Started by user unknown or anonymous Obtained jenkins_tests/cam_scam_ifort_ncar_debug_test/Jenkinsfile from git https://github.com/larson-group/cam.git [Pipeline] Start of Pipeline [Pipeline] node Running on mitch in /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test [Pipeline] { [Pipeline] stage [Pipeline] { (Declarative: Checkout SCM) [Pipeline] checkout The recommended git tool is: git Cloning the remote Git repository Cloning repository https://github.com/larson-group/cam.git > git init /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test # timeout=10 Fetching upstream changes from https://github.com/larson-group/cam.git > git --version # timeout=10 > git --version # 'git version 2.34.1' using GIT_ASKPASS to set credentials A token based key used by Jenkins to preform Github actions, created 6/21/2021 > git fetch --tags --force --progress -- https://github.com/larson-group/cam.git +refs/heads/*:refs/remotes/origin/* # timeout=10 Avoid second fetch Checking out Revision d90b25c0dd5e712488e84d9668f1e2049ecbd562 (refs/remotes/origin/clubb_silhs_devel) Commit message: "Making changes to jenkins tests to get running with new system and new Makefile changes. Also setting run_scam debug back to true by default." > git config remote.origin.url https://github.com/larson-group/cam.git # timeout=10 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10 > git rev-parse refs/remotes/origin/clubb_silhs_devel^{commit} # timeout=10 > git config core.sparsecheckout # timeout=10 > git checkout -f d90b25c0dd5e712488e84d9668f1e2049ecbd562 # timeout=10 > git rev-list --no-walk 7bfe29a485e7b753a079ade0b887e212f7f48989 # timeout=10 [Pipeline] } [Pipeline] // stage [Pipeline] withEnv [Pipeline] { [Pipeline] stage [Pipeline] { (Checkout Externals and Copy Custom Files) [Pipeline] sh + python run_scripts/set_up_cam_coarse_res.py . Checking out externals... Copying ccs_config files [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Sed Commands) [Pipeline] sh + sed -i 's/COMPILER=.*/COMPILER="intel"/g' run_scripts/run_scam.bash [Pipeline] sh + sed -i 's/DEBUG="TRUE"/DEBUG="FALSE"/g' run_scripts/run_scam.bash [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Remove Old Output) [Pipeline] sh + rm -rf /home/jenkins/cam_output/scratch/test_scam_atex /home/jenkins/cam_output/scratch/test_scam_arm97 [Pipeline] script [Pipeline] { [Pipeline] } [Pipeline] // script [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Run atex) [Pipeline] sh + source /etc/profile.d/larson-group.sh ++ export PATH MANPATH LD_LIBRARY_PATH ++ export SVNROOT=http://carson.math.uwm.edu/repos ++ SVNROOT=http://carson.math.uwm.edu/repos ++ export GIT_EDITOR=vi ++ GIT_EDITOR=vi ++ export SVN_EDITOR=vi ++ SVN_EDITOR=vi ++ export OMP_STACKSIZE=1048579 ++ OMP_STACKSIZE=1048579 ++ export LMOD_ROOT=/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-fq24mybyn2li6got2bxzk62ejh5d3p4z ++ LMOD_ROOT=/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-fq24mybyn2li6got2bxzk62ejh5d3p4z ++ source /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-fq24mybyn2li6got2bxzk62ejh5d3p4z/lmod/lmod/init/bash +++ '[' -z '' ']' +++ case "$-" in +++ __lmod_vx=x +++ '[' -n x ']' +++ set +x Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for this output (/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-fq24mybyn2li6got2bxzk62ejh5d3p4z/lmod/lmod/init/bash) Shell debugging restarted +++ unset __lmod_vx ++ export MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core ++ MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core ++ LD_LIBRARY_PATH=:/usr/local/NETCDF-Fortran-4.5.3-gfortran/lib ++ LD_LIBRARY_PATH=:/usr/local/NETCDF-Fortran-4.5.3-gfortran/lib:/usr/local/NETCDF-C-4.8.0-gfortran/lib ++ export GFORTRAN_NETCDF_FORTRAN=/usr/local/NETCDF-Fortran-4.5.3-gfortran ++ GFORTRAN_NETCDF_FORTRAN=/usr/local/NETCDF-Fortran-4.5.3-gfortran ++ export GFORTRAN_NETCDF_C=/usr/local/NETCDF-C-4.8.0-gfortran ++ GFORTRAN_NETCDF_C=/usr/local/NETCDF-C-4.8.0-gfortran ++ export GFORTRAN_MPICH=/usr/local/mpi/MPICH-3.3.1-gfortran ++ GFORTRAN_MPICH=/usr/local/mpi/MPICH-3.3.1-gfortran ++ LD_LIBRARY_PATH=:/usr/local/NETCDF-Fortran-4.5.3-gfortran/lib:/usr/local/NETCDF-C-4.8.0-gfortran/lib:/usr/local/NETCDF-Fortran-4.5.3-ifort/lib ++ LD_LIBRARY_PATH=:/usr/local/NETCDF-Fortran-4.5.3-gfortran/lib:/usr/local/NETCDF-C-4.8.0-gfortran/lib:/usr/local/NETCDF-Fortran-4.5.3-ifort/lib:/usr/local/NETCDF-C-4.8.0-ifort/lib ++ export IFORT_NETCDF_FORTRAN=/usr/local/NETCDF-Fortran-4.5.3-ifort ++ IFORT_NETCDF_FORTRAN=/usr/local/NETCDF-Fortran-4.5.3-ifort ++ export IFORT_NETCDF_C=/usr/local/NETCDF-C-4.8.0-ifort ++ IFORT_NETCDF_C=/usr/local/NETCDF-C-4.8.0-ifort ++ export IFORT_MPICH=/usr/local/mpi/MPICH-3.3.1-intel ++ IFORT_MPICH=/usr/local/mpi/MPICH-3.3.1-intel ++ LD_LIBRARY_PATH=:/usr/local/NETCDF-Fortran-4.5.3-gfortran/lib:/usr/local/NETCDF-C-4.8.0-gfortran/lib:/usr/local/NETCDF-Fortran-4.5.3-ifort/lib:/usr/local/NETCDF-C-4.8.0-ifort/lib:/usr/local/NETCDF-Fortran-4.5.3-pgi/lib ++ LD_LIBRARY_PATH=:/usr/local/NETCDF-Fortran-4.5.3-gfortran/lib:/usr/local/NETCDF-C-4.8.0-gfortran/lib:/usr/local/NETCDF-Fortran-4.5.3-ifort/lib:/usr/local/NETCDF-C-4.8.0-ifort/lib:/usr/local/NETCDF-Fortran-4.5.3-pgi/lib:/usr/local/NETCDF-C-4.8.0-pgi/lib +++ uname -s +++ uname -m ++ export NVARCH=Linux_x86_64 ++ NVARCH=Linux_x86_64 ++ export NVCOMPILERS=/opt/nvidia/hpc_sdk ++ NVCOMPILERS=/opt/nvidia/hpc_sdk ++ export MANPATH=:/opt/nvidia/hpc_sdk/Linux_x86_64/2024/compilers/man ++ MANPATH=:/opt/nvidia/hpc_sdk/Linux_x86_64/2024/compilers/man ++ export CUDADIR=/opt/nvidia/hpc_sdk/Linux_x86_64/2024/cuda/ ++ CUDADIR=/opt/nvidia/hpc_sdk/Linux_x86_64/2024/cuda/ ++ export PGIFORTRAN_MPICH=/opt/nvidia/hpc_sdk/Linux_x86_64/2024/comm_libs/openmpi/openmpi-3.1.5/ ++ PGIFORTRAN_MPICH=/opt/nvidia/hpc_sdk/Linux_x86_64/2024/comm_libs/openmpi/openmpi-3.1.5/ ++ export PGI_NETCDF_FORTRAN=/usr/local/NETCDF-Fortran-4.5.3-pgi ++ PGI_NETCDF_FORTRAN=/usr/local/NETCDF-Fortran-4.5.3-pgi ++ export PGI_NETCDF_C=/usr/local/NETCDF-C-4.8.0-pgi ++ PGI_NETCDF_C=/usr/local/NETCDF-C-4.8.0-pgi ++ export PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/opt/nvidia/hpc_sdk/Linux_x86_64/2024/compilers/bin ++ PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/opt/nvidia/hpc_sdk/Linux_x86_64/2024/compilers/bin ++ export PATH=/usr/lib/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/opt/nvidia/hpc_sdk/Linux_x86_64/2024/compilers/bin ++ PATH=/usr/lib/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/opt/nvidia/hpc_sdk/Linux_x86_64/2024/compilers/bin ++ export GNU_NETCDF_FORTRAN=/usr/local/NETCDF-Fortran-4.5.3-gfortran ++ GNU_NETCDF_FORTRAN=/usr/local/NETCDF-Fortran-4.5.3-gfortran ++ export GNU_NETCDF_C=/usr/local/NETCDF-C-4.8.0-gfortran ++ GNU_NETCDF_C=/usr/local/NETCDF-C-4.8.0-gfortran ++ export GNU_MPICH=/usr/local/mpi/MPICH-3.3.1-gfortran ++ GNU_MPICH=/usr/local/mpi/MPICH-3.3.1-gfortran ++ export INTEL_NETCDF_FORTRAN=/usr/local/NETCDF-Fortran-4.5.3-ifort ++ INTEL_NETCDF_FORTRAN=/usr/local/NETCDF-Fortran-4.5.3-ifort ++ export INTEL_NETCDF_C=/usr/local/NETCDF-C-4.8.0-ifort ++ INTEL_NETCDF_C=/usr/local/NETCDF-C-4.8.0-ifort ++ export INTEL_MPICH=/usr/local/mpi/MPICH-3.3.1-intel ++ INTEL_MPICH=/usr/local/mpi/MPICH-3.3.1-intel ++ export NVHPC_MPICH=/opt/nvidia/hpc_sdk/Linux_x86_64/2024/comm_libs/openmpi/openmpi-3.1.5/ ++ NVHPC_MPICH=/opt/nvidia/hpc_sdk/Linux_x86_64/2024/comm_libs/openmpi/openmpi-3.1.5/ ++ export NVHPC_NETCDF_FORTRAN=/usr/local/NETCDF-Fortran-4.5.3-pgi ++ NVHPC_NETCDF_FORTRAN=/usr/local/NETCDF-Fortran-4.5.3-pgi ++ export NVHPC_NETCDF_C=/usr/local/NETCDF-C-4.8.0-pgi ++ NVHPC_NETCDF_C=/usr/local/NETCDF-C-4.8.0-pgi + module load intel esmf + '[' -z '' ']' + case "$-" in + __lmod_sh_dbg=x + '[' -n x ']' + set +x Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for Lmod's output Shell debugging restarted + unset __lmod_sh_dbg + return 0 + run_scripts/run_scam.bash atex ----- Case Setup ----- Compset longname is 2000_CAM60%SCAM_CLM50%SP_CICE%PRES_DOCN%DOM_SROF_SGLC_SWAV Compset specification file is /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime_config/config_compsets.xml Automatically adding SESP to compset Compset forcing is 1972-2004 ATM component is CAM cam6 physics: LND component is clm5.0:Satellite phenology: ICE component is Sea ICE (cice) model version 6 :prescribed cice OCN component is DOCN prescribed ocean mode ROF component is Stub river component GLC component is Stub glacier (land ice) component WAV component is Stub wave component ESP component is Stub external system processing (ESP) component Pes specification file is /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime_config/config_pes.xml Compset specific settings: name is RUN_STARTDATE and value is 1997-06-18 Compset specific settings: name is START_TOD and value is 84585 Compset specific settings: name is PTS_MODE and value is TRUE Compset specific settings: name is PTS_LAT and value is 36.6 Compset specific settings: name is PTS_LON and value is 262.5 Machine is larson-group Pes setting: grid is a%T42_l%T42_oi%T42_r%null_g%null_w%null_z%null_m%gx1v7 Pes setting: compset is 2000_CAM60%SCAM_CLM50%SP_CICE%PRES_DOCN%DOM_SROF_SGLC_SWAV_SESP Pes setting: tasks is {'NTASKS_ATM': -1, 'NTASKS_LND': -1, 'NTASKS_ROF': -1, 'NTASKS_ICE': -1, 'NTASKS_OCN': -1, 'NTASKS_GLC': -1, 'NTASKS_WAV': -1, 'NTASKS_CPL': -1} Pes setting: threads is {'NTHRDS_ATM': 1, 'NTHRDS_LND': 1, 'NTHRDS_ROF': 1, 'NTHRDS_ICE': 1, 'NTHRDS_OCN': 1, 'NTHRDS_GLC': 1, 'NTHRDS_WAV': 1, 'NTHRDS_CPL': 1} Pes setting: rootpe is {'ROOTPE_ATM': 0, 'ROOTPE_LND': 0, 'ROOTPE_ROF': 0, 'ROOTPE_ICE': 0, 'ROOTPE_OCN': 0, 'ROOTPE_GLC': 0, 'ROOTPE_WAV': 0, 'ROOTPE_CPL': 0} Pes setting: pstrid is {} Pes other settings: {} Pes comments: none setting additional fields from config_pes: {} Compset is: 2000_CAM60%SCAM_CLM50%SP_CICE%PRES_DOCN%DOM_SROF_SGLC_SWAV_SESP Grid is: a%T42_l%T42_oi%T42_r%null_g%null_w%null_z%null_m%gx1v7 Components in compset are: ['cam', 'clm', 'cice', 'docn', 'srof', 'sglc', 'swav', 'sesp'] This is a CESM scientifically supported compset at this resolution. No project info available No charge_account info available, using value from PROJECT cesm model version found: cam_4ncar_20240605_2f3c896-12-gd90b25c0 Batch_system_type is none Creating Case directory /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/scripts/test_scam_atex This component includes user_mods /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime_config/usermods_dirs/scam_mandatory