi4py-3.1.6 pillow-11.0.0 pip-24.3.1 pyparsing-3.2.0 scikit-build-0.18.1 setuptools-70.3.0 wheel-0.44.0 | |
| [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 ${cmake_args[@]}"[0;m | |
| Building with -G Ninja -DCMAKE_BUILD_TYPE=Custom -DCMAKE_C_FLAGS=-O1 -g -DCMAKE_CXX_FLAGS=-O1 -g -DNRN_SANITIZERS=address -DCMAKE_C_COMPILER=gcc -DCMAKE_C_COMPILER_LAUNCHER=ccache -DCMAKE_CXX_COMPILER=g++ -DCMAKE_CXX_COMPILER_LAUNCHER=ccache -DCMAKE_INSTALL_PREFIX=/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/install -DNRN_ENABLE_TESTS=ON -DNRN_ENABLE_PERFORMANCE_TESTS=OFF -DNRN_ENABLE_CORENEURON=ON -DNRN_ENABLE_INTERVIEWS=OFF -DNRN_ENABLE_RX3D=OFF -DPYTHON_EXECUTABLE=/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/venv/bin/python | |
| [32;1m$ 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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/external/fmt'... | |
| Submodule path 'external/fmt': checked out '0c9fce2ffefecfdce794e1859584e25877b7b592' | |
| -- {fmt} version: 11.0.2 | |
| -- 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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/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 (e625001 2024-09-10 09:00:35 -0400) | |
| -- | |
| -- 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/1/P237020/J1469756/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/1/P237020/J1469756/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 | OFF | |
| -- NMODL PATH | /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/coreneuron | |
| -- LINK FLAGS | -lcorenrnmech -Wl,-rpath,/opt/homebrew/Cellar/open-mpi/5.0.1/lib /opt/homebrew/Cellar/open-mpi/5.0.1/lib/libmpi.dylib | |
| -- Tests | ON | |
| -- --------------+-------------------------------------------------------------- | |
| -- See documentation : https://www.neuron.yale.edu/neuron/ | |
| -- --------------+-------------------------------------------------------------- | |
| -- | |
| -- Configuring done (28.5s) | |
| -- Generating done (0.2s) | |
| -- Build files have been written to: /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/ccache | |
| Config file: /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/ccache/ccache.conf | |
| System config file: /opt/homebrew/Cellar/ccache/4.9/etc/ccache.conf | |
| Stats updated: Tue Oct 29 12:32:33 2024 | |
| Local storage: | |
| Cache size (GiB): 0.0 / 5.0 ( 0.00%) | |
| Files: 0 | |
| Hits: 0 | |
| Misses: 0 | |
| Reads: 0 | |
| Writes: 0 | |
| [32;1m$ cmake --build . --parallel[0;m | |
| [0/2] Re-checking globbed directories... | |
| [1/1945] Generating share/nrn/demo/cycle.hoc | |
| [2/1945] Generating share/nrn/demo/d3init.hoc | |
| [3/1945] Generating share/nrn/demo/dend3.ses | |
| [4/1945] Generating share/nrn/demo/dend3/syn3.hoc | |
| [5/1945] Generating share/nrn/demo/demo.hoc | |
| [6/1945] Generating share/nrn/demo/demo.ses | |
| [7/1945] Generating share/nrn/demo/dend3/dend3.nrn | |
| [8/1945] Generating share/nrn/demo/dend3/control.hoc | |
| [9/1945] Generating share/nrn/demo/dynclamp.hoc | |
| [10/1945] Generating share/nrn/demo/dynchan.ses | |
| [11/1945] Generating share/nrn/demo/dynclamp.ses | |
| [12/1945] Generating share/nrn/demo/hh.hoc | |
| [13/1945] Update hh.mod for CoreNEURON compatibility | |
| [14/1945] Generating share/nrn/demo/hh.ses | |
| [15/1945] Generating share/nrn/demo/nomodel.hoc | |
| [16/1945] Generating share/nrn/demo/pyramid.nrn | |
| [17/1945] Generating share/nrn/demo/release.hoc | |
| [18/1945] Generating share/nrn/demo/reconst.hoc | |
| [19/1945] Generating share/nrn/demo/release.ses | |
| [20/1945] Generating share/nrn/demo/pyramid.ses | |
| [21/1945] Generating share/nrn/demo/release/cabpump.mod | |
| [22/1945] Generating share/nrn/demo/release/cachan1.mod | |
| [23/1945] Generating share/nrn/demo/release/camchan.mod | |
| [24/1945] Generating share/nrn/demo/release/capump.mod | |
| [25/1945] Generating share/nrn/demo/release/invlfire.mod | |
| [26/1945] Generating share/nrn/demo/release/nacaex.mod | |
| [27/1945] Generating share/nrn/demo/release/capmpr.mod | |
| [28/1945] Generating share/nrn/demo/release/khhchan.mod | |
| [29/1945] Generating share/nrn/demo/release/nachan.mod | |
| [30/1945] Generating share/nrn/demo/singhh.hoc | |
| [31/1945] Generating share/nrn/demo/release/release.mod | |
| [32/1945] Generating share/nrn/demo/sync/cell.hoc | |
| [33/1945] Generating share/nrn/demo/singhh.ses | |
| [34/1945] Generating share/nrn/demo/sync/demosync.hoc | |
| [35/1945] Generating share/nrn/demo/sync/init.hoc | |
| [36/1945] Generating share/nrn/demo/singhhchan.hoc | |
| [37/1945] Generating share/nrn/demo/sync/synchronize.hoc | |
| [38/1945] Generating share/nrn/demo/sync/spkplot.hoc | |
| [39/1945] Generating share/nrn/demo/sync/start.ses | |
| [40/1945] Generating share/nrn/demo/testca.hoc | |
| [41/1945] Generating share/nrn/lib/auditscripts/gettarname | |
| [42/1945] Generating share/nrn/lib/auditscripts/hocaudit.sh | |
| [43/1945] Generating share/nrn/lib/auditscripts/retrieve.sh | |
| [44/1945] Generating share/nrn/lib/cleanup | |
| [45/1945] Generating share/nrn/lib/auditscripts/saveaudit | |
| [46/1945] Generating share/nrn/lib/auditscripts/notes | |
| [47/1945] Generating share/nrn/lib/hoc/atoltool.hoc | |
| [48/1945] Generating share/nrn/lib/helpdict | |
| [49/1945] Generating share/nrn/lib/hoc/attshape.hoc | |
| [50/1945] Generating share/nrn/lib/hoc/celbild/celbild1.hoc | |
| [51/1945] Generating share/nrn/lib/hoc/binfo.hoc | |
| [52/1945] Generating share/nrn/lib/hoc/celbild.hoc | |
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| ../src/oc/parse.ypp: warning: 108 shift/reduce conflicts [-Wconflicts-sr] | |
| ../src/oc/parse.ypp: note: rerun with option '-Wcounterexamples' to generate conflict counterexamples | |
| [543/1945] [BISON][nocmodlparser] Building parser with bison 3.8.2 | |
| ../src/nocmodl/parse1.ypp: warning: 3 shift/reduce conflicts [-Wconflicts-sr] | |
| ../src/nocmodl/parse1.ypp: note: rerun with option '-Wcounterexamples' to generate conflict counterexamples | |
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| ../../../../../external/nmodl/src/lexer/nmodl.ll:503: warning, -s option given but default rule can be matched | |
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| ../../../../../external/nmodl/src/lexer/diffeq.ll:100: warning, -s option given but default rule can be matched | |
| [566/1945] -- NMODL : GENERATING VERBATIM LEXER WITH FLEX! -- | |
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| ../../../../../external/nmodl/src/lexer/unit.ll:171: warning, -s option given but default rule can be matched | |
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| [662/1945] Generating ../../include/nrncvode/nrnneosm.h | |
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| [675/1945] Linking CXX static library lib/libcodegen.a | |
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| [678/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/generators/catch_generators_random.cpp.o | |
| [679/1945] Linking CXX executable bin/nmodl | |
| [680/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/benchmark/detail/catch_stats.cpp.o | |
| [681/1945] cd /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/git2nrnversion_h.sh /Users/gitlab-runner/builds/1/P237020/J1469756/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. | |
| [682/1945] cd /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/src/nrniv && true | |
| [683/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_event_listener.cpp.o | |
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| [686/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_common_base.cpp.o | |
| [687/1945] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/nrn_metaclass.cpp.o | |
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| [690/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_helpers.cpp.o | |
| [691/1945] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/grids.cpp.o | |
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| [695/1945] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/rxd_extracellular.cpp.o | |
| [696/1945] Running nrnivmodl-core with internal mod files | |
| WARNING: No mod files found in '/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/bin', compiling default ones only! | |
| [INFO] Running: make -j4 -f /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/coreneuron/nrnivmodl_core_makefile ROOT=/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build MECHLIB_SUFFIX=internal NMODL_BINARY=/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/bin/nmodl MODS_PATH=arm64/corenrn/mod2c BUILD_TYPE=SHARED NRN_PRCELLSTATE=0 | |
| Default NMODL flags: | |
| diff: arm64/corenrn/mod2c/_mod_func.cpp: No such file or directory | |
| [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced with cnexp solver | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => Binary creating arm64/special-core | |
| [INFO] MOD files built successfully for CoreNEURON | |
| [697/1945] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_hoc.cpp.o | |
| In file included from /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_hoc.cpp:10: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_hoc.cpp:219:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_hoc.cpp:10: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_hoc.cpp:2506:12: 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. | |
| [698/1945] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/nrnpython.cpp.o | |
| [699/1945] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/rxd_vol.cpp.o | |
| [700/1945] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_nrn.cpp.o | |
| In file included from /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:209:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:435:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:453:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:470:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:495:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:671:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:679:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:689:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:736:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:956:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1009:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1156:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1224:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1248:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1269:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1303:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1316:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1345:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1419:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1626:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1678:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:1696:12: 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)) | |
| ^ | |
| In file included from /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2123:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2163:12: 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)) | |
| ^ | |
| In file included from /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2279:12: 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)) | |
| ^ | |
| In file included from /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2384:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2545:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2685:12: 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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:13: | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/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/1/P237020/J1469756/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/1/P237020/J1469756/hpc/cellular/nrn/src/nrnpython/nrnpy_nrn.cpp:2738:12: 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 generated. | |
| [701/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_json.cpp.o | |
| [702/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_junit.cpp.o | |
| [703/1945] Building CXX object test/coreneuron/unit/cmdline_interface/CMakeFiles/cmd_interface_test_bin.dir/test_cmdline_interface.cpp.o | |
| [704/1945] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/rxd.cpp.o | |
| [705/1945] Building CXX object test/coreneuron/unit/interleave_info/CMakeFiles/interleave_info_bin.dir/check_constructors.cpp.o | |
| [706/1945] Building CXX object src/nrnpython/CMakeFiles/nrnpython.dir/nrnpy_p2h.cpp.o | |
| [707/1945] Building CXX object test/coreneuron/unit/alignment/CMakeFiles/alignment_test_bin.dir/alignment.cpp.o | |
| [708/1945] Building CXX object test/coreneuron/unit/random/CMakeFiles/random_test_bin.dir/test_random.cpp.o | |
| [709/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_registrars.cpp.o | |
| [710/1945] Building CXX object test/coreneuron/unit/queueing/CMakeFiles/queuing_test_bin.dir/test_queueing.cpp.o | |
| [711/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_multi.cpp.o | |
| [712/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_streaming_base.cpp.o | |
| [713/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_tap.cpp.o | |
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| [715/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_teamcity.cpp.o | |
| [716/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/interfaces/catch_interfaces_config.cpp.o | |
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| [718/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_sonarqube.cpp.o | |
| [719/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/interfaces/catch_interfaces_exception.cpp.o | |
| [720/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/reporters/catch_reporter_xml.cpp.o | |
| [721/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/interfaces/catch_interfaces_testcase.cpp.o | |
| [722/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/interfaces/catch_interfaces_registry_hub.cpp.o | |
| [723/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/interfaces/catch_interfaces_reporter_factory.cpp.o | |
| [724/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/interfaces/catch_interfaces_generatortracker.cpp.o | |
| [725/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/catch_assertion_result.cpp.o | |
| [726/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/catch_approx.cpp.o | |
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| [728/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/catch_get_random_seed.cpp.o | |
| [729/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/catch_timer.cpp.o | |
| [730/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/catch_tag_alias_autoregistrar.cpp.o | |
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| [739/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/catch_tostring.cpp.o | |
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| [741/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/internal/catch_assertion_handler.cpp.o | |
| [742/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/internal/catch_context.cpp.o | |
| [743/1945] Building CXX object src/nrniv/CMakeFiles/nocmodl.dir/__/nocmodl/modl.cpp.o | |
| [744/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/internal/catch_case_insensitive_comparisons.cpp.o | |
| [745/1945] Linking CXX executable bin/nocmodl | |
| [746/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/internal/catch_enforce.cpp.o | |
| [747/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/internal/catch_debugger.cpp.o | |
| [748/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/internal/catch_debug_console.cpp.o | |
| [749/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/catch_session.cpp.o | |
| [750/1945] Generating ../nrnoc/apcount.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/apcount.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/apcount.cpp | |
| Thread Safe | |
| [751/1945] Generating ../nrnoc/exp2syn.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/exp2syn.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/exp2syn.cpp | |
| Thread Safe | |
| [752/1945] Generating ../nrnoc/expsyn.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/expsyn.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/expsyn.cpp | |
| Thread Safe | |
| [753/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/internal/catch_decomposer.cpp.o | |
| [754/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/internal/catch_console_colour.cpp.o | |
| [755/1945] Generating ../nrnoc/feature.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/feature.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/feature.cpp | |
| Notice: VERBATIM blocks are not thread safe | |
| [756/1945] Generating ../nrnoc/netstim.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/netstim.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/netstim.cpp | |
| Thread Safe | |
| [757/1945] Generating ../nrnoc/intfire2.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/intfire2.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/intfire2.cpp | |
| Thread Safe | |
| [758/1945] Generating ../nrnoc/hh.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/hh.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/hh.cpp | |
| Thread Safe | |
| [759/1945] Generating ../nrnoc/oclmp.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/oclmp.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/oclmp.cpp | |
| Thread Safe | |
| [760/1945] Generating ../nrnoc/passive.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/passive.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/passive.cpp | |
| Thread Safe | |
| [761/1945] Generating ../nrnoc/intfire1.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/intfire1.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/intfire1.cpp | |
| Thread Safe | |
| [762/1945] Generating ../nrnoc/intfire4.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/intfire4.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/intfire4.cpp | |
| Thread Safe | |
| [763/1945] Generating ../nrnoc/stim.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/stim.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/stim.cpp | |
| Thread Safe | |
| [764/1945] Generating ../nrnoc/pattern.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/pattern.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/pattern.cpp | |
| Thread Safe | |
| Notice: ARTIFICIAL_CELL is a synonym for POINT_PROCESS which hints that it | |
| only affects and is affected by discrete events. As such it is not | |
| located in a section and is not associated with an integrator | |
| [765/1945] Generating ../nrnoc/svclmp.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/svclmp.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/svclmp.cpp | |
| Thread Safe | |
| [766/1945] Generating ../nrnoc/syn.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/syn.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/syn.cpp | |
| Thread Safe | |
| [767/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/internal/catch_enum_values_registry.cpp.o | |
| [768/1945] Generating ../nrnoc/ppmark.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/ppmark.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/ppmark.cpp | |
| Thread Safe | |
| [769/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/internal/catch_errno_guard.cpp.o | |
| [770/1945] Generating ../nrnoc/vclmp.cpp | |
| Translating /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/vclmp.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/nrnoc/vclmp.cpp | |
| Notice: VERBATIM blocks are not thread safe | |
| Notice: LINEAR is not thread safe. | |
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| [794/1945] Building CXX object src/nrniv/CMakeFiles/nrniv_lib.dir/__/ivoc/mlinedit.cpp.o | |
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| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/src/ivoc/mymath.cpp:2:14: warning: '#pragma FENV_ACCESS' is not supported on this target - ignored [-Wignored-pragmas] | |
| #pragma STDC FENV_ACCESS ON | |
| ^ | |
| 1 warning generated. | |
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| INFO:root:setup.py called with:setup.py build --cmake-build-dir /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build --disable-rx3d --without-nrnpython --build-lib=/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/lib/python build_ext --define=NRN_ASAN_ENABLED,USE_PYTHON,NRN_ENABLE_THREADS,CORENRN_BUILD=0 | |
| INFO:root:Setting SDKROOT=/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk | |
| WARNING:root:You are building a wheel with a Python built for macOS >=12.0.0. Your wheel won't run on older versions, consider using an official Python build from python.org | |
| WARNING:root:Setting MACOSX_DEPLOYMENT_TARGET=12.0 | |
| INFO:root:Extension common compile flags defaultdict(<class 'list'>, {'library_dirs': ['/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/lib'], 'libraries': ['nrniv']}) | |
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| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/venv/lib/python3.10/site-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. | |
| !! | |
| ******************************************************************************** | |
| Requirements should be satisfied by a PEP 517 installer. | |
| If you are using pip, you can try `pip install --use-pep517`. | |
| ******************************************************************************** | |
| !! | |
| dist.fetch_build_eggs(dist.setup_requires) | |
| WARNING setuptools_scm.pyproject_reading toml section missing 'pyproject.toml does not contain a tool.setuptools_scm section' | |
| Traceback (most recent call last): | |
| File "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/venv/lib/python3.10/site-packages/setuptools_scm/_integration/pyproject_reading.py", line 36, in read_pyproject | |
| section = defn.get("tool", {})[tool_name] | |
| KeyError: 'setuptools_scm' | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/venv/lib/python3.10/site-packages/setuptools_scm/git.py:167: UserWarning: "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn" is shallow and may cause errors | |
| warnings.warn(f'"{wd.path}" is shallow and may cause errors') | |
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| INFO:root:copying share/lib/python/neuron/gui2/__init__.py -> /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/lib/python/neuron/gui2 | |
| INFO:root:copying share/lib/python/neuron/gui2/rangevar.py -> /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/lib/python/neuron/gui2 | |
| INFO:root:copying share/lib/python/neuron/gui2/plotshape.py -> /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/lib/python/neuron/gui2 | |
| INFO:root:copying share/lib/python/neuron/gui2/utilities.py -> /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/lib/python/neuron/gui2 | |
| INFO:root:copying share/lib/python/neuron/tests/test_rxd.json -> /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/lib/python/neuron/tests | |
| INFO:root:running build_ext | |
| INFO:root:==> Building Python extensions | |
| INFO:root:building 'neuron.hoc' extension | |
| INFO:root:/usr/bin/gcc -Wno-unused-result -Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -fno-omit-frame-pointer -shared-libsan -fsanitize=address -fsanitize-address-use-after-scope -DNRN_ASAN_ENABLED=1 -DUSE_PYTHON=1 -DNRN_ENABLE_THREADS=1 -DCORENRN_BUILD=0=1 -Isrc -Isrc/oc -Isrc/nrnpython -Isrc/nrnmpi -I/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/src -I/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/src/oc -I/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/src/nrnpython -I/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/src/nrnmpi -I/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/venv/include -I/opt/homebrew/opt/python@3.10/Frameworks/Python.framework/Versions/3.10/include/python3.10 -c src/nrnpython/inithoc.cpp -o /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/src/nrnpython/inithoc.o -fno-omit-frame-pointer -shared-libsan -fsanitize=address -fsanitize-address-use-after-scope -std=c++17 | |
| INFO:root:/usr/bin/g++ -bundle -undefined dynamic_lookup -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -fno-omit-frame-pointer -shared-libsan -fsanitize=address -fsanitize-address-use-after-scope -Wl,-rpath,/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib/clang/14.0.0/lib/darwin -fno-omit-frame-pointer -shared-libsan -fsanitize=address -fsanitize-address-use-after-scope /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/src/nrnpython/inithoc.o -L/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/lib -lnrniv -o /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/lib/python/neuron/hoc.cpython-310-darwin.so -fno-omit-frame-pointer -shared-libsan -fsanitize=address -fsanitize-address-use-after-scope -Wl,-rpath,/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib/clang/14.0.0/lib/darwin -Wl,-rpath,@loader_path/../../ | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| INFO:root:running build_scripts | |
| INFO:root:creating build/scripts-3.10 | |
| INFO:root:copying and adjusting share/lib/python/scripts/nrniv -> build/scripts-3.10 | |
| INFO:root:copying and adjusting share/lib/python/scripts/nrngui -> build/scripts-3.10 | |
| INFO:root:copying and adjusting share/lib/python/scripts/nmodl -> build/scripts-3.10 | |
| INFO:root:copying and adjusting share/lib/python/scripts/nrniv-core -> build/scripts-3.10 | |
| INFO:root:copying and adjusting share/lib/python/scripts/nrnpyenv.sh -> build/scripts-3.10 | |
| INFO:root:copying and adjusting share/lib/python/scripts/nrnivmodl-core -> build/scripts-3.10 | |
| INFO:root:copying and adjusting share/lib/python/scripts/neurondemo -> build/scripts-3.10 | |
| INFO:root:copying and adjusting share/lib/python/scripts/nrnivmodl -> build/scripts-3.10 | |
| INFO:root:copying and adjusting share/lib/python/scripts/modlunit -> build/scripts-3.10 | |
| INFO:root:copying and adjusting share/lib/python/scripts/idraw -> build/scripts-3.10 | |
| INFO:root:copying and adjusting share/lib/python/scripts/sortspike -> build/scripts-3.10 | |
| INFO:root:copying and adjusting share/lib/python/scripts/mkthreadsafe -> build/scripts-3.10 | |
| INFO:root:changing mode of build/scripts-3.10/nrniv from 644 to 755 | |
| INFO:root:changing mode of build/scripts-3.10/nrngui from 644 to 755 | |
| INFO:root:changing mode of build/scripts-3.10/nmodl from 644 to 755 | |
| INFO:root:changing mode of build/scripts-3.10/nrniv-core from 644 to 755 | |
| INFO:root:changing mode of build/scripts-3.10/nrnpyenv.sh from 644 to 755 | |
| INFO:root:changing mode of build/scripts-3.10/nrnivmodl-core from 644 to 755 | |
| INFO:root:changing mode of build/scripts-3.10/neurondemo from 644 to 755 | |
| INFO:root:changing mode of build/scripts-3.10/nrnivmodl from 644 to 755 | |
| INFO:root:changing mode of build/scripts-3.10/modlunit from 644 to 755 | |
| INFO:root:changing mode of build/scripts-3.10/idraw from 644 to 755 | |
| INFO:root:changing mode of build/scripts-3.10/sortspike from 644 to 755 | |
| INFO:root:changing mode of build/scripts-3.10/mkthreadsafe from 644 to 755 | |
| [1086/1945] Building CXX object test/CMakeFiles/testneuron.dir/common/catch2_main.cpp.o | |
| [1087/1945] Building CXX object test/CMakeFiles/testneuron.dir/unit_tests/basic.cpp.o | |
| [1088/1945] Building CXX object external/catch2/src/CMakeFiles/Catch2.dir/catch2/matchers/catch_matchers_string.cpp.o | |
| [1089/1945] Linking CXX static library lib/libCatch2.a | |
| [1090/1945] Linking CXX static library lib/libCatch2Main.a | |
| [1091/1945] Building CXX object test/CMakeFiles/testneuron.dir/unit_tests/node_order_optim/permutations.cpp.o | |
| [1092/1945] Linking CXX executable bin/cmd_interface_test_bin | |
| [1093/1945] Linking CXX executable bin/interleave_info_bin | |
| [1094/1945] Linking CXX executable bin/queuing_test_bin | |
| [1095/1945] Linking CXX executable bin/alignment_test_bin | |
| [1096/1945] Linking CXX executable bin/test-solver | |
| [1097/1945] Linking CXX executable bin/random_test_bin | |
| [1098/1945] Building CXX object test/CMakeFiles/nrn-benchmarks.dir/common/catch2_main.cpp.o | |
| [1099/1945] Building CXX object test/CMakeFiles/testneuron.dir/cover/unit_tests/cover.cpp.o | |
| [1100/1945] Generating unit_tests/python_unit_tests/test/unit_tests/hoc_python/test_StringFunctions.py | |
| [1101/1945] Linking CXX executable bin/lfp_test_bin | |
| [1102/1945] Generating unit_tests/python_unit_tests/test/unit_tests/hoc_python/test_refcounts.py | |
| [1103/1945] Generating nrnivmodl/8b70050800897334ac3dcf9bccbec23ce253950bb3247c96e6ab2f9c53f6288c/mcna.mod | |
| [1104/1945] Generating nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/follower.mod | |
| [1105/1945] Generating nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/gap.mod | |
| [1106/1945] Generating nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/name_clashes.mod | |
| [1107/1945] Generating nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/unitstest.mod | |
| [1108/1945] Generating nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/version_macros.mod | |
| [1109/1945] Building CXX object test/CMakeFiles/testneuron.dir/unit_tests/utils/enumerate.cpp.o | |
| [1110/1945] Generating nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/opaque_ptr_mod.mod | |
| [1111/1945] Generating nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/opaque_token.mod | |
| [1112/1945] Generating nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/psection_regression.mod | |
| [1113/1945] Generating nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/ptr.mod | |
| [1114/1945] Generating nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/ptr_mod.mod | |
| [1115/1945] Generating nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/random.mod | |
| [1116/1945] Building CXX object test/CMakeFiles/testneuron.dir/unit_tests/oc/hoc_interpreter.cpp.o | |
| [1117/1945] Generating nrnivmodl/fb5fb42ddab2ff650e8e4e789eb94701174e41ce7edaa51ad58d4fd93f798b51/ppxsrc.mod | |
| [1118/1945] Building special[-core] for test group coverage_tests | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/fb5fb42ddab2ff650e8e4e789eb94701174e41ce7edaa51ad58d4fd93f798b51 | |
| cfiles = | |
| Mod files: "./ppxsrc.mod" | |
| MODOBJS= ./ppxsrc.o | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././ppxsrc.mod | |
| Translating ppxsrc.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/fb5fb42ddab2ff650e8e4e789eb94701174e41ce7edaa51ad58d4fd93f798b51/arm64/ppxsrc.cpp | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/fb5fb42ddab2ff650e8e4e789eb94701174e41ce7edaa51ad58d4fd93f798b51/arm64/ppxsrc.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/fb5fb42ddab2ff650e8e4e789eb94701174e41ce7edaa51ad58d4fd93f798b51/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/fb5fb42ddab2ff650e8e4e789eb94701174e41ce7edaa51ad58d4fd93f798b51/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1119/1945] Generating coverage_tests/cover_tests/test/cover/test_netcvode.json | |
| [1120/1945] Generating coverage_tests/cover_tests/test/cover/test_netcvode.py | |
| [1121/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/argpass.mod | |
| [1122/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cabpump.mod | |
| [1123/1945] Building CXX object test/CMakeFiles/nrn-benchmarks.dir/benchmarks/threads/test_multicore.cpp.o | |
| [1124/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cachan.mod | |
| [1125/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cacum.mod | |
| [1126/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cacur.mod | |
| [1127/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cadif.mod | |
| [1128/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cadifusl.mod | |
| [1129/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cagk.mod | |
| [1130/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/cagkftab.mod | |
| [1131/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/capmp.mod | |
| [1132/1945] Linking CXX executable bin/test/nrn-benchmarks | |
| [1133/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/expsynspine.mod | |
| [1134/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/fh.mod | |
| [1135/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/fit1.mod | |
| [1136/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/gap.mod | |
| [1137/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/hh1.mod | |
| [1138/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/hhvect.mod | |
| [1139/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/inatest.mod | |
| [1140/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/ionleak.mod | |
| [1141/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/nacum.mod | |
| [1142/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/nacur.mod | |
| [1143/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/nadifl.mod | |
| [1144/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/nonlin.mod | |
| [1145/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/obj_ex.mod | |
| [1146/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/order.mod | |
| [1147/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/passiv.mod | |
| [1148/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/rchan.mod | |
| [1149/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/standard.inc | |
| [1150/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/stim1.mod | |
| [1151/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/str.mod | |
| [1152/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/syn1.mod | |
| [1153/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/synpre.mod | |
| [1154/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/trivial.mod | |
| [1155/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/tstdarray.mod | |
| [1156/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/tstextrn.mod | |
| [1157/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/tstpnt1.mod | |
| [1158/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/tstpnt2.mod | |
| [1159/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/tstvec.mod | |
| [1160/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/vclmp1.mod | |
| [1161/1945] Generating nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/vlag.mod | |
| [1162/1945] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/atest.mod | |
| [1163/1945] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/rand.mod | |
| [1164/1945] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/rand_art.mod | |
| [1165/1945] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/rand_pp.mod | |
| [1166/1945] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/sdata.inc | |
| [1167/1945] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/sdata.mod | |
| [1168/1945] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/sdata_pp.mod | |
| [1169/1945] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/sdata_ppts.mod | |
| [1170/1945] Generating nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/sdata_ts.mod | |
| [1171/1945] Building special[-core] for test group datahandle | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3 | |
| cfiles = | |
| Mod files: "./opaque_ptr_mod.mod" "./opaque_token.mod" "./psection_regression.mod" "./ptr.mod" "./ptr_mod.mod" "./random.mod" | |
| MODOBJS= ./opaque_ptr_mod.o ./opaque_token.o ./psection_regression.o ./ptr.o ./ptr_mod.o ./random.o | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././opaque_ptr_mod.mod | |
| -> NMODL .././opaque_token.mod | |
| -> NMODL .././psection_regression.mod | |
| Translating psection_regression.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/psection_regression.cpp | |
| Thread Safe | |
| Translating opaque_ptr_mod.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/opaque_ptr_mod.cpp | |
| Notice: Use of POINTER is not thread safe. | |
| Notice: VERBATIM blocks are not thread safe | |
| -> NMODL .././ptr.mod | |
| Translating opaque_token.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/opaque_token.cpp | |
| Notice: VERBATIM blocks are not thread safe | |
| -> NMODL .././ptr_mod.mod | |
| -> NMODL .././random.mod | |
| Translating ptr_mod.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/ptr_mod.cpp | |
| Translating ptr.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/ptr.cpp | |
| Notice: Use of POINTER is not thread safe. | |
| Notice: Use of POINTER is not thread safe. | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/opaque_token.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/opaque_ptr_mod.cpp | |
| Translating random.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/random.cpp | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/psection_regression.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/ptr.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/ptr_mod.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/random.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/9d90f4b9872e3cd05c7e995e7f639aee3674332abcb50efb70af61486b26ceb3/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1172/1945] Generating datahandle/datahandle_tests/test/datahandle/test_1.py | |
| [1173/1945] Generating datahandle/datahandle_tests/test/datahandle/test_opaque_ptr.py | |
| [1174/1945] Generating datahandle/datahandle_tests/test/datahandle/test_psection.py | |
| [1175/1945] Generating datahandle/datahandle_tests/test/datahandle/test_token.py | |
| [1176/1945] Generating nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/follower.mod | |
| [1177/1945] Generating nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/gap.mod | |
| [1178/1945] Generating nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/name_clashes.mod | |
| [1179/1945] Generating nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/unitstest.mod | |
| [1180/1945] Generating nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/version_macros.mod | |
| [1181/1945] Building CXX object test/CMakeFiles/testneuron.dir/unit_tests/container/generic_data_handle.cpp.o | |
| [1182/1945] Generating coreneuron_standalone/test_nrn_corenrn_standalone/test/coreneuron/test_psolve.py | |
| [1183/1945] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/cadif.mod | |
| [1184/1945] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/disc.mod | |
| [1185/1945] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/fornetcon.mod | |
| [1186/1945] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/hhwatch.mod | |
| [1187/1945] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/k3st.mod | |
| [1188/1945] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/table.mod | |
| [1189/1945] Generating nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/variabletypes.mod | |
| [1190/1945] Building special[-core] for test group pytest | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/8b70050800897334ac3dcf9bccbec23ce253950bb3247c96e6ab2f9c53f6288c | |
| cfiles = | |
| Mod files: "./mcna.mod" | |
| MODOBJS= ./mcna.o | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././mcna.mod | |
| Translating mcna.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/8b70050800897334ac3dcf9bccbec23ce253950bb3247c96e6ab2f9c53f6288c/arm64/mcna.cpp | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/8b70050800897334ac3dcf9bccbec23ce253950bb3247c96e6ab2f9c53f6288c/arm64/mcna.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/8b70050800897334ac3dcf9bccbec23ce253950bb3247c96e6ab2f9c53f6288c/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/8b70050800897334ac3dcf9bccbec23ce253950bb3247c96e6ab2f9c53f6288c/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1191/1945] Generating pytest/basic_tests_py3.10/test/pytest/test_nrntest_thread.json | |
| [1192/1945] Generating pytest/basic_tests_py3.10/test/pytest/test_nrntest_thread.py | |
| [1193/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/axial.inc | |
| [1194/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/axial.mod | |
| [1195/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/axial_pp.mod | |
| [1196/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/bacur.mod | |
| [1197/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/banocur.mod | |
| [1198/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/fornetcon.mod | |
| [1199/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/green.mod | |
| [1200/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/invlfire.mod | |
| [1201/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/natrans.mod | |
| [1202/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/netmove.mod | |
| [1203/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/noisychan.mod | |
| [1204/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/red.mod | |
| [1205/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/sample.mod | |
| [1206/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/unitstest.mod | |
| [1207/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/version_macros.mod | |
| [1208/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/watchrange.mod | |
| [1209/1945] Generating nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/watchrange2.mod | |
| [1210/1945] Generating share/nrn/demo/release/arm64/special, share/nrn/demo/release/arm64/libnrnmech.dylib | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release | |
| cfiles = | |
| Mod files: "cabpump.mod" "cachan1.mod" "camchan.mod" "capmpr.mod" "capump.mod" "invlfire.mod" "khhchan.mod" "nacaex.mod" "nachan.mod" "release.mod" | |
| MODOBJS= ./cabpump.o ./cachan1.o ./camchan.o ./capmpr.o ./capump.o ./invlfire.o ./khhchan.o ./nacaex.o ./nachan.o ./release.o | |
| -> Compiling mod_func.cpp | |
| -> NMODL ../cabpump.mod | |
| -> NMODL ../cachan1.mod | |
| -> NMODL ../camchan.mod | |
| Translating camchan.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/camchan.cpp | |
| Translating cachan1.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/cachan1.cpp | |
| Translating cabpump.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/cabpump.cpp | |
| Thread Safe | |
| Notice: Assignment to the GLOBAL variable, "vol", is not thread safe | |
| Thread Safe | |
| -> NMODL ../capmpr.mod | |
| -> NMODL ../capump.mod | |
| -> NMODL ../invlfire.mod | |
| Translating capump.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/capump.cpp | |
| Translating capmpr.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/capmpr.cpp | |
| Thread Safe | |
| NEURON's CVode method ignores conservation | |
| Thread Safe | |
