Started by an SCM change Obtained jenkins_tests/cam_BFB_coarse_res_r8029_flags_gfortran_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_BFB_coarse_res_r8029_flags_gfortran_test [Pipeline] { [Pipeline] stage [Pipeline] { (Declarative: Checkout SCM) [Pipeline] checkout The recommended git tool is: git Wiping out workspace first. Cloning the remote Git repository Cloning repository https://github.com/larson-group/cam.git > git init /home/jenkins/workspace/cam_BFB_coarse_res_r8029_flags_gfortran_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' > 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 6a2ef4ee3c1a7bb3e904ed95812aeb933a93ed72 (refs/remotes/origin/clubb_silhs_devel) Commit message: "Autoupdated CLUBB_core Commit 6340e0a542105e3612b9709f3192cdf3b88a55ec Author: Trevor-Hancock5 Date: Mon Mar 2 19:40:18 2026 -0600 Add blank line to test python scripts Testing python scripts from crontab" > 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 6a2ef4ee3c1a7bb3e904ed95812aeb933a93ed72 # timeout=10 > git rev-list --no-walk d0c8eda8d83d973026de33ce9e818f35d3415595 # timeout=10 [Pipeline] } [Pipeline] // stage [Pipeline] withEnv [Pipeline] { [Pipeline] stage [Pipeline] { (Update sys_admin Repo) [Pipeline] sh + git -C /home/pub/jenkins_BFB_test_configs/sys_admin pull From https://github.com/larson-group/sys_admin a4af8f3..2294a90 master -> origin/master Updating a4af8f3..2294a90 Fast-forward gitUpdateScripts/camClubbUpdate.py | 23 ++ gitUpdateScripts/camClubbUpdatePython.py | 384 ------------------ gitUpdateScripts/clubb_sync_engine.py | 226 +++++++++++ gitUpdateScripts/e3smClubbUpdate.py | 24 ++ gitUpdateScripts/e3smClubbUpdatePython.py | 410 ------------------- ...eOperationPython.py => networkSafeOperation.py} | 35 +- .../{ => oldScripts}/camClubbUpdate.sh | 0 .../{ => oldScripts}/e3smClubbUpdate.sh | 0 .../{ => oldScripts}/gfdlClubbUpdateUNFINISHED.sh | 0 .../{ => oldScripts}/primativeGitFolderUpdater.sh | 0 .../{ => oldScripts}/rawCopyClubbUpdater.sh | 0 gitUpdateScripts/{ => oldScripts}/runUpdates.sh | 0 .../{ => oldScripts}/samClubbUpdate.sh | 0 .../{ => oldScripts}/testClubbFolderSync.sh | 0 .../{ => oldScripts}/testReleaseRepoSync.sh | 0 .../{ => oldScripts}/updateClubbMorrison.sh | 0 gitUpdateScripts/oldScripts/updateGitFork.sh | 17 +- .../{ => oldScripts}/updateQuadTuneClubbRelease.sh | 0 .../{ => oldScripts}/wrfClubbUpdate.sh | 0 ...daterPython.py => primativeGitFolderUpdater.py} | 115 +++--- gitUpdateScripts/runUpdates.py | 98 +++++ gitUpdateScripts/runUpdatesPython.py | 107 ----- gitUpdateScripts/samClubbUpdate.py | 28 ++ gitUpdateScripts/samClubbUpdatePython.py | 437 --------------------- gitUpdateScripts/sys_utils.py | 77 ++++ gitUpdateScripts/testClubbFolderSync.py | 48 +++ gitUpdateScripts/testClubbFolderSyncPython.py | 260 ------------ gitUpdateScripts/testReleaseRepoSync.py | 30 ++ gitUpdateScripts/testReleaseRepoSyncPython.py | 218 ---------- gitUpdateScripts/test_repo_diff_engine.py | 107 +++++ gitUpdateScripts/updateClubbMorrison.py | 27 ++ gitUpdateScripts/updateClubbMorrisonPython.py | 365 ----------------- .../{updateGitForkPython.py => updateGitFork.py} | 145 ++++--- gitUpdateScripts/updateGitFork.sh | 168 -------- ...easePython.py => updateQuadTuneClubbRelease.py} | 113 +++--- gitUpdateScripts/wrfClubbUpdate.py | 25 ++ gitUpdateScripts/wrfClubbUpdatePython.py | 423 -------------------- 37 files changed, 931 insertions(+), 2979 deletions(-) create mode 100644 gitUpdateScripts/camClubbUpdate.py delete mode 100644 gitUpdateScripts/camClubbUpdatePython.py create mode 100644 gitUpdateScripts/clubb_sync_engine.py create mode 100644 gitUpdateScripts/e3smClubbUpdate.py