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Started by user carstensen Checking out git https://github.com/larson-group/cam.git into /home/jenkins/workspace/branch_cam_test@script/800691b231d95c534d49060ef200db30805e761447d5de1a9dcea602b1366aec to read jenkins_tests/cam_scam_gfortran_debug_test/Jenkinsfile The recommended git tool is: git > git rev-parse --resolve-git-dir /home/jenkins/workspace/branch_cam_test@script/800691b231d95c534d49060ef200db30805e761447d5de1a9dcea602b1366aec/.git # timeout=10 Fetching changes from the remote Git repository > git config remote.origin.url https://github.com/larson-group/cam.git # timeout=10 Cleaning workspace > git rev-parse --verify HEAD # timeout=10 Resetting working tree > git reset --hard # timeout=10 > git clean -ffdx # timeout=10 Fetching upstream changes from https://github.com/larson-group/cam.git > git --version # timeout=10 > git --version # 'git version 2.34.1' > git fetch --tags --force --progress -- https://github.com/larson-group/cam.git +refs/heads/*:refs/remotes/origin/* # timeout=10 > git rev-parse refs/remotes/origin/add_flags_test^{commit} # timeout=10 Checking out Revision 845e7e9f61f686fb4a54d4e471bc46a41c4c234a (refs/remotes/origin/add_flags_test) > git config core.sparsecheckout # timeout=10 > git checkout -f 845e7e9f61f686fb4a54d4e471bc46a41c4c234a # timeout=10 Commit message: "remove from namelist" > git rev-list --no-walk cab19070548ca4cd5529efe78b8ced792ab8b991 # timeout=10 [Pipeline] Start of Pipeline [Pipeline] node Running on Jenkins in /home/jenkins/workspace/branch_cam_test [Pipeline] { [Pipeline] stage [Pipeline] { (Declarative: Checkout SCM) [Pipeline] checkout The recommended git tool is: git > git rev-parse --resolve-git-dir /home/jenkins/workspace/branch_cam_test/.git # timeout=10 Fetching changes from the remote Git repository > git config remote.origin.url https://github.com/larson-group/cam.git # timeout=10 Cleaning workspace > git rev-parse --verify HEAD # timeout=10 Resetting working tree > git reset --hard # timeout=10 > git clean -ffdx # timeout=10 Fetching upstream changes from https://github.com/larson-group/cam.git > git --version # timeout=10 > git --version # 'git version 2.34.1' > git fetch --tags --force --progress -- https://github.com/larson-group/cam.git +refs/heads/*:refs/remotes/origin/* # timeout=10 > git rev-parse refs/remotes/origin/add_flags_test^{commit} # timeout=10 Checking out Revision 845e7e9f61f686fb4a54d4e471bc46a41c4c234a (refs/remotes/origin/add_flags_test) > git config core.sparsecheckout # timeout=10 > git checkout -f 845e7e9f61f686fb4a54d4e471bc46a41c4c234a # timeout=10 Commit message: "remove from namelist" [Pipeline] } [Pipeline] // stage [Pipeline] withEnv [Pipeline] { [Pipeline] stage [Pipeline] { (Checkout Externals and Copy Custom Files) [Pipeline] sh + python run_scripts/set_up_repo.py . Checking out externals... Copying ccs_config files [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] sh + rm -rf /home/jenkins/workspace/branch_cam_test/cime/scripts/test_scam_ATEX /home/jenkins/workspace/branch_cam_test/cime/scripts/test_scam_ARM97 [Pipeline] } [Pipeline] // script [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Run atex) [Pipeline] sh + source /etc/profile.d/larson-group.sh ++ export GIT_EDITOR=vi ++ GIT_EDITOR=vi ++ export SVN_EDITOR=vi ++ SVN_EDITOR=vi ++ export OMP_STACKSIZE=1048579 ++ OMP_STACKSIZE=1048579 ++ export LMOD_ROOT=/opt/lmod/ ++ LMOD_ROOT=/opt/lmod/ ++ source /opt/lmod//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-cascadelake/gcc-12.2.0/lmod-8.7.37-bi3kyxcdrfgw3y7vv2k7c5rjxg75qzju/lmod/lmod/init/bash) Shell debugging restarted +++ unset __lmod_vx +++ find /usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core -print -quit ++ 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 + run_scripts/run_scam.bash ATEX ----- Case Setup ----- Compset longname is 2000_CAM60%SCAMATEX_CLM50%SP_CICE%PRES_DOCN%DOM_SROF_SGLC_SWAV Compset specification file is /home/jenkins/workspace/branch_cam_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/branch_cam_test/cime_config/config_pes.xml Compset specific settings: name is RUN_STARTDATE and value is 1969-02-15 Compset specific settings: name is STOP_N and value is 47 Compset specific settings: name is STOP_OPTION and value is nhours Compset specific settings: name is START_TOD and value is 0 Compset specific settings: name is PTS_MODE and value is TRUE Compset specific settings: name is PTS_LAT and value is 15.0 Compset specific settings: name is PTS_LON and value is 345.0 Machine is larson-group vid is comment vid is ntasks vid is nthrds vid is rootpe 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%SCAMATEX_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%SCAMATEX_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_2f3c896-739-g845e7e9f Batch_system_type is none Creating Case directory /home/jenkins/workspace/branch_cam_test/cime/scripts/test_scam_ATEX This component includes user_mods /home/jenkins/workspace/branch_cam_test/cime_config/usermods_dirs/scam_mandatory Adding user mods directory /home/jenkins/workspace/branch_cam_test/cime_config/usermods_dirs/scam_mandatory RUN: /home/jenkins/workspace/branch_cam_test/cime/scripts/test_scam_ATEX/shell_commands FROM: /home/jenkins/workspace/branch_cam_test/cime/scripts/test_scam_ATEX Creating batch scripts Writing case.run script from input template /home/jenkins/workspace/branch_cam_test/ccs_config/machines/template.case.run Creating file .case.run Writing case.st_archive script from input template /home/jenkins/workspace/branch_cam_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/branch_cam_test/cime/scripts/test_scam_ATEX sharedlib_only is False model_only is False Generating component namelists as part of build 2025-02-18 21:37:47 atm Create namelist for component cam Calling /home/jenkins/workspace/branch_cam_test/cime_config/buildnml ...calling cam buildcpp to set build time options CAM namelist copy: file1 /home/jenkins/workspace/branch_cam_test/cime/scripts/test_scam_ATEX/Buildconf/camconf/atm_in file2 /home/jenkins/cam_output/scratch/test_scam_ATEX/run/atm_in 2025-02-18 21:37:48 lnd Create namelist for component clm Calling /home/jenkins/workspace/branch_cam_test/components/clm//cime_config/buildnml WARNING: CLM is starting up from a cold state 2025-02-18 21:37:48 ice Create namelist for component cice Calling /home/jenkins/workspace/branch_cam_test/components/cice//cime_config/buildnml 2025-02-18 21:37:48 ocn Create namelist for component docn Calling /home/jenkins/workspace/branch_cam_test/components/cdeps/docn/cime_config/buildnml docn_mode is prescribed 2025-02-18 21:37:48 rof Create namelist for component srof Calling /home/jenkins/workspace/branch_cam_test/cime/CIME/non_py/src/components/stub_comps_nuopc/srof/cime_config/buildnml 2025-02-18 21:37:48 glc Create namelist for component sglc Calling /home/jenkins/workspace/branch_cam_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sglc/cime_config/buildnml 2025-02-18 21:37:48 wav Create namelist for component swav Calling /home/jenkins/workspace/branch_cam_test/cime/CIME/non_py/src/components/stub_comps_nuopc/swav/cime_config/buildnml 2025-02-18 21:37:48 esp Create namelist for component sesp Calling /home/jenkins/workspace/branch_cam_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sesp/cime_config/buildnml 2025-02-18 21:37:48 cpl Create namelist for component drv Calling /home/jenkins/workspace/branch_cam_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.250218-213747 Calling /home/jenkins/workspace/branch_cam_test/cime/CIME/build_scripts/buildlib.gptl Component gptl build complete with 21 warnings Building pio with output to file /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/pio.bldlog.250218-213747 Calling /home/jenkins/workspace/branch_cam_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.250218-213747 Calling /home/jenkins/workspace/branch_cam_test/share/buildlib.csm_share Component csm_share build complete with 254 warnings Building CDEPS with output to file /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/CDEPS.bldlog.250218-213747 Calling /home/jenkins/workspace/branch_cam_test/components/cdeps/cime_config/buildlib Component CDEPS build complete with 200 warnings - Building clm library Building lnd with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/lnd.bldlog.250218-213747 Component lnd build complete with 2623 warnings clm built in 76.448792 seconds - Building atm Library Building atm with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/atm.bldlog.250218-213747 - Building ice Library Building ice with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/ice.bldlog.250218-213747 - Building ocn Library Building ocn with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/ocn.bldlog.250218-213747 docn built in 0.855203 seconds Error: Symbol at (1) is not a DUMMY variable Component atm build complete with 3125 warnings cam built in 49.557542 seconds Component ice build complete with 467 warnings cice built in 168.532439 seconds ERROR: BUILD FAIL: cam.buildlib failed, cat /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/atm.bldlog.250218-213747 Error building CAM [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Run ARM97 with SILHS) Stage "Run ARM97 with SILHS" skipped due to earlier failure(s) [Pipeline] getContext [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Declarative: Post Actions) [Pipeline] script [Pipeline] { [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] script [Pipeline] { [Pipeline] } [Pipeline] // script [Pipeline] } [Pipeline] // stage [Pipeline] } [Pipeline] // withEnv [Pipeline] } [Pipeline] // node [Pipeline] End of Pipeline ERROR: script returned exit code 1 Finished: FAILURE