| Translating invlfire.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/invlfire.cpp | |
| Thread Safe | |
| -> NMODL ../khhchan.mod | |
| -> NMODL ../nacaex.mod | |
| -> NMODL ../nachan.mod | |
| Translating nachan.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/nachan.cpp | |
| Translating khhchan.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/khhchan.cpp | |
| Translating nacaex.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/nacaex.cpp | |
| Thread Safe | |
| Thread Safe | |
| Thread Safe | |
| -> NMODL ../release.mod | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/cabpump.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/cachan1.cpp | |
| Translating release.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/release.cpp | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/camchan.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/capmpr.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/capump.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/invlfire.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/khhchan.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/nacaex.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/nachan.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/release.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/nrn/demo/release/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1211/1945] Building CXX object test/CMakeFiles/testneuron.dir/unit_tests/container/mechanism.cpp.o | |
| [1212/1945] Building CXX object test/CMakeFiles/testneuron.dir/unit_tests/container/container.cpp.o | |
| [1213/1945] Building CXX object test/api/CMakeFiles/sections_cpp.dir/sections.cpp.o | |
| [1214/1945] Linking CXX executable bin/test/sections_cpp | |
| [1215/1945] Building CXX object test/api/CMakeFiles/hh_sim_cpp.dir/hh_sim.cpp.o | |
| [1216/1945] Linking CXX executable bin/test/hh_sim_cpp | |
| [1217/1945] Generating nrniv_script.py/do_nothing.py | |
| [1218/1945] Generating nrniv_script.py_error/assert_false.py | |
| [1219/1945] Generating nrniv_two_scripts.py/do_nothing.py | |
| [1220/1945] Generating nrniv_two_scripts.py_error_check_code/assert_false.py | |
| [1221/1945] Generating nrniv_two_scripts.py_error_check_code/do_nothing.py | |
| [1222/1945] Generating nrniv_two_scripts.py_error_check_output/assert_false.py | |
| [1223/1945] Generating nrniv_two_scripts.py_error_check_output/do_nothing.py | |
| [1224/1945] Generating nrniv_python_script.py/do_nothing.py | |
| [1225/1945] Building CXX object test/api/CMakeFiles/netcon_cpp.dir/netcon.cpp.o | |
| [1226/1945] Generating nrniv_python_script.py_error/assert_false.py | |
| [1227/1945] Generating nrniv_python_script.py_twice/assert_false.py | |
| [1228/1945] Generating nrniv_python_script.py_twice/do_nothing.py | |
| [1229/1945] Generating nrniv_python_script.py_args/assert_last_args_are_foo_and_bar.py | |
| [1230/1945] Generating nrniv_py3.10_python_check_sys_path/check_sys_attr.py | |
| [1231/1945] Linking CXX executable bin/test/netcon_cpp | |
| [1232/1945] Generating nrniv_py3.10_python_check_sys_path/dump_sys_attr.py | |
| [1233/1945] Generating nrniv_py3.10_nrnpython_check_sys_path/check_sys_attr.hoc | |
| [1234/1945] Generating nrniv_py3.10_nrnpython_check_sys_path/dump_sys_attr.py | |
| [1235/1945] Generating nrniv_py3.10_python_check_sys_prefix/check_sys_attr.py | |
| [1236/1945] Generating nrniv_py3.10_python_check_sys_prefix/dump_sys_attr.py | |
| [1237/1945] Generating nrniv_py3.10_nrnpython_check_sys_prefix/check_sys_attr.hoc | |
| [1238/1945] Generating nrniv_py3.10_nrnpython_check_sys_prefix/dump_sys_attr.py | |
| [1239/1945] Generating nrniv_py3.10_python_check_sys_exec_prefix/check_sys_attr.py | |
| [1240/1945] Generating nrniv_py3.10_python_check_sys_exec_prefix/dump_sys_attr.py | |
| [1241/1945] Generating nrniv_py3.10_nrnpython_check_sys_exec_prefix/check_sys_attr.hoc | |
| [1242/1945] Generating nrniv_py3.10_nrnpython_check_sys_exec_prefix/dump_sys_attr.py | |
| [1243/1945] Generating nrniv_py3.10_python_check_sys_base_prefix/check_sys_attr.py | |
| [1244/1945] Generating nrniv_py3.10_python_check_sys_base_prefix/dump_sys_attr.py | |
| [1245/1945] Generating nrniv_py3.10_nrnpython_check_sys_base_prefix/check_sys_attr.hoc | |
| [1246/1945] Generating nrniv_py3.10_nrnpython_check_sys_base_prefix/dump_sys_attr.py | |
| [1247/1945] Generating nrniv_py3.10_python_check_sys_base_exec_prefix/check_sys_attr.py | |
| [1248/1945] Generating nrniv_py3.10_python_check_sys_base_exec_prefix/dump_sys_attr.py | |
| [1249/1945] Generating nrniv_py3.10_nrnpython_check_sys_base_exec_prefix/check_sys_attr.hoc | |
| [1250/1945] Generating nrniv_py3.10_nrnpython_check_sys_base_exec_prefix/dump_sys_attr.py | |
| [1251/1945] Generating nrniv_py3.10_python_check_sys_stderr.encoding/check_sys_attr.py | |
| [1252/1945] Generating nrniv_py3.10_python_check_sys_stderr.encoding/dump_sys_attr.py | |
| [1253/1945] Generating nrniv_py3.10_nrnpython_check_sys_stderr.encoding/check_sys_attr.hoc | |
| [1254/1945] Generating nrniv_py3.10_nrnpython_check_sys_stderr.encoding/dump_sys_attr.py | |
| [1255/1945] Generating nrniv_py3.10_python_check_sys_stdin.encoding/check_sys_attr.py | |
| [1256/1945] Generating nrniv_py3.10_python_check_sys_stdin.encoding/dump_sys_attr.py | |
| [1257/1945] Generating nrniv_py3.10_nrnpython_check_sys_stdin.encoding/check_sys_attr.hoc | |
| [1258/1945] Generating nrniv_py3.10_nrnpython_check_sys_stdin.encoding/dump_sys_attr.py | |
| [1259/1945] Generating nrniv_py3.10_python_check_sys_stdout.encoding/check_sys_attr.py | |
| [1260/1945] Generating nrniv_py3.10_python_check_sys_stdout.encoding/dump_sys_attr.py | |
| [1261/1945] Generating nrniv_py3.10_nrnpython_check_sys_stdout.encoding/check_sys_attr.hoc | |
| [1262/1945] Generating nrniv_py3.10_nrnpython_check_sys_stdout.encoding/dump_sys_attr.py | |
| [1263/1945] Generating nrniv_pydef_python_check_sys_path/check_sys_attr.py | |
| [1264/1945] Generating nrniv_pydef_python_check_sys_path/dump_sys_attr.py | |
| [1265/1945] Generating nrniv_pydef_nrnpython_check_sys_path/check_sys_attr.hoc | |
| [1266/1945] Generating nrniv_pydef_nrnpython_check_sys_path/dump_sys_attr.py | |
| [1267/1945] Generating nrniv_pydef_python_check_sys_prefix/check_sys_attr.py | |
| [1268/1945] Generating nrniv_pydef_python_check_sys_prefix/dump_sys_attr.py | |
| [1269/1945] Generating nrniv_pydef_nrnpython_check_sys_prefix/check_sys_attr.hoc | |
| [1270/1945] Generating nrniv_pydef_nrnpython_check_sys_prefix/dump_sys_attr.py | |
| [1271/1945] Generating nrniv_pydef_python_check_sys_exec_prefix/check_sys_attr.py | |
| [1272/1945] Generating nrniv_pydef_python_check_sys_exec_prefix/dump_sys_attr.py | |
| [1273/1945] Generating nrniv_pydef_nrnpython_check_sys_exec_prefix/check_sys_attr.hoc | |
| [1274/1945] Generating nrniv_pydef_nrnpython_check_sys_exec_prefix/dump_sys_attr.py | |
| [1275/1945] Generating nrniv_pydef_python_check_sys_base_prefix/check_sys_attr.py | |
| [1276/1945] Generating nrniv_pydef_python_check_sys_base_prefix/dump_sys_attr.py | |
| [1277/1945] Generating nrniv_pydef_nrnpython_check_sys_base_prefix/check_sys_attr.hoc | |
| [1278/1945] Generating nrniv_pydef_nrnpython_check_sys_base_prefix/dump_sys_attr.py | |
| [1279/1945] Generating nrniv_pydef_python_check_sys_base_exec_prefix/check_sys_attr.py | |
| [1280/1945] Generating nrniv_pydef_python_check_sys_base_exec_prefix/dump_sys_attr.py | |
| [1281/1945] Generating nrniv_pydef_nrnpython_check_sys_base_exec_prefix/check_sys_attr.hoc | |
| [1282/1945] Generating nrniv_pydef_nrnpython_check_sys_base_exec_prefix/dump_sys_attr.py | |
| [1283/1945] Generating nrniv_pydef_python_check_sys_stderr.encoding/check_sys_attr.py | |
| [1284/1945] Generating nrniv_pydef_python_check_sys_stderr.encoding/dump_sys_attr.py | |
| [1285/1945] Generating nrniv_pydef_nrnpython_check_sys_stderr.encoding/check_sys_attr.hoc | |
| [1286/1945] Generating nrniv_pydef_nrnpython_check_sys_stderr.encoding/dump_sys_attr.py | |
| [1287/1945] Generating nrniv_pydef_python_check_sys_stdin.encoding/check_sys_attr.py | |
| [1288/1945] Generating nrniv_pydef_python_check_sys_stdin.encoding/dump_sys_attr.py | |
| [1289/1945] Generating nrniv_pydef_nrnpython_check_sys_stdin.encoding/check_sys_attr.hoc | |
| [1290/1945] Generating nrniv_pydef_nrnpython_check_sys_stdin.encoding/dump_sys_attr.py | |
| [1291/1945] Generating nrniv_pydef_python_check_sys_stdout.encoding/check_sys_attr.py | |
| [1292/1945] Generating nrniv_pydef_python_check_sys_stdout.encoding/dump_sys_attr.py | |
| [1293/1945] Generating nrniv_pydef_nrnpython_check_sys_stdout.encoding/check_sys_attr.hoc | |
| [1294/1945] Generating nrniv_pydef_nrnpython_check_sys_stdout.encoding/dump_sys_attr.py | |
| [1295/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/Aradi_Ca.mod | |
| [1296/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/Aradi_CadepK.mod | |
| [1297/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/Aradi_KA.mod | |
| [1298/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/Aradi_KDRf.mod | |
| [1299/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/Aradi_KDRs.mod | |
| [1300/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/Aradi_Na.mod | |
| [1301/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/CaBK.mod | |
| [1302/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/DGC_M.mod | |
| [1303/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/DGC_UK.mod | |
| [1304/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/DGC_sAHP.mod | |
| [1305/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/Gfluct3.mod | |
| [1306/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/LcaMig.mod | |
| [1307/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/SH_KIn.mod | |
| [1308/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/SH_na8st.mod | |
| [1309/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/bgka.mod | |
| [1310/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/ccanl.mod | |
| [1311/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/ggap.mod | |
| [1312/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/gskch.mod | |
| [1313/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/holdingi.mod | |
| [1314/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/hyperde3.mod | |
| [1315/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/ichan2.mod | |
| [1316/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/iconc_Ca.mod | |
| [1317/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/kcaPR.mod | |
| [1318/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/na3n.mod | |
| [1319/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/nca.mod | |
| [1320/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/spines.mod | |
| [1321/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/tca.mod | |
| [1322/1945] Generating ../../nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/vecevent.mod | |
| [1323/1945] Generating ../../compare_test_results.py | |
| [1324/1945] Generating ../../nrnivmodl/a9c54b18e4b54351cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff/halfgap.mod | |
| [1325/1945] Building special[-core] for test group parallel | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100 | |
| cfiles = | |
| Mod files: "./follower.mod" "./gap.mod" "./name_clashes.mod" "./unitstest.mod" "./version_macros.mod" | |
| MODOBJS= ./follower.o ./gap.o ./name_clashes.o ./unitstest.o ./version_macros.o | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././follower.mod | |
| -> NMODL .././gap.mod | |
| -> NMODL .././name_clashes.mod | |
| Translating gap.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/arm64/gap.cpp | |
| Translating follower.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/arm64/follower.cpp | |
| Thread Safe | |
| Thread Safe | |
| -> NMODL .././unitstest.mod | |
| Translating name_clashes.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/arm64/name_clashes.cpp | |
| -> NMODL .././version_macros.mod | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/arm64/follower.cpp | |
| Translating version_macros.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/arm64/version_macros.cpp | |
| Translating unitstest.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/arm64/unitstest.cpp | |
| Thread Safe | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/arm64/gap.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/arm64/name_clashes.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/arm64/unitstest.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/arm64/version_macros.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/5b499c48b620b3f996279dafe88ff900a32797c8807f2acc88ebe24f2d04a100/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1326/1945] Generating parallel/subworld/test/parallel_tests/test_subworld.py | |
| [1327/1945] Generating parallel/partrans/test/pytest_coreneuron/test_partrans.py | |
| [1328/1945] Generating parallel/netpar/test/pytest_coreneuron/test_hoc_po.py | |
| [1329/1945] Generating parallel/netpar/test/pytest_coreneuron/test_netpar.py | |
| [1330/1945] Generating parallel/bas/test/parallel_tests/test_bas.py | |
| [1331/1945] Generating parallel/nrntest_fast/test/pytest_coreneuron/run_pytest.py | |
| [1332/1945] Generating parallel/nrntest_fast/test/pytest_coreneuron/test_nrntest_fast.json | |
| [1333/1945] Generating parallel/nrntest_fast/test/pytest_coreneuron/test_nrntest_fast.py | |
| [1334/1945] Generating ../../nrnivmodl/bbd7c82eee28b931214a8172bb776ba66c406a6620c807381c850fedcdd74295/halfgap.mod | |
| [1335/1945] Building CXX object test/api/CMakeFiles/vclamp_cpp.dir/vclamp.cpp.o | |
| [1336/1945] Linking CXX executable bin/test/vclamp_cpp | |
| [1337/1945] Generating ../tests/ringtest/reference_data/spk1.100ms.std.ref | |
| [1338/1945] Generating ../../nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/Gfluct3.mod | |
| [1339/1945] Generating ../../nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/hhderiv.mod | |
| [1340/1945] Generating ../../nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/hhkin.mod | |
| [1341/1945] Generating ../../nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/hhwatch.mod | |
| [1342/1945] Generating ../../nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/nacum.mod | |
| [1343/1945] Generating ../../nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/vecevent.mod | |
| [1344/1945] Building special[-core] for test group hoctests | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad | |
| cfiles = | |
| Mod files: "./atest.mod" "./rand.mod" "./rand_art.mod" "./rand_pp.mod" "./sdata.mod" "./sdata_pp.mod" "./sdata_ppts.mod" "./sdata_ts.mod" | |
| MODOBJS= ./atest.o ./rand.o ./rand_art.o ./rand_pp.o ./sdata.o ./sdata_pp.o ./sdata_ppts.o ./sdata_ts.o | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././atest.mod | |
| -> NMODL .././rand_art.mod | |
| -> NMODL .././rand.mod | |
| Translating rand.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/rand.cpp | |
| Thread Safe | |
| Translating atest.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/atest.cpp | |
| Thread Safe | |
| Translating rand_art.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/rand_art.cpp | |
| Thread Safe | |
| -> NMODL .././rand_pp.mod | |
| -> NMODL .././sdata.mod | |
| -> NMODL .././sdata_pp.mod | |
| Translating rand_pp.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/rand_pp.cpp | |
| Thread Safe | |
| Translating sdata.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/sdata.cpp | |
| INCLUDEing sdata.inc | |
| Notice: Use of POINTER is not thread safe. | |
| Notice: VERBATIM blocks are not thread safe | |
| Translating sdata_pp.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/sdata_pp.cpp | |
| INCLUDEing sdata.inc | |
| Notice: Use of POINTER is not thread safe. | |
| Notice: VERBATIM blocks are not thread safe | |
| -> NMODL .././sdata_ppts.mod | |
| -> NMODL .././sdata_ts.mod | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/atest.cpp | |
| Translating sdata_ppts.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/sdata_ppts.cpp | |
| INCLUDEing sdata.inc | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/rand.cpp | |
| Translating sdata_ts.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/sdata_ts.cpp | |
| INCLUDEing sdata.inc | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/rand_art.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/rand_pp.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/sdata.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/sdata_pp.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/sdata_ppts.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/sdata_ts.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/39368a3f2faa5c7f6c1a704095364be6ec3af30bbfc8f85c1eef2176aae784ad/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1345/1945] Generating hoctests/test_loadbal_hoc/expect_err.hoc | |
| [1346/1945] Generating hoctests/test_loadbal_hoc/tests/test_loadbal.hoc | |
| [1347/1945] Generating hoctests/test_random_hoc/expect_err.hoc | |
| [1348/1945] Generating hoctests/test_random_hoc/tests/test_random.hoc | |
| [1349/1945] Generating hoctests/test_random_hoc/tests/test_random.json | |
| [1350/1945] Generating hoctests/perf1_hoc/expect_err.hoc | |
| [1351/1945] Generating hoctests/perf1_hoc/vardimtests/perf1.hoc | |
| [1352/1945] Generating hoctests/test1_hoc/expect_err.hoc | |
| [1353/1945] Generating hoctests/test1_hoc/vardimtests/test1.hoc | |
| [1354/1945] Generating hoctests/test2_hoc/expect_err.hoc | |
| [1355/1945] Generating hoctests/test2_hoc/vardimtests/test2.hoc | |
| [1356/1945] Generating hoctests/test3_hoc/expect_err.hoc | |
| [1357/1945] Generating hoctests/test3_hoc/vardimtests/test3.hoc | |
| [1358/1945] Generating hoctests/test4_hoc/expect_err.hoc | |
| [1359/1945] Generating hoctests/test4_hoc/vardimtests/test4.hoc | |
| [1360/1945] Generating hoctests/test5_hoc/expect_err.hoc | |
| [1361/1945] Generating hoctests/test5_hoc/vardimtests/test5.hoc | |
| [1362/1945] Generating hoctests/test6_hoc/expect_err.hoc | |
| [1363/1945] Generating hoctests/test6_hoc/vardimtests/test6.hoc | |
| [1364/1945] Generating hoctests/test7_hoc/expect_err.hoc | |
| [1365/1945] Generating hoctests/test7_hoc/vardimtests/test7.hoc | |
| [1366/1945] Generating hoctests/test8_hoc/expect_err.hoc | |
| [1367/1945] Generating hoctests/test8_hoc/vardimtests/test8.hoc | |
| [1368/1945] Generating hoctests/test9_hoc/expect_err.hoc | |
| [1369/1945] Generating hoctests/test9_hoc/vardimtests/test9.hoc | |
| [1370/1945] Building special[-core] for test group pytest_coreneuron | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0 | |
| cfiles = | |
| Mod files: "./follower.mod" "./gap.mod" "./name_clashes.mod" "./unitstest.mod" "./version_macros.mod" | |
| MODOBJS= ./follower.o ./gap.o ./name_clashes.o ./unitstest.o ./version_macros.o | |
| [INFO] Running: make -j4 -f /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/coreneuron/nrnivmodl_core_makefile ROOT=/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build MODS_PATH=arm64/corenrn/mod2c BUILD_TYPE=SHARED NRN_PRCELLSTATE=0 | |
| Default NMODL flags: | |
| diff: arm64/corenrn/mod2c/_mod_func.cpp: No such file or directory | |
| [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced with cnexp solver | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => Binary creating arm64/special-core | |
| [INFO] MOD files built successfully for CoreNEURON | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././follower.mod | |
| -> NMODL .././gap.mod | |
| -> NMODL .././name_clashes.mod | |
| Translating name_clashes.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/arm64/name_clashes.cpp | |
| Translating gap.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/arm64/gap.cpp | |
| Thread Safe | |
| Translating follower.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/arm64/follower.cpp | |
| Thread Safe | |
| Thread Safe | |
| -> NMODL .././unitstest.mod | |
| -> NMODL .././version_macros.mod | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/arm64/follower.cpp | |
| Translating unitstest.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/arm64/unitstest.cpp | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/arm64/gap.cpp | |
| Translating version_macros.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/arm64/version_macros.cpp | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/arm64/name_clashes.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/arm64/unitstest.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/arm64/version_macros.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c448d279dd3b91940d228c42e4a7c280bafe100b4e840f9c938be979cceb8fe0/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1371/1945] Generating hoctests/test_bbss_py/tests/test_bbss.py | |
| [1372/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/gui_pycallobject.py | |
| [1373/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/run_pytest.py | |
| [1374/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_a_neuronoptions.py | |
| [1375/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_basic.py | |
| [1376/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_bbss.py | |
| [1377/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_coreneuron_configuration.py | |
| [1378/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_fast_imem.py | |
| [1379/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_hoc_po.py | |
| [1380/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_imem.py | |
| [1381/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_inheritance.py | |
| [1382/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_loadbal.py | |
| [1383/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_memory_usage.py | |
| [1384/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_multigid.py | |
| [1385/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_netpar.py | |
| [1386/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_nlayer.py | |
| [1387/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_nrnste.py | |
| [1388/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_nrntest_fast.json | |
| [1389/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_nrntest_fast.py | |
| [1390/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_partrans.py | |
| [1391/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_py2nrnstring.py | |
| [1392/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_pycallobject.py | |
| [1393/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_pyobj.py | |
| [1394/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_swc.py | |
| [1395/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_template_err.py | |
| [1396/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_vector_api.py | |
| [1397/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_version_macros.py | |
| [1398/1945] Generating pytest_coreneuron/basic_tests_py3.10/test/pytest_coreneuron/test_zptrlist.py | |
| [1399/1945] Generating hoctests/test_cvinterp_py/tests/test_cvinterp.py | |
| [1400/1945] Generating hoctests/test_eion_cover_py/tests/test_eion_cover.py | |
| [1401/1945] Generating hoctests/test_hocGUI2_py/tests/test_hocGUI2.py | |
| [1402/1945] Generating hoctests/test_hoc_class_instance_py/tests/test_hoc_class_instance.py | |
| [1403/1945] Generating hoctests/test_hocmech_py/tests/test_hocmech.py | |
| [1404/1945] Generating hoctests/test_kschan_py/tests/test_kschan.json | |
| [1405/1945] Generating hoctests/test_kschan_py/tests/test_kschan.py | |
| [1406/1945] Generating hoctests/test_legacy_setpointer_py/tests/test_legacy_setpointer.py | |
| [1407/1945] Generating hoctests/test_mechfunc_py/tests/test_mechfunc.py | |
| [1408/1945] Generating hoctests/test_mechstd_py/tests/test_mechstd.py | |
| [1409/1945] Generating hoctests/test_mode_py/tests/test_mode.py | |
| [1410/1945] Generating hoctests/test_mview_py/tests/test_mview.py | |
| [1411/1945] Generating hoctests/test_neurondemo_py/tests/test_neurondemo.json | |
| [1412/1945] Generating hoctests/test_neurondemo_py/tests/test_neurondemo.py | |
| [1413/1945] Generating hoctests/test_nrniv-launch_py/tests/test_nrniv-launch.py | |
| [1414/1945] Generating hoctests/test_optim_node_order_py/tests/test_optim_node_order.json | |
| [1415/1945] Generating hoctests/test_optim_node_order_py/tests/test_optim_node_order.py | |
| [1416/1945] Generating hoctests/test_random_py/tests/test_random.json | |
| [1417/1945] Generating hoctests/test_random_py/tests/test_random.py | |
| [1418/1945] Generating hoctests/test_secref_py/tests/test_secref.py | |
| [1419/1945] Generating hoctests/test_setdata_py/tests/test_setdata.py | |
| [1420/1945] Generating hoctests/test_shape_py/tests/test_shape.py | |
| [1421/1945] Generating hoctests/test_thread_partition_py/tests/test_thread_partition.py | |
| [1422/1945] Generating hoctests/test1_py/vardimtests/test1.py | |
| [1423/1945] Generating hoctests/test2_py/vardimtests/test2.py | |
| [1424/1945] Generating hoctests/test9_py/vardimtests/test9.py | |
| [1425/1945] Generating ../tests/testcorenrn/reference/out_bbcore.spk | |
| [1426/1945] Generating ../tests/testcorenrn/reference/out_conc.spk | |
| [1427/1945] Generating ../tests/testcorenrn/reference/out_deriv.spk | |
| [1428/1945] Generating ../tests/testcorenrn/reference/out_gf.spk | |
| [1429/1945] Generating ../tests/testcorenrn/reference/out_kin.spk | |
| [1430/1945] Generating ../tests/testcorenrn/reference/out_patstim.spk | |
| [1431/1945] Generating ../tests/testcorenrn/reference/out_vecplay.spk | |
| [1432/1945] Generating ../tests/testcorenrn/reference/out_vecevent.spk | |
| [1433/1945] Generating ../tests/testcorenrn/reference/out_watch.spk | |
| [1434/1945] Generating ../../nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/invlfire.mod | |
| [1435/1945] Generating ../tests/testcorenrn/reference/out_netstimdirect.spk | |
| [1436/1945] Generating ../../nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/invlfiresha.mod | |
| [1437/1945] Generating ../../nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/invlfirestats.mod | |
| [1438/1945] Building special[-core] for test group external_ringtest_nrn | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/bbd7c82eee28b931214a8172bb776ba66c406a6620c807381c850fedcdd74295 | |
| cfiles = | |
| Mod files: "./halfgap.mod" | |
| MODOBJS= ./halfgap.o | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././halfgap.mod | |
| Translating halfgap.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/bbd7c82eee28b931214a8172bb776ba66c406a6620c807381c850fedcdd74295/arm64/halfgap.cpp | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/bbd7c82eee28b931214a8172bb776ba66c406a6620c807381c850fedcdd74295/arm64/halfgap.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/bbd7c82eee28b931214a8172bb776ba66c406a6620c807381c850fedcdd74295/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/bbd7c82eee28b931214a8172bb776ba66c406a6620c807381c850fedcdd74295/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1439/1945] Generating ../../external_ringtest_nrn/optim_node_order/args.py | |
| [1440/1945] Generating ../../external_ringtest_nrn/optim_node_order/cell.hoc | |
| [1441/1945] Generating ../../external_ringtest_nrn/optim_node_order/celluniform.hoc | |
| [1442/1945] Generating ../../external_ringtest_nrn/optim_node_order/commonutils.py | |
| [1443/1945] Generating ../../external_ringtest_nrn/optim_node_order/ranparm.py | |
| [1444/1945] Generating ../../external_ringtest_nrn/optim_node_order/ring.py | |
| [1445/1945] Generating ../../external_ringtest_nrn/optim_node_order/ringtest.py | |
| [1446/1945] Generating ../../external_ringtest_nrn/optim_node_order/ringuniform.py | |
| [1447/1945] Generating ../../external_ringtest_nrn/optim_node_order/settings.py | |
| [1448/1945] Generating ../../external_ringtest_nrn/optim_node_order/test_optimize_node_order.py | |
| [1449/1945] Building special[-core] for test group nmodl_tests | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5 | |
| cfiles = | |
| Mod files: "./cadif.mod" "./disc.mod" "./fornetcon.mod" "./hhwatch.mod" "./k3st.mod" "./table.mod" "./variabletypes.mod" | |
| MODOBJS= ./cadif.o ./disc.o ./fornetcon.o ./hhwatch.o ./k3st.o ./table.o ./variabletypes.o | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././cadif.mod | |
| -> NMODL .././disc.mod | |
| -> NMODL .././fornetcon.mod | |
| Translating fornetcon.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/fornetcon.cpp | |
| Thread Safe | |
| -> NMODL .././hhwatch.mod | |
| Translating cadif.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/cadif.cpp | |
| Thread Safe | |
| Translating disc.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/disc.cpp | |
| -> NMODL .././k3st.mod | |
| Notice: DISCRETE is not thread safe. | |
| Notice: This mechanism cannot be used with CVODE | |
| -> NMODL .././table.mod | |
| Translating k3st.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/k3st.cpp | |
| NEURON's CVode method ignores conservation | |
| Thread Safe | |
| Translating hhwatch.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/hhwatch.cpp | |
| Thread Safe | |
| -> NMODL .././variabletypes.mod | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/cadif.cpp | |
| Translating table.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/table.cpp | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/disc.cpp | |
| Translating variabletypes.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/variabletypes.cpp | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/fornetcon.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/hhwatch.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/k3st.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/table.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/variabletypes.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/ae2c9b73c9a624bce358af1b0042b70ba7c70ce86d0fb0bf97de8ac420156de5/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1450/1945] Generating nmodl_tests/test_table/test/nmodl/test_table.py | |
| [1451/1945] Generating nmodl_tests/test_disc/test/nmodl/test_disc.py | |
| [1452/1945] Generating nmodl_tests/test_function_table/test/nmodl/test_function_table.py | |
| [1453/1945] Generating nmodl_tests/test_kinetic/test/nmodl/test_kinetic.py | |
| [1454/1945] Generating nmodl_tests/test_random/test/nmodl/test_random.py | |
| [1455/1945] Generating nmodl_tests/test_path_spaces/test/nmodl/Project Path Space/test.mod | |
| [1456/1945] Generating nmodl_tests/test_path_spaces/test/nmodl/Project Path Space/test.py | |
| [1457/1945] Generating nmodl_tests_coreneuron/test_table_coreneuron_cpu/test/nmodl/test_table.py | |
| [1458/1945] Generating nmodl_tests_coreneuron/test_disc_coreneuron_cpu/test/nmodl/test_disc.py | |
| [1459/1945] Generating nmodl_tests_coreneuron/test_function_table_coreneuron_cpu/test/nmodl/test_function_table.py | |
| [1460/1945] Generating nmodl_tests_coreneuron/test_kinetic_coreneuron_cpu/test/nmodl/test_kinetic.py | |
| [1461/1945] Building CXX object test/CMakeFiles/testneuron.dir/unit_tests/container/node.cpp.o | |
| [1462/1945] Linking CXX executable bin/test/testneuron | |
| [1463/1945] Building special[-core] for test group external_ringtest | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/a9c54b18e4b54351cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff | |
| cfiles = | |
| Mod files: "./halfgap.mod" | |
| MODOBJS= ./halfgap.o | |
| [INFO] Running: make -j4 -f /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/coreneuron/nrnivmodl_core_makefile ROOT=/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build MODS_PATH=arm64/corenrn/mod2c BUILD_TYPE=SHARED NRN_PRCELLSTATE=0 | |
| Default NMODL flags: | |
| diff: arm64/corenrn/mod2c/_mod_func.cpp: No such file or directory | |
| [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced with cnexp solver | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => Binary creating arm64/special-core | |
| [INFO] MOD files built successfully for CoreNEURON | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././halfgap.mod | |
| Translating halfgap.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/a9c54b18e4b54351cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff/arm64/halfgap.cpp | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/a9c54b18e4b54351cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff/arm64/halfgap.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/a9c54b18e4b54351cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/a9c54b18e4b54351cb4fd3e79067cafa02da4514b4383a54de8ff121657615ff/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1464/1945] Generating ../../external_ringtest/neuron/cell.hoc | |
| [1465/1945] Generating ../../external_ringtest/neuron/commonutils.py | |
| [1466/1945] Generating ../../external_ringtest/neuron/args.py | |
| [1467/1945] Generating ../../external_ringtest/neuron/celluniform.hoc | |
| [1468/1945] Generating ../../external_ringtest/neuron/ranparm.py | |
| [1469/1945] Generating ../../external_ringtest/neuron/ring.py | |
| [1470/1945] Generating ../../external_ringtest/neuron/ringtest.py | |
| [1471/1945] Generating ../../external_ringtest/neuron/ringuniform.py | |
| [1472/1945] Generating ../../external_ringtest/neuron/test_optimize_node_order.py | |
| [1473/1945] Generating ../../external_ringtest/neuron/settings.py | |
| [1474/1945] Generating ../../external_ringtest/neuron_mpi/args.py | |
| [1475/1945] Generating ../../external_ringtest/neuron_mpi/cell.hoc | |
| [1476/1945] Generating ../../external_ringtest/neuron_mpi/celluniform.hoc | |
| [1477/1945] Generating ../../external_ringtest/neuron_mpi/commonutils.py | |
| [1478/1945] Generating ../../external_ringtest/neuron_mpi/ranparm.py | |
| [1479/1945] Generating ../../external_ringtest/neuron_mpi/ring.py | |
| [1480/1945] Generating ../../external_ringtest/neuron_mpi/ringtest.py | |
| [1481/1945] Generating ../../external_ringtest/neuron_mpi/ringuniform.py | |
| [1482/1945] Generating ../../external_ringtest/neuron_mpi/settings.py | |
| [1483/1945] Generating ../../external_ringtest/neuron_mpi/test_optimize_node_order.py | |
| [1484/1945] Generating ../../external_ringtest/neuron_mpi_python/args.py | |
| [1485/1945] Generating ../../external_ringtest/neuron_mpi_python/cell.hoc | |
| [1486/1945] Generating ../../external_ringtest/neuron_mpi_python/ranparm.py | |
| [1487/1945] Generating ../../external_ringtest/neuron_mpi_python/celluniform.hoc | |
| [1488/1945] Generating ../../external_ringtest/neuron_mpi_python/commonutils.py | |
| [1489/1945] Generating ../../external_ringtest/neuron_mpi_python/ring.py | |
| [1490/1945] Generating ../../external_ringtest/neuron_mpi_python/ringtest.py | |
| [1491/1945] Generating ../../external_ringtest/neuron_mpi_python/ringuniform.py | |
| [1492/1945] Generating ../../external_ringtest/neuron_mpi_python/settings.py | |
| [1493/1945] Generating ../../external_ringtest/neuron_mpi_python/test_optimize_node_order.py | |
| [1494/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline_saverestore/args.py | |
| [1495/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline_saverestore/ranparm.py | |
| [1496/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline_saverestore/cell.hoc | |
| [1497/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline_saverestore/celluniform.hoc | |
| [1498/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline_saverestore/commonutils.py | |
| [1499/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline_saverestore/ring.py | |
| [1500/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline_saverestore/settings.py | |
| [1501/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline_saverestore/ringtest.py | |
| [1502/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline_saverestore/ringuniform.py | |
| [1503/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi/args.py | |
| [1504/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline_saverestore/test_optimize_node_order.py | |
| [1505/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi/ranparm.py | |
| [1506/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi/cell.hoc | |
| [1507/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi/celluniform.hoc | |
| [1508/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi/commonutils.py | |
| [1509/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi/ring.py | |
| [1510/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi/ringtest.py | |
| [1511/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi/ringuniform.py | |
| [1512/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi/settings.py | |
| [1513/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi/test_optimize_node_order.py | |
| [1514/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_python/args.py | |
| [1515/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_python/cell.hoc | |
| [1516/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_python/celluniform.hoc | |
| [1517/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_python/ring.py | |
| [1518/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_python/commonutils.py | |
| [1519/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_python/ranparm.py | |
| [1520/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_python/ringtest.py | |
| [1521/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_python/ringuniform.py | |
| [1522/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_python/settings.py | |
| [1523/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_python/test_optimize_node_order.py | |
| [1524/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline/args.py | |
| [1525/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline/cell.hoc | |
| [1526/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline/celluniform.hoc | |
| [1527/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline/commonutils.py | |
| [1528/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline/ringtest.py | |
| [1529/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline/ranparm.py | |
| [1530/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline/ring.py | |
| [1531/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline/ringuniform.py | |
| [1532/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline/settings.py | |
| [1533/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_offline/test_optimize_node_order.py | |
| [1534/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads/args.py | |
| [1535/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads/cell.hoc | |
| [1536/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads/celluniform.hoc | |
| [1537/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads/ranparm.py | |
| [1538/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads/commonutils.py | |
| [1539/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads/ring.py | |
| [1540/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads/ringtest.py | |
| [1541/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads/ringuniform.py | |
| [1542/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads/settings.py | |
| [1543/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads_python/args.py | |
| [1544/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads/test_optimize_node_order.py | |
| [1545/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads_python/cell.hoc | |
| [1546/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads_python/celluniform.hoc | |
| [1547/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads_python/commonutils.py | |
| [1548/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads_python/ranparm.py | |
| [1549/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads_python/ringtest.py | |
| [1550/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads_python/ring.py | |
| [1551/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads_python/test_optimize_node_order.py | |
| [1552/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads_python/settings.py | |
| [1553/1945] Generating ../../external_ringtest/coreneuron_cpu_mpi_threads_python/ringuniform.py | |
| [1554/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_directmode/cell.hoc | |
| [1555/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_directmode/args.py | |
| [1556/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_directmode/commonutils.py | |
| [1557/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_directmode/celluniform.hoc | |
| [1558/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_directmode/ranparm.py | |
| [1559/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_directmode/ring.py | |
| [1560/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_directmode/ringtest.py | |
| [1561/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_directmode/settings.py | |
| [1562/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_directmode/ringuniform.py | |
| [1563/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_filemode/args.py | |
| [1564/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_directmode/test_optimize_node_order.py | |
| [1565/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_filemode/cell.hoc | |
| [1566/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_filemode/celluniform.hoc | |
| [1567/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_filemode/ranparm.py | |
| [1568/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_filemode/commonutils.py | |
| [1569/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_filemode/settings.py | |
| [1570/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_filemode/ring.py | |
| [1571/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_filemode/ringtest.py | |
| [1572/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_filemode/ringuniform.py | |
| [1573/1945] Generating ../../external_ringtest/coreneuron_mpi_registermapping_filemode/test_optimize_node_order.py | |
| [1574/1945] Building special[-core] for test group tqperf | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951 | |
| cfiles = | |
| Mod files: "./invlfire.mod" "./invlfiresha.mod" "./invlfirestats.mod" | |
| MODOBJS= ./invlfire.o ./invlfiresha.o ./invlfirestats.o | |
| [INFO] Running: make -j4 -f /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/coreneuron/nrnivmodl_core_makefile ROOT=/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build INCFLAGS=-I/opt/homebrew/Cellar/openssl@3/3.2.0_1/include LINKFLAGS=/opt/homebrew/Cellar/openssl@3/3.2.0_1/lib/libcrypto.dylib MODS_PATH=arm64/corenrn/mod2c BUILD_TYPE=SHARED NRN_PRCELLSTATE=0 | |
| Default NMODL flags: | |
| diff: arm64/corenrn/mod2c/_mod_func.cpp: No such file or directory | |
| [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced with cnexp solver | |