delete mode 100644 gitUpdateScripts/e3smClubbUpdatePython.py rename gitUpdateScripts/{networkSafeOperationPython.py => networkSafeOperation.py} (68%) rename gitUpdateScripts/{ => oldScripts}/camClubbUpdate.sh (100%) rename gitUpdateScripts/{ => oldScripts}/e3smClubbUpdate.sh (100%) rename gitUpdateScripts/{ => oldScripts}/gfdlClubbUpdateUNFINISHED.sh (100%) rename gitUpdateScripts/{ => oldScripts}/primativeGitFolderUpdater.sh (100%) rename gitUpdateScripts/{ => oldScripts}/rawCopyClubbUpdater.sh (100%) rename gitUpdateScripts/{ => oldScripts}/runUpdates.sh (100%) rename gitUpdateScripts/{ => oldScripts}/samClubbUpdate.sh (100%) rename gitUpdateScripts/{ => oldScripts}/testClubbFolderSync.sh (100%) rename gitUpdateScripts/{ => oldScripts}/testReleaseRepoSync.sh (100%) rename gitUpdateScripts/{ => oldScripts}/updateClubbMorrison.sh (100%) rename gitUpdateScripts/{ => oldScripts}/updateQuadTuneClubbRelease.sh (100%) rename gitUpdateScripts/{ => oldScripts}/wrfClubbUpdate.sh (100%) rename gitUpdateScripts/{primativeGitFolderUpdaterPython.py => primativeGitFolderUpdater.py} (67%) create mode 100755 gitUpdateScripts/runUpdates.py delete mode 100644 gitUpdateScripts/runUpdatesPython.py create mode 100644 gitUpdateScripts/samClubbUpdate.py delete mode 100644 gitUpdateScripts/samClubbUpdatePython.py create mode 100644 gitUpdateScripts/sys_utils.py create mode 100644 gitUpdateScripts/testClubbFolderSync.py delete mode 100644 gitUpdateScripts/testClubbFolderSyncPython.py create mode 100644 gitUpdateScripts/testReleaseRepoSync.py delete mode 100644 gitUpdateScripts/testReleaseRepoSyncPython.py create mode 100644 gitUpdateScripts/test_repo_diff_engine.py create mode 100644 gitUpdateScripts/updateClubbMorrison.py delete mode 100644 gitUpdateScripts/updateClubbMorrisonPython.py rename gitUpdateScripts/{updateGitForkPython.py => updateGitFork.py} (56%) delete mode 100755 gitUpdateScripts/updateGitFork.sh rename gitUpdateScripts/{updateQuadTuneClubbReleasePython.py => updateQuadTuneClubbRelease.py} (60%) create mode 100644 gitUpdateScripts/wrfClubbUpdate.py delete mode 100644 gitUpdateScripts/wrfClubbUpdatePython.py [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Run Python Test) [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-skylake_avx512/gcc-12.2.0/lmod-8.7.37-fq24mybyn2li6got2bxzk62ejh5d3p4z/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 + rm -rf /home/jenkins/cam_output/scratch/UWM_debug_r8029_flags_f10_f10_mg37 + ulimit -s 8388608 + python3 /home/pub/jenkins_BFB_test_configs/sys_admin/python_nightly_test_suite/run_test.py -c /home/pub/jenkins_BFB_test_configs/cam_BFB_coarse_res_r8029_flags_gfortran_test_config ERROR: Unknown Job Queue specified use --force to set submit_jobs case.run Submit job case.run No timing file found in run directory check for resubmit dout_s False mach larson-group resubmit_num 0 ERROR: Unknown Job Queue specified use --force to set submit_jobs case.run Submit job case.run No timing file found in run directory check for resubmit dout_s False mach larson-group resubmit_num 0 -------- Variable Diff Summary -------- File 1: 6a2ef4ee3c1a7bb3e904ed95812aeb933a93ed72 File 2: d0c8eda8d83d973026de33ce9e818f35d3415595 Variables discovered (union): 1594 Variables present in both files: 1594 Variables only in file 1: 0 Variables only in file 2: 0 Variables with differences (all dimensions): 1 Variables identical (all dimensions): 1593 Variables all-zero in file 1 (actual data): 137 Variables all-zero in file 2 (actual data): 137 Variables all-zero in both files (actual data): 137 3D variables tested (PASS/FAIL basis): 575 3D variables with