Adding user mods directory /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime_config/usermods_dirs/scam_mandatory RUN: /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/scripts/test_scam_atex/shell_commands FROM: /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/scripts/test_scam_atex Adding user mods directory /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime_config/usermods_dirs/scam_atex RUN: /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/scripts/test_scam_atex/shell_commands FROM: /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/scripts/test_scam_atex Creating batch scripts Writing case.run script from input template /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/ccs_config/machines/template.case.run Creating file .case.run Writing case.st_archive script from input template /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/ccs_config/machines/template.st_archive Creating file case.st_archive Creating user_nl_xxx files for components and cpl Running cam.case_setup.py If an old case build already exists, might want to run 'case.build --clean' before building You can now run './preview_run' to get more info on how your case will be run ----- Compile Configuration ----- ----- Run configuration ----- ----- Compile ----- Building case in directory /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/scripts/test_scam_atex sharedlib_only is False model_only is False Generating component namelists as part of build 2024-07-10 16:11:54 atm Create namelist for component cam Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime_config/buildnml ...calling cam buildcpp to set build time options CAM namelist copy: file1 /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/scripts/test_scam_atex/Buildconf/camconf/atm_in file2 /home/jenkins/cam_output/scratch/test_scam_atex/run/atm_in 2024-07-10 16:11:55 lnd Create namelist for component clm Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/components/clm//cime_config/buildnml WARNING: CLM is starting up from a cold state 2024-07-10 16:11:55 ice Create namelist for component cice Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/components/cice//cime_config/buildnml 2024-07-10 16:11:55 ocn Create namelist for component docn Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/components/cdeps/docn/cime_config/buildnml docn_mode is prescribed 2024-07-10 16:11:55 rof Create namelist for component srof Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/CIME/non_py/src/components/stub_comps_nuopc/srof/cime_config/buildnml 2024-07-10 16:11:55 glc Create namelist for component sglc Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sglc/cime_config/buildnml 2024-07-10 16:11:55 wav Create namelist for component swav Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/CIME/non_py/src/components/stub_comps_nuopc/swav/cime_config/buildnml 2024-07-10 16:11:55 esp Create namelist for component sesp Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sesp/cime_config/buildnml 2024-07-10 16:11:55 cpl Create namelist for component drv Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/components/cmeps/cime_config/buildnml Writing nuopc_runconfig for components ['CPL', 'ATM', 'LND', 'ICE', 'OCN'] Building gptl with output to file /home/jenkins/cam_output/scratch/test_scam_atex/bld/gptl.bldlog.240710-161154 Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/CIME/build_scripts/buildlib.gptl Building mct