| arm64/corenrn/mod2c/invlfiresha.cpp:316:16: warning: 'SHA1_Init' is deprecated [-Wdeprecated-declarations] | |
| int status = SHA1_Init((SHA_CTX*)(*ctx)); | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/sha.h:49:1: note: 'SHA1_Init' has been explicitly marked deprecated here | |
| OSSL_DEPRECATEDIN_3_0 int SHA1_Init(SHA_CTX *c); | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/macros.h:194:49: note: expanded from macro 'OSSL_DEPRECATEDIN_3_0' | |
| # define OSSL_DEPRECATEDIN_3_0 OSSL_DEPRECATED(3.0) | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/macros.h:62:52: note: expanded from macro 'OSSL_DEPRECATED' | |
| # define OSSL_DEPRECATED(since) __attribute__((deprecated)) | |
| ^ | |
| arm64/corenrn/mod2c/invlfiresha.cpp:321:16: warning: 'SHA1_Update' is deprecated [-Wdeprecated-declarations] | |
| int status = SHA1_Update((SHA_CTX*)ctx, data, len); | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/sha.h:50:1: note: 'SHA1_Update' has been explicitly marked deprecated here | |
| OSSL_DEPRECATEDIN_3_0 int SHA1_Update(SHA_CTX *c, const void *data, size_t len); | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/macros.h:194:49: note: expanded from macro 'OSSL_DEPRECATEDIN_3_0' | |
| # define OSSL_DEPRECATEDIN_3_0 OSSL_DEPRECATED(3.0) | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/macros.h:62:52: note: expanded from macro 'OSSL_DEPRECATED' | |
| # define OSSL_DEPRECATED(since) __attribute__((deprecated)) | |
| ^ | |
| arm64/corenrn/mod2c/invlfiresha.cpp:332:16: warning: 'SHA1_Final' is deprecated [-Wdeprecated-declarations] | |
| int status = SHA1_Final(u.md, (SHA_CTX*)ctx); | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/sha.h:51:1: note: 'SHA1_Final' has been explicitly marked deprecated here | |
| OSSL_DEPRECATEDIN_3_0 int SHA1_Final(unsigned char *md, SHA_CTX *c); | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/macros.h:194:49: note: expanded from macro 'OSSL_DEPRECATEDIN_3_0' | |
| # define OSSL_DEPRECATEDIN_3_0 OSSL_DEPRECATED(3.0) | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/macros.h:62:52: note: expanded from macro 'OSSL_DEPRECATED' | |
| # define OSSL_DEPRECATED(since) __attribute__((deprecated)) | |
| ^ | |
| 3 warnings generated. | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => Binary creating arm64/special-core | |
| [INFO] MOD files built successfully for CoreNEURON | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././invlfire.mod | |
| -> NMODL .././invlfiresha.mod | |
| -> NMODL .././invlfirestats.mod | |
| Translating invlfire.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/arm64/invlfire.cpp | |
| Thread Safe | |
| Notice: ARTIFICIAL_CELL is a synonym for POINT_PROCESS which hints that it | |
| only affects and is affected by discrete events. As such it is not | |
| located in a section and is not associated with an integrator | |
| Translating invlfiresha.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/arm64/invlfiresha.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/arm64/invlfire.cpp | |
| Translating invlfirestats.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/arm64/invlfirestats.cpp | |
| Thread Safe | |
| Notice: ARTIFICIAL_CELL is a synonym for POINT_PROCESS which hints that it | |
| only affects and is affected by discrete events. As such it is not | |
| located in a section and is not associated with an integrator | |
| Thread Safe | |
| Notice: ARTIFICIAL_CELL is a synonym for POINT_PROCESS which hints that it | |
| only affects and is affected by discrete events. As such it is not | |
| located in a section and is not associated with an integrator | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/arm64/invlfirestats.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/arm64/invlfiresha.cpp | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/arm64/invlfiresha.cpp:374:16: warning: 'SHA1_Init' is deprecated [-Wdeprecated-declarations] | |
| int status = SHA1_Init((SHA_CTX*)(*ctx)); | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/sha.h:49:1: note: 'SHA1_Init' has been explicitly marked deprecated here | |
| OSSL_DEPRECATEDIN_3_0 int SHA1_Init(SHA_CTX *c); | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/macros.h:194:49: note: expanded from macro 'OSSL_DEPRECATEDIN_3_0' | |
| # define OSSL_DEPRECATEDIN_3_0 OSSL_DEPRECATED(3.0) | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/macros.h:62:52: note: expanded from macro 'OSSL_DEPRECATED' | |
| # define OSSL_DEPRECATED(since) __attribute__((deprecated)) | |
| ^ | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/arm64/invlfiresha.cpp:379:16: warning: 'SHA1_Update' is deprecated [-Wdeprecated-declarations] | |
| int status = SHA1_Update((SHA_CTX*)ctx, data, len); | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/sha.h:50:1: note: 'SHA1_Update' has been explicitly marked deprecated here | |
| OSSL_DEPRECATEDIN_3_0 int SHA1_Update(SHA_CTX *c, const void *data, size_t len); | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/macros.h:194:49: note: expanded from macro 'OSSL_DEPRECATEDIN_3_0' | |
| # define OSSL_DEPRECATEDIN_3_0 OSSL_DEPRECATED(3.0) | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/macros.h:62:52: note: expanded from macro 'OSSL_DEPRECATED' | |
| # define OSSL_DEPRECATED(since) __attribute__((deprecated)) | |
| ^ | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/arm64/invlfiresha.cpp:390:16: warning: 'SHA1_Final' is deprecated [-Wdeprecated-declarations] | |
| int status = SHA1_Final(u.md, (SHA_CTX*)ctx); | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/sha.h:51:1: note: 'SHA1_Final' has been explicitly marked deprecated here | |
| OSSL_DEPRECATEDIN_3_0 int SHA1_Final(unsigned char *md, SHA_CTX *c); | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/macros.h:194:49: note: expanded from macro 'OSSL_DEPRECATEDIN_3_0' | |
| # define OSSL_DEPRECATEDIN_3_0 OSSL_DEPRECATED(3.0) | |
| ^ | |
| /opt/homebrew/Cellar/openssl@3/3.2.0_1/include/openssl/macros.h:62:52: note: expanded from macro 'OSSL_DEPRECATED' | |
| # define OSSL_DEPRECATED(since) __attribute__((deprecated)) | |
| ^ | |
| 3 warnings generated. | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/358a2005c5c0c89444ba4a268056fedbea5728b0d3948c6488fe911d6bafc951/arm64/./special" LDFLAGS are: /opt/homebrew/Cellar/openssl@3/3.2.0_1/lib/libcrypto.dylib | |
| Successfully created arm64/special | |
| [1575/1945] Generating ../../tqperf/coreneuron_special/extracell.hoc | |
| [1576/1945] Generating ../../tqperf/coreneuron_special/init.hoc | |
| [1577/1945] Generating ../../tqperf/coreneuron_special/invl.hoc | |
| [1578/1945] Generating ../../tqperf/coreneuron_special/mosinit.hoc | |
| [1579/1945] Generating ../../tqperf/coreneuron_special/movie.hoc | |
| [1580/1945] Generating ../../tqperf/coreneuron_special/net.hoc | |
| [1581/1945] Generating ../../tqperf/coreneuron_special/param.hoc | |
| [1582/1945] Generating ../../tqperf/coreneuron_special/pltq.hoc | |
| [1583/1945] Generating ../../tqperf/coreneuron_special/perfrun.hoc | |
| [1584/1945] Generating ../../tqperf/coreneuron_special/run.hoc | |
| [1585/1945] Generating ../../tqperf/coreneuron_special/run128.hoc | |
| [1586/1945] Generating ../../tqperf/coreneuron_special/randist.hoc | |
| [1587/1945] Generating ../../tqperf/coreneuron_special/runs.hoc | |
| [1588/1945] Generating ../../tqperf/coreneuron_special/spkplt.hoc | |
| [1589/1945] Generating ../../tqperf/coreneuron_special/spike2file.hoc | |
| [1590/1945] Generating ../../tqperf/coreneuron_special/test1.py | |
| [1591/1945] Generating ../../tqperf/coreneuron_special/tperf.hoc | |
| [1592/1945] Generating ../../tqperf/coreneuron_special/table.hoc | |
| [1593/1945] Generating ../../tqperf/coreneuron_special/tperfnew.hoc | |
| [1594/1945] Generating ../../tqperf/coreneuron_python/extracell.hoc | |
| [1595/1945] Generating ../../tqperf/coreneuron_python/invl.hoc | |
| [1596/1945] Generating ../../tqperf/coreneuron_python/movie.hoc | |
| [1597/1945] Generating ../../tqperf/coreneuron_python/init.hoc | |
| [1598/1945] Generating ../../tqperf/coreneuron_python/mosinit.hoc | |
| [1599/1945] Generating ../../tqperf/coreneuron_python/net.hoc | |
| [1600/1945] Generating ../../tqperf/coreneuron_python/param.hoc | |
| [1601/1945] Generating ../../tqperf/coreneuron_python/run128.hoc | |
| [1602/1945] Generating ../../tqperf/coreneuron_python/perfrun.hoc | |
| [1603/1945] Generating ../../tqperf/coreneuron_python/pltq.hoc | |
| [1604/1945] Generating ../../tqperf/coreneuron_python/randist.hoc | |
| [1605/1945] Generating ../../tqperf/coreneuron_python/run.hoc | |
| [1606/1945] Generating ../../tqperf/coreneuron_python/runs.hoc | |
| [1607/1945] Generating ../../tqperf/coreneuron_python/table.hoc | |
| [1608/1945] Generating ../../tqperf/coreneuron_python/spike2file.hoc | |
| [1609/1945] Generating ../../tqperf/coreneuron_python/spkplt.hoc | |
| [1610/1945] Generating ../../tqperf/coreneuron_python/test1.py | |
| [1611/1945] Generating ../../tqperf/coreneuron_python/tperf.hoc | |
| [1612/1945] Generating ../../tqperf/coreneuron_python/tperfnew.hoc | |
| [1613/1945] Building special[-core] for test group testcorenrn_bbcore | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876 | |
| cfiles = | |
| Mod files: "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| MODOBJS= ./Gfluct3.o ./hhderiv.o ./hhkin.o ./hhwatch.o ./nacum.o ./vecevent.o | |
| [INFO] Running: make -j4 -f /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/coreneuron/nrnivmodl_core_makefile ROOT=/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build MODS_PATH=arm64/corenrn/mod2c BUILD_TYPE=SHARED NRN_PRCELLSTATE=0 | |
| Default NMODL flags: | |
| diff: arm64/corenrn/mod2c/_mod_func.cpp: No such file or directory | |
| [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced with cnexp solver | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => Binary creating arm64/special-core | |
| [INFO] MOD files built successfully for CoreNEURON | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././Gfluct3.mod | |
| -> NMODL .././hhkin.mod | |
| -> NMODL .././hhderiv.mod | |
| Translating hhkin.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/hhkin.cpp | |
| Translating hhderiv.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/hhderiv.cpp | |
| Translating Gfluct3.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/Gfluct3.cpp | |
| Thread Safe | |
| Thread Safe | |
| Thread Safe | |
| -> NMODL .././hhwatch.mod | |
| -> NMODL .././nacum.mod | |
| -> NMODL .././vecevent.mod | |
| Translating hhwatch.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/hhwatch.cpp | |
| Thread Safe | |
| Translating vecevent.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/vecevent.cpp | |
| Translating nacum.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/nacum.cpp | |
| Thread Safe | |
| Notice: ARTIFICIAL_CELL is a synonym for POINT_PROCESS which hints that it | |
| only affects and is affected by discrete events. As such it is not | |
| located in a section and is not associated with an integrator | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/Gfluct3.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/hhderiv.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/hhkin.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/hhwatch.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/nacum.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/vecevent.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/b62f97c7d3f6d905c774d64e10128b3300792f8f757b926b965c058a4d6ee876/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1614/1945] Generating ../../testcorenrn_bbcore/neuron/defvar.hoc | |
| [1615/1945] Generating ../../testcorenrn_bbcore/neuron/testbbcore.hoc | |
| [1616/1945] Generating ../../testcorenrn_bbcore/neuron/common.hoc | |
| [1617/1945] Generating ../../testcorenrn_bbcore/coreneuron_cpu_online/common.hoc | |
| [1618/1945] Generating ../../testcorenrn_bbcore/coreneuron_cpu_online/testbbcore.hoc | |
| [1619/1945] Generating ../../testcorenrn_bbcore/coreneuron_cpu_online/defvar.hoc | |
| [1620/1945] Generating ../../testcorenrn_bbcore/coreneuron_cpu_online_psolve_alternate/common.hoc | |
| [1621/1945] Generating ../../testcorenrn_bbcore/coreneuron_cpu_online_psolve_alternate/defvar.hoc | |
| [1622/1945] Generating ../../testcorenrn_bbcore/coreneuron_cpu_online_psolve_alternate/testbbcore.hoc | |
| [1623/1945] Generating ../../testcorenrn_bbcore/coreneuron_cpu_offline/defvar.hoc | |
| [1624/1945] Generating ../../testcorenrn_bbcore/coreneuron_cpu_offline/common.hoc | |
| [1625/1945] Generating ../../testcorenrn_bbcore/coreneuron_cpu_offline/testbbcore.hoc | |
| [1626/1945] Generating ../../testcorenrn_conc/neuron/common.hoc | |
| [1627/1945] Generating ../../testcorenrn_conc/neuron/defvar.hoc | |
| [1628/1945] Generating ../../testcorenrn_conc/neuron/testconc.hoc | |
| [1629/1945] Generating ../../testcorenrn_conc/coreneuron_cpu_online/common.hoc | |
| [1630/1945] Generating ../../testcorenrn_conc/coreneuron_cpu_online/defvar.hoc | |
| [1631/1945] Generating ../../testcorenrn_conc/coreneuron_cpu_online_psolve_alternate/common.hoc | |
| [1632/1945] Generating ../../testcorenrn_conc/coreneuron_cpu_online/testconc.hoc | |
| [1633/1945] Generating ../../testcorenrn_conc/coreneuron_cpu_online_psolve_alternate/defvar.hoc | |
| [1634/1945] Generating ../../testcorenrn_conc/coreneuron_cpu_online_psolve_alternate/testconc.hoc | |
| [1635/1945] Generating ../../testcorenrn_conc/coreneuron_cpu_offline/common.hoc | |
| [1636/1945] Generating ../../testcorenrn_conc/coreneuron_cpu_offline/defvar.hoc | |
| [1637/1945] Generating ../../testcorenrn_deriv/neuron/common.hoc | |
| [1638/1945] Generating ../../testcorenrn_deriv/neuron/defvar.hoc | |
| [1639/1945] Generating ../../testcorenrn_conc/coreneuron_cpu_offline/testconc.hoc | |
| [1640/1945] Generating ../../testcorenrn_deriv/neuron/testderiv.hoc | |
| [1641/1945] Generating ../../testcorenrn_deriv/coreneuron_cpu_online/defvar.hoc | |
| [1642/1945] Generating ../../testcorenrn_deriv/coreneuron_cpu_online/common.hoc | |
| [1643/1945] Generating ../../testcorenrn_deriv/coreneuron_cpu_online/testderiv.hoc | |
| [1644/1945] Generating ../../testcorenrn_deriv/coreneuron_cpu_online_psolve_alternate/common.hoc | |
| [1645/1945] Generating ../../testcorenrn_deriv/coreneuron_cpu_online_psolve_alternate/defvar.hoc | |
| [1646/1945] Generating ../../testcorenrn_deriv/coreneuron_cpu_online_psolve_alternate/testderiv.hoc | |
| [1647/1945] Generating ../../testcorenrn_deriv/coreneuron_cpu_offline/common.hoc | |
| [1648/1945] Generating ../../testcorenrn_deriv/coreneuron_cpu_offline/defvar.hoc | |
| [1649/1945] Generating ../../testcorenrn_deriv/coreneuron_cpu_offline/testderiv.hoc | |
| [1650/1945] Generating ../../testcorenrn_gf/neuron/defvar.hoc | |
| [1651/1945] Generating ../../testcorenrn_gf/neuron/common.hoc | |
| [1652/1945] Generating ../../testcorenrn_gf/coreneuron_cpu_online/defvar.hoc | |
| [1653/1945] Generating ../../testcorenrn_gf/neuron/testgf.hoc | |
| [1654/1945] Generating ../../testcorenrn_gf/coreneuron_cpu_online/common.hoc | |
| [1655/1945] Generating ../../testcorenrn_gf/coreneuron_cpu_online/testgf.hoc | |
| [1656/1945] Generating ../../testcorenrn_gf/coreneuron_cpu_online_psolve_alternate/defvar.hoc | |
| [1657/1945] Generating ../../testcorenrn_gf/coreneuron_cpu_online_psolve_alternate/common.hoc | |
| [1658/1945] Generating ../../testcorenrn_gf/coreneuron_cpu_online_psolve_alternate/testgf.hoc | |
| [1659/1945] Generating ../../testcorenrn_gf/coreneuron_cpu_offline/common.hoc | |
| [1660/1945] Generating ../../testcorenrn_gf/coreneuron_cpu_offline/defvar.hoc | |
| [1661/1945] Generating ../../testcorenrn_gf/coreneuron_cpu_offline/testgf.hoc | |
| [1662/1945] Generating ../../testcorenrn_kin/neuron/defvar.hoc | |
| [1663/1945] Generating ../../testcorenrn_kin/neuron/common.hoc | |
| [1664/1945] Generating ../../testcorenrn_kin/neuron/testkin.hoc | |
| [1665/1945] Generating ../../testcorenrn_kin/coreneuron_cpu_online/common.hoc | |
| [1666/1945] Generating ../../testcorenrn_kin/coreneuron_cpu_online/defvar.hoc | |
| [1667/1945] Generating ../../testcorenrn_kin/coreneuron_cpu_online_psolve_alternate/testkin.hoc | |
| [1668/1945] Generating ../../testcorenrn_kin/coreneuron_cpu_online_psolve_alternate/common.hoc | |
| [1669/1945] Generating ../../testcorenrn_kin/coreneuron_cpu_online/testkin.hoc | |
| [1670/1945] Generating ../../testcorenrn_kin/coreneuron_cpu_online_psolve_alternate/defvar.hoc | |
| [1671/1945] Generating ../../testcorenrn_kin/coreneuron_cpu_offline/defvar.hoc | |
| [1672/1945] Generating ../../testcorenrn_kin/coreneuron_cpu_offline/common.hoc | |
| [1673/1945] Generating ../../testcorenrn_kin/coreneuron_cpu_offline/testkin.hoc | |
| [1674/1945] Generating ../../testcorenrn_patstim/neuron/common.hoc | |
| [1675/1945] Generating ../../testcorenrn_patstim/coreneuron_cpu_offline_saverestore/common.hoc | |
| [1676/1945] Generating ../../testcorenrn_patstim/neuron/defvar.hoc | |
| [1677/1945] Generating ../../testcorenrn_patstim/neuron/testpatstim.hoc | |
| [1678/1945] Generating ../../testcorenrn_patstim/coreneuron_cpu_offline_saverestore/defvar.hoc | |
| [1679/1945] Generating ../../testcorenrn_patstim/coreneuron_cpu_offline/common.hoc | |
| [1680/1945] Generating ../../testcorenrn_patstim/coreneuron_cpu_offline/testpatstim.hoc | |
| [1681/1945] Generating ../../testcorenrn_patstim/coreneuron_cpu_offline_saverestore/testpatstim.hoc | |
| [1682/1945] Generating ../../testcorenrn_patstim/coreneuron_cpu_offline/defvar.hoc | |
| [1683/1945] Generating ../../testcorenrn_vecplay/neuron/common.hoc | |
| [1684/1945] Generating ../../testcorenrn_vecplay/coreneuron_cpu_online/testvecplay.hoc | |
| [1685/1945] Generating ../../testcorenrn_vecplay/neuron/defvar.hoc | |
| [1686/1945] Generating ../../testcorenrn_vecplay/neuron/testvecplay.hoc | |
| [1687/1945] Generating ../../testcorenrn_vecplay/coreneuron_cpu_online/common.hoc | |
| [1688/1945] Generating ../../testcorenrn_vecplay/coreneuron_cpu_online/defvar.hoc | |
| [1689/1945] Generating ../../testcorenrn_vecplay/coreneuron_cpu_online_psolve_alternate/common.hoc | |
| [1690/1945] Generating ../../testcorenrn_vecplay/coreneuron_cpu_online_psolve_alternate/defvar.hoc | |
| [1691/1945] Generating ../../testcorenrn_vecevent/neuron/common.hoc | |
| [1692/1945] Generating ../../testcorenrn_vecplay/coreneuron_cpu_offline/common.hoc | |
| [1693/1945] Generating ../../testcorenrn_vecplay/coreneuron_cpu_offline/defvar.hoc | |
| [1694/1945] Generating ../../testcorenrn_vecplay/coreneuron_cpu_online_psolve_alternate/testvecplay.hoc | |
| [1695/1945] Generating ../../testcorenrn_vecplay/coreneuron_cpu_offline/testvecplay.hoc | |
| [1696/1945] Generating ../../testcorenrn_vecevent/coreneuron_cpu_online/common.hoc | |
| [1697/1945] Generating ../../testcorenrn_vecevent/neuron/defvar.hoc | |
| [1698/1945] Generating ../../testcorenrn_vecevent/neuron/testvecevent.hoc | |
| [1699/1945] Generating ../../testcorenrn_vecevent/coreneuron_cpu_online/defvar.hoc | |
| [1700/1945] Generating ../../testcorenrn_vecevent/coreneuron_cpu_online/testvecevent.hoc | |
| [1701/1945] Generating ../../testcorenrn_vecevent/coreneuron_cpu_online_psolve_alternate/common.hoc | |
| [1702/1945] Generating ../../testcorenrn_vecevent/coreneuron_cpu_online_psolve_alternate/testvecevent.hoc | |
| [1703/1945] Generating ../../testcorenrn_vecevent/coreneuron_cpu_offline/common.hoc | |
| [1704/1945] Generating ../../testcorenrn_vecevent/coreneuron_cpu_online_psolve_alternate/defvar.hoc | |
| [1705/1945] Generating ../../testcorenrn_watch/neuron/common.hoc | |
| [1706/1945] Generating ../../testcorenrn_vecevent/coreneuron_cpu_offline/testvecevent.hoc | |
| [1707/1945] Generating ../../testcorenrn_vecevent/coreneuron_cpu_offline/defvar.hoc | |
| [1708/1945] Generating ../../testcorenrn_watch/neuron/testwatch.hoc | |
| [1709/1945] Generating ../../testcorenrn_watch/coreneuron_cpu_online/common.hoc | |
| [1710/1945] Generating ../../testcorenrn_watch/neuron/defvar.hoc | |
| [1711/1945] Generating ../../testcorenrn_watch/coreneuron_cpu_online/testwatch.hoc | |
| [1712/1945] Generating ../../testcorenrn_watch/coreneuron_cpu_online_psolve_alternate/common.hoc | |
| [1713/1945] Generating ../../testcorenrn_watch/coreneuron_cpu_online/defvar.hoc | |
| [1714/1945] Generating ../../testcorenrn_watch/coreneuron_cpu_online_psolve_alternate/defvar.hoc | |
| [1715/1945] Generating ../../testcorenrn_watch/coreneuron_cpu_offline/common.hoc | |
| [1716/1945] Generating ../../testcorenrn_watch/coreneuron_cpu_offline/testwatch.hoc | |
| [1717/1945] Generating ../../testcorenrn_watch/coreneuron_cpu_online_psolve_alternate/testwatch.hoc | |
| [1718/1945] Generating ../../testcorenrn_watch/coreneuron_cpu_offline/defvar.hoc | |
| [1719/1945] Generating ../../testcorenrn_netstimdirect/direct_netstimdirect_psolve_alternate/defvar.hoc | |
| [1720/1945] Generating ../../testcorenrn_netstimdirect/direct_netstimdirect_psolve_alternate/common.hoc | |
| [1721/1945] Generating ../../testcorenrn_netstimdirect/direct_netstimdirect/common.hoc | |
| [1722/1945] Generating ../../testcorenrn_netstimdirect/direct_netstimdirect/defvar.hoc | |
| [1723/1945] Generating ../../testcorenrn_netstimdirect/direct_netstimdirect/testnetstimdirect.hoc | |
| [1724/1945] Generating ../../testcorenrn_netstimdirect/direct_netstimdirect_psolve_alternate/testnetstimdirect.hoc | |
| [1725/1945] Building special[-core] for test group coreneuron_modtests | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7 | |
| cfiles = | |
| Mod files: "./axial.mod" "./axial_pp.mod" "./bacur.mod" "./banocur.mod" "./fornetcon.mod" "./green.mod" "./invlfire.mod" "./natrans.mod" "./netmove.mod" "./noisychan.mod" "./red.mod" "./sample.mod" "./unitstest.mod" "./version_macros.mod" "./watchrange.mod" "./watchrange2.mod" | |
| MODOBJS= ./axial.o ./axial_pp.o ./bacur.o ./banocur.o ./fornetcon.o ./green.o ./invlfire.o ./natrans.o ./netmove.o ./noisychan.o ./red.o ./sample.o ./unitstest.o ./version_macros.o ./watchrange.o ./watchrange2.o | |
| [INFO] Running: make -j4 -f /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/coreneuron/nrnivmodl_core_makefile ROOT=/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build MODS_PATH=arm64/corenrn/mod2c BUILD_TYPE=SHARED NRN_PRCELLSTATE=0 | |
| Default NMODL flags: | |
| diff: arm64/corenrn/mod2c/_mod_func.cpp: No such file or directory | |
| [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced with cnexp solver | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => Binary creating arm64/special-core | |
| [INFO] MOD files built successfully for CoreNEURON | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././axial.mod | |
| -> NMODL .././axial_pp.mod | |
| -> NMODL .././bacur.mod | |
| Translating axial_pp.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/axial_pp.cpp | |
| INCLUDEing axial.inc | |
| Thread Safe | |
| Translating axial.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/axial.cpp | |
| INCLUDEing axial.inc | |
| Thread Safe | |
| Translating bacur.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/bacur.cpp | |
| Thread Safe | |
| -> NMODL .././banocur.mod | |
| -> NMODL .././fornetcon.mod | |
| -> NMODL .././green.mod | |
| Translating banocur.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/banocur.cpp | |
| Notice: This mechanism cannot be used with CVODE | |
| Thread Safe | |
| Translating green.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/green.cpp | |
| Warning: dt undefined. (declared within VERBATIM?) | |
| Thread Safe | |
| Translating fornetcon.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/fornetcon.cpp | |
| Thread Safe | |
| -> NMODL .././invlfire.mod | |
| -> NMODL .././natrans.mod | |
| -> NMODL .././netmove.mod | |
| Translating natrans.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/natrans.cpp | |
| Thread Safe | |
| Translating invlfire.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/invlfire.cpp | |
| Thread Safe | |
| Translating netmove.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/netmove.cpp | |
| Thread Safe | |
| -> NMODL .././noisychan.mod | |
| -> NMODL .././red.mod | |
| -> NMODL .././sample.mod | |
| Translating red.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/red.cpp | |
| Thread Safe | |
| Translating noisychan.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/noisychan.cpp | |
| Thread Safe | |
| -> NMODL .././unitstest.mod | |
| -> NMODL .././version_macros.mod | |
| Translating sample.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/sample.cpp | |
| Thread Safe | |
| -> NMODL .././watchrange.mod | |
| Translating unitstest.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/unitstest.cpp | |
| Thread Safe | |
| Translating version_macros.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/version_macros.cpp | |
| Thread Safe | |
| -> NMODL .././watchrange2.mod | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/axial.cpp | |
| Translating watchrange.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/watchrange.cpp | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/axial_pp.cpp | |
| Translating watchrange2.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/watchrange2.cpp | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/bacur.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/banocur.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/fornetcon.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/green.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/invlfire.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/natrans.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/netmove.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/noisychan.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/red.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/sample.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/unitstest.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/version_macros.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/watchrange.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/watchrange2.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/c35d2f235e0f3860fbecadf05ec8c2b6901bba2525195c69836276a4b5d88ca7/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1726/1945] Generating coreneuron_modtests/version_macros/test/pytest_coreneuron/test_version_macros.py | |
| [1727/1945] Generating coreneuron_modtests/direct_py_cpu/test/coreneuron/test_direct.py | |
| [1728/1945] Generating coreneuron_modtests/direct_hoc_cpu/test/coreneuron/test_direct.hoc | |
| [1729/1945] Generating coreneuron_modtests/inputpresyn_py/test/coreneuron/test_inputpresyn.py | |
| [1730/1945] Generating coreneuron_modtests/fornetcon_py_cpu/test/coreneuron/test_fornetcon.py | |
| [1731/1945] Generating coreneuron_modtests/spikes_py_cpu/test/coreneuron/test_spikes.py | |
| [1732/1945] Generating coreneuron_modtests/fast_imem_py_cpu/test/pytest_coreneuron/test_fast_imem.py | |
| [1733/1945] Generating coreneuron_modtests/spikes_file_mode_py_cpu/test/coreneuron/test_spikes.py | |
| [1734/1945] Generating coreneuron_modtests/test_netmove_py_cpu/test/coreneuron/test_netmove.py | |
| [1735/1945] Generating coreneuron_modtests/test_watchrange_py_cpu/test/coreneuron/test_watchrange.py | |
| [1736/1945] Generating coreneuron_modtests/datareturn_py_cpu/test/coreneuron/test_datareturn.py | |
| [1737/1945] Generating coreneuron_modtests/test_units_py_cpu/test/coreneuron/test_units.py | |
| [1738/1945] Generating coreneuron_modtests/test_psolve_py_cpu/test/coreneuron/test_psolve.py | |
| [1739/1945] Generating coreneuron_modtests/test_pointer_py_cpu/test/coreneuron/test_pointer.py | |
| [1740/1945] Generating coreneuron_modtests/test_ba_py_cpu/test/coreneuron/test_ba.py | |
| [1741/1945] Generating coreneuron_modtests/test_nmodlrandom_py_cpu/test/coreneuron/test_nmodlrandom.py | |
| [1742/1945] Generating coreneuron_modtests/test_nmodlrandom_syntax_py_cpu/test/coreneuron/test_nmodlrandom_syntax.py | |
| [1743/1945] Generating coreneuron_modtests/test_natrans_py_cpu/test/gjtests/test_natrans.py | |
| [1744/1945] Generating coreneuron_modtests/array_variable_transfer_run_mode_0_py_cpu/test/coreneuron/test_array_variables_transfer.py | |
| [1745/1945] Generating coreneuron_modtests/array_variable_transfer_run_mode_2_py_cpu/test/coreneuron/test_array_variables_transfer.py | |
| [1746/1945] Generating coreneuron_modtests/array_variable_transfer_file_mode_py_cpu/test/coreneuron/test_array_variables_transfer.py | |
| [1747/1945] Generating coreneuron_modtests/array_variable_transfer_run_mode_1_py_cpu/test/coreneuron/test_array_variables_transfer.py | |
| [1748/1945] Building special[-core] for test group example_nmodl | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2 | |
| cfiles = | |
| Mod files: "./argpass.mod" "./cabpump.mod" "./cachan.mod" "./cacum.mod" "./cacur.mod" "./cadif.mod" "./cadifusl.mod" "./cagk.mod" "./cagkftab.mod" "./capmp.mod" "./expsynspine.mod" "./fh.mod" "./fit1.mod" "./gap.mod" "./hh1.mod" "./hhvect.mod" "./inatest.mod" "./ionleak.mod" "./nacum.mod" "./nacur.mod" "./nadifl.mod" "./nonlin.mod" "./obj_ex.mod" "./order.mod" "./passiv.mod" "./rchan.mod" "./stim1.mod" "./str.mod" "./syn1.mod" "./synpre.mod" "./trivial.mod" "./tstdarray.mod" "./tstextrn.mod" "./tstpnt1.mod" "./tstpnt2.mod" "./tstvec.mod" "./vclmp1.mod" "./vlag.mod" | |
| MODOBJS= ./argpass.o ./cabpump.o ./cachan.o ./cacum.o ./cacur.o ./cadif.o ./cadifusl.o ./cagk.o ./cagkftab.o ./capmp.o ./expsynspine.o ./fh.o ./fit1.o ./gap.o ./hh1.o ./hhvect.o ./inatest.o ./ionleak.o ./nacum.o ./nacur.o ./nadifl.o ./nonlin.o ./obj_ex.o ./order.o ./passiv.o ./rchan.o ./stim1.o ./str.o ./syn1.o ./synpre.o ./trivial.o ./tstdarray.o ./tstextrn.o ./tstpnt1.o ./tstpnt2.o ./tstvec.o ./vclmp1.o ./vlag.o | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././argpass.mod | |
| -> NMODL .././cabpump.mod | |
| -> NMODL .././cachan.mod | |
| Translating argpass.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/argpass.cpp | |
| Notice: VERBATIM blocks are not thread safe | |
| Translating cachan.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cachan.cpp | |
| Thread Safe | |
| Translating cabpump.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cabpump.cpp | |
| Notice: Assignment to the GLOBAL variable, "vol", is not thread safe | |
| -> NMODL .././cacum.mod | |
| -> NMODL .././cacur.mod | |
| -> NMODL .././cadif.mod | |
| Translating cacum.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cacum.cpp | |
| Translating cacur.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cacur.cpp | |
| Thread Safe | |
| Thread Safe | |
| Translating cadif.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cadif.cpp | |
| Thread Safe | |
| -> NMODL .././cadifusl.mod | |
| -> NMODL .././cagk.mod | |
| -> NMODL .././cagkftab.mod | |
| Translating cagk.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cagk.cpp | |
| Translating cadifusl.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cadifusl.cpp | |
| Thread Safe | |
| Notice: Assignment to the GLOBAL variable, "vol", is not thread safe | |
| Translating cagkftab.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cagkftab.cpp | |
| -> NMODL .././capmp.mod | |
| -> NMODL .././expsynspine.mod | |
| Thread Safe | |
| -> NMODL .././fh.mod | |
| Translating expsynspine.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/expsynspine.cpp | |
| Translating capmp.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/capmp.cpp | |
| Notice: LINEAR is not thread safe. | |
| NEURON's CVode method ignores conservation | |
| Thread Safe | |
| -> NMODL .././fit1.mod | |
| -> NMODL .././gap.mod | |
| Translating fh.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/fh.cpp | |
| INCLUDEing standard.inc | |
| Notice: Assignment to the GLOBAL variable, "inf", is not thread safe | |
| Notice: Assignment to the GLOBAL variable, "tau", is not thread safe | |
| -> NMODL .././hh1.mod | |
| Translating fit1.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/fit1.cpp | |
| Notice: VERBATIM blocks are not thread safe | |
| Translating gap.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/gap.cpp | |
| Notice: Use of POINTER is not thread safe. | |
| -> NMODL .././hhvect.mod | |
| -> NMODL .././inatest.mod | |
| Translating hh1.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/hh1.cpp | |
| Notice: This mechanism cannot be used with CVODE | |
| Notice: Assignment to the GLOBAL variable, "hexp", is not thread safe | |
| Notice: Assignment to the GLOBAL variable, "hinf", is not thread safe | |
| Notice: Assignment to the GLOBAL variable, "mexp", is not thread safe | |
| Notice: Assignment to the GLOBAL variable, "minf", is not thread safe | |
| Notice: Assignment to the GLOBAL variable, "nexp", is not thread safe | |
| Notice: Assignment to the GLOBAL variable, "ninf", is not thread safe | |
| Warning: Default 6.3 of PARAMETER celsius will be ignored and set by NEURON. | |
| Warning: Default -77.5 of PARAMETER ek will be ignored and set by NEURON. | |
| Warning: Default 50 of PARAMETER ena will be ignored and set by NEURON. | |
| -> NMODL .././ionleak.mod | |
| Translating hhvect.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/hhvect.cpp | |
| Notice: This mechanism cannot be used with CVODE | |
| Thread Safe | |
| Warning: Default 6.3 of PARAMETER celsius will be ignored and set by NEURON. | |
| Warning: Default -77.5 of PARAMETER ek will be ignored and set by NEURON. | |
| Warning: Default 50 of PARAMETER ena will be ignored and set by NEURON. | |
| -> NMODL .././nacum.mod | |
| Translating inatest.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/inatest.cpp | |
| Thread Safe | |
| -> NMODL .././nacur.mod | |
| Translating ionleak.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/ionleak.cpp | |
| Thread Safe | |
| -> NMODL .././nadifl.mod | |
| Translating nacum.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/nacum.cpp | |
| Thread Safe | |
| -> NMODL .././nonlin.mod | |
| Translating nacur.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/nacur.cpp | |
| Thread Safe | |
| -> NMODL .././obj_ex.mod | |
| Translating nadifl.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/nadifl.cpp | |
| Thread Safe | |
| -> NMODL .././order.mod | |
| Translating nonlin.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/nonlin.cpp | |
| Notice: NONLINEAR is not thread safe. | |
| Notice: ARTIFICIAL_CELL is a synonym for POINT_PROCESS which hints that it | |
| only affects and is affected by discrete events. As such it is not | |
| located in a section and is not associated with an integrator | |
| -> NMODL .././passiv.mod | |
| Translating obj_ex.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/obj_ex.cpp | |
| Thread Safe | |
| -> NMODL .././rchan.mod | |
| Translating order.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/order.cpp | |
| Thread Safe | |
| -> NMODL .././stim1.mod | |
| Translating passiv.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/passiv.cpp | |
| Thread Safe | |
| Translating rchan.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/rchan.cpp | |
| Notice: normrand is not thread safe | |
| Notice: This mechanism cannot be used with CVODE | |
| -> NMODL .././str.mod | |
| -> NMODL .././syn1.mod | |
| Translating stim1.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/stim1.cpp | |
| Thread Safe | |
| -> NMODL .././synpre.mod | |
| Translating syn1.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/syn1.cpp | |
| Thread Safe | |
| -> NMODL .././trivial.mod | |
| -> NMODL .././tstdarray.mod | |
| Translating str.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/str.cpp | |
| Notice: VERBATIM blocks are not thread safe | |
| Translating synpre.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/synpre.cpp | |
| Notice: Use of POINTER is not thread safe. | |
| Notice: VERBATIM blocks are not thread safe | |
| Notice: This mechanism cannot be used with CVODE | |
| -> NMODL .././tstextrn.mod | |
| -> NMODL .././tstpnt1.mod | |
| Translating trivial.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/trivial.cpp | |
| Translating tstdarray.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/tstdarray.cpp | |
| Thread Safe | |
| -> NMODL .././tstpnt2.mod | |
| Translating tstextrn.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/tstextrn.cpp | |
| Notice: Use of EXTERNAL is not thread safe. | |
| -> NMODL .././tstvec.mod | |
| -> NMODL .././vclmp1.mod | |
| Translating tstpnt1.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/tstpnt1.cpp | |
| Notice: Use of POINTER is not thread safe. | |
| -> NMODL .././vlag.mod | |
| Translating tstpnt2.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/tstpnt2.cpp | |
| Notice: Use of POINTER is not thread safe. | |
| Translating tstvec.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/tstvec.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/argpass.cpp | |
| Translating vclmp1.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/vclmp1.cpp | |
| Notice: VERBATIM blocks are not thread safe | |
| Notice: This mechanism cannot be used with CVODE | |
| Notice: LINEAR is not thread safe. | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cabpump.cpp | |
| Translating vlag.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/vlag.cpp | |
| Thread Safe | |
| Notice: VERBATIM blocks are not thread safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cachan.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cacum.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cacur.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cadif.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cadifusl.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cagk.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/cagkftab.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/capmp.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/expsynspine.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/fh.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/fit1.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/gap.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/hh1.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/hhvect.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/inatest.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/ionleak.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/nacum.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/nacur.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/nadifl.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/nonlin.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/obj_ex.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/order.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/passiv.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/rchan.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/stim1.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/str.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/syn1.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/synpre.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/trivial.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/tstdarray.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/tstextrn.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/tstpnt1.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/tstpnt2.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/tstvec.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/vclmp1.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/vlag.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/263a5c542e063ee6760ce51af8be262e1c89db6e16b2211fb308c533e45334f2/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1749/1945] Generating coreneuron_modtests/spikes_mpi_file_mode_py_cpu/test/coreneuron/test_spikes.py | |
| [1750/1945] Generating coreneuron_modtests/test_subworlds_py_cpu/test/coreneuron/test_subworlds.py | |
| [1751/1945] Generating example_nmodl/ca_ap_hoc/ca_ap.hoc | |
| [1752/1945] Generating example_nmodl/cabpump_hoc/cabpump.hoc | |
| [1753/1945] Generating example_nmodl/cachan_hoc/cachan.hoc | |
| [1754/1945] Generating example_nmodl/cadif_hoc/cadif.hoc | |
| [1755/1945] Generating example_nmodl/cadifusl2_hoc/cadifusl2.hoc | |
| [1756/1945] Generating example_nmodl/cadif_hoc/cadif.ses | |
| [1757/1945] Generating example_nmodl/cadifusl_hoc/cadifusl.hoc | |
| [1758/1945] Generating example_nmodl/cagk_hoc/cagk.hoc | |
| [1759/1945] Generating example_nmodl/cadifusl1_hoc/cadifusl1.hoc | |
| [1760/1945] Generating example_nmodl/cv_hoc/cv.hoc | |
| [1761/1945] Generating example_nmodl/fit1_hoc/fit1.hoc | |
| [1762/1945] Generating example_nmodl/nacum_hoc/nacum.hoc | |
| [1763/1945] Generating example_nmodl/fh_hoc/fh.hoc | |
| [1764/1945] Generating example_nmodl/hhvect_hoc/hhvect.hoc | |
| [1765/1945] Generating example_nmodl/capmp_hoc/capmp.hoc | |
| [1766/1945] Generating example_nmodl/gap_hoc/gap.hoc | |
| [1767/1945] Generating example_nmodl/hh1_hoc/hh1.hoc | |
| [1768/1945] Generating example_nmodl/nadifl1_hoc/nadifl1.ses | |
| [1769/1945] Generating example_nmodl/nadifl1_hoc/nadifl1.hoc | |
| [1770/1945] Generating example_nmodl/nadifl2_hoc/nadifl2.ses | |
| [1771/1945] Generating example_nmodl/nadifl2_hoc/nadifl2.hoc | |
| [1772/1945] Generating example_nmodl/obj_ex_hoc/obj_ex.hoc | |
| [1773/1945] Generating example_nmodl/nadifl3_hoc/nadifl3.hoc | |
| [1774/1945] Generating example_nmodl/nadifl4_hoc/nadifl4.hoc | |
| [1775/1945] Generating example_nmodl/order_hoc/order.hoc | |
| [1776/1945] Generating example_nmodl/nadifl3_hoc/nadifl3.ses | |
| [1777/1945] Generating example_nmodl/nadifl4_hoc/nadifl4.ses | |
| [1778/1945] Generating example_nmodl/passiv_hoc/passiv.hoc | |
| [1779/1945] Generating example_nmodl/syn1_hoc/syn1.hoc | |
| [1780/1945] Generating example_nmodl/stim1_hoc/stim1.hoc | |
| [1781/1945] Generating example_nmodl/tstextrn_hoc/tstextrn.hoc | |
| [1782/1945] Generating example_nmodl/synpre_hoc/synpre.hoc | |
| [1783/1945] Generating example_nmodl/tstpnt2_hoc/tstpnt2.hoc | |
| [1784/1945] Generating example_nmodl/expsynspine_py/expsynspine.py | |
| [1785/1945] Generating example_nmodl/tstpnt1_hoc/tstpnt1.hoc | |
| [1786/1945] Generating example_nmodl/expsynspine_py/expsynspine.ses | |
| [1787/1945] Generating example_nmodl/cagkftab_py/cagkftab.py | |
| [1788/1945] Generating example_nmodl/tstvec_hoc/tstvec.hoc | |
| [1789/1945] Generating example_nmodl/nonlin_py/nonlin.py | |
| [1790/1945] Generating example_nmodl/tstpnt1_py/tstpnt1.py | |
| [1791/1945] Generating example_nmodl/vlag_py/vlag.py | |
| [1792/1945] Generating example_nmodl/tstpnt2_py/tstpnt2.py | |