differences: 0 3D variables identical: 575 3D variables all-zero in both files (actual data): 102 Variables skipped for PASS/FAIL (not 3D in either file): 1019 Variables with differences: - time_written | reason=data mismatch | file1: ndim=2, dims=('time', 'chars') | file2: ndim=2, dims=('time', 'chars') PASS: No differences found in 3D variables. =============================== Configuring Test =============================== Working directory set to: /home/jenkins/workspace/cam_BFB_coarse_res_r8029_flags_gfortran_test Checking specified repo: /home/jenkins/workspace/cam_BFB_coarse_res_r8029_flags_gfortran_test Using /home/jenkins/workspace/cam_BFB_coarse_res_r8029_flags_gfortran_test with origin https://github.com/larson-group/cam.git Output Save Mode: none Using branch: clubb_silhs_devel Making list from 'UnresolvedCommits': CheckRange = False: only comparing baseline to final commit. Run Output Path: /home/jenkins/cam_output/scratch/UWM_debug_r8029_flags_f10_f10_mg37/run/UWM_debug_r8029_flags_f10_f10_mg37.cam.rh0.0001-01-02-00000.nc Run commands: ['rm -rf /home/jenkins/cam_output/scratch/UWM_debug_r8029_flags_f10_f10_mg37', '\nrun_scripts/set_up_repo.py --caseroot /home/$USER/cam_output/caseroot/UWM_debug_r8029_flags_f10_f10_mg37 --reuse_build .', '\nrun_scripts/run_cesm_uwm_coarse_res_r8029_flags.sh'] Diffing command: python3 run_scripts/netcdf_3D_vars_diff.py =============================== Running Test =============================== Parsing message from commit: 6a2ef4ee3c1a7bb3e904ed95812aeb933a93ed72 Checking Commit: 6a2ef4ee3c1a7bb3e904ed95812aeb933a93ed72 Running: final commit to check, not labelled BIT_CHANGING Checking out 6a2ef4ee3c1a7bb3e904ed95812aeb933a93ed72 Running: 'rm -rf /home/jenkins/cam_output/scratch/UWM_debug_r8029_flags_f10_f10_mg37' Running: 'run_scripts/set_up_repo.py --caseroot /home/$USER/cam_output/caseroot/UWM_debug_r8029_flags_f10_f10_mg37 --reuse_build .' Running: 'run_scripts/run_cesm_uwm_coarse_res_r8029_flags.sh' Checking out d0c8eda8d83d973026de33ce9e818f35d3415595 Running: 'rm -rf /home/jenkins/cam_output/scratch/UWM_debug_r8029_flags_f10_f10_mg37' Running: 'run_scripts/set_up_repo.py --caseroot /home/$USER/cam_output/caseroot/UWM_debug_r8029_flags_f10_f10_mg37 --reuse_build .' Running: 'run_scripts/run_cesm_uwm_coarse_res_r8029_flags.sh' Diffing: 'python3 run_scripts/netcdf_3D_vars_diff.py 6a2ef4ee3c1a7bb3e904ed95812aeb933a93ed72 d0c8eda8d83d973026de33ce9e818f35d3415595' =============================== Test Results =============================== Commit Range Checked = d0c8eda8d83d973026de33ce9e818f35d3415595...6a2ef4ee3c1a7bb3e904ed95812aeb933a93ed72 -- CheckRange was set to False, no intermediate commits checked No new Unresolved commits found. No fake BIT_CHANGING commits found. No remaining Unresolved Commits. =============================== Updating Config File =============================== Saving into UnresolvedCommits: Saving into BaselineCommit: 6a2ef4ee3c1a7bb3e904ed95812aeb933a93ed72 =============================== Cleanup =============================== Removing all generated output REMOVING: d0c8eda8d83d973026de33ce9e818f35d3415595 REMOVING: 6a2ef4ee3c1a7bb3e904ed95812aeb933a93ed72 ================== Unresolved Commit Status ================== No remaining Unresolved Commits. Exiting with code: 0 [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Declarative: Post Actions) [Pipeline] script [Pipeline] { [Pipeline] sh + chmod -R 755 /home/jenkins/cam_output [Pipeline] } [Pipeline] // script [Pipeline] } [Pipeline] // stage [Pipeline] } [Pipeline] // withEnv [Pipeline] } [Pipeline] // node [Pipeline] End of Pipeline Finished: SUCCESS