with output to file /home/jenkins/cam_output/scratch/test_scam_atex/bld/mct.bldlog.240710-161154 Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/CIME/build_scripts/buildlib.mct Component mct build complete with 110 warnings Building pio with output to file /home/jenkins/cam_output/scratch/test_scam_atex/bld/pio.bldlog.240710-161154 Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/cime/CIME/build_scripts/buildlib.pio Building csm_share with output to file /home/jenkins/cam_output/scratch/test_scam_atex/bld/csm_share.bldlog.240710-161154 Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/share/buildlib.csm_share Component csm_share build complete with 13 warnings Building CDEPS with output to file /home/jenkins/cam_output/scratch/test_scam_atex/bld/CDEPS.bldlog.240710-161154 Calling /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/components/cdeps/cime_config/buildlib - Building clm library Building lnd with output to /home/jenkins/cam_output/scratch/test_scam_atex/bld/lnd.bldlog.240710-161154 Component lnd build complete with 17 warnings clm built in 110.634023 seconds - Building atm Library Building atm with output to /home/jenkins/cam_output/scratch/test_scam_atex/bld/atm.bldlog.240710-161154 - Building ice Library Building ice with output to /home/jenkins/cam_output/scratch/test_scam_atex/bld/ice.bldlog.240710-161154 - Building ocn Library Building ocn with output to /home/jenkins/cam_output/scratch/test_scam_atex/bld/ocn.bldlog.240710-161154 docn built in 0.581507 seconds cice built in 198.607401 seconds Aborted by unknown Sending interrupt signal to process Component atm build complete with 38 warnings cam built in 447.766475 seconds Building cesm from /home/jenkins/workspace/cam_scam_ifort_ncar_debug_test/components/cmeps/cime_config/buildexe with output to /home/jenkins/cam_output/scratch/test_scam_atex/bld/cesm.bldlog.240710-161154 ifx: error #10106: Fatal error in /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/intel-oneapi-compilers-2023.2.0-od6qbkw4h7zydnyvjahatxrprimcyseq/compiler/2023.2.0/linux/bin-llvm/xfortcom, terminated by terminate signal ERROR: BUILD FAIL: buildexe failed, cat /home/jenkins/cam_output/scratch/test_scam_atex/bld/cesm.bldlog.240710-161154 Terminated Error building CAM script returned exit code 1 [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Run arm97 with SILHS) Stage "Run arm97 with SILHS" skipped due to earlier failure(s) [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Declarative: Post Actions) [Pipeline] script [Pipeline] { [Pipeline] cleanWs [WS-CLEANUP] Deleting project workspace... [WS-CLEANUP] Deferred wipeout is used... [WS-CLEANUP] done [Pipeline] sh + chmod -R 755 /home/jenkins/cam_output/ [Pipeline] sh + gzip -d '/home/jenkins/cam_output/scratch/test_scam_atex/bld/atm.bldlog.*.gz' gzip: /home/jenkins/cam_output/scratch/test_scam_atex/bld/atm.bldlog.*.gz: No such file or directory [Pipeline] echo Not all logs were made for atex. [Pipeline] sh + gzip -d '/home/jenkins/cam_output/scratch/test_scam_arm97/bld/atm.bldlog.*.gz' gzip: /home/jenkins/cam_output/scratch/test_scam_arm97/bld/atm.bldlog.*.gz: No such file or directory [Pipeline] echo Not all logs were made for arm97. [Pipeline] } [Pipeline] // script [Pipeline] } [Pipeline] // stage [Pipeline] } [Pipeline] // withEnv [Pipeline] } [Pipeline] // node [Pipeline] End of Pipeline org.jenkinsci.plugins.workflow.actions.ErrorAction$ErrorId: 2e9b364a-2cbb-4f73-adbd-67f2f29c7d59 Finished: ABORTED