| [1793/1945] Building special[-core] for test group reduced_dentate | |
| /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead | |
| cfiles = | |
| Mod files: "./Aradi_Ca.mod" "./Aradi_CadepK.mod" "./Aradi_KA.mod" "./Aradi_KDRf.mod" "./Aradi_KDRs.mod" "./Aradi_Na.mod" "./CaBK.mod" "./DGC_M.mod" "./DGC_UK.mod" "./DGC_sAHP.mod" "./Gfluct3.mod" "./LcaMig.mod" "./SH_KIn.mod" "./SH_na8st.mod" "./bgka.mod" "./ccanl.mod" "./ggap.mod" "./gskch.mod" "./holdingi.mod" "./hyperde3.mod" "./ichan2.mod" "./iconc_Ca.mod" "./kcaPR.mod" "./na3n.mod" "./nca.mod" "./spines.mod" "./tca.mod" "./vecevent.mod" | |
| MODOBJS= ./Aradi_Ca.o ./Aradi_CadepK.o ./Aradi_KA.o ./Aradi_KDRf.o ./Aradi_KDRs.o ./Aradi_Na.o ./CaBK.o ./DGC_M.o ./DGC_UK.o ./DGC_sAHP.o ./Gfluct3.o ./LcaMig.o ./SH_KIn.o ./SH_na8st.o ./bgka.o ./ccanl.o ./ggap.o ./gskch.o ./holdingi.o ./hyperde3.o ./ichan2.o ./iconc_Ca.o ./kcaPR.o ./na3n.o ./nca.o ./spines.o ./tca.o ./vecevent.o | |
| [INFO] Running: make -j4 -f /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/share/coreneuron/nrnivmodl_core_makefile ROOT=/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build MODS_PATH=arm64/corenrn/mod2c BUILD_TYPE=SHARED NRN_PRCELLSTATE=0 | |
| Default NMODL flags: | |
| diff: arm64/corenrn/mod2c/_mod_func.cpp: No such file or directory | |
| [NMODL] [warning] :: CVode solver of icur in 64.20-30 replaced with cnexp solver | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => Binary creating arm64/special-core | |
| [INFO] MOD files built successfully for CoreNEURON | |
| -> Compiling mod_func.cpp | |
| -> NMODL .././Aradi_Ca.mod | |
| -> NMODL .././Aradi_KA.mod | |
| -> NMODL .././Aradi_CadepK.mod | |
| Translating Aradi_Ca.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Aradi_Ca.cpp | |
| Thread Safe | |
| Translating Aradi_KA.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Aradi_KA.cpp | |
| Thread Safe | |
| Translating Aradi_CadepK.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Aradi_CadepK.cpp | |
| Thread Safe | |
| -> NMODL .././Aradi_KDRf.mod | |
| -> NMODL .././Aradi_KDRs.mod | |
| -> NMODL .././Aradi_Na.mod | |
| Translating Aradi_KDRf.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Aradi_KDRf.cpp | |
| Translating Aradi_KDRs.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Aradi_KDRs.cpp | |
| Thread Safe | |
| Thread Safe | |
| Translating Aradi_Na.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Aradi_Na.cpp | |
| Thread Safe | |
| -> NMODL .././CaBK.mod | |
| -> NMODL .././DGC_M.mod | |
| -> NMODL .././DGC_UK.mod | |
| Translating CaBK.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/CaBK.cpp | |
| Thread Safe | |
| Translating DGC_M.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/DGC_M.cpp | |
| Thread Safe | |
| Translating DGC_UK.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/DGC_UK.cpp | |
| Thread Safe | |
| -> NMODL .././DGC_sAHP.mod | |
| -> NMODL .././Gfluct3.mod | |
| -> NMODL .././LcaMig.mod | |
| -> NMODL .././SH_KIn.mod | |
| Translating Gfluct3.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Gfluct3.cpp | |
| Thread Safe | |
| Translating LcaMig.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/LcaMig.cpp | |
| Thread Safe | |
| Translating DGC_sAHP.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/DGC_sAHP.cpp | |
| Thread Safe | |
| -> NMODL .././SH_na8st.mod | |
| Translating SH_KIn.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/SH_KIn.cpp | |
| Thread Safe | |
| -> NMODL .././bgka.mod | |
| -> NMODL .././ccanl.mod | |
| -> NMODL .././ggap.mod | |
| Translating SH_na8st.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/SH_na8st.cpp | |
| NEURON's CVode method ignores conservation | |
| Thread Safe | |
| Translating bgka.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/bgka.cpp | |
| Translating ccanl.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/ccanl.cpp | |
| Thread Safe | |
| Thread Safe | |
| -> NMODL .././gskch.mod | |
| -> NMODL .././holdingi.mod | |
| -> NMODL .././hyperde3.mod | |
| Translating ggap.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/ggap.cpp | |
| Thread Safe | |
| -> NMODL .././ichan2.mod | |
| Translating gskch.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/gskch.cpp | |
| Translating holdingi.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/holdingi.cpp | |
| Thread Safe | |
| Thread Safe | |
| Translating hyperde3.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/hyperde3.cpp | |
| Thread Safe | |
| -> NMODL .././kcaPR.mod | |
| -> NMODL .././iconc_Ca.mod | |
| Translating ichan2.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/ichan2.cpp | |
| -> NMODL .././na3n.mod | |
| Thread Safe | |
| -> NMODL .././nca.mod | |
| Translating kcaPR.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/kcaPR.cpp | |
| Thread Safe | |
| Translating iconc_Ca.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/iconc_Ca.cpp | |
| Thread Safe | |
| Translating na3n.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/na3n.cpp | |
| Thread Safe | |
| -> NMODL .././spines.mod | |
| -> NMODL .././tca.mod | |
| Translating nca.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/nca.cpp | |
| Thread Safe | |
| -> NMODL .././vecevent.mod | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Aradi_Ca.cpp | |
| Translating spines.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/spines.cpp | |
| Thread Safe | |
| Translating tca.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/tca.cpp | |
| Thread Safe | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Aradi_CadepK.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Aradi_KA.cpp | |
| Translating vecevent.mod into /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/vecevent.cpp | |
| Thread Safe | |
| Notice: ARTIFICIAL_CELL is a synonym for POINT_PROCESS which hints that it | |
| only affects and is affected by discrete events. As such it is not | |
| located in a section and is not associated with an integrator | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Aradi_KDRf.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Aradi_KDRs.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Aradi_Na.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/CaBK.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/DGC_M.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/DGC_UK.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/DGC_sAHP.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/Gfluct3.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/LcaMig.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/SH_KIn.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/SH_na8st.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/bgka.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/ccanl.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/ggap.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/gskch.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/holdingi.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/hyperde3.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/ichan2.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/iconc_Ca.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/kcaPR.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/na3n.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/nca.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/spines.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/tca.cpp | |
| -> Compiling /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/vecevent.cpp | |
| => LINKING shared library "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/./libnrnmech.dylib" | |
| ld: warning: -undefined dynamic_lookup may not work with chained fixups | |
| => LINKING executable "/Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build/test/nrnivmodl/53c432f7080fe7b786e16536f2d17f96d387425d200c645a6b4cec93b5edfead/arm64/./special" LDFLAGS are: | |
| Successfully created arm64/special | |
| [1794/1945] Generating ../../reduced_dentate/neuron/dat/DGC_dendrite_points.dat | |
| [1795/1945] Generating ../../reduced_dentate/neuron/dat/DGC_dendrite_topology.dat | |
| [1796/1945] Generating ../../reduced_dentate/neuron/commonutils.py | |
| [1797/1945] Generating ../../reduced_dentate/neuron/dat/soma_st8.dat | |
| [1798/1945] Generating ../../reduced_dentate/neuron/datasets/Control/AACstim.dat | |
| [1799/1945] Generating ../../reduced_dentate/neuron/dat/DGC_spine_density.dat | |
| [1800/1945] Generating ../../reduced_dentate/neuron/dat/axon_st8.dat | |
| [1801/1945] Generating ../../reduced_dentate/neuron/datasets/Control/AAC.dat | |
| [1802/1945] Generating ../../reduced_dentate/neuron/datasets/Control/AACtoGC.dat | |
| [1803/1945] Generating ../../reduced_dentate/neuron/datasets/Control/BC.dat | |
| [1804/1945] Generating ../../reduced_dentate/neuron/datasets/Control/AACtoMC.dat | |
| [1805/1945] Generating ../../reduced_dentate/neuron/datasets/Control/BCstim.dat | |
| [1806/1945] Generating ../../reduced_dentate/neuron/datasets/Control/BCtoGC.dat | |
| [1807/1945] Generating ../../reduced_dentate/neuron/datasets/Control/BCtoMC.dat | |
| [1808/1945] Generating ../../reduced_dentate/neuron/datasets/Control/BCtoBC.dat | |
| [1809/1945] Generating ../../reduced_dentate/neuron/datasets/Control/GC.dat | |
| [1810/1945] Generating ../../reduced_dentate/neuron/datasets/Control/GCstim.dat | |
| [1811/1945] Generating ../../reduced_dentate/neuron/datasets/Control/GCtoMC.dat | |
| [1812/1945] Generating ../../reduced_dentate/neuron/datasets/Control/GCtoBC.dat | |
| [1813/1945] Generating ../../reduced_dentate/neuron/datasets/Control/HC.dat | |
| [1814/1945] Generating ../../reduced_dentate/neuron/datasets/Control/GCtoAAC.dat | |
| [1815/1945] Generating ../../reduced_dentate/neuron/datasets/Control/HCtoGC.dat | |
| [1816/1945] Generating ../../reduced_dentate/neuron/datasets/Control/HCstim.dat | |
| [1817/1945] Generating ../../reduced_dentate/neuron/datasets/Control/HCtoMC.dat | |
| [1818/1945] Generating ../../reduced_dentate/neuron/datasets/Control/MC.dat | |
| [1819/1945] Generating ../../reduced_dentate/neuron/datasets/Control/MCtoAAC.dat | |
| [1820/1945] Generating ../../reduced_dentate/neuron/datasets/Control/HCtoHC.dat | |
| [1821/1945] Generating ../../reduced_dentate/neuron/datasets/Control/HCtoNGFC.dat | |
| [1822/1945] Generating ../../reduced_dentate/neuron/datasets/Control/MCtoBC.dat | |
| [1823/1945] Generating ../../reduced_dentate/neuron/datasets/Control/MCstim.dat | |
| [1824/1945] Generating ../../reduced_dentate/neuron/datasets/Control/MCtoGC.dat | |
| [1825/1945] Generating ../../reduced_dentate/neuron/datasets/Control/MPP.dat | |
| [1826/1945] Generating ../../reduced_dentate/neuron/datasets/Control/MCtoHC.dat | |
| [1827/1945] Generating ../../reduced_dentate/neuron/datasets/Control/MPP/MPPspiketrain.dat | |
| [1828/1945] Generating ../../reduced_dentate/neuron/datasets/Control/MCtoMC.dat | |
| [1829/1945] Generating ../../reduced_dentate/neuron/datasets/Control/NGFCtoAAC.dat | |
| [1830/1945] Generating ../../reduced_dentate/neuron/datasets/Control/MPPtoGC.dat | |
| [1831/1945] Generating ../../reduced_dentate/neuron/datasets/Control/NGFCstim.dat | |
| [1832/1945] Generating ../../reduced_dentate/neuron/datasets/Control/NGFC.dat | |
| [1833/1945] Generating ../../reduced_dentate/neuron/datasets/Control/NGFCtoBC.dat | |
| [1834/1945] Generating ../../reduced_dentate/neuron/datasets/Control/NGFCtoGC.dat | |
| [1835/1945] Generating ../../reduced_dentate/neuron/datasets/Control/NGFCtoNGFC.dat | |
| [1836/1945] Generating ../../reduced_dentate/neuron/datasets/Control/celltypes.dat | |
| [1837/1945] Generating ../../reduced_dentate/neuron/datasets/Control/gjBCtoBC.dat | |
| [1838/1945] Generating ../../reduced_dentate/neuron/datasets/Control/connectivity.dat | |
| [1839/1945] Generating ../../reduced_dentate/neuron/datasets/Control/gjHCtoHC.dat | |
| [1840/1945] Generating ../../reduced_dentate/neuron/datasets/Control/gjNGFCtoNGFC.dat | |
| [1841/1945] Generating ../../reduced_dentate/neuron/datasets/Control/syncomp.dat | |
| [1842/1945] Generating ../../reduced_dentate/neuron/datasets/Control/gapjunctions.dat | |
| [1843/1945] Generating ../../reduced_dentate/neuron/datasets/Control/stim.dat | |
| [1844/1945] Generating ../../reduced_dentate/neuron/datasets/Control/syndend.dat | |
| [1845/1945] Generating ../../reduced_dentate/neuron/datasets/Control/synerev.dat | |
| [1846/1945] Generating ../../reduced_dentate/neuron/lib.hoc | |
| [1847/1945] Generating ../../reduced_dentate/neuron/main.hoc | |
| [1848/1945] Generating ../../reduced_dentate/neuron/datasets/Control/syndecay.dat | |
| [1849/1945] Generating ../../reduced_dentate/neuron/datasets/Control/synrise.dat | |
| [1850/1945] Generating ../../reduced_dentate/neuron/parameters/Control.hoc | |
| [1851/1945] Generating ../../reduced_dentate/neuron/datasets/Control/synweight.dat | |
| [1852/1945] Generating ../../reduced_dentate/neuron/run.hoc | |
| [1853/1945] Generating ../../reduced_dentate/neuron/templates/AxoAxonicCell.hoc | |
| [1854/1945] Generating ../../reduced_dentate/neuron/templates/BasketCell.hoc | |
| [1855/1945] Generating ../../reduced_dentate/neuron/templates/DGC.hoc | |
| [1856/1945] Generating ../../reduced_dentate/neuron/templates/DGC_Biophysics_passive_na8st.hoc | |
| [1857/1945] Generating ../../reduced_dentate/neuron/templates/DGC_Morphology_from_file_na8st.hoc | |
| [1858/1945] Generating ../../reduced_dentate/neuron/templates/DGC_Synapses.hoc | |
| [1859/1945] Generating ../../reduced_dentate/neuron/templates/Dict.hoc | |
| [1860/1945] Generating ../../reduced_dentate/neuron/templates/DGC_Parameters_passive_na8st.hoc | |
| [1861/1945] Generating ../../reduced_dentate/neuron/templates/HIPPCell.hoc | |
| [1862/1945] Generating ../../reduced_dentate/neuron/templates/HICAPCell.hoc | |
| [1863/1945] Generating ../../reduced_dentate/neuron/templates/MPPCell.hoc | |
| [1864/1945] Generating ../../reduced_dentate/neuron/templates/MossyCell.hoc | |
| [1865/1945] Generating ../../reduced_dentate/neuron/templates/NGFCell.hoc | |
| [1866/1945] Generating ../../reduced_dentate/neuron/templates/StimCell.hoc | |
| [1867/1945] Generating ../../reduced_dentate/neuron/templates/defvar.hoc | |
| [1868/1945] Generating ../../reduced_dentate/neuron/templates/ranstream.hoc | |
| [1869/1945] Generating ../../reduced_dentate/coreneuron_cpu/commonutils.py | |
| [1870/1945] Generating ../../reduced_dentate/coreneuron_cpu/dat/DGC_spine_density.dat | |
| [1871/1945] Generating ../../reduced_dentate/neuron/templates/Value.hoc | |
| [1872/1945] Generating ../../reduced_dentate/coreneuron_cpu/dat/DGC_dendrite_topology.dat | |
| [1873/1945] Generating ../../reduced_dentate/coreneuron_cpu/dat/axon_st8.dat | |
| [1874/1945] Generating ../../reduced_dentate/coreneuron_cpu/dat/DGC_dendrite_points.dat | |
| [1875/1945] Generating ../../reduced_dentate/coreneuron_cpu/dat/soma_st8.dat | |
| [1876/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/AACtoMC.dat | |
| [1877/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/AAC.dat | |
| [1878/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/AACstim.dat | |
| [1879/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/BC.dat | |
| [1880/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/BCstim.dat | |
| [1881/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/AACtoGC.dat | |
| [1882/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/BCtoGC.dat | |
| [1883/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/GC.dat | |
| [1884/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/BCtoMC.dat | |
| [1885/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/BCtoBC.dat | |
| [1886/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/GCtoBC.dat | |
| [1887/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/GCtoAAC.dat | |
| [1888/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/HCstim.dat | |
| [1889/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/GCstim.dat | |
| [1890/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/HC.dat | |
| [1891/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/GCtoMC.dat | |
| [1892/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/HCtoGC.dat | |
| [1893/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/HCtoHC.dat | |
| [1894/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/HCtoMC.dat | |
| [1895/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/HCtoNGFC.dat | |
| [1896/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/MC.dat | |
| [1897/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/MCstim.dat | |
| [1898/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/MCtoAAC.dat | |
| [1899/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/MCtoGC.dat | |
| [1900/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/MCtoBC.dat | |
| [1901/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/MCtoHC.dat | |
| [1902/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/MPP.dat | |
| [1903/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/MCtoMC.dat | |
| [1904/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/MPP/MPPspiketrain.dat | |
| [1905/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/NGFC.dat | |
| [1906/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/MPPtoGC.dat | |
| [1907/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/NGFCstim.dat | |
| [1908/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/NGFCtoAAC.dat | |
| [1909/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/NGFCtoBC.dat | |
| [1910/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/NGFCtoGC.dat | |
| [1911/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/celltypes.dat | |
| [1912/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/connectivity.dat | |
| [1913/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/NGFCtoNGFC.dat | |
| [1914/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/gjBCtoBC.dat | |
| [1915/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/gjHCtoHC.dat | |
| [1916/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/gapjunctions.dat | |
| [1917/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/stim.dat | |
| [1918/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/syndend.dat | |
| [1919/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/gjNGFCtoNGFC.dat | |
| [1920/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/syndecay.dat | |
| [1921/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/syncomp.dat | |
| [1922/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/synerev.dat | |
| [1923/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/synrise.dat | |
| [1924/1945] Generating ../../reduced_dentate/coreneuron_cpu/datasets/Control/synweight.dat | |
| [1925/1945] Generating ../../reduced_dentate/coreneuron_cpu/lib.hoc | |
| [1926/1945] Generating ../../reduced_dentate/coreneuron_cpu/main.hoc | |
| [1927/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/AxoAxonicCell.hoc | |
| [1928/1945] Generating ../../reduced_dentate/coreneuron_cpu/parameters/Control.hoc | |
| [1929/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/BasketCell.hoc | |
| [1930/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/DGC_Biophysics_passive_na8st.hoc | |
| [1931/1945] Generating ../../reduced_dentate/coreneuron_cpu/run.hoc | |
| [1932/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/DGC.hoc | |
| [1933/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/DGC_Morphology_from_file_na8st.hoc | |
| [1934/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/DGC_Synapses.hoc | |
| [1935/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/DGC_Parameters_passive_na8st.hoc | |
| [1936/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/Dict.hoc | |
| [1937/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/HIPPCell.hoc | |
| [1938/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/MPPCell.hoc | |
| [1939/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/MossyCell.hoc | |
| [1940/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/NGFCell.hoc | |
| [1941/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/HICAPCell.hoc | |
| [1942/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/StimCell.hoc | |
| [1943/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/Value.hoc | |
| [1944/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/defvar.hoc | |
| [1945/1945] Generating ../../reduced_dentate/coreneuron_cpu/templates/ranstream.hoc | |
| [32;1m$ ccache -vs 2>/dev/null[0;m | |
| Cache directory: /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/ccache | |
| Config file: /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/ccache/ccache.conf | |
| System config file: /opt/homebrew/Cellar/ccache/4.9/etc/ccache.conf | |
| Stats updated: Tue Oct 29 12:34:35 2024 | |
| Cacheable calls: 627 / 627 (100.0%) | |
| Hits: 2 / 627 ( 0.32%) | |
| Direct: 1 / 2 (50.00%) | |
| Preprocessed: 1 / 2 (50.00%) | |
| Misses: 625 / 627 (99.68%) | |
| Successful lookups: | |
| Direct: 1 / 627 ( 0.16%) | |
| Preprocessed: 1 / 626 ( 0.16%) | |
| Local storage: | |
| Cache size (GiB): 0.1 / 5.0 ( 2.51%) | |
| Files: 1185 | |
| Hits: 2 / 627 ( 0.32%) | |
| Misses: 625 / 627 (99.68%) | |
| Reads: 1254 | |
| Writes: 1185 | |
| [32;1m$ echo $'[install]\nprefix='>src/nrnpython/setup.cfg[0;m | |
| [32;1m$ cat src/nrnpython/setup.cfg[0;m | |
| [install] | |
| prefix= | |
| [32;1m$ ctest --output-on-failure[0;m | |
| Test project /Users/gitlab-runner/builds/1/P237020/J1469756/hpc/cellular/nrn/build | |
| Start 245: external_ringtest::coreneuron_cpu_mpi_offline::preparation | |
| Start 255: testcorenrn_bbcore::coreneuron_cpu_offline::preparation | |
| 1/308 Test #255: testcorenrn_bbcore::coreneuron_cpu_offline::preparation .................. Passed 2.35 sec | |
| Start 261: testcorenrn_conc::coreneuron_cpu_offline::preparation | |
| 2/308 Test #261: testcorenrn_conc::coreneuron_cpu_offline::preparation .................... Passed 0.23 sec | |
| Start 267: testcorenrn_deriv::coreneuron_cpu_offline::preparation | |
| 3/308 Test #267: testcorenrn_deriv::coreneuron_cpu_offline::preparation ................... Passed 0.22 sec | |
| Start 279: testcorenrn_kin::coreneuron_cpu_offline::preparation | |
| 4/308 Test #279: testcorenrn_kin::coreneuron_cpu_offline::preparation ..................... Passed 0.21 sec | |
| Start 163: pyinit::nrniv_py3.10_python_check_sys_path::preparation | |
| 5/308 Test #163: pyinit::nrniv_py3.10_python_check_sys_path::preparation .................. Passed 0.02 sec | |
| Start 165: pyinit::nrniv_py3.10_nrnpython_check_sys_path::preparation | |
| 6/308 Test #165: pyinit::nrniv_py3.10_nrnpython_check_sys_path::preparation ............... Passed 0.02 sec | |
| Start 167: pyinit::nrniv_py3.10_python_check_sys_prefix::preparation | |
| 7/308 Test #167: pyinit::nrniv_py3.10_python_check_sys_prefix::preparation ................ Passed 0.02 sec | |
| Start 169: pyinit::nrniv_py3.10_nrnpython_check_sys_prefix::preparation | |
| 8/308 Test #169: pyinit::nrniv_py3.10_nrnpython_check_sys_prefix::preparation ............. Passed 0.02 sec | |
| Start 171: pyinit::nrniv_py3.10_python_check_sys_exec_prefix::preparation | |
| 9/308 Test #171: pyinit::nrniv_py3.10_python_check_sys_exec_prefix::preparation ........... Passed 0.02 sec | |
| Start 173: pyinit::nrniv_py3.10_nrnpython_check_sys_exec_prefix::preparation | |
| 10/308 Test #173: pyinit::nrniv_py3.10_nrnpython_check_sys_exec_prefix::preparation ........ Passed 0.02 sec | |
| Start 175: pyinit::nrniv_py3.10_python_check_sys_base_prefix::preparation | |
| 11/308 Test #175: pyinit::nrniv_py3.10_python_check_sys_base_prefix::preparation ........... Passed 0.02 sec | |
| Start 177: pyinit::nrniv_py3.10_nrnpython_check_sys_base_prefix::preparation | |
| 12/308 Test #177: pyinit::nrniv_py3.10_nrnpython_check_sys_base_prefix::preparation ........ Passed 0.02 sec | |
| Start 179: pyinit::nrniv_py3.10_python_check_sys_base_exec_prefix::preparation | |
| 13/308 Test #179: pyinit::nrniv_py3.10_python_check_sys_base_exec_prefix::preparation ...... Passed 0.02 sec | |
| Start 181: pyinit::nrniv_py3.10_nrnpython_check_sys_base_exec_prefix::preparation | |
| 14/308 Test #181: pyinit::nrniv_py3.10_nrnpython_check_sys_base_exec_prefix::preparation ... Passed 0.02 sec | |
| Start 183: pyinit::nrniv_py3.10_python_check_sys_stderr.encoding::preparation | |
| 15/308 Test #183: pyinit::nrniv_py3.10_python_check_sys_stderr.encoding::preparation ....... Passed 0.02 sec | |
| Start 185: pyinit::nrniv_py3.10_nrnpython_check_sys_stderr.encoding::preparation | |
| 16/308 Test #185: pyinit::nrniv_py3.10_nrnpython_check_sys_stderr.encoding::preparation .... Passed 0.02 sec | |
| Start 187: pyinit::nrniv_py3.10_python_check_sys_stdin.encoding::preparation | |
| 17/308 Test #187: pyinit::nrniv_py3.10_python_check_sys_stdin.encoding::preparation ........ Passed 0.02 sec | |
| Start 189: pyinit::nrniv_py3.10_nrnpython_check_sys_stdin.encoding::preparation | |
| 18/308 Test #189: pyinit::nrniv_py3.10_nrnpython_check_sys_stdin.encoding::preparation ..... Passed 0.02 sec | |
| Start 191: pyinit::nrniv_py3.10_python_check_sys_stdout.encoding::preparation | |
| 19/308 Test #191: pyinit::nrniv_py3.10_python_check_sys_stdout.encoding::preparation ....... Passed 0.02 sec | |
| Start 193: pyinit::nrniv_py3.10_nrnpython_check_sys_stdout.encoding::preparation | |
| 20/308 Test #193: pyinit::nrniv_py3.10_nrnpython_check_sys_stdout.encoding::preparation .... Passed 0.02 sec | |
| Start 199: pyinit::nrniv_pydef_python_check_sys_path::preparation | |
| 21/308 Test #199: pyinit::nrniv_pydef_python_check_sys_path::preparation ................... Passed 0.02 sec | |
| Start 201: pyinit::nrniv_pydef_nrnpython_check_sys_path::preparation | |
| 22/308 Test #201: pyinit::nrniv_pydef_nrnpython_check_sys_path::preparation ................ Passed 0.02 sec | |
| Start 203: pyinit::nrniv_pydef_python_check_sys_prefix::preparation | |
| 23/308 Test #203: pyinit::nrniv_pydef_python_check_sys_prefix::preparation ................. Passed 0.02 sec | |
| Start 205: pyinit::nrniv_pydef_nrnpython_check_sys_prefix::preparation | |
| 24/308 Test #205: pyinit::nrniv_pydef_nrnpython_check_sys_prefix::preparation .............. Passed 0.02 sec | |
| Start 207: pyinit::nrniv_pydef_python_check_sys_exec_prefix::preparation | |
| 25/308 Test #207: pyinit::nrniv_pydef_python_check_sys_exec_prefix::preparation ............ Passed 0.02 sec | |
| Start 209: pyinit::nrniv_pydef_nrnpython_check_sys_exec_prefix::preparation | |
| 26/308 Test #209: pyinit::nrniv_pydef_nrnpython_check_sys_exec_prefix::preparation ......... Passed 0.02 sec | |
| Start 211: pyinit::nrniv_pydef_python_check_sys_base_prefix::preparation | |
| 27/308 Test #211: pyinit::nrniv_pydef_python_check_sys_base_prefix::preparation ............ Passed 0.02 sec | |
| Start 213: pyinit::nrniv_pydef_nrnpython_check_sys_base_prefix::preparation | |
| 28/308 Test #213: pyinit::nrniv_pydef_nrnpython_check_sys_base_prefix::preparation ......... Passed 0.02 sec | |
| Start 215: pyinit::nrniv_pydef_python_check_sys_base_exec_prefix::preparation | |
| 29/308 Test #215: pyinit::nrniv_pydef_python_check_sys_base_exec_prefix::preparation ....... Passed 0.02 sec | |
| Start 217: pyinit::nrniv_pydef_nrnpython_check_sys_base_exec_prefix::preparation | |
| 30/308 Test #217: pyinit::nrniv_pydef_nrnpython_check_sys_base_exec_prefix::preparation .... Passed 0.02 sec | |
| Start 219: pyinit::nrniv_pydef_python_check_sys_stderr.encoding::preparation | |
| 31/308 Test #219: pyinit::nrniv_pydef_python_check_sys_stderr.encoding::preparation ........ Passed 0.02 sec | |
| Start 221: pyinit::nrniv_pydef_nrnpython_check_sys_stderr.encoding::preparation | |
| 32/308 Test #221: pyinit::nrniv_pydef_nrnpython_check_sys_stderr.encoding::preparation ..... Passed 0.02 sec | |
| Start 223: pyinit::nrniv_pydef_python_check_sys_stdin.encoding::preparation | |
| 33/308 Test #223: pyinit::nrniv_pydef_python_check_sys_stdin.encoding::preparation ......... Passed 0.02 sec | |
| Start 225: pyinit::nrniv_pydef_nrnpython_check_sys_stdin.encoding::preparation | |
| 34/308 Test #225: pyinit::nrniv_pydef_nrnpython_check_sys_stdin.encoding::preparation ...... Passed 0.02 sec | |
| Start 227: pyinit::nrniv_pydef_python_check_sys_stdout.encoding::preparation | |
| 35/308 Test #227: pyinit::nrniv_pydef_python_check_sys_stdout.encoding::preparation ........ Passed 0.02 sec | |
| Start 229: pyinit::nrniv_pydef_nrnpython_check_sys_stdout.encoding::preparation | |
| 36/308 Test #229: pyinit::nrniv_pydef_nrnpython_check_sys_stdout.encoding::preparation ..... Passed 0.02 sec | |
| Start 237: external_ringtest::neuron | |
| 37/308 Test #245: external_ringtest::coreneuron_cpu_mpi_offline::preparation ...............***Failed 4.72 sec | |
| numprocs=2 | |
| NEURON -- VERSION + HEAD (cda3bc9+) 2024-10-29 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2022 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| 1 1 2 2 3 3 4 4 5 5 6 6 7 7 8 8 9 9 10 10 11 11 12 12 13 13 14 14 15 15 16 16 0.121253s created rings | |
| 0.072753s initialized | |
| num_mpi=2 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| exp2syn.mod expsyn.mod halfgap.mod hh.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod | |
| Memory (MBs) : After mk_mech : Max 260.5938, Min 260.1875, Avg 260.3906 | |
| Memory (MBs) : After MPI_Init : Max 260.6094, Min 260.2031, Avg 260.4062 | |
| Memory (MBs) : Before nrn_setup : Max 260.6250, Min 260.2188, Avg 260.4219 | |
| ================================================================= | |
| ================================================================= | |
| Setup Done : 0.00 seconds | |
| Model size : 1.10 MB | |
| ==79745==ERROR: AddressSanitizer: attempting double-free on 0x0001198a7c30 in thread T0: | |
| ==79744==ERROR: AddressSanitizer: attempting double-free on 0x00011c1bb4d0 in thread T0: | |
| #0 0x103c76330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x1031cb7f8 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x277f8) | |
| #2 0x1031cb7e4 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277e4) | |
| #3 0x1031cb7d0 in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277d0) | |
| #4 0x1031ccfa0 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28fa0) | |
| #5 0x1031ccf54 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28f54) | |
| #6 0x1031cc818 in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x28818) | |
| #7 0x10336e3a4 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1ca3a4) | |
| #8 0x103366414 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1c2414) | |
| #9 0x1033636e4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1bf6e4) | |
| #10 0x1032d9034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x1032db074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x1031a8fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x1054d6b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x1054d76f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x10585fc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x105727cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x105727c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x10571ef1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x10571e384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x105720538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x104f2d320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x104f2ca40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x105548c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x104f2a864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x1047aa63c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x1048a4cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x1048a2440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x10489698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x1048a4c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #30 0x1048a2468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #31 0x10489698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #32 0x1048a4c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #33 0x1048a2468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #34 0x10489698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #35 0x104896800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #36 0x1048f2898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #37 0x1048f27fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| #38 0x1048f2490 in pyrun_file+0x90 (Python:arm64+0x1ae490) | |
| #39 0x1048f1dc4 in _PyRun_SimpleFileObject+0x108 (Python:arm64+0x1addc4) | |
| #40 0x1048f1408 in _PyRun_AnyFileObject+0xe4 (Python:arm64+0x1ad408) | |
| #41 0x1048f58a4 in PyRun_AnyFileExFlags+0x50 (Python:arm64+0x1b18a4) | |
| #42 0x104ee636c in nrnpy_pyrun(char const*) nrnpython.cpp:137 | |
| #43 0x104ee76c4 in nrnpython_start(int) nrnpython.cpp:337 | |
| #44 0x104ffd0c8 in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:755 | |
| #45 0x104ffc9e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #46 0x10231fdec in main nrnmain.cpp:71 | |
| #47 0x102675088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x0001198a7c30 is located 0 bytes inside of 8-byte region [0x0001198a7c30,0x0001198a7c38) | |
| freed by thread T0 here: | |
| #0 0x103c7642c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x1033636cc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1bf6cc) | |
| #2 0x1032d9034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #3 0x1032db074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #4 0x1031a8fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x1054d6b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x1054d76f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x10585fc1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x105727cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x105727c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x10571ef1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x10571e384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x105720538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x104f2d320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #14 0x104f2ca40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #15 0x105548c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #16 0x104f2a864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #17 0x1047aa63c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #18 0x1048a4cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #19 0x1048a2440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #20 0x10489698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #21 0x1048a4c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #22 0x1048a2468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #23 0x10489698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #24 0x1048a4c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #25 0x1048a2468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #26 0x10489698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #27 0x104896800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #28 0x1048f2898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #29 0x1048f27fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| previously allocated by thread T0 here: | |
| #0 0x106632330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x105b877f8 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x277f8) | |
| #2 0x105b877e4 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277e4) | |
| #3 0x105b877d0 in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277d0) | |
| #4 0x105b88fa0 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28fa0) | |
| #5 0x105b88f54 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28f54) | |
| #6 0x105b88818 in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x28818) | |
| #7 0x105d2a3a4 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1ca3a4) | |
| #8 0x105d22414 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1c2414) | |
| #9 0x105d1f6e4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1bf6e4) | |
| #10 0x105c95034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x105c97074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x105b64fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x107e92b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x107e936f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x10821bc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x1080e3cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x1080e3c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x1080daf1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x1080da384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x1080dc538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x1078e9320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x1078e8a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x107f04c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x1078e6864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x10577663c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x105870cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x10586e440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x10586298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x105870c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #30 0x10586e468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #31 0x10586298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #32 0x105870c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #33 0x10586e468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #34 0x10586298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #35 0x105862800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #36 0x1058be898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #37 0x1058be7fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| #38 0x1058be490 in pyrun_file+0x90 (Python:arm64+0x1ae490) | |
| #39 0x1058bddc4 in _PyRun_SimpleFileObject+0x108 (Python:arm64+0x1addc4) | |
| #40 0x1058bd408 in _PyRun_AnyFileObject+0xe4 (Python:arm64+0x1ad408) | |
| #41 0x1058c18a4 in PyRun_AnyFileExFlags+0x50 (Python:arm64+0x1b18a4) | |
| #42 0x1078a236c in nrnpy_pyrun(char const*) nrnpython.cpp:137 | |
| #43 0x1078a36c4 in nrnpython_start(int) nrnpython.cpp:337 | |
| #44 0x1079b90c8 in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:755 | |
| #45 0x1079b89e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #46 0x104c3bdec in main nrnmain.cpp:71 | |
| #47 0x105031088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x00011c1bb4d0 is located 0 bytes inside of 8-byte region [0x00011c1bb4d0,0x00011c1bb4d8) | |
| freed by thread T0 here: | |
| #0 0x103c75ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x1031e7fdc in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43fdc) | |
| #2 0x1031e7f60 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43f60) | |
| #3 0x1031f8f10 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x54f10) | |
| #4 0x1031f8e70 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x54e70) | |
| #5 0x1031f8db0 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x54db0) | |
| #6 0x1031f8c28 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x54c28) | |
| #7 0x103360a54 in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1bca54) | |
| #8 0x103360648 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1bc648) | |
| #9 0x10336301c in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1bf01c) | |
| #10 0x1032d9034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x1032db074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x1031a8fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x1054d6b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x1054d76f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x10585fc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x105727cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x105727c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x10571ef1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x10571e384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x105720538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x104f2d320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x104f2ca40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x105548c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x104f2a864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x1047aa63c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x1048a4cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x1048a2440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x10489698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x1048a4c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==79745==ABORTING | |
| [bbpmacglr01:79745] *** Process received signal *** | |
| [bbpmacglr01:79745] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:79745] Signal code: (0) | |
| [bbpmacglr01:79745] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:79745] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:79745] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:79745] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103c8a1bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:79745] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103c89884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:79745] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103c6f1c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:79745] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103c6bb88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:79745] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103c763a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:79745] [ 8] 0 libcorenrnmech.dylib 0x00000001031cb7fc _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:79745] [ 9] 0 libcorenrnmech.dylib 0x00000001031cb7e8 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:79745] [10] 0 libcorenrnmech.dylib 0x00000001031cb7d4 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:79745] [11] 0 libcorenrnmech.dylib 0x00000001031ccfa4 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:79745] [12] 0 libcorenrnmech.dylib 0x00000001031ccf58 _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:79745] [13] 0 libcorenrnmech.dylib 0x00000001031cc81c _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:79745] [14] 0 libcorenrnmech.dylib 0x000000010336e3a8 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:79745] [15] 0 libcorenrnmech.dylib 0x0000000103366418 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:79745] [16] 0 libcorenrnmech.dylib 0x00000001033636e8 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:79745] [17] 0 libcorenrnmech.dylib 0x00000001032d9038 _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:79745] [18] 0 libcorenrnmech.dylib 0x00000001032db078 run_solve_core + 736 | |
| [bbpmacglr01:79745] [19] 0 libcorenrnmech.dylib 0x00000001031a8fbc corenrn_embedded_run + 780 | |
| [bbpmacglr01:79745] [20] 0 libnrniv.dylib 0x00000001054d6b14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:79745] [21] 0 libnrniv.dylib 0x00000001054d76f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:79745] [22] 0 libnrniv.dylib 0x000000010585fc20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:79745] [23] 0 libnrniv.dylib 0x0000000105727cb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:79745] [24] 0 libnrniv.dylib 0x0000000105727c78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:79745] [25] 0 libnrniv.dylib 0x000000010571ef20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:79745] [26] 0 libnrniv.dylib 0x000000010571e388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:79745] [27] 0 libnrniv.dylib 0x000000010572053c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:79745] [28] 0 libnrniv.dylib 0x0000000104f2d324 _ZL9componentP11PyHocObject + 672 | |
| [bbpmacglr01:79745] [29] 0 libnrniv.dylib 0x0000000104f2ca44 _ZL5fcallPvS_ + 360 | |
| [bbpmacglr01:79745] *** End of error message *** | |
| #0 0x10663242c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x105d1f6cc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1bf6cc) | |
| #2 0x105c95034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #3 0x105c97074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #4 0x105b64fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x107e92b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x107e936f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x10821bc1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x1080e3cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x1080e3c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x1080daf1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x1080da384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x1080dc538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x1078e9320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #14 0x1078e8a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #15 0x107f04c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #16 0x1078e6864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #17 0x10577663c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #18 0x105870cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #19 0x10586e440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #20 0x10586298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #21 0x105870c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #22 0x10586e468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #23 0x10586298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #24 0x105870c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #25 0x10586e468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #26 0x10586298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #27 0x105862800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #28 0x1058be898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #29 0x1058be7fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| previously allocated by thread T0 here: | |
| #0 0x106631ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x105ba3fdc in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43fdc) | |
| #2 0x105ba3f60 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43f60) | |
| #3 0x105bb4f10 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x54f10) | |
| #4 0x105bb4e70 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x54e70) | |
| #5 0x105bb4db0 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x54db0) | |
| #6 0x105bb4c28 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x54c28) | |
| #7 0x105d1ca54 in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1bca54) | |
| #8 0x105d1c648 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1bc648) | |
| #9 0x105d1f01c in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1bf01c) | |
| #10 0x105c95034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x105c97074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x105b64fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x107e92b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x107e936f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x10821bc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x1080e3cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x1080e3c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x1080daf1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x1080da384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x1080dc538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x1078e9320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x1078e8a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x107f04c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x1078e6864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x10577663c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x105870cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x10586e440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x10586298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x105870c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==79744==ABORTING | |
| [bbpmacglr01:79744] *** Process received signal *** | |
| [bbpmacglr01:79744] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:79744] Signal code: (0) | |
| [bbpmacglr01:79744] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:79744] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:79744] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:79744] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001066461bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:79744] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000106645884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:79744] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x000000010662b1c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:79744] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000106627b88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:79744] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001066323a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:79744] [ 8] 0 libcorenrnmech.dylib 0x0000000105b877fc _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:79744] [ 9] 0 libcorenrnmech.dylib 0x0000000105b877e8 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:79744] [10] 0 libcorenrnmech.dylib 0x0000000105b877d4 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:79744] [11] 0 libcorenrnmech.dylib 0x0000000105b88fa4 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:79744] [12] 0 libcorenrnmech.dylib 0x0000000105b88f58 _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:79744] [13] 0 libcorenrnmech.dylib 0x0000000105b8881c _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:79744] [14] 0 libcorenrnmech.dylib 0x0000000105d2a3a8 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:79744] [15] 0 libcorenrnmech.dylib 0x0000000105d22418 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:79744] [16] 0 libcorenrnmech.dylib 0x0000000105d1f6e8 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:79744] [17] 0 libcorenrnmech.dylib 0x0000000105c95038 _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:79744] [18] 0 libcorenrnmech.dylib 0x0000000105c97078 run_solve_core + 736 | |
| [bbpmacglr01:79744] [19] 0 libcorenrnmech.dylib 0x0000000105b64fbc corenrn_embedded_run + 780 | |
| [bbpmacglr01:79744] [20] 0 libnrniv.dylib 0x0000000107e92b14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:79744] [21] 0 libnrniv.dylib 0x0000000107e936f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:79744] [22] 0 libnrniv.dylib 0x000000010821bc20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:79744] [23] 0 libnrniv.dylib 0x00000001080e3cb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:79744] [24] 0 libnrniv.dylib 0x00000001080e3c78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:79744] [25] 0 libnrniv.dylib 0x00000001080daf20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:79744] [26] 0 libnrniv.dylib 0x00000001080da388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:79744] [27] 0 libnrniv.dylib 0x00000001080dc53c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:79744] [28] 0 libnrniv.dylib 0x00000001078e9324 _ZL9componentP11PyHocObject + 672 | |
| [bbpmacglr01:79744] [29] 0 libnrniv.dylib 0x00000001078e8a44 _ZL5fcallPvS_ + 360 | |
| [bbpmacglr01:79744] *** End of error message *** | |
| -------------------------------------------------------------------------- | |
| prterun noticed that process rank 1 with PID 79745 on node bbpmacglr01 exited on | |
| signal 6 (Abort trap: 6). | |
| -------------------------------------------------------------------------- | |
| Start 273: testcorenrn_gf::coreneuron_cpu_offline::preparation | |
| 38/308 Test #273: testcorenrn_gf::coreneuron_cpu_offline::preparation ...................... Passed 0.24 sec | |
| Start 284: testcorenrn_patstim::coreneuron_cpu_offline::preparation | |
| 39/308 Test #284: testcorenrn_patstim::coreneuron_cpu_offline::preparation ................. Passed 0.27 sec | |
| Start 290: testcorenrn_vecplay::coreneuron_cpu_offline::preparation | |
| 40/308 Test #290: testcorenrn_vecplay::coreneuron_cpu_offline::preparation ................. Passed 0.23 sec | |
| Start 302: testcorenrn_watch::coreneuron_cpu_offline::preparation | |
| 41/308 Test #302: testcorenrn_watch::coreneuron_cpu_offline::preparation ................... Passed 0.23 sec | |
| Start 238: external_ringtest::neuron_mpi | |
| 42/308 Test #238: external_ringtest::neuron_mpi ............................................ Passed 8.42 sec | |
| Start 239: external_ringtest::neuron_mpi_python | |
| 43/308 Test #237: external_ringtest::neuron ................................................ Passed 16.13 sec | |
| Start 251: testcorenrn_bbcore::neuron | |
| 44/308 Test #251: testcorenrn_bbcore::neuron ............................................... Passed 0.23 sec | |
| Start 252: testcorenrn_bbcore::coreneuron_cpu_online | |
| 45/308 Test #252: testcorenrn_bbcore::coreneuron_cpu_online ................................***Failed 0.93 sec | |
| numprocs=1 | |
| NEURON -- VERSION + HEAD (cda3bc9+) 2024-10-29 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2022 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 0 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --tstop 100 --cell-permute 0 --verbose 2 --voltage 1000.| | |
| num_mpi=1 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| Gfluct3.mod exp2syn.mod expsyn.mod hh.mod hhderiv.mod hhkin.mod hhwatch.mod nacum.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod vecevent.mod | |
| Memory (MBs) : After mk_mech : Max 213.7812, Min 213.7812, Avg 213.7812 | |
| Memory (MBs) : After MPI_Init : Max 213.7969, Min 213.7969, Avg 213.7969 | |
| Memory (MBs) : Before nrn_setup : Max 213.8438, Min 213.8438, Avg 213.8438 | |
| Setup Done : 0.00 seconds | |
| Model size : 5.80 kB | |
| ================================================================= | |
| ==80188==ERROR: AddressSanitizer: attempting double-free on 0x000107a71290 in thread T0: | |
| #0 0x102542330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x101a4d6c4 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x416c4) | |
| #2 0x101a4d6b0 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x416b0) | |
| #3 0x101a4d69c in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x4169c) | |
| #4 0x101a4eb44 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42b44) | |
| #5 0x101a4eaf8 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42af8) | |
| #6 0x101a4e3bc in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x423bc) | |
| #7 0x101befc9c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1e3c9c) | |
| #8 0x101be7d0c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1dbd0c) | |
| #9 0x101be4fdc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1d8fdc) | |
| #10 0x101b5aa58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x101b5ca98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x101a10064 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x103cdab10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x103cdb6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x104063c1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x103f2bcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x103f2bc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x103f22f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x103f22384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x103f24538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x103ed0c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x103ed5a28 in hoc_ifcode() code.cpp | |
| #23 0x103ed0c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x103ed6dd8 in hoc_call() code.cpp:1449 | |
| #25 0x103ed0c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #26 0x103f19afc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #27 0x103f16bec in hoc_run1() hoc.cpp:1235 | |
| #28 0x103f15f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #29 0x10380108c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| #30 0x1038009e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #31 0x100a63dec in main nrnmain.cpp:71 | |
| #32 0x100d31088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x000107a71290 is located 0 bytes inside of 8-byte region [0x000107a71290,0x000107a71298) | |
| freed by thread T0 here: | |
| #0 0x10254242c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x101be4fc4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1d8fc4) | |
| #2 0x101b5aa58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #3 0x101b5ca98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #4 0x101a10064 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x103cdab10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x103cdb6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x104063c1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x103f2bcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x103f2bc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x103f22f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x103f22384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x103f24538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x103ed0c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #14 0x103ed5a28 in hoc_ifcode() code.cpp | |
| #15 0x103ed0c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #16 0x103ed6dd8 in hoc_call() code.cpp:1449 | |
| #17 0x103ed0c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #18 0x103f19afc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #19 0x103f16bec in hoc_run1() hoc.cpp:1235 | |
| #20 0x103f15f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #21 0x10380108c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| #22 0x1038009e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #23 0x100a63dec in main nrnmain.cpp:71 | |
| #24 0x100d31088 in start+0x204 (dyld:arm64e+0x5088) | |
| previously allocated by thread T0 here: | |
| #0 0x102541ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x101a69ac4 in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5dac4) | |
| #2 0x101a69a48 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5da48) | |
| #3 0x101a7a9f8 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x6e9f8) | |
| #4 0x101a7a958 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x6e958) | |
| #5 0x101a7a898 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x6e898) | |
| #6 0x101a7a710 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x6e710) | |
| #7 0x101be234c in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1d634c) | |
| #8 0x101be1f40 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1d5f40) | |
| #9 0x101be4914 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1d8914) | |
| #10 0x101b5aa58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x101b5ca98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x101a10064 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x103cdab10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x103cdb6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x104063c1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x103f2bcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x103f2bc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x103f22f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x103f22384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x103f24538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x103ed0c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x103ed5a28 in hoc_ifcode() code.cpp | |
| #23 0x103ed0c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x103ed6dd8 in hoc_call() code.cpp:1449 | |
| #25 0x103ed0c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #26 0x103f19afc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #27 0x103f16bec in hoc_run1() hoc.cpp:1235 | |
| #28 0x103f15f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #29 0x10380108c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80188==ABORTING | |
| [bbpmacglr01:80188] *** Process received signal *** | |
| [bbpmacglr01:80188] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80188] Signal code: (0) | |
| [bbpmacglr01:80188] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80188] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80188] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80188] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001025561bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80188] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000102555884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80188] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x000000010253b1c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80188] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000102537b88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80188] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001025423a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80188] [ 8] 0 libcorenrnmech.dylib 0x0000000101a4d6c8 _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80188] [ 9] 0 libcorenrnmech.dylib 0x0000000101a4d6b4 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80188] [10] 0 libcorenrnmech.dylib 0x0000000101a4d6a0 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80188] [11] 0 libcorenrnmech.dylib 0x0000000101a4eb48 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80188] [12] 0 libcorenrnmech.dylib 0x0000000101a4eafc _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80188] [13] 0 libcorenrnmech.dylib 0x0000000101a4e3c0 _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80188] [14] 0 libcorenrnmech.dylib 0x0000000101befca0 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80188] [15] 0 libcorenrnmech.dylib 0x0000000101be7d10 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80188] [16] 0 libcorenrnmech.dylib 0x0000000101be4fe0 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80188] [17] 0 libcorenrnmech.dylib 0x0000000101b5aa5c _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80188] [18] 0 libcorenrnmech.dylib 0x0000000101b5ca9c run_solve_core + 736 | |
| [bbpmacglr01:80188] [19] 0 libcorenrnmech.dylib 0x0000000101a10068 corenrn_embedded_run + 780 | |
| [bbpmacglr01:80188] [20] 0 libnrniv.dylib 0x0000000103cdab14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:80188] [21] 0 libnrniv.dylib 0x0000000103cdb6f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:80188] [22] 0 libnrniv.dylib 0x0000000104063c20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:80188] [23] 0 libnrniv.dylib 0x0000000103f2bcb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:80188] [24] 0 libnrniv.dylib 0x0000000103f2bc78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:80188] [25] 0 libnrniv.dylib 0x0000000103f22f20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:80188] [26] 0 libnrniv.dylib 0x0000000103f22388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:80188] [27] 0 libnrniv.dylib 0x0000000103f2453c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:80188] [28] 0 libnrniv.dylib 0x0000000103ed0c9c _Z11hoc_executeP4Inst + 172 | |
| [bbpmacglr01:80188] [29] 0 libnrniv.dylib 0x0000000103ed5a2c _Z10hoc_ifcodev + 144 | |
| [bbpmacglr01:80188] *** End of error message *** | |
| -------------------------------------------------------------------------- | |
| prterun noticed that process rank 0 with PID 80188 on node bbpmacglr01 exited on | |
| signal 6 (Abort trap: 6). | |
| -------------------------------------------------------------------------- | |
| Start 253: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate | |
| 46/308 Test #253: testcorenrn_bbcore::coreneuron_cpu_online_psolve_alternate ...............***Failed 0.86 sec | |
| numprocs=1 | |
| NEURON -- VERSION + HEAD (cda3bc9+) 2024-10-29 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2022 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 0 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --tstop 100 --cell-permute 0 --verbose 2 --voltage 1000.| | |
| num_mpi=1 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| Gfluct3.mod exp2syn.mod expsyn.mod hh.mod hhderiv.mod hhkin.mod hhwatch.mod nacum.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod vecevent.mod | |
| Memory (MBs) : After mk_mech : Max 213.8281, Min 213.8281, Avg 213.8281 | |
| Memory (MBs) : After MPI_Init : Max 213.8438, Min 213.8438, Avg 213.8438 | |
| Memory (MBs) : Before nrn_setup : Max 213.9062, Min 213.9062, Avg 213.9062 | |
| Setup Done : 0.00 seconds | |
| Model size : 5.80 kB | |
| ================================================================= | |
| ==80212==ERROR: AddressSanitizer: attempting double-free on 0x00010bb711f0 in thread T0: | |
| #0 0x10668a330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x105b956c4 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x416c4) | |
| #2 0x105b956b0 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x416b0) | |
| #3 0x105b9569c in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x4169c) | |
| #4 0x105b96b44 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42b44) | |
| #5 0x105b96af8 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42af8) | |
| #6 0x105b963bc in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x423bc) | |
| #7 0x105d37c9c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1e3c9c) | |
| #8 0x105d2fd0c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1dbd0c) | |
| #9 0x105d2cfdc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1d8fdc) | |
| #10 0x105ca2a58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x105ca4a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x105b58064 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x107e22b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x107e236f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x1081abc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x108073cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x108073c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x10806af1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x10806a384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x10806c538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x10801bf54 in hoc_forcode() code.cpp:1010 | |
| #23 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x10801da28 in hoc_ifcode() code.cpp | |
| #25 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #26 0x10801da28 in hoc_ifcode() code.cpp | |
| #27 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #28 0x10801da28 in hoc_ifcode() code.cpp | |
| #29 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #30 0x10801edd8 in hoc_call() code.cpp:1449 | |
| #31 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #32 0x108061afc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #33 0x10805ebec in hoc_run1() hoc.cpp:1235 | |
| #34 0x10805df10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #35 0x10794908c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| #36 0x1079489e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #37 0x104b97dec in main nrnmain.cpp:71 | |
| #38 0x104c31088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x00010bb711f0 is located 0 bytes inside of 8-byte region [0x00010bb711f0,0x00010bb711f8) | |
| freed by thread T0 here: | |
| #0 0x10668a42c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x105d2cfc4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1d8fc4) | |
| #2 0x105ca2a58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #3 0x105ca4a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #4 0x105b58064 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x107e22b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x107e236f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x1081abc1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x108073cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x108073c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x10806af1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x10806a384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x10806c538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #14 0x10801bf54 in hoc_forcode() code.cpp:1010 | |
| #15 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #16 0x10801da28 in hoc_ifcode() code.cpp | |
| #17 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #18 0x10801da28 in hoc_ifcode() code.cpp | |
| #19 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #20 0x10801da28 in hoc_ifcode() code.cpp | |
| #21 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x10801edd8 in hoc_call() code.cpp:1449 | |
| #23 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x108061afc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #25 0x10805ebec in hoc_run1() hoc.cpp:1235 | |
| #26 0x10805df10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #27 0x10794908c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| #28 0x1079489e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #29 0x104b97dec in main nrnmain.cpp:71 | |
| previously allocated by thread T0 here: | |
| #0 0x106689ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x105bb1ac4 in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5dac4) | |
| #2 0x105bb1a48 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5da48) | |
| #3 0x105bc29f8 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x6e9f8) | |
| #4 0x105bc2958 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x6e958) | |
| #5 0x105bc2898 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x6e898) | |
| #6 0x105bc2710 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x6e710) | |
| #7 0x105d2a34c in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1d634c) | |
| #8 0x105d29f40 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1d5f40) | |
| #9 0x105d2c914 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1d8914) | |
| #10 0x105ca2a58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x105ca4a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x105b58064 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x107e22b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x107e236f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x1081abc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x108073cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x108073c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x10806af1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x10806a384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x10806c538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x10801bf54 in hoc_forcode() code.cpp:1010 | |
| #23 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x10801da28 in hoc_ifcode() code.cpp | |
| #25 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #26 0x10801da28 in hoc_ifcode() code.cpp | |
| #27 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #28 0x10801da28 in hoc_ifcode() code.cpp | |
| #29 0x108018c98 in hoc_execute(Inst*) code.cpp:2546 | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80212==ABORTING | |
| [bbpmacglr01:80212] *** Process received signal *** | |
| [bbpmacglr01:80212] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80212] Signal code: (0) | |
| [bbpmacglr01:80212] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80212] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80212] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80212] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x000000010669e1bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80212] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x000000010669d884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80212] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001066831c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80212] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x000000010667fb88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80212] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x000000010668a3a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80212] [ 8] 0 libcorenrnmech.dylib 0x0000000105b956c8 _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80212] [ 9] 0 libcorenrnmech.dylib 0x0000000105b956b4 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80212] [10] 0 libcorenrnmech.dylib 0x0000000105b956a0 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80212] [11] 0 libcorenrnmech.dylib 0x0000000105b96b48 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80212] [12] 0 libcorenrnmech.dylib 0x0000000105b96afc _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80212] [13] 0 libcorenrnmech.dylib 0x0000000105b963c0 _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80212] [14] 0 libcorenrnmech.dylib 0x0000000105d37ca0 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80212] [15] 0 libcorenrnmech.dylib 0x0000000105d2fd10 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80212] [16] 0 libcorenrnmech.dylib 0x0000000105d2cfe0 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80212] [17] 0 libcorenrnmech.dylib 0x0000000105ca2a5c _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80212] [18] 0 libcorenrnmech.dylib 0x0000000105ca4a9c run_solve_core + 736 | |
| [bbpmacglr01:80212] [19] 0 libcorenrnmech.dylib 0x0000000105b58068 corenrn_embedded_run + 780 | |
| [bbpmacglr01:80212] [20] 0 libnrniv.dylib 0x0000000107e22b14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:80212] [21] 0 libnrniv.dylib 0x0000000107e236f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:80212] [22] 0 libnrniv.dylib 0x00000001081abc20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:80212] [23] 0 libnrniv.dylib 0x0000000108073cb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:80212] [24] 0 libnrniv.dylib 0x0000000108073c78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:80212] [25] 0 libnrniv.dylib 0x000000010806af20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:80212] [26] 0 libnrniv.dylib 0x000000010806a388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:80212] [27] 0 libnrniv.dylib 0x000000010806c53c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:80212] [28] 0 libnrniv.dylib 0x0000000108018c9c _Z11hoc_executeP4Inst + 172 | |
| [bbpmacglr01:80212] [29] 0 libnrniv.dylib 0x000000010801bf58 _Z11hoc_forcodev + 156 | |
| [bbpmacglr01:80212] *** End of error message *** | |
| -------------------------------------------------------------------------- | |
| prterun noticed that process rank 0 with PID 80212 on node bbpmacglr01 exited on | |
| signal 6 (Abort trap: 6). | |
| -------------------------------------------------------------------------- | |
| Start 254: testcorenrn_bbcore::coreneuron_cpu_offline | |
| 47/308 Test #254: testcorenrn_bbcore::coreneuron_cpu_offline ...............................***Failed 0.71 sec | |
| num_mpi=1 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| Gfluct3.mod exp2syn.mod expsyn.mod hh.mod hhderiv.mod hhkin.mod hhwatch.mod nacum.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod vecevent.mod | |
| Memory (MBs) : After mk_mech : Max 79.4375, Min 79.4375, Avg 79.4375 | |
| Memory (MBs) : After MPI_Init : Max 79.4844, Min 79.4844, Avg 79.4844 | |
| Memory (MBs) : Before nrn_setup : Max 80.6875, Min 80.6875, Avg 80.6875 | |
| Setup Done : 0.00 seconds | |
| Model size : 5.80 kB | |
| ================================================================= | |
| ==80230==ERROR: AddressSanitizer: attempting double-free on 0x000108934630 in thread T0: | |
| #0 0x105f86330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x1054916c4 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x416c4) | |
| #2 0x1054916b0 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x416b0) | |
| #3 0x10549169c in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x4169c) | |
| #4 0x105492b44 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42b44) | |
| #5 0x105492af8 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42af8) | |
| #6 0x1054923bc in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x423bc) | |
| #7 0x105633c9c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1e3c9c) | |
| #8 0x10562bd0c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1dbd0c) | |
| #9 0x105628fdc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1d8fdc) | |
| #10 0x10559ea58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x1055a0a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x10545459c in solve_core enginemech.cpp:199 | |
| #13 0x10475dcbc in main coreneuron.cpp:14 | |
| #14 0x1048bd088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x000108934630 is located 0 bytes inside of 8-byte region [0x000108934630,0x000108934638) | |
| freed by thread T0 here: | |
| #0 0x105f8642c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x105628fc4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1d8fc4) | |
| #2 0x10559ea58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #3 0x1055a0a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #4 0x10545459c in solve_core enginemech.cpp:199 | |
| #5 0x10475dcbc in main coreneuron.cpp:14 | |
| #6 0x1048bd088 in start+0x204 (dyld:arm64e+0x5088) | |
| previously allocated by thread T0 here: | |
| #0 0x105f85ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x1054adac4 in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5dac4) | |
| #2 0x1054ada48 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5da48) | |
| #3 0x1054be9f8 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x6e9f8) | |
| #4 0x1054be958 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x6e958) | |
| #5 0x1054be898 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x6e898) | |
| #6 0x1054be710 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x6e710) | |
| #7 0x10562634c in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1d634c) | |
| #8 0x105625d18 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x368 (libcorenrnmech.dylib:arm64+0x1d5d18) | |
| #9 0x105628914 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1d8914) | |
| #10 0x10559ea58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x1055a0a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x10545459c in solve_core enginemech.cpp:199 | |
| #13 0x10475dcbc in main coreneuron.cpp:14 | |
| #14 0x1048bd088 in start+0x204 (dyld:arm64e+0x5088) | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80230==ABORTING | |
| [bbpmacglr01:80230] *** Process received signal *** | |
| [bbpmacglr01:80230] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80230] Signal code: (0) | |
| [bbpmacglr01:80230] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80230] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80230] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80230] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000105f9a1bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80230] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000105f99884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80230] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000105f7f1c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80230] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000105f7bb88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80230] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000105f863a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80230] [ 8] 0 libcorenrnmech.dylib 0x00000001054916c8 _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80230] [ 9] 0 libcorenrnmech.dylib 0x00000001054916b4 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80230] [10] 0 libcorenrnmech.dylib 0x00000001054916a0 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80230] [11] 0 libcorenrnmech.dylib 0x0000000105492b48 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80230] [12] 0 libcorenrnmech.dylib 0x0000000105492afc _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80230] [13] 0 libcorenrnmech.dylib 0x00000001054923c0 _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80230] [14] 0 libcorenrnmech.dylib 0x0000000105633ca0 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80230] [15] 0 libcorenrnmech.dylib 0x000000010562bd10 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80230] [16] 0 libcorenrnmech.dylib 0x0000000105628fe0 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80230] [17] 0 libcorenrnmech.dylib 0x000000010559ea5c _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80230] [18] 0 libcorenrnmech.dylib 0x00000001055a0a9c run_solve_core + 736 | |
| [bbpmacglr01:80230] [19] 0 libcorenrnmech.dylib 0x00000001054545a0 solve_core + 500 | |
| [bbpmacglr01:80230] [20] 0 special-core 0x000000010475dcc0 main + 36 | |
| [bbpmacglr01:80230] [21] 0 dyld 0x00000001048bd08c start + 520 | |
| [bbpmacglr01:80230] *** End of error message *** | |
| -------------------------------------------------------------------------- | |
| prterun noticed that process rank 0 with PID 80230 on node bbpmacglr01 exited on | |
| signal 6 (Abort trap: 6). | |
| -------------------------------------------------------------------------- | |
| Start 257: testcorenrn_conc::neuron | |
| 48/308 Test #257: testcorenrn_conc::neuron ................................................. Passed 0.26 sec | |
| Start 258: testcorenrn_conc::coreneuron_cpu_online | |
| 49/308 Test #239: external_ringtest::neuron_mpi_python ..................................... Passed 8.90 sec | |
| Start 241: external_ringtest::coreneuron_cpu_mpi_offline_saverestore | |
| 50/308 Test #258: testcorenrn_conc::coreneuron_cpu_online ..................................***Failed 0.86 sec | |
| numprocs=1 | |
| NEURON -- VERSION + HEAD (cda3bc9+) 2024-10-29 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2022 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --tstop 100 --cell-permute 0 --verbose 2 --voltage 1000.| | |
| num_mpi=1 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| Gfluct3.mod exp2syn.mod expsyn.mod hh.mod hhderiv.mod hhkin.mod hhwatch.mod nacum.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod vecevent.mod | |
| Memory (MBs) : After mk_mech : Max 213.9219, Min 213.9219, Avg 213.9219 | |
| Memory (MBs) : After MPI_Init : Max 213.9375, Min 213.9375, Avg 213.9375 | |
| Memory (MBs) : Before nrn_setup : Max 213.9844, Min 213.9844, Avg 213.9844 | |
| Setup Done : 0.00 seconds | |
| Model size : 6.22 kB | |
| ================================================================= | |
| ==80255==ERROR: AddressSanitizer: attempting double-free on 0x000107b71cf0 in thread T0: | |
| #0 0x1025e6330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x101af16c4 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x416c4) | |
| #2 0x101af16b0 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x416b0) | |
| #3 0x101af169c in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x4169c) | |
| #4 0x101af2b44 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42b44) | |
| #5 0x101af2af8 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42af8) | |
| #6 0x101af23bc in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x423bc) | |
| #7 0x101c93c9c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1e3c9c) | |
| #8 0x101c8bd0c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1dbd0c) | |
| #9 0x101c88fdc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1d8fdc) | |
| #10 0x101bfea58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x101c00a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x101ab4064 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x103d7eb10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x103d7f6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x104107c1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x103fcfcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x103fcfc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x103fc6f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x103fc6384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x103fc8538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x103f74c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x103f79a28 in hoc_ifcode() code.cpp | |
| #23 0x103f74c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x103f7add8 in hoc_call() code.cpp:1449 | |
| #25 0x103f74c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #26 0x103fbdafc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #27 0x103fbabec in hoc_run1() hoc.cpp:1235 | |
| #28 0x103fb9f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #29 0x1038a508c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| #30 0x1038a49e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #31 0x100b4fdec in main nrnmain.cpp:71 | |
| #32 0x100b8d088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x000107b71cf0 is located 0 bytes inside of 8-byte region [0x000107b71cf0,0x000107b71cf8) | |
| freed by thread T0 here: | |
| #0 0x1025e642c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x101c88fc4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1d8fc4) | |
| #2 0x101bfea58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #3 0x101c00a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #4 0x101ab4064 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x103d7eb10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x103d7f6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x104107c1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x103fcfcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x103fcfc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x103fc6f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x103fc6384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x103fc8538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x103f74c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #14 0x103f79a28 in hoc_ifcode() code.cpp | |
| #15 0x103f74c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #16 0x103f7add8 in hoc_call() code.cpp:1449 | |
| #17 0x103f74c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #18 0x103fbdafc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #19 0x103fbabec in hoc_run1() hoc.cpp:1235 | |
| #20 0x103fb9f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #21 0x1038a508c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| #22 0x1038a49e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #23 0x100b4fdec in main nrnmain.cpp:71 | |
| #24 0x100b8d088 in start+0x204 (dyld:arm64e+0x5088) | |
| previously allocated by thread T0 here: | |
| #0 0x1025e5ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x101b0dac4 in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5dac4) | |
| #2 0x101b0da48 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5da48) | |
| #3 0x101b1e9f8 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x6e9f8) | |
| #4 0x101b1e958 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x6e958) | |
| #5 0x101b1e898 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x6e898) | |
| #6 0x101b1e710 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x6e710) | |
| #7 0x101c8634c in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1d634c) | |
| #8 0x101c85f40 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1d5f40) | |
| #9 0x101c88914 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1d8914) | |
| #10 0x101bfea58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x101c00a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x101ab4064 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x103d7eb10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x103d7f6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x104107c1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x103fcfcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x103fcfc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x103fc6f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x103fc6384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x103fc8538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x103f74c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x103f79a28 in hoc_ifcode() code.cpp | |
| #23 0x103f74c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x103f7add8 in hoc_call() code.cpp:1449 | |
| #25 0x103f74c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #26 0x103fbdafc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #27 0x103fbabec in hoc_run1() hoc.cpp:1235 | |
| #28 0x103fb9f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #29 0x1038a508c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80255==ABORTING | |
| [bbpmacglr01:80255] *** Process received signal *** | |
| [bbpmacglr01:80255] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80255] Signal code: (0) | |
| [bbpmacglr01:80255] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80255] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80255] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80255] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001025fa1bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80255] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001025f9884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80255] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001025df1c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80255] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001025dbb88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80255] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001025e63a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80255] [ 8] 0 libcorenrnmech.dylib 0x0000000101af16c8 _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80255] [ 9] 0 libcorenrnmech.dylib 0x0000000101af16b4 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80255] [10] 0 libcorenrnmech.dylib 0x0000000101af16a0 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80255] [11] 0 libcorenrnmech.dylib 0x0000000101af2b48 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80255] [12] 0 libcorenrnmech.dylib 0x0000000101af2afc _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80255] [13] 0 libcorenrnmech.dylib 0x0000000101af23c0 _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80255] [14] 0 libcorenrnmech.dylib 0x0000000101c93ca0 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80255] [15] 0 libcorenrnmech.dylib 0x0000000101c8bd10 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80255] [16] 0 libcorenrnmech.dylib 0x0000000101c88fe0 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80255] [17] 0 libcorenrnmech.dylib 0x0000000101bfea5c _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80255] [18] 0 libcorenrnmech.dylib 0x0000000101c00a9c run_solve_core + 736 | |
| [bbpmacglr01:80255] [19] 0 libcorenrnmech.dylib 0x0000000101ab4068 corenrn_embedded_run + 780 | |
| [bbpmacglr01:80255] [20] 0 libnrniv.dylib 0x0000000103d7eb14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:80255] [21] 0 libnrniv.dylib 0x0000000103d7f6f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:80255] [22] 0 libnrniv.dylib 0x0000000104107c20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:80255] [23] 0 libnrniv.dylib 0x0000000103fcfcb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:80255] [24] 0 libnrniv.dylib 0x0000000103fcfc78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:80255] [25] 0 libnrniv.dylib 0x0000000103fc6f20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:80255] [26] 0 libnrniv.dylib 0x0000000103fc6388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:80255] [27] 0 libnrniv.dylib 0x0000000103fc853c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:80255] [28] 0 libnrniv.dylib 0x0000000103f74c9c _Z11hoc_executeP4Inst + 172 | |
| [bbpmacglr01:80255] [29] 0 libnrniv.dylib 0x0000000103f79a2c _Z10hoc_ifcodev + 144 | |
| [bbpmacglr01:80255] *** End of error message *** | |
| -------------------------------------------------------------------------- | |
| prterun noticed that process rank 0 with PID 80255 on node bbpmacglr01 exited on | |
| signal 6 (Abort trap: 6). | |
| -------------------------------------------------------------------------- | |
| Start 259: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate | |
| 51/308 Test #259: testcorenrn_conc::coreneuron_cpu_online_psolve_alternate .................***Failed 0.84 sec | |
| numprocs=1 | |
| NEURON -- VERSION + HEAD (cda3bc9+) 2024-10-29 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2022 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --tstop 100 --cell-permute 0 --verbose 2 --voltage 1000.| | |
| num_mpi=1 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| Gfluct3.mod exp2syn.mod expsyn.mod hh.mod hhderiv.mod hhkin.mod hhwatch.mod nacum.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod vecevent.mod | |
| Memory (MBs) : After mk_mech : Max 213.8438, Min 213.8438, Avg 213.8438 | |
| Memory (MBs) : After MPI_Init : Max 213.8594, Min 213.8594, Avg 213.8594 | |
| Memory (MBs) : Before nrn_setup : Max 213.9219, Min 213.9219, Avg 213.9219 | |
| Setup Done : 0.00 seconds | |
| Model size : 6.22 kB | |
| ================================================================= | |
| ==80301==ERROR: AddressSanitizer: attempting double-free on 0x000109471c50 in thread T0: | |
| #0 0x103f56330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x1034616c4 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x416c4) | |
| #2 0x1034616b0 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x416b0) | |
| #3 0x10346169c in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x4169c) | |
| #4 0x103462b44 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42b44) | |
| #5 0x103462af8 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42af8) | |
| #6 0x1034623bc in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x423bc) | |
| #7 0x103603c9c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1e3c9c) | |
| #8 0x1035fbd0c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1dbd0c) | |
| #9 0x1035f8fdc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1d8fdc) | |
| #10 0x10356ea58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x103570a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x103424064 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x1056eeb10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x1056ef6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x105a77c1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x10593fcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x10593fc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x105936f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x105936384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x105938538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x1058e7f54 in hoc_forcode() code.cpp:1010 | |
| #23 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x1058e9a28 in hoc_ifcode() code.cpp | |
| #25 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #26 0x1058e9a28 in hoc_ifcode() code.cpp | |
| #27 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #28 0x1058e9a28 in hoc_ifcode() code.cpp | |
| #29 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #30 0x1058eadd8 in hoc_call() code.cpp:1449 | |
| #31 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #32 0x10592dafc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #33 0x10592abec in hoc_run1() hoc.cpp:1235 | |
| #34 0x105929f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #35 0x10521508c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| #36 0x1052149e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #37 0x102447dec in main nrnmain.cpp:71 | |
| #38 0x1025fd088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x000109471c50 is located 0 bytes inside of 8-byte region [0x000109471c50,0x000109471c58) | |
| freed by thread T0 here: | |
| #0 0x103f5642c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x1035f8fc4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1d8fc4) | |
| #2 0x10356ea58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #3 0x103570a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #4 0x103424064 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x1056eeb10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x1056ef6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x105a77c1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x10593fcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x10593fc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x105936f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x105936384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x105938538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #14 0x1058e7f54 in hoc_forcode() code.cpp:1010 | |
| #15 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #16 0x1058e9a28 in hoc_ifcode() code.cpp | |
| #17 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #18 0x1058e9a28 in hoc_ifcode() code.cpp | |
| #19 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #20 0x1058e9a28 in hoc_ifcode() code.cpp | |
| #21 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x1058eadd8 in hoc_call() code.cpp:1449 | |
| #23 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x10592dafc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #25 0x10592abec in hoc_run1() hoc.cpp:1235 | |
| #26 0x105929f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #27 0x10521508c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| #28 0x1052149e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #29 0x102447dec in main nrnmain.cpp:71 | |
| previously allocated by thread T0 here: | |
| #0 0x103f55ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x10347dac4 in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5dac4) | |
| #2 0x10347da48 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5da48) | |
| #3 0x10348e9f8 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x6e9f8) | |
| #4 0x10348e958 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x6e958) | |
| #5 0x10348e898 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x6e898) | |
| #6 0x10348e710 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x6e710) | |
| #7 0x1035f634c in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1d634c) | |
| #8 0x1035f5f40 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1d5f40) | |
| #9 0x1035f8914 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1d8914) | |
| #10 0x10356ea58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x103570a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x103424064 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x1056eeb10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x1056ef6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x105a77c1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x10593fcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x10593fc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x105936f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x105936384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x105938538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x1058e7f54 in hoc_forcode() code.cpp:1010 | |
| #23 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x1058e9a28 in hoc_ifcode() code.cpp | |
| #25 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #26 0x1058e9a28 in hoc_ifcode() code.cpp | |
| #27 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #28 0x1058e9a28 in hoc_ifcode() code.cpp | |
| #29 0x1058e4c98 in hoc_execute(Inst*) code.cpp:2546 | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80301==ABORTING | |
| [bbpmacglr01:80301] *** Process received signal *** | |
| [bbpmacglr01:80301] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80301] Signal code: (0) | |
| [bbpmacglr01:80301] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80301] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80301] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80301] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103f6a1bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80301] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103f69884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80301] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103f4f1c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80301] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103f4bb88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80301] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103f563a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80301] [ 8] 0 libcorenrnmech.dylib 0x00000001034616c8 _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80301] [ 9] 0 libcorenrnmech.dylib 0x00000001034616b4 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80301] [10] 0 libcorenrnmech.dylib 0x00000001034616a0 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80301] [11] 0 libcorenrnmech.dylib 0x0000000103462b48 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80301] [12] 0 libcorenrnmech.dylib 0x0000000103462afc _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80301] [13] 0 libcorenrnmech.dylib 0x00000001034623c0 _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80301] [14] 0 libcorenrnmech.dylib 0x0000000103603ca0 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80301] [15] 0 libcorenrnmech.dylib 0x00000001035fbd10 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80301] [16] 0 libcorenrnmech.dylib 0x00000001035f8fe0 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80301] [17] 0 libcorenrnmech.dylib 0x000000010356ea5c _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80301] [18] 0 libcorenrnmech.dylib 0x0000000103570a9c run_solve_core + 736 | |
| [bbpmacglr01:80301] [19] 0 libcorenrnmech.dylib 0x0000000103424068 corenrn_embedded_run + 780 | |
| [bbpmacglr01:80301] [20] 0 libnrniv.dylib 0x00000001056eeb14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:80301] [21] 0 libnrniv.dylib 0x00000001056ef6f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:80301] [22] 0 libnrniv.dylib 0x0000000105a77c20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:80301] [23] 0 libnrniv.dylib 0x000000010593fcb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:80301] [24] 0 libnrniv.dylib 0x000000010593fc78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:80301] [25] 0 libnrniv.dylib 0x0000000105936f20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:80301] [26] 0 libnrniv.dylib 0x0000000105936388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:80301] [27] 0 libnrniv.dylib 0x000000010593853c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:80301] [28] 0 libnrniv.dylib 0x00000001058e4c9c _Z11hoc_executeP4Inst + 172 | |
| [bbpmacglr01:80301] [29] 0 libnrniv.dylib 0x00000001058e7f58 _Z11hoc_forcodev + 156 | |
| [bbpmacglr01:80301] *** End of error message *** | |
| -------------------------------------------------------------------------- | |
| prterun noticed that process rank 0 with PID 80301 on node bbpmacglr01 exited on | |
| signal 6 (Abort trap: 6). | |
| -------------------------------------------------------------------------- | |
| Start 260: testcorenrn_conc::coreneuron_cpu_offline | |
| 52/308 Test #241: external_ringtest::coreneuron_cpu_mpi_offline_saverestore ................***Failed 1.60 sec | |
| numprocs=2 | |
| NEURON -- VERSION + HEAD (cda3bc9+) 2024-10-29 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2022 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| 1 1 2 2 3 3 4 4 5 5 6 6 7 7 8 8 9 9 10 10 11 11 12 12 13 13 14 14 15 16 15 16 0.120357s created rings | |
| 0.071178s initialized | |
| num_mpi=2 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| exp2syn.mod expsyn.mod halfgap.mod hh.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod | |
| Memory (MBs) : After mk_mech : Max 251.2812, Min 250.4688, Avg 250.8750 | |
| Memory (MBs) : After MPI_Init : Max 251.3125, Min 250.4844, Avg 250.8984 | |
| Memory (MBs) : Before nrn_setup : Max 251.3281, Min 250.5000, Avg 250.9141 | |
| Setup Done : 0.00 seconds | |
| Model size : 1.10 MB | |
| ================================================================= | |
| ================================================================= | |
| ==80275==ERROR: AddressSanitizer: attempting double-free on 0x000117ca7c30 in thread T0: | |
| ==80274==ERROR: AddressSanitizer: attempting double-free on 0x000117bbb4d0 in thread T0: | |
| #0 0x10253e330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x101a937f8 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x277f8) | |
| #2 0x101a937e4 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277e4) | |
| #3 0x101a937d0 in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277d0) | |
| #4 0x101a94fa0 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28fa0) | |
| #5 0x101a94f54 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28f54) | |
| #6 0x101a94818 in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x28818) | |
| #7 0x101c363a4 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1ca3a4) | |
| #8 0x101c2e414 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1c2414) | |
| #9 0x101c2b6e4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1bf6e4) | |
| #10 0x101ba1034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x101ba3074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x101a70fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x103d9eb10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x103d9f6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x104127c1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x103fefcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x103fefc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x103fe6f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x103fe6384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x103fe8538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x1037f5320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x1037f4a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x103e10c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x1037f2864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x10307263c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x10316ccb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x10316a440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x10315e98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x10316cc28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #30 0x10316a468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #31 0x10315e98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #32 0x10316cc28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #33 0x10316a468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #34 0x10315e98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #35 0x10315e800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #36 0x1031ba898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #37 0x1031ba7fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| #38 0x1031ba490 in pyrun_file+0x90 (Python:arm64+0x1ae490) | |
| #39 0x1031b9dc4 in _PyRun_SimpleFileObject+0x108 (Python:arm64+0x1addc4) | |
| #40 0x1031b9408 in _PyRun_AnyFileObject+0xe4 (Python:arm64+0x1ad408) | |
| #41 0x1031bd8a4 in PyRun_AnyFileExFlags+0x50 (Python:arm64+0x1b18a4) | |
| #42 0x1037ae36c in nrnpy_pyrun(char const*) nrnpython.cpp:137 | |
| #43 0x1037af6c4 in nrnpython_start(int) nrnpython.cpp:337 | |
| #44 0x1038c50c8 in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:755 | |
| #45 0x1038c49e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #46 0x100d77dec in main nrnmain.cpp:71 | |
| #47 0x100f3d088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x000117bbb4d0 is located 0 bytes inside of 8-byte region [0x000117bbb4d0,0x000117bbb4d8) | |
| freed by thread T0 here: | |
| #0 0x10253e42c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x101c2b6cc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1bf6cc) | |
| #2 0x101ba1034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #3 0x101ba3074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #4 0x101a70fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x103d9eb10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x103d9f6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x104127c1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x103fefcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x103fefc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x103fe6f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x103fe6384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x103fe8538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x1037f5320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #14 0x1037f4a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #15 0x103e10c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #16 0x1037f2864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #17 0x10307263c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #18 0x10316ccb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #19 0x10316a440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #20 0x10315e98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #21 0x10316cc28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #22 0x10316a468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #23 0x10315e98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #24 0x10316cc28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #25 0x10316a468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #26 0x10315e98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #27 0x10315e800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #28 0x1031ba898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #29 0x1031ba7fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| previously allocated by thread T0 here: | |
| #0 0x10253def0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x101aaffdc in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43fdc) | |
| #2 0x101aaff60 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43f60) | |
| #3 0x101ac0f10 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x54f10) | |
| #4 0x101ac0e70 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x54e70) | |
| #5 0x101ac0db0 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x54db0) | |
| #6 0x101ac0c28 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x54c28) | |
| #7 0x101c28a54 in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1bca54) | |
| #8 0x101c28648 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1bc648) | |
| #9 0x101c2b01c in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1bf01c) | |
| #10 0x101ba1034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x101ba3074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x101a70fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x103d9eb10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x103d9f6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x104127c1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x103fefcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x103fefc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x103fe6f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x103fe6384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x103fe8538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x1037f5320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x1037f4a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x103e10c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x1037f2864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x10307263c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x10316ccb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x10316a440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x10315e98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x10316cc28 in call_function+0x7c (Python:arm64+0x160c28) | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80274==ABORTING | |
| [bbpmacglr01:80274] *** Process received signal *** | |
| [bbpmacglr01:80274] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80274] Signal code: (0) | |
| [bbpmacglr01:80274] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80274] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80274] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80274] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001025521bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80274] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000102551884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80274] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001025371c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80274] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000102533b88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80274] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x000000010253e3a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80274] [ 8] 0 libcorenrnmech.dylib 0x0000000101a937fc _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80274] [ 9] 0 libcorenrnmech.dylib 0x0000000101a937e8 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80274] [10] 0 libcorenrnmech.dylib 0x0000000101a937d4 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80274] [11] 0 libcorenrnmech.dylib 0x0000000101a94fa4 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80274] [12] 0 libcorenrnmech.dylib 0x0000000101a94f58 _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80274] [13] 0 libcorenrnmech.dylib 0x0000000101a9481c _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80274] [14] 0 libcorenrnmech.dylib 0x0000000101c363a8 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80274] [15] 0 libcorenrnmech.dylib 0x0000000101c2e418 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80274] [16] 0 libcorenrnmech.dylib 0x0000000101c2b6e8 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80274] [17] 0 libcorenrnmech.dylib 0x0000000101ba1038 _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80274] [18] 0 libcorenrnmech.dylib 0x0000000101ba3078 run_solve_core + 736 | |
| [bbpmacglr01:80274] [19] 0 libcorenrnmech.dylib 0x0000000101a70fbc corenrn_embedded_run + 780 | |
| [bbpmacglr01:80274] [20] 0 libnrniv.dylib 0x0000000103d9eb14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:80274] [21] 0 libnrniv.dylib 0x0000000103d9f6f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:80274] [22] 0 libnrniv.dylib 0x0000000104127c20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:80274] [23] 0 libnrniv.dylib 0x0000000103fefcb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:80274] [24] 0 libnrniv.dylib 0x0000000103fefc78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:80274] [25] 0 libnrniv.dylib 0x0000000103fe6f20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:80274] [26] 0 libnrniv.dylib 0x0000000103fe6388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:80274] [27] 0 libnrniv.dylib 0x0000000103fe853c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:80274] [28] 0 libnrniv.dylib 0x00000001037f5324 _ZL9componentP11PyHocObject + 672 | |
| [bbpmacglr01:80274] [29] 0 libnrniv.dylib 0x00000001037f4a44 _ZL5fcallPvS_ + 360 | |
| [bbpmacglr01:80274] *** End of error message *** | |
| #0 0x102602330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x101b577f8 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x277f8) | |
| #2 0x101b577e4 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277e4) | |
| #3 0x101b577d0 in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277d0) | |
| #4 0x101b58fa0 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28fa0) | |
| #5 0x101b58f54 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28f54) | |
| #6 0x101b58818 in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x28818) | |
| #7 0x101cfa3a4 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1ca3a4) | |
| #8 0x101cf2414 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1c2414) | |
| #9 0x101cef6e4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1bf6e4) | |
| #10 0x101c65034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x101c67074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x101b34fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x103e62b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x103e636f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x1041ebc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x1040b3cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x1040b3c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x1040aaf1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x1040aa384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x1040ac538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x1038b9320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x1038b8a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x103ed4c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x1038b6864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x10313663c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x103230cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x10322e440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x10322298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x103230c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #30 0x10322e468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #31 0x10322298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #32 0x103230c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #33 0x10322e468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #34 0x10322298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #35 0x103222800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #36 0x10327e898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #37 0x10327e7fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| #38 0x10327e490 in pyrun_file+0x90 (Python:arm64+0x1ae490) | |
| #39 0x10327ddc4 in _PyRun_SimpleFileObject+0x108 (Python:arm64+0x1addc4) | |
| #40 0x10327d408 in _PyRun_AnyFileObject+0xe4 (Python:arm64+0x1ad408) | |
| #41 0x1032818a4 in PyRun_AnyFileExFlags+0x50 (Python:arm64+0x1b18a4) | |
| #42 0x10387236c in nrnpy_pyrun(char const*) nrnpython.cpp:137 | |
| #43 0x1038736c4 in nrnpython_start(int) nrnpython.cpp:337 | |
| #44 0x1039890c8 in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:755 | |
| #45 0x1039889e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #46 0x100e7fdec in main nrnmain.cpp:71 | |
| #47 0x100f91088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x000117ca7c30 is located 0 bytes inside of 8-byte region [0x000117ca7c30,0x000117ca7c38) | |
| freed by thread T0 here: | |
| #0 0x10260242c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x101cef6cc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1bf6cc) | |
| #2 0x101c65034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #3 0x101c67074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #4 0x101b34fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x103e62b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x103e636f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x1041ebc1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x1040b3cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x1040b3c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x1040aaf1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x1040aa384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x1040ac538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x1038b9320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #14 0x1038b8a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #15 0x103ed4c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #16 0x1038b6864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #17 0x10313663c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #18 0x103230cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #19 0x10322e440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #20 0x10322298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #21 0x103230c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #22 0x10322e468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #23 0x10322298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #24 0x103230c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #25 0x10322e468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #26 0x10322298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #27 0x103222800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #28 0x10327e898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #29 0x10327e7fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| previously allocated by thread T0 here: | |
| #0 0x102601ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x101b73fdc in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43fdc) | |
| #2 0x101b73f60 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43f60) | |
| #3 0x101b84f10 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x54f10) | |
| #4 0x101b84e70 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x54e70) | |
| #5 0x101b84db0 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x54db0) | |
| #6 0x101b84c28 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x54c28) | |
| #7 0x101ceca54 in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1bca54) | |
| #8 0x101cec648 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1bc648) | |
| #9 0x101cef01c in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1bf01c) | |
| #10 0x101c65034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x101c67074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x101b34fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x103e62b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x103e636f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x1041ebc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x1040b3cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x1040b3c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x1040aaf1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x1040aa384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x1040ac538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x1038b9320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x1038b8a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x103ed4c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x1038b6864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x10313663c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x103230cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x10322e440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x10322298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x103230c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80275==ABORTING | |
| [bbpmacglr01:80275] *** Process received signal *** | |
| [bbpmacglr01:80275] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80275] Signal code: (0) | |
| [bbpmacglr01:80275] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80275] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80275] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80275] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001026161bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80275] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000102615884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80275] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001025fb1c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80275] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001025f7b88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80275] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001026023a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80275] [ 8] 0 libcorenrnmech.dylib 0x0000000101b577fc _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80275] [ 9] 0 libcorenrnmech.dylib 0x0000000101b577e8 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80275] [10] 0 libcorenrnmech.dylib 0x0000000101b577d4 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80275] [11] 0 libcorenrnmech.dylib 0x0000000101b58fa4 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80275] [12] 0 libcorenrnmech.dylib 0x0000000101b58f58 _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80275] [13] 0 libcorenrnmech.dylib 0x0000000101b5881c _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80275] [14] 0 libcorenrnmech.dylib 0x0000000101cfa3a8 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80275] [15] 0 libcorenrnmech.dylib 0x0000000101cf2418 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80275] [16] 0 libcorenrnmech.dylib 0x0000000101cef6e8 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80275] [17] 0 libcorenrnmech.dylib 0x0000000101c65038 _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80275] [18] 0 libcorenrnmech.dylib 0x0000000101c67078 run_solve_core + 736 | |
| [bbpmacglr01:80275] [19] 0 libcorenrnmech.dylib 0x0000000101b34fbc corenrn_embedded_run + 780 | |
| [bbpmacglr01:80275] [20] 0 libnrniv.dylib 0x0000000103e62b14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:80275] [21] 0 libnrniv.dylib 0x0000000103e636f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:80275] [22] 0 libnrniv.dylib 0x00000001041ebc20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:80275] [23] 0 libnrniv.dylib 0x00000001040b3cb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:80275] [24] 0 libnrniv.dylib 0x00000001040b3c78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:80275] [25] 0 libnrniv.dylib 0x00000001040aaf20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:80275] [26] 0 libnrniv.dylib 0x00000001040aa388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:80275] [27] 0 libnrniv.dylib 0x00000001040ac53c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:80275] [28] 0 libnrniv.dylib 0x00000001038b9324 _ZL9componentP11PyHocObject + 672 | |
| [bbpmacglr01:80275] [29] 0 libnrniv.dylib 0x00000001038b8a44 _ZL5fcallPvS_ + 360 | |
| [bbpmacglr01:80275] *** End of error message *** | |
| -------------------------------------------------------------------------- | |
| prterun noticed that process rank 0 with PID 80274 on node bbpmacglr01 exited on | |
| signal 6 (Abort trap: 6). | |
| -------------------------------------------------------------------------- | |
| Start 242: external_ringtest::coreneuron_cpu_mpi | |
| 53/308 Test #260: testcorenrn_conc::coreneuron_cpu_offline .................................***Failed 0.57 sec | |
| num_mpi=1 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| Gfluct3.mod exp2syn.mod expsyn.mod hh.mod hhderiv.mod hhkin.mod hhwatch.mod nacum.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod vecevent.mod | |
| Memory (MBs) : After mk_mech : Max 79.3906, Min 79.3906, Avg 79.3906 | |
| Memory (MBs) : After MPI_Init : Max 79.4375, Min 79.4375, Avg 79.4375 | |
| Memory (MBs) : Before nrn_setup : Max 80.6406, Min 80.6406, Avg 80.6406 | |
| Setup Done : 0.00 seconds | |
| Model size : 6.22 kB | |
| ================================================================= | |
| ==80321==ERROR: AddressSanitizer: attempting double-free on 0x000106a34630 in thread T0: | |
| #0 0x1042d2330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x1037dd6c4 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x416c4) | |
| #2 0x1037dd6b0 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x416b0) | |
| #3 0x1037dd69c in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x4169c) | |
| #4 0x1037deb44 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42b44) | |
| #5 0x1037deaf8 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42af8) | |
| #6 0x1037de3bc in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x423bc) | |
| #7 0x10397fc9c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1e3c9c) | |
| #8 0x103977d0c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1dbd0c) | |
| #9 0x103974fdc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1d8fdc) | |
| #10 0x1038eaa58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x1038eca98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x1037a059c in solve_core enginemech.cpp:199 | |
| #13 0x102989cbc in main coreneuron.cpp:14 | |
| #14 0x102c09088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x000106a34630 is located 0 bytes inside of 8-byte region [0x000106a34630,0x000106a34638) | |
| freed by thread T0 here: | |
| #0 0x1042d242c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x103974fc4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1d8fc4) | |
| #2 0x1038eaa58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #3 0x1038eca98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #4 0x1037a059c in solve_core enginemech.cpp:199 | |
| #5 0x102989cbc in main coreneuron.cpp:14 | |
| #6 0x102c09088 in start+0x204 (dyld:arm64e+0x5088) | |
| previously allocated by thread T0 here: | |
| #0 0x1042d1ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x1037f9ac4 in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5dac4) | |
| #2 0x1037f9a48 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5da48) | |
| #3 0x10380a9f8 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x6e9f8) | |
| #4 0x10380a958 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x6e958) | |
| #5 0x10380a898 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x6e898) | |
| #6 0x10380a710 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x6e710) | |
| #7 0x10397234c in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1d634c) | |
| #8 0x103971d18 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x368 (libcorenrnmech.dylib:arm64+0x1d5d18) | |
| #9 0x103974914 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1d8914) | |
| #10 0x1038eaa58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x1038eca98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x1037a059c in solve_core enginemech.cpp:199 | |
| #13 0x102989cbc in main coreneuron.cpp:14 | |
| #14 0x102c09088 in start+0x204 (dyld:arm64e+0x5088) | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80321==ABORTING | |
| [bbpmacglr01:80321] *** Process received signal *** | |
| [bbpmacglr01:80321] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80321] Signal code: (0) | |
| [bbpmacglr01:80321] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80321] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80321] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80321] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001042e61bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80321] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001042e5884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80321] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001042cb1c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80321] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001042c7b88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80321] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001042d23a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80321] [ 8] 0 libcorenrnmech.dylib 0x00000001037dd6c8 _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80321] [ 9] 0 libcorenrnmech.dylib 0x00000001037dd6b4 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80321] [10] 0 libcorenrnmech.dylib 0x00000001037dd6a0 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80321] [11] 0 libcorenrnmech.dylib 0x00000001037deb48 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80321] [12] 0 libcorenrnmech.dylib 0x00000001037deafc _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80321] [13] 0 libcorenrnmech.dylib 0x00000001037de3c0 _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80321] [14] 0 libcorenrnmech.dylib 0x000000010397fca0 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80321] [15] 0 libcorenrnmech.dylib 0x0000000103977d10 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80321] [16] 0 libcorenrnmech.dylib 0x0000000103974fe0 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80321] [17] 0 libcorenrnmech.dylib 0x00000001038eaa5c _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80321] [18] 0 libcorenrnmech.dylib 0x00000001038eca9c run_solve_core + 736 | |
| [bbpmacglr01:80321] [19] 0 libcorenrnmech.dylib 0x00000001037a05a0 solve_core + 500 | |
| [bbpmacglr01:80321] [20] 0 special-core 0x0000000102989cc0 main + 36 | |
| [bbpmacglr01:80321] [21] 0 dyld 0x0000000102c0908c start + 520 | |
| [bbpmacglr01:80321] *** End of error message *** | |
| -------------------------------------------------------------------------- | |
| prterun noticed that process rank 0 with PID 80321 on node bbpmacglr01 exited on | |
| signal 6 (Abort trap: 6). | |
| -------------------------------------------------------------------------- | |
| Start 263: testcorenrn_deriv::neuron | |
| 54/308 Test #263: testcorenrn_deriv::neuron ................................................ Passed 0.26 sec | |
| Start 264: testcorenrn_deriv::coreneuron_cpu_online | |
| 55/308 Test #264: testcorenrn_deriv::coreneuron_cpu_online .................................***Failed 0.86 sec | |
| numprocs=1 | |
| NEURON -- VERSION + HEAD (cda3bc9+) 2024-10-29 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2022 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --tstop 100 --cell-permute 0 --verbose 2 --voltage 1000.| | |
| num_mpi=1 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| Gfluct3.mod exp2syn.mod expsyn.mod hh.mod hhderiv.mod hhkin.mod hhwatch.mod nacum.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod vecevent.mod | |
| Memory (MBs) : After mk_mech : Max 213.8750, Min 213.8750, Avg 213.8750 | |
| Memory (MBs) : After MPI_Init : Max 213.8906, Min 213.8906, Avg 213.8906 | |
| Memory (MBs) : Before nrn_setup : Max 213.9531, Min 213.9531, Avg 213.9531 | |
| Setup Done : 0.00 seconds | |
| Model size : 5.44 kB | |
| ================================================================= | |
| ==80359==ERROR: AddressSanitizer: attempting double-free on 0x000107270ff0 in thread T0: | |
| #0 0x101f72330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x10147d6c4 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x416c4) | |
| #2 0x10147d6b0 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x416b0) | |
| #3 0x10147d69c in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x4169c) | |
| #4 0x10147eb44 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42b44) | |
| #5 0x10147eaf8 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42af8) | |
| #6 0x10147e3bc in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x423bc) | |
| #7 0x10161fc9c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1e3c9c) | |
| #8 0x101617d0c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1dbd0c) | |
| #9 0x101614fdc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1d8fdc) | |
| #10 0x10158aa58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x10158ca98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x101440064 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x10370ab10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x10370b6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x103a93c1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x10395bcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x10395bc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x103952f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x103952384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x103954538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x103900c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x103905a28 in hoc_ifcode() code.cpp | |
| #23 0x103900c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x103906dd8 in hoc_call() code.cpp:1449 | |
| #25 0x103900c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #26 0x103949afc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #27 0x103946bec in hoc_run1() hoc.cpp:1235 | |
| #28 0x103945f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #29 0x10323108c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| #30 0x1032309e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #31 0x100453dec in main nrnmain.cpp:71 | |
| #32 0x100619088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x000107270ff0 is located 0 bytes inside of 8-byte region [0x000107270ff0,0x000107270ff8) | |
| freed by thread T0 here: | |
| #0 0x101f7242c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x101614fc4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1d8fc4) | |
| #2 0x10158aa58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #3 0x10158ca98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #4 0x101440064 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x10370ab10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x10370b6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x103a93c1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x10395bcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x10395bc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x103952f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x103952384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x103954538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x103900c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #14 0x103905a28 in hoc_ifcode() code.cpp | |
| #15 0x103900c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #16 0x103906dd8 in hoc_call() code.cpp:1449 | |
| #17 0x103900c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #18 0x103949afc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #19 0x103946bec in hoc_run1() hoc.cpp:1235 | |
| #20 0x103945f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #21 0x10323108c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| #22 0x1032309e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #23 0x100453dec in main nrnmain.cpp:71 | |
| #24 0x100619088 in start+0x204 (dyld:arm64e+0x5088) | |
| previously allocated by thread T0 here: | |
| #0 0x101f71ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x101499ac4 in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5dac4) | |
| #2 0x101499a48 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5da48) | |
| #3 0x1014aa9f8 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x6e9f8) | |
| #4 0x1014aa958 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x6e958) | |
| #5 0x1014aa898 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x6e898) | |
| #6 0x1014aa710 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x6e710) | |
| #7 0x10161234c in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1d634c) | |
| #8 0x101611f40 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1d5f40) | |
| #9 0x101614914 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1d8914) | |
| #10 0x10158aa58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x10158ca98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x101440064 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x10370ab10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x10370b6f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x103a93c1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x10395bcb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x10395bc74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x103952f1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x103952384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x103954538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x103900c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x103905a28 in hoc_ifcode() code.cpp | |
| #23 0x103900c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x103906dd8 in hoc_call() code.cpp:1449 | |
| #25 0x103900c98 in hoc_execute(Inst*) code.cpp:2546 | |
| #26 0x103949afc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #27 0x103946bec in hoc_run1() hoc.cpp:1235 | |
| #28 0x103945f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #29 0x10323108c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80359==ABORTING | |
| [bbpmacglr01:80359] *** Process received signal *** | |
| [bbpmacglr01:80359] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80359] Signal code: (0) | |
| [bbpmacglr01:80359] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80359] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80359] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80359] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000101f861bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80359] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000101f85884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80359] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000101f6b1c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80359] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000101f67b88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80359] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000101f723a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80359] [ 8] 0 libcorenrnmech.dylib 0x000000010147d6c8 _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80359] [ 9] 0 libcorenrnmech.dylib 0x000000010147d6b4 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80359] [10] 0 libcorenrnmech.dylib 0x000000010147d6a0 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80359] [11] 0 libcorenrnmech.dylib 0x000000010147eb48 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80359] [12] 0 libcorenrnmech.dylib 0x000000010147eafc _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80359] [13] 0 libcorenrnmech.dylib 0x000000010147e3c0 _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80359] [14] 0 libcorenrnmech.dylib 0x000000010161fca0 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80359] [15] 0 libcorenrnmech.dylib 0x0000000101617d10 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80359] [16] 0 libcorenrnmech.dylib 0x0000000101614fe0 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80359] [17] 0 libcorenrnmech.dylib 0x000000010158aa5c _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80359] [18] 0 libcorenrnmech.dylib 0x000000010158ca9c run_solve_core + 736 | |
| [bbpmacglr01:80359] [19] 0 libcorenrnmech.dylib 0x0000000101440068 corenrn_embedded_run + 780 | |
| [bbpmacglr01:80359] [20] 0 libnrniv.dylib 0x000000010370ab14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:80359] [21] 0 libnrniv.dylib 0x000000010370b6f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:80359] [22] 0 libnrniv.dylib 0x0000000103a93c20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:80359] [23] 0 libnrniv.dylib 0x000000010395bcb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:80359] [24] 0 libnrniv.dylib 0x000000010395bc78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:80359] [25] 0 libnrniv.dylib 0x0000000103952f20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:80359] [26] 0 libnrniv.dylib 0x0000000103952388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:80359] [27] 0 libnrniv.dylib 0x000000010395453c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:80359] [28] 0 libnrniv.dylib 0x0000000103900c9c _Z11hoc_executeP4Inst + 172 | |
| [bbpmacglr01:80359] [29] 0 libnrniv.dylib 0x0000000103905a2c _Z10hoc_ifcodev + 144 | |
| [bbpmacglr01:80359] *** End of error message *** | |
| -------------------------------------------------------------------------- | |
| prterun noticed that process rank 0 with PID 80359 on node bbpmacglr01 exited on | |
| signal 6 (Abort trap: 6). | |
| -------------------------------------------------------------------------- | |
| Start 265: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate | |
| 56/308 Test #242: external_ringtest::coreneuron_cpu_mpi ....................................***Failed 1.68 sec | |
| numprocs=2 | |
| NEURON -- VERSION + HEAD (cda3bc9+) 2024-10-29 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2022 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./halfgap.mod" | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| 1 1 2 2 3 3 4 4 5 5 6 6 7 7 8 8 9 9 10 10 11 11 12 12 13 13 14 14 15 16 15 16 0.124848s created rings | |
| 0.022609s initialized | |
| num_mpi=2 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| exp2syn.mod expsyn.mod halfgap.mod hh.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod | |
| Memory (MBs) : After mk_mech : Max 248.9219, Min 248.2344, Avg 248.5781 | |
| Memory (MBs) : After MPI_Init : Max 248.9375, Min 248.2500, Avg 248.5938 | |
| Memory (MBs) : Before nrn_setup : Max 248.9688, Min 248.2812, Avg 248.6250 | |
| ================================================================= | |
| ================================================================= | |
| Setup Done : 0.00 seconds | |
| Model size : 1.10 MB | |
| ==80333==ERROR: AddressSanitizer: attempting double-free on 0x00011942ded0 in thread T0: | |
| ==80332==ERROR: AddressSanitizer: attempting double-free on 0x000119139a70 in thread T0: | |
| #0 0x103c66330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x1031bb7f8 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x277f8) | |
| #2 0x1031bb7e4 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277e4) | |
| #3 0x1031bb7d0 in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277d0) | |
| #4 0x1031bcfa0 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28fa0) | |
| #5 0x1031bcf54 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28f54) | |
| #6 0x1031bc818 in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x28818) | |
| #7 0x10335e3a4 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1ca3a4) | |
| #8 0x103356414 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1c2414) | |
| #9 0x1033536e4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1bf6e4) | |
| #10 0x1032c9034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x1032cb074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x103198fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x1054c6b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x1054c76f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x10584fc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x105717cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x105717c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x10570ef1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x10570e384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x105710538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x104f1d320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x104f1ca40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x105538c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x104f1a864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x10479a63c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x104894cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x104892440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x10488698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x104894c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #30 0x104892468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #31 0x10488698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #32 0x104894c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #33 0x104892468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #34 0x10488698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #35 0x104886800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #36 0x1048e2898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #37 0x1048e27fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| #38 0x1048e2490 in pyrun_file+0x90 (Python:arm64+0x1ae490) | |
| #39 0x1048e1dc4 in _PyRun_SimpleFileObject+0x108 (Python:arm64+0x1addc4) | |
| #40 0x1048e1408 in _PyRun_AnyFileObject+0xe4 (Python:arm64+0x1ad408) | |
| #41 0x1048e58a4 in PyRun_AnyFileExFlags+0x50 (Python:arm64+0x1b18a4) | |
| #42 0x104ed636c in nrnpy_pyrun(char const*) nrnpython.cpp:137 | |
| #43 0x104ed76c4 in nrnpython_start(int) nrnpython.cpp:337 | |
| #44 0x104fed0c8 in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:755 | |
| #45 0x104fec9e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #46 0x102307dec in main nrnmain.cpp:71 | |
| #47 0x102665088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x000119139a70 is located 0 bytes inside of 8-byte region [0x000119139a70,0x000119139a78) | |
| freed by thread T0 here: | |
| #0 0x103c6642c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x1033536cc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1bf6cc) | |
| #2 0x1032c9034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #3 0x1032cb074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #4 0x103198fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x1054c6b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x1054c76f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x10584fc1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x105717cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x105717c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x10570ef1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x10570e384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x105710538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x104f1d320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #14 0x104f1ca40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #15 0x105538c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #16 0x104f1a864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #17 0x10479a63c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #18 0x104894cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #19 0x104892440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #20 0x10488698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #21 0x104894c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #22 0x104892468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #23 0x10488698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #24 0x104894c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #25 0x104892468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #26 0x10488698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #27 0x104886800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #28 0x1048e2898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #29 0x1048e27fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| previously allocated by thread T0 here: | |
| #0 0x103c65ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x1031d7fdc in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43fdc) | |
| #2 0x1031d7f60 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43f60) | |
| #3 0x1031e8f10 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x54f10) | |
| #4 0x1031e8e70 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x54e70) | |
| #5 0x1031e8db0 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x54db0) | |
| #6 0x1031e8c28 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x54c28) | |
| #7 0x103350a54 in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1bca54) | |
| #8 0x103350648 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1bc648) | |
| #9 0x10335301c in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1bf01c) | |
| #10 0x1032c9034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x1032cb074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x103198fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x1054c6b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x1054c76f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x10584fc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x105717cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x105717c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x10570ef1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x10570e384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x105710538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x104f1d320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x104f1ca40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x105538c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x104f1a864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x10479a63c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x104894cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x104892440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x10488698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x104894c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80332==ABORTING | |
| [bbpmacglr01:80332] *** Process received signal *** | |
| [bbpmacglr01:80332] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80332] Signal code: (0) | |
| [bbpmacglr01:80332] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80332] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80332] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80332] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103c7a1bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80332] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103c79884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80332] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103c5f1c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80332] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103c5bb88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80332] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103c663a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80332] [ 8] 0 libcorenrnmech.dylib 0x00000001031bb7fc _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80332] [ 9] 0 libcorenrnmech.dylib 0x00000001031bb7e8 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80332] [10] 0 libcorenrnmech.dylib 0x00000001031bb7d4 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80332] [11] 0 libcorenrnmech.dylib 0x00000001031bcfa4 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80332] [12] 0 libcorenrnmech.dylib 0x00000001031bcf58 _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80332] [13] 0 libcorenrnmech.dylib 0x00000001031bc81c _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80332] [14] 0 libcorenrnmech.dylib 0x000000010335e3a8 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80332] [15] 0 libcorenrnmech.dylib 0x0000000103356418 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80332] [16] 0 libcorenrnmech.dylib 0x00000001033536e8 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80332] [17] 0 libcorenrnmech.dylib 0x00000001032c9038 _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80332] [18] 0 libcorenrnmech.dylib 0x00000001032cb078 run_solve_core + 736 | |
| [bbpmacglr01:80332] [19] 0 libcorenrnmech.dylib 0x0000000103198fbc corenrn_embedded_run + 780 | |
| [bbpmacglr01:80332] [20] 0 libnrniv.dylib 0x00000001054c6b14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:80332] [21] 0 libnrniv.dylib 0x00000001054c76f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:80332] [22] 0 libnrniv.dylib 0x000000010584fc20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:80332] [23] 0 libnrniv.dylib 0x0000000105717cb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:80332] [24] 0 libnrniv.dylib 0x0000000105717c78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:80332] [25] 0 libnrniv.dylib 0x000000010570ef20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:80332] [26] 0 libnrniv.dylib 0x000000010570e388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:80332] [27] 0 libnrniv.dylib 0x000000010571053c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:80332] [28] 0 libnrniv.dylib 0x0000000104f1d324 _ZL9componentP11PyHocObject + 672 | |
| [bbpmacglr01:80332] [29] 0 libnrniv.dylib 0x0000000104f1ca44 _ZL5fcallPvS_ + 360 | |
| [bbpmacglr01:80332] *** End of error message *** | |
| #0 0x103f06330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x10345b7f8 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x277f8) | |
| #2 0x10345b7e4 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277e4) | |
| #3 0x10345b7d0 in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277d0) | |
| #4 0x10345cfa0 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28fa0) | |
| #5 0x10345cf54 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28f54) | |
| #6 0x10345c818 in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x28818) | |
| #7 0x1035fe3a4 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1ca3a4) | |
| #8 0x1035f6414 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1c2414) | |
| #9 0x1035f36e4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1bf6e4) | |
| #10 0x103569034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x10356b074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x103438fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x105766b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x1057676f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x105aefc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x1059b7cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x1059b7c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x1059aef1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x1059ae384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x1059b0538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x1051bd320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x1051bca40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x1057d8c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x1051ba864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x104a3a63c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x104b34cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x104b32440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x104b2698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x104b34c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #30 0x104b32468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #31 0x104b2698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #32 0x104b34c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #33 0x104b32468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #34 0x104b2698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #35 0x104b26800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #36 0x104b82898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #37 0x104b827fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| #38 0x104b82490 in pyrun_file+0x90 (Python:arm64+0x1ae490) | |
| #39 0x104b81dc4 in _PyRun_SimpleFileObject+0x108 (Python:arm64+0x1addc4) | |
| #40 0x104b81408 in _PyRun_AnyFileObject+0xe4 (Python:arm64+0x1ad408) | |
| #41 0x104b858a4 in PyRun_AnyFileExFlags+0x50 (Python:arm64+0x1b18a4) | |
| #42 0x10517636c in nrnpy_pyrun(char const*) nrnpython.cpp:137 | |
| #43 0x1051776c4 in nrnpython_start(int) nrnpython.cpp:337 | |
| #44 0x10528d0c8 in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:755 | |
| #45 0x10528c9e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #46 0x102657dec in main nrnmain.cpp:71 | |
| #47 0x102905088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x00011942ded0 is located 0 bytes inside of 8-byte region [0x00011942ded0,0x00011942ded8) | |
| freed by thread T0 here: | |
| #0 0x103f0642c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x1035f36cc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1bf6cc) | |
| #2 0x103569034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #3 0x10356b074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #4 0x103438fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x105766b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x1057676f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x105aefc1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x1059b7cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x1059b7c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x1059aef1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x1059ae384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x1059b0538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x1051bd320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #14 0x1051bca40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #15 0x1057d8c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #16 0x1051ba864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #17 0x104a3a63c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #18 0x104b34cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #19 0x104b32440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #20 0x104b2698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #21 0x104b34c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #22 0x104b32468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #23 0x104b2698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #24 0x104b34c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #25 0x104b32468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #26 0x104b2698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #27 0x104b26800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #28 0x104b82898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #29 0x104b827fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| previously allocated by thread T0 here: | |
| #0 0x103f05ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x103477fdc in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43fdc) | |
| #2 0x103477f60 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43f60) | |
| #3 0x103488f10 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x54f10) | |
| #4 0x103488e70 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x54e70) | |
| #5 0x103488db0 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x54db0) | |
| #6 0x103488c28 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x54c28) | |
| #7 0x1035f0a54 in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1bca54) | |
| #8 0x1035f0648 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1bc648) | |
| #9 0x1035f301c in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1bf01c) | |
| #10 0x103569034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x10356b074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x103438fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x105766b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x1057676f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x105aefc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x1059b7cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x1059b7c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x1059aef1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x1059ae384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x1059b0538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x1051bd320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x1051bca40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x1057d8c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x1051ba864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x104a3a63c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x104b34cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x104b32440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x104b2698c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x104b34c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80333==ABORTING | |
| [bbpmacglr01:80333] *** Process received signal *** | |
| [bbpmacglr01:80333] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80333] Signal code: (0) | |
| [bbpmacglr01:80333] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80333] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80333] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80333] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103f1a1bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80333] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103f19884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80333] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103eff1c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80333] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103efbb88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80333] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103f063a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80333] [ 8] 0 libcorenrnmech.dylib 0x000000010345b7fc _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80333] [ 9] 0 libcorenrnmech.dylib 0x000000010345b7e8 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80333] [10] 0 libcorenrnmech.dylib 0x000000010345b7d4 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80333] [11] 0 libcorenrnmech.dylib 0x000000010345cfa4 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80333] [12] 0 libcorenrnmech.dylib 0x000000010345cf58 _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80333] [13] 0 libcorenrnmech.dylib 0x000000010345c81c _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80333] [14] 0 libcorenrnmech.dylib 0x00000001035fe3a8 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80333] [15] 0 libcorenrnmech.dylib 0x00000001035f6418 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80333] [16] 0 libcorenrnmech.dylib 0x00000001035f36e8 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80333] [17] 0 libcorenrnmech.dylib 0x0000000103569038 _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80333] [18] 0 libcorenrnmech.dylib 0x000000010356b078 run_solve_core + 736 | |
| [bbpmacglr01:80333] [19] 0 libcorenrnmech.dylib 0x0000000103438fbc corenrn_embedded_run + 780 | |
| [bbpmacglr01:80333] [20] 0 libnrniv.dylib 0x0000000105766b14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:80333] [21] 0 libnrniv.dylib 0x00000001057676f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:80333] [22] 0 libnrniv.dylib 0x0000000105aefc20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:80333] [23] 0 libnrniv.dylib 0x00000001059b7cb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:80333] [24] 0 libnrniv.dylib 0x00000001059b7c78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:80333] [25] 0 libnrniv.dylib 0x00000001059aef20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:80333] [26] 0 libnrniv.dylib 0x00000001059ae388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:80333] [27] 0 libnrniv.dylib 0x00000001059b053c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:80333] [28] 0 libnrniv.dylib 0x00000001051bd324 _ZL9componentP11PyHocObject + 672 | |
| [bbpmacglr01:80333] [29] 0 libnrniv.dylib 0x00000001051bca44 _ZL5fcallPvS_ + 360 | |
| [bbpmacglr01:80333] *** End of error message *** | |
| -------------------------------------------------------------------------- | |
| prterun noticed that process rank 0 with PID 80332 on node bbpmacglr01 exited on | |
| signal 6 (Abort trap: 6). | |
| -------------------------------------------------------------------------- | |
| Start 243: external_ringtest::coreneuron_cpu_mpi_python | |
| 57/308 Test #265: testcorenrn_deriv::coreneuron_cpu_online_psolve_alternate ................***Failed 1.06 sec | |
| numprocs=1 | |
| NEURON -- VERSION + HEAD (cda3bc9+) 2024-10-29 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2022 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 3 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --tstop 100 --cell-permute 0 --verbose 2 --voltage 1000.| | |
| num_mpi=1 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| Gfluct3.mod exp2syn.mod expsyn.mod hh.mod hhderiv.mod hhkin.mod hhwatch.mod nacum.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod vecevent.mod | |
| Memory (MBs) : After mk_mech : Max 213.8594, Min 213.8594, Avg 213.8594 | |
| Memory (MBs) : After MPI_Init : Max 213.8750, Min 213.8750, Avg 213.8750 | |
| Memory (MBs) : Before nrn_setup : Max 213.9531, Min 213.9531, Avg 213.9531 | |
| Setup Done : 0.00 seconds | |
| Model size : 5.44 kB | |
| ================================================================= | |
| ==80387==ERROR: AddressSanitizer: attempting double-free on 0x00010be70f50 in thread T0: | |
| #0 0x106a7e330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x105f896c4 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x416c4) | |
| #2 0x105f896b0 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x416b0) | |
| #3 0x105f8969c in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x4169c) | |
| #4 0x105f8ab44 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42b44) | |
| #5 0x105f8aaf8 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42af8) | |
| #6 0x105f8a3bc in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x423bc) | |
| #7 0x10612bc9c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1e3c9c) | |
| #8 0x106123d0c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1dbd0c) | |
| #9 0x106120fdc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1d8fdc) | |
| #10 0x106096a58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x106098a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x105f4c064 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x108216b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x1082176f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x10859fc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x108467cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x108467c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x10845ef1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x10845e384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x108460538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x10840ff54 in hoc_forcode() code.cpp:1010 | |
| #23 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x108411a28 in hoc_ifcode() code.cpp | |
| #25 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #26 0x108411a28 in hoc_ifcode() code.cpp | |
| #27 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #28 0x108411a28 in hoc_ifcode() code.cpp | |
| #29 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #30 0x108412dd8 in hoc_call() code.cpp:1449 | |
| #31 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #32 0x108455afc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #33 0x108452bec in hoc_run1() hoc.cpp:1235 | |
| #34 0x108451f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #35 0x107d3d08c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| #36 0x107d3c9e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #37 0x104fbbdec in main nrnmain.cpp:71 | |
| #38 0x10526d088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x00010be70f50 is located 0 bytes inside of 8-byte region [0x00010be70f50,0x00010be70f58) | |
| freed by thread T0 here: | |
| #0 0x106a7e42c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x106120fc4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1d8fc4) | |
| #2 0x106096a58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #3 0x106098a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #4 0x105f4c064 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x108216b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x1082176f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x10859fc1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x108467cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x108467c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x10845ef1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x10845e384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x108460538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #14 0x10840ff54 in hoc_forcode() code.cpp:1010 | |
| #15 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #16 0x108411a28 in hoc_ifcode() code.cpp | |
| #17 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #18 0x108411a28 in hoc_ifcode() code.cpp | |
| #19 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #20 0x108411a28 in hoc_ifcode() code.cpp | |
| #21 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x108412dd8 in hoc_call() code.cpp:1449 | |
| #23 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x108455afc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #25 0x108452bec in hoc_run1() hoc.cpp:1235 | |
| #26 0x108451f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #27 0x107d3d08c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| #28 0x107d3c9e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #29 0x104fbbdec in main nrnmain.cpp:71 | |
| previously allocated by thread T0 here: | |
| #0 0x106a7def0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x105fa5ac4 in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5dac4) | |
| #2 0x105fa5a48 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5da48) | |
| #3 0x105fb69f8 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x6e9f8) | |
| #4 0x105fb6958 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x6e958) | |
| #5 0x105fb6898 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x6e898) | |
| #6 0x105fb6710 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x6e710) | |
| #7 0x10611e34c in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1d634c) | |
| #8 0x10611df40 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1d5f40) | |
| #9 0x106120914 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1d8914) | |
| #10 0x106096a58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x106098a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x105f4c064 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x108216b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x1082176f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x10859fc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x108467cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x108467c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x10845ef1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x10845e384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x108460538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x10840ff54 in hoc_forcode() code.cpp:1010 | |
| #23 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x108411a28 in hoc_ifcode() code.cpp | |
| #25 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #26 0x108411a28 in hoc_ifcode() code.cpp | |
| #27 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #28 0x108411a28 in hoc_ifcode() code.cpp | |
| #29 0x10840cc98 in hoc_execute(Inst*) code.cpp:2546 | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80387==ABORTING | |
| [bbpmacglr01:80387] *** Process received signal *** | |
| [bbpmacglr01:80387] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80387] Signal code: (0) | |
| [bbpmacglr01:80387] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80387] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80387] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80387] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000106a921bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80387] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000106a91884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80387] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000106a771c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80387] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000106a73b88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80387] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000106a7e3a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80387] [ 8] 0 libcorenrnmech.dylib 0x0000000105f896c8 _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80387] [ 9] 0 libcorenrnmech.dylib 0x0000000105f896b4 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80387] [10] 0 libcorenrnmech.dylib 0x0000000105f896a0 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80387] [11] 0 libcorenrnmech.dylib 0x0000000105f8ab48 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80387] [12] 0 libcorenrnmech.dylib 0x0000000105f8aafc _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80387] [13] 0 libcorenrnmech.dylib 0x0000000105f8a3c0 _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80387] [14] 0 libcorenrnmech.dylib 0x000000010612bca0 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80387] [15] 0 libcorenrnmech.dylib 0x0000000106123d10 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80387] [16] 0 libcorenrnmech.dylib 0x0000000106120fe0 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80387] [17] 0 libcorenrnmech.dylib 0x0000000106096a5c _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80387] [18] 0 libcorenrnmech.dylib 0x0000000106098a9c run_solve_core + 736 | |
| [bbpmacglr01:80387] [19] 0 libcorenrnmech.dylib 0x0000000105f4c068 corenrn_embedded_run + 780 | |
| [bbpmacglr01:80387] [20] 0 libnrniv.dylib 0x0000000108216b14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:80387] [21] 0 libnrniv.dylib 0x00000001082176f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:80387] [22] 0 libnrniv.dylib 0x000000010859fc20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:80387] [23] 0 libnrniv.dylib 0x0000000108467cb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:80387] [24] 0 libnrniv.dylib 0x0000000108467c78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:80387] [25] 0 libnrniv.dylib 0x000000010845ef20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:80387] [26] 0 libnrniv.dylib 0x000000010845e388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:80387] [27] 0 libnrniv.dylib 0x000000010846053c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:80387] [28] 0 libnrniv.dylib 0x000000010840cc9c _Z11hoc_executeP4Inst + 172 | |
| [bbpmacglr01:80387] [29] 0 libnrniv.dylib 0x000000010840ff58 _Z11hoc_forcodev + 156 | |
| [bbpmacglr01:80387] *** End of error message *** | |
| -------------------------------------------------------------------------- | |
| prterun noticed that process rank 0 with PID 80387 on node bbpmacglr01 exited on | |
| signal 6 (Abort trap: 6). | |
| -------------------------------------------------------------------------- | |
| Start 266: testcorenrn_deriv::coreneuron_cpu_offline | |
| 58/308 Test #266: testcorenrn_deriv::coreneuron_cpu_offline ................................***Failed 0.53 sec | |
| num_mpi=1 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| Gfluct3.mod exp2syn.mod expsyn.mod hh.mod hhderiv.mod hhkin.mod hhwatch.mod nacum.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod vecevent.mod | |
| Memory (MBs) : After mk_mech : Max 79.4219, Min 79.4219, Avg 79.4219 | |
| Memory (MBs) : After MPI_Init : Max 79.4688, Min 79.4688, Avg 79.4688 | |
| Memory (MBs) : Before nrn_setup : Max 80.6719, Min 80.6719, Avg 80.6719 | |
| Setup Done : 0.00 seconds | |
| Model size : 5.44 kB | |
| ================================================================= | |
| ==80419==ERROR: AddressSanitizer: attempting double-free on 0x000106834630 in thread T0: | |
| #0 0x103e66330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x1033716c4 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x416c4) | |
| #2 0x1033716b0 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x416b0) | |
| #3 0x10337169c in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x4169c) | |
| #4 0x103372b44 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42b44) | |
| #5 0x103372af8 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42af8) | |
| #6 0x1033723bc in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x423bc) | |
| #7 0x103513c9c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1e3c9c) | |
| #8 0x10350bd0c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1dbd0c) | |
| #9 0x103508fdc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1d8fdc) | |
| #10 0x10347ea58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x103480a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x10333459c in solve_core enginemech.cpp:199 | |
| #13 0x1025f5cbc in main coreneuron.cpp:14 | |
| #14 0x10269d088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x000106834630 is located 0 bytes inside of 8-byte region [0x000106834630,0x000106834638) | |
| freed by thread T0 here: | |
| #0 0x103e6642c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x103508fc4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1d8fc4) | |
| #2 0x10347ea58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #3 0x103480a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #4 0x10333459c in solve_core enginemech.cpp:199 | |
| #5 0x1025f5cbc in main coreneuron.cpp:14 | |
| #6 0x10269d088 in start+0x204 (dyld:arm64e+0x5088) | |
| previously allocated by thread T0 here: | |
| #0 0x103e65ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x10338dac4 in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5dac4) | |
| #2 0x10338da48 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x5da48) | |
| #3 0x10339e9f8 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x6e9f8) | |
| #4 0x10339e958 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x6e958) | |
| #5 0x10339e898 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x6e898) | |
| #6 0x10339e710 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x6e710) | |
| #7 0x10350634c in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1d634c) | |
| #8 0x103505d18 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x368 (libcorenrnmech.dylib:arm64+0x1d5d18) | |
| #9 0x103508914 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1d8914) | |
| #10 0x10347ea58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x103480a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x10333459c in solve_core enginemech.cpp:199 | |
| #13 0x1025f5cbc in main coreneuron.cpp:14 | |
| #14 0x10269d088 in start+0x204 (dyld:arm64e+0x5088) | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80419==ABORTING | |
| [bbpmacglr01:80419] *** Process received signal *** | |
| [bbpmacglr01:80419] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80419] Signal code: (0) | |
| [bbpmacglr01:80419] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80419] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80419] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80419] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103e7a1bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80419] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103e79884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80419] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103e5f1c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80419] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103e5bb88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80419] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000103e663a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80419] [ 8] 0 libcorenrnmech.dylib 0x00000001033716c8 _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80419] [ 9] 0 libcorenrnmech.dylib 0x00000001033716b4 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80419] [10] 0 libcorenrnmech.dylib 0x00000001033716a0 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80419] [11] 0 libcorenrnmech.dylib 0x0000000103372b48 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80419] [12] 0 libcorenrnmech.dylib 0x0000000103372afc _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80419] [13] 0 libcorenrnmech.dylib 0x00000001033723c0 _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80419] [14] 0 libcorenrnmech.dylib 0x0000000103513ca0 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80419] [15] 0 libcorenrnmech.dylib 0x000000010350bd10 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80419] [16] 0 libcorenrnmech.dylib 0x0000000103508fe0 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80419] [17] 0 libcorenrnmech.dylib 0x000000010347ea5c _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80419] [18] 0 libcorenrnmech.dylib 0x0000000103480a9c run_solve_core + 736 | |
| [bbpmacglr01:80419] [19] 0 libcorenrnmech.dylib 0x00000001033345a0 solve_core + 500 | |
| [bbpmacglr01:80419] [20] 0 special-core 0x00000001025f5cc0 main + 36 | |
| [bbpmacglr01:80419] [21] 0 dyld 0x000000010269d08c start + 520 | |
| [bbpmacglr01:80419] *** End of error message *** | |
| -------------------------------------------------------------------------- | |
| prterun noticed that process rank 0 with PID 80419 on node bbpmacglr01 exited on | |
| signal 6 (Abort trap: 6). | |
| -------------------------------------------------------------------------- | |
| Start 275: testcorenrn_kin::neuron | |
| 59/308 Test #275: testcorenrn_kin::neuron .................................................. Passed 0.22 sec | |
| Start 276: testcorenrn_kin::coreneuron_cpu_online | |
| 60/308 Test #243: external_ringtest::coreneuron_cpu_mpi_python .............................***Failed 2.03 sec | |
| numprocs=2 | |
| [10, 20] [1, 1] | |
| nring=16 | |
| cell per ring=8 | |
| ncell_per_type=8 | |
| ntype=16 | |
| 1 1 2 2 3 3 4 4 5 5 6 6 7 7 8 8 9 9 10 10 11 11 12 12 13 13 14 14 15 16 15 16 0.120928s created rings | |
| 0.022166s initialized | |
| num_mpi=2 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| exp2syn.mod expsyn.mod halfgap.mod hh.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod | |
| Memory (MBs) : After mk_mech : Max 254.1719, Min 253.5469, Avg 253.8594 | |
| Memory (MBs) : After MPI_Init : Max 254.1875, Min 253.5625, Avg 253.8750 | |
| Memory (MBs) : Before nrn_setup : Max 254.2656, Min 253.6250, Avg 253.9453 | |
| ================================================================= | |
| ================================================================= | |
| Setup Done : 0.00 seconds | |
| Model size : 1.10 MB | |
| ==80398==ERROR: AddressSanitizer: attempting double-free on 0x00012e52de30 in thread T0: | |
| ==80397==ERROR: AddressSanitizer: attempting double-free on 0x000129a3a950 in thread T0: | |
| #0 0x100bde330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x12baf77f8 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x277f8) | |
| #2 0x12baf77e4 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277e4) | |
| #3 0x12baf77d0 in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277d0) | |
| #4 0x12baf8fa0 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28fa0) | |
| #5 0x12baf8f54 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28f54) | |
| #6 0x12baf8818 in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x28818) | |
| #7 0x12bc9a3a4 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1ca3a4) | |
| #8 0x12bc92414 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1c2414) | |
| #9 0x12bc8f6e4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1bf6e4) | |
| #10 0x12bc05034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x12bc07074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x12bad4fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x1095b2b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x1095b36f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x10993bc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x109803cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x109803c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x1097faf1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x1097fa384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x1097fc538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x109009320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x109008a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x109624c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x109006864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x101a8663c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x101b80cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x101b7e440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x101b7298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x101b80c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #30 0x101b7e468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #31 0x101b7298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #32 0x101b80c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #33 0x101b7e468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #34 0x101b7298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #35 0x101b72800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #36 0x101bce898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #37 0x101bce7fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| #38 0x101bce490 in pyrun_file+0x90 (Python:arm64+0x1ae490) | |
| #39 0x101bcddc4 in _PyRun_SimpleFileObject+0x108 (Python:arm64+0x1addc4) | |
| #40 0x101bcd408 in _PyRun_AnyFileObject+0xe4 (Python:arm64+0x1ad408) | |
| #41 0x101bf0b20 in pymain_run_file_obj+0xd8 (Python:arm64+0x1d0b20) | |
| #42 0x101bf026c in pymain_run_file+0x44 (Python:arm64+0x1d026c) | |
| #43 0x101befb74 in Py_RunMain+0x3dc (Python:arm64+0x1cfb74) | |
| #44 0x101bf0efc in Py_BytesMain+0x24 (Python:arm64+0x1d0efc) | |
| #45 0x1007b1088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x000129a3a950 is located 0 bytes inside of 8-byte region [0x000129a3a950,0x000129a3a958) | |
| freed by thread T0 here: | |
| #0 0x100bde42c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x12bc8f6cc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1bf6cc) | |
| #2 0x12bc05034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #3 0x12bc07074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #4 0x12bad4fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x1095b2b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x1095b36f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x10993bc1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x109803cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x109803c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x1097faf1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x1097fa384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x1097fc538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x109009320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #14 0x109008a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #15 0x109624c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #16 0x109006864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #17 0x101a8663c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #18 0x101b80cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #19 0x101b7e440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #20 0x101b7298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #21 0x101b80c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #22 0x101b7e468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #23 0x101b7298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #24 0x101b80c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #25 0x101b7e468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #26 0x101b7298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #27 0x101b72800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #28 0x101bce898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #29 0x101bce7fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| previously allocated by thread T0 here: | |
| #0 0x100bddef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x12bb13fdc in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43fdc) | |
| #2 0x12bb13f60 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43f60) | |
| #3 0x12bb24f10 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x54f10) | |
| #4 0x12bb24e70 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x54e70) | |
| #5 0x12bb24db0 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x54db0) | |
| #6 0x12bb24c28 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x54c28) | |
| #7 0x12bc8ca54 in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1bca54) | |
| #8 0x12bc8c648 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1bc648) | |
| #9 0x12bc8f01c in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1bf01c) | |
| #10 0x12bc05034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x12bc07074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x12bad4fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x1095b2b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x1095b36f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x10993bc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x109803cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x109803c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x1097faf1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x1097fa384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x1097fc538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x109009320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x109008a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x109624c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x109006864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x101a8663c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x101b80cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x101b7e440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x101b7298c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x101b80c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80397==ABORTING | |
| [bbpmacglr01:80397] *** Process received signal *** | |
| [bbpmacglr01:80397] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80397] Signal code: (0) | |
| [bbpmacglr01:80397] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80397] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80397] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80397] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000100bf21bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80397] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000100bf1884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80397] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000100bd71c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80397] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000100bd3b88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80397] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000100bde3a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80397] [ 8] 0 libcorenrnmech.dylib 0x000000012baf77fc _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80397] [ 9] 0 libcorenrnmech.dylib 0x000000012baf77e8 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80397] [10] 0 libcorenrnmech.dylib 0x000000012baf77d4 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80397] [11] 0 libcorenrnmech.dylib 0x000000012baf8fa4 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80397] [12] 0 libcorenrnmech.dylib 0x000000012baf8f58 _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80397] [13] 0 libcorenrnmech.dylib 0x000000012baf881c _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80397] [14] 0 libcorenrnmech.dylib 0x000000012bc9a3a8 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80397] [15] 0 libcorenrnmech.dylib 0x000000012bc92418 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80397] [16] 0 libcorenrnmech.dylib 0x000000012bc8f6e8 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80397] [17] 0 libcorenrnmech.dylib 0x000000012bc05038 _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80397] [18] 0 libcorenrnmech.dylib 0x000000012bc07078 run_solve_core + 736 | |
| [bbpmacglr01:80397] [19] 0 libcorenrnmech.dylib 0x000000012bad4fbc corenrn_embedded_run + 780 | |
| [bbpmacglr01:80397] [20] 0 libnrniv.dylib 0x00000001095b2b14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:80397] [21] 0 libnrniv.dylib 0x00000001095b36f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:80397] [22] 0 libnrniv.dylib 0x000000010993bc20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:80397] [23] 0 libnrniv.dylib 0x0000000109803cb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:80397] [24] 0 libnrniv.dylib 0x0000000109803c78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:80397] [25] 0 libnrniv.dylib 0x00000001097faf20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:80397] [26] 0 libnrniv.dylib 0x00000001097fa388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:80397] [27] 0 libnrniv.dylib 0x00000001097fc53c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:80397] [28] 0 libnrniv.dylib 0x0000000109009324 _ZL9componentP11PyHocObject + 672 | |
| [bbpmacglr01:80397] [29] 0 libnrniv.dylib 0x0000000109008a44 _ZL5fcallPvS_ + 360 | |
| [bbpmacglr01:80397] *** End of error message *** | |
| #0 0x105666330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x1306f77f8 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x277f8) | |
| #2 0x1306f77e4 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277e4) | |
| #3 0x1306f77d0 in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x277d0) | |
| #4 0x1306f8fa0 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28fa0) | |
| #5 0x1306f8f54 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x28f54) | |
| #6 0x1306f8818 in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x28818) | |
| #7 0x13089a3a4 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1ca3a4) | |
| #8 0x130892414 in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1c2414) | |
| #9 0x13088f6e4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1bf6e4) | |
| #10 0x130805034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x130807074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x1306d4fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x10e1b2b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x10e1b36f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x10e53bc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x10e403cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x10e403c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x10e3faf1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x10e3fa384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x10e3fc538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x10dc09320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x10dc08a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x10e224c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x10dc06864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x10650e63c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x106608cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x106606440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x1065fa98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x106608c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #30 0x106606468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #31 0x1065fa98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #32 0x106608c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #33 0x106606468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #34 0x1065fa98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #35 0x1065fa800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #36 0x106656898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #37 0x1066567fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| #38 0x106656490 in pyrun_file+0x90 (Python:arm64+0x1ae490) | |
| #39 0x106655dc4 in _PyRun_SimpleFileObject+0x108 (Python:arm64+0x1addc4) | |
| #40 0x106655408 in _PyRun_AnyFileObject+0xe4 (Python:arm64+0x1ad408) | |
| #41 0x106678b20 in pymain_run_file_obj+0xd8 (Python:arm64+0x1d0b20) | |
| #42 0x10667826c in pymain_run_file+0x44 (Python:arm64+0x1d026c) | |
| #43 0x106677b74 in Py_RunMain+0x3dc (Python:arm64+0x1cfb74) | |
| #44 0x106678efc in Py_BytesMain+0x24 (Python:arm64+0x1d0efc) | |
| #45 0x105239088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x00012e52de30 is located 0 bytes inside of 8-byte region [0x00012e52de30,0x00012e52de38) | |
| freed by thread T0 here: | |
| #0 0x10566642c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x13088f6cc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1bf6cc) | |
| #2 0x130805034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #3 0x130807074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #4 0x1306d4fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #5 0x10e1b2b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #6 0x10e1b36f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #7 0x10e53bc1c in psolve(void*) ocbbs.cpp:647 | |
| #8 0x10e403cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #9 0x10e403c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #10 0x10e3faf1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #11 0x10e3fa384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #12 0x10e3fc538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #13 0x10dc09320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #14 0x10dc08a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #15 0x10e224c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #16 0x10dc06864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #17 0x10650e63c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #18 0x106608cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #19 0x106606440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #20 0x1065fa98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #21 0x106608c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #22 0x106606468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #23 0x1065fa98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #24 0x106608c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| #25 0x106606468 in _PyEval_EvalFrameDefault+0xa884 (Python:arm64+0x15e468) | |
| #26 0x1065fa98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #27 0x1065fa800 in PyEval_EvalCode+0x64 (Python:arm64+0x152800) | |
| #28 0x106656898 in run_eval_code_obj+0x50 (Python:arm64+0x1ae898) | |
| #29 0x1066567fc in run_mod+0x6c (Python:arm64+0x1ae7fc) | |
| previously allocated by thread T0 here: | |
| #0 0x105665ef0 in wrap__Znwm+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4def0) | |
| #1 0x130713fdc in void* std::__1::__libcpp_operator_new<unsigned long>(unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43fdc) | |
| #2 0x130713f60 in std::__1::__libcpp_allocate(unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x43f60) | |
| #3 0x130724f10 in std::__1::allocator<int>::allocate(unsigned long)+0x14 (libcorenrnmech.dylib:arm64+0x54f10) | |
| #4 0x130724e70 in std::__1::allocator_traits<std::__1::allocator<int> >::allocate(std::__1::allocator<int>&, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x54e70) | |
| #5 0x130724db0 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x40 (libcorenrnmech.dylib:arm64+0x54db0) | |
| #6 0x130724c28 in std::__1::__split_buffer<int, std::__1::allocator<int>&>::__split_buffer(unsigned long, unsigned long, std::__1::allocator<int>&)+0x8 (libcorenrnmech.dylib:arm64+0x54c28) | |
| #7 0x13088ca54 in std::__1::vector<int, std::__1::allocator<int> >::reserve(unsigned long)+0x108 (libcorenrnmech.dylib:arm64+0x1bca54) | |
| #8 0x13088c648 in coreneuron::nrn_read_filesdat(std::__1::vector<int, std::__1::allocator<int> >&, char const*)+0x590 (libcorenrnmech.dylib:arm64+0x1bc648) | |
| #9 0x13088f01c in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x120 (libcorenrnmech.dylib:arm64+0x1bf01c) | |
| #10 0x130805034 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x135034) | |
| #11 0x130807074 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x137074) | |
| #12 0x1306d4fb8 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x10e1b2b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x10e1b36f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x10e53bc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x10e403cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x10e403c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x10e3faf1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x10e3fa384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x10e3fc538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x10dc09320 in component(PyHocObject*) nrnpy_hoc.cpp:556 | |
| #22 0x10dc08a40 in fcall(void*, void*) nrnpy_hoc.cpp:753 | |
| #23 0x10e224c84 in OcJump::fpycall(void* (*)(void*, void*), void*, void*) ocjump.cpp:161 | |
| #24 0x10dc06864 in hocobj_call(PyHocObject*, _object*, _object*) nrnpy_hoc.cpp:864 | |
| #25 0x10650e63c in _PyObject_MakeTpCall+0x84 (Python:arm64+0x6663c) | |
| #26 0x106608cb8 in call_function+0x10c (Python:arm64+0x160cb8) | |
| #27 0x106606440 in _PyEval_EvalFrameDefault+0xa85c (Python:arm64+0x15e440) | |
| #28 0x1065fa98c in _PyEval_Vector+0x174 (Python:arm64+0x15298c) | |
| #29 0x106608c28 in call_function+0x7c (Python:arm64+0x160c28) | |
| SUMMARY: AddressSanitizer: double-free (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) in wrap__ZdlPv+0x74 | |
| ==80398==ABORTING | |
| [bbpmacglr01:80398] *** Process received signal *** | |
| [bbpmacglr01:80398] Signal: Abort trap: 6 (6) | |
| [bbpmacglr01:80398] Signal code: (0) | |
| [bbpmacglr01:80398] [ 0] 0 libsystem_platform.dylib 0x00000001811b34a4 _sigtramp + 56 | |
| [bbpmacglr01:80398] [ 1] 0 libsystem_pthread.dylib 0x000000018119bee0 pthread_kill + 288 | |
| [bbpmacglr01:80398] [ 2] 0 libsystem_c.dylib 0x00000001810d6340 abort + 168 | |
| [bbpmacglr01:80398] [ 3] 0 libclang_rt.asan_osx_dynamic.dylib 0x000000010567a1bc _ZN11__sanitizer6AtexitEPFvvE + 0 | |
| [bbpmacglr01:80398] [ 4] 0 libclang_rt.asan_osx_dynamic.dylib 0x0000000105679884 _ZN11__sanitizer22SetCheckUnwindCallbackEPFvvE + 0 | |
| [bbpmacglr01:80398] [ 5] 0 libclang_rt.asan_osx_dynamic.dylib 0x000000010565f1c0 _ZN6__asan16ErrorDescription5PrintEv + 0 | |
| [bbpmacglr01:80398] [ 6] 0 libclang_rt.asan_osx_dynamic.dylib 0x000000010565bb88 _ZN6__asan16ReportDoubleFreeEmPN11__sanitizer18BufferedStackTraceE + 428 | |
| [bbpmacglr01:80398] [ 7] 0 libclang_rt.asan_osx_dynamic.dylib 0x00000001056663a4 wrap__ZdlPv + 232 | |
| [bbpmacglr01:80398] [ 8] 0 libcorenrnmech.dylib 0x00000001306f77fc _ZNSt3__1L24__libcpp_operator_deleteIJPvEEEvDpT_ + 12 | |
| [bbpmacglr01:80398] [ 9] 0 libcorenrnmech.dylib 0x00000001306f77e8 _ZNSt3__1L27__do_deallocate_handle_sizeIJEEEvPvmDpT_ + 12 | |
| [bbpmacglr01:80398] [10] 0 libcorenrnmech.dylib 0x00000001306f77d4 _ZNSt3__1L19__libcpp_deallocateEPvmm + 12 | |
| [bbpmacglr01:80398] [11] 0 libcorenrnmech.dylib 0x00000001306f8fa4 _ZNSt3__19allocatorIiE10deallocateEPim + 12 | |
| [bbpmacglr01:80398] [12] 0 libcorenrnmech.dylib 0x00000001306f8f58 _ZNSt3__116allocator_traitsINS_9allocatorIiEEE10deallocateERS2_Pim + 12 | |
| [bbpmacglr01:80398] [13] 0 libcorenrnmech.dylib 0x00000001306f881c _ZNSt3__113__vector_baseIiNS_9allocatorIiEEED2Ev + 92 | |
| [bbpmacglr01:80398] [14] 0 libcorenrnmech.dylib 0x000000013089a3a8 _ZNSt3__16vectorIiNS_9allocatorIiEEED2Ev + 28 | |
| [bbpmacglr01:80398] [15] 0 libcorenrnmech.dylib 0x0000000130892418 _ZNSt3__16vectorIiNS_9allocatorIiEEED1Ev + 12 | |
| [bbpmacglr01:80398] [16] 0 libcorenrnmech.dylib 0x000000013088f6e8 _ZN10coreneuron9nrn_setupEPKcbRNS_11CheckPointsEbS1_S1_Pd + 2028 | |
| [bbpmacglr01:80398] [17] 0 libcorenrnmech.dylib 0x0000000130805038 _ZN10coreneuron22nrn_init_and_load_dataEiPPcRNS_11CheckPointsEbb + 1432 | |
| [bbpmacglr01:80398] [18] 0 libcorenrnmech.dylib 0x0000000130807078 run_solve_core + 736 | |
| [bbpmacglr01:80398] [19] 0 libcorenrnmech.dylib 0x00000001306d4fbc corenrn_embedded_run + 780 | |
| [bbpmacglr01:80398] [20] 0 libnrniv.dylib 0x000000010e1b2b14 _Z11nrncore_runPKc + 736 | |
| [bbpmacglr01:80398] [21] 0 libnrniv.dylib 0x000000010e1b36f4 _Z14nrncore_psolvedi + 544 | |
| [bbpmacglr01:80398] [22] 0 libnrniv.dylib 0x000000010e53bc20 _ZL6psolvePv + 116 | |
| [bbpmacglr01:80398] [23] 0 libnrniv.dylib 0x000000010e403cb8 _ZNSt3__1L8__invokeIRPFdPvEJRS1_EEEDTclscT_fp_spscT0_fp0_EEOS6_DpOS7_ + 56 | |
| [bbpmacglr01:80398] [24] 0 libnrniv.dylib 0x000000010e403c78 _ZNSt3__16invokeIRPFdPvEJRS1_EEENS_13invoke_resultIT_JDpT0_EE4typeEOS7_DpOS8_ + 12 | |
| [bbpmacglr01:80398] [25] 0 libnrniv.dylib 0x000000010e3faf20 _ZN6neuron2oc28invoke_method_that_may_throwIZ16hoc_call_ob_procP6ObjectP6SymboliE3$_1JRPFdPvERS7_EEEDcT_DpOT0_ + 276 | |
| [bbpmacglr01:80398] [26] 0 libnrniv.dylib 0x000000010e3fa388 _Z16hoc_call_ob_procP6ObjectP6Symboli + 1328 | |
| [bbpmacglr01:80398] [27] 0 libnrniv.dylib 0x000000010e3fc53c _Z20hoc_object_componentv + 1368 | |
| [bbpmacglr01:80398] [28] 0 libnrniv.dylib 0x000000010dc09324 _ZL9componentP11PyHocObject + 672 | |
| [bbpmacglr01:80398] [29] 0 libnrniv.dylib 0x000000010dc08a44 _ZL5fcallPvS_ + 360 | |
| [bbpmacglr01:80398] *** End of error message *** | |
| -------------------------------------------------------------------------- | |
| prterun noticed that process rank 0 with PID 80397 on node bbpmacglr01 exited on | |
| signal 6 (Abort trap: 6). | |
| -------------------------------------------------------------------------- | |
| Start 244: external_ringtest::coreneuron_cpu_mpi_offline | |
| 61/308 Test #276: testcorenrn_kin::coreneuron_cpu_online ...................................***Failed 0.95 sec | |
| numprocs=1 | |
| NEURON -- VERSION + HEAD (cda3bc9+) 2024-10-29 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2022 | |
| See http://neuron.yale.edu/neuron/credits | |
| Additional mechanisms from files | |
| "./Gfluct3.mod" "./hhderiv.mod" "./hhkin.mod" "./hhwatch.mod" "./nacum.mod" "./vecevent.mod" | |
| arg_tstop 100 | |
| arg_coreneuron 1 | |
| arg_coreneuron_filemode 0 | |
| arg_dump_coreneuron_model 0 | |
| arg_coreneuron_gpu 0 | |
| arg_pattern | |
| arg_psolve_test_mode 0 | |
| 1 | |
| 1 | |
| 0 | |
| 1 | |
| 10 | |
| nrncore_arg: | --tstop 100 --cell-permute 0 --verbose 2 --voltage 1000.| | |
| num_mpi=1 | |
| Duke, Yale, and the BlueBrain Project -- Copyright 1984-2020 | |
| Version : 9.0.0 cda3bc9 (2024-10-29 12:28:53 +0100) | |
| Additional mechanisms from files | |
| Gfluct3.mod exp2syn.mod expsyn.mod hh.mod hhderiv.mod hhkin.mod hhwatch.mod nacum.mod netstim.mod passive.mod pattern.mod stim.mod svclmp.mod vecevent.mod | |
| Memory (MBs) : After mk_mech : Max 213.9062, Min 213.9062, Avg 213.9062 | |
| Memory (MBs) : After MPI_Init : Max 213.9219, Min 213.9219, Avg 213.9219 | |
| Memory (MBs) : Before nrn_setup : Max 213.9844, Min 213.9844, Avg 213.9844 | |
| Setup Done : 0.00 seconds | |
| Model size : 5.79 kB | |
| ================================================================= | |
| ==80448==ERROR: AddressSanitizer: attempting double-free on 0x000107b71010 in thread T0: | |
| #0 0x10261e330 in wrap__ZdlPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e330) | |
| #1 0x101b296c4 in void std::__1::__libcpp_operator_delete<void*>(void*)+0x8 (libcorenrnmech.dylib:arm64+0x416c4) | |
| #2 0x101b296b0 in void std::__1::__do_deallocate_handle_size<>(void*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x416b0) | |
| #3 0x101b2969c in std::__1::__libcpp_deallocate(void*, unsigned long, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x4169c) | |
| #4 0x101b2ab44 in std::__1::allocator<int>::deallocate(int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42b44) | |
| #5 0x101b2aaf8 in std::__1::allocator_traits<std::__1::allocator<int> >::deallocate(std::__1::allocator<int>&, int*, unsigned long)+0x8 (libcorenrnmech.dylib:arm64+0x42af8) | |
| #6 0x101b2a3bc in std::__1::__vector_base<int, std::__1::allocator<int> >::~__vector_base()+0x58 (libcorenrnmech.dylib:arm64+0x423bc) | |
| #7 0x101ccbc9c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x18 (libcorenrnmech.dylib:arm64+0x1e3c9c) | |
| #8 0x101cc3d0c in std::__1::vector<int, std::__1::allocator<int> >::~vector()+0x8 (libcorenrnmech.dylib:arm64+0x1dbd0c) | |
| #9 0x101cc0fdc in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7e8 (libcorenrnmech.dylib:arm64+0x1d8fdc) | |
| #10 0x101c36a58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #11 0x101c38a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #12 0x101aec064 in corenrn_embedded_run enginemech.cpp:161 | |
| #13 0x103db6b10 in nrncore_run(char const*) nrncore_write.cpp:355 | |
| #14 0x103db76f0 in nrncore_psolve(double, int) nrncore_write.cpp:424 | |
| #15 0x10413fc1c in psolve(void*) ocbbs.cpp:647 | |
| #16 0x104007cb4 in decltype(static_cast<double (*&>(fp)(static_cast<void*&>(fp0))) std::__1::__invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) type_traits:3918 | |
| #17 0x104007c74 in std::__1::invoke_result<double (*&)(void*), void*&>::type std::__1::invoke<double (*&)(void*), void*&>(double (*&)(void*), void*&) invoke.h:93 | |
| #18 0x103ffef1c in decltype(auto) neuron::oc::invoke_method_that_may_throw<hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&>(hoc_call_ob_proc(Object*, Symbol*, int)::$_1, double (*&)(void*), void*&) oc_ansi.h:78 | |
| #19 0x103ffe384 in hoc_call_ob_proc(Object*, Symbol*, int) hoc_oop.cpp:694 | |
| #20 0x104000538 in hoc_object_component() hoc_oop.cpp:1164 | |
| #21 0x103facc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #22 0x103fb1a28 in hoc_ifcode() code.cpp | |
| #23 0x103facc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #24 0x103fb2dd8 in hoc_call() code.cpp:1449 | |
| #25 0x103facc98 in hoc_execute(Inst*) code.cpp:2546 | |
| #26 0x103ff5afc in hoc_run1()::$_1::operator()() const hoc.cpp:1220 | |
| #27 0x103ff2bec in hoc_run1() hoc.cpp:1235 | |
| #28 0x103ff1f10 in hoc_main1(int, char const**, char const**) hoc.cpp:910 | |
| #29 0x1038dd08c in ivocmain_session(int, char const**, char const**, int) ivocmain.cpp:745 | |
| #30 0x1038dc9e4 in ivocmain(int, char const**, char const**) ivocmain.cpp:350 | |
| #31 0x100adfdec in main nrnmain.cpp:71 | |
| #32 0x100cc5088 in start+0x204 (dyld:arm64e+0x5088) | |
| 0x000107b71010 is located 0 bytes inside of 8-byte region [0x000107b71010,0x000107b71018) | |
| freed by thread T0 here: | |
| #0 0x10261e42c in wrap__ZdaPv+0x74 (libclang_rt.asan_osx_dynamic.dylib:arm64e+0x4e42c) | |
| #1 0x101cc0fc4 in coreneuron::nrn_setup(char const*, bool, coreneuron::CheckPoints&, bool, char const*, char const*, double*)+0x7d0 (libcorenrnmech.dylib:arm64+0x1d8fc4) | |
| #2 0x101c36a58 in coreneuron::nrn_init_and_load_data(int, char**, coreneuron::CheckPoints&, bool, bool)+0x594 (libcorenrnmech.dylib:arm64+0x14ea58) | |
| #3 0x101c38a98 in run_solve_core+0x2dc (libcorenrnmech.dylib:arm64+0x150a98) | |
| #4 0x101aec064 in corenrn_embedded_run engin |
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(Sorry about that, but we can’t show files that are this big right now.)
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(Sorry about that, but we can’t show files that are this big right now.)
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(Sorry about that, but we can’t show files that are this big right now.)
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