Started by an SCM change
Obtained jenkins_tests/cam_clubb_error_handling_test/Jenkinsfile from git <a href='https://github.com/larson-group/cam.git'>https://github.com/larson-group/cam.git</a>
<span class="pipeline-new-node" nodeId="2" startId="2">[Pipeline] Start of Pipeline
</span><span class="pipeline-new-node" nodeId="3" startId="3" enclosingId="2">[Pipeline] node
</span><span class="pipeline-node-3">Still waiting to schedule task
Waiting for next available executor
Running on <a href='/jenkins/computer/overlie/' class='jenkins-table__link model-link model-link--float'>overlie</a> in /home/jenkins/workspace/cam_clubb_error_handling_test
</span><span class="pipeline-new-node" nodeId="4" startId="4" enclosingId="3">[Pipeline] {
</span><span class="pipeline-new-node" nodeId="5" startId="5" enclosingId="4">[Pipeline] stage
</span><span class="pipeline-new-node" nodeId="6" startId="6" enclosingId="5" label="Declarative: Checkout SCM">[Pipeline] { (Declarative: Checkout SCM)
</span><span class="pipeline-new-node" nodeId="7" enclosingId="6">[Pipeline] checkout
</span><span class="pipeline-node-7">The recommended git tool is: git
Wiping out workspace first.
Cloning the remote Git repository
Cloning repository <a href='https://github.com/larson-group/cam.git'>https://github.com/larson-group/cam.git</a>
 &gt; git init /home/jenkins/workspace/cam_clubb_error_handling_test # timeout=10
Fetching upstream changes from <a href='https://github.com/larson-group/cam.git'>https://github.com/larson-group/cam.git</a>
 &gt; git --version # timeout=10
 &gt; git --version # 'git version 2.34.1'
 &gt; git fetch --tags --force --progress -- <a href='https://github.com/larson-group/cam.git'>https://github.com/larson-group/cam.git</a> +refs/heads/*:refs/remotes/origin/* # timeout=10
Avoid second fetch
Checking out Revision ef17c4e116ce9f8b4c56caee26c37353bd20eaf9 (refs/remotes/origin/clubb_silhs_devel)
 &gt; git config remote.origin.url <a href='https://github.com/larson-group/cam.git'>https://github.com/larson-group/cam.git</a> # timeout=10
 &gt; git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10
 &gt; git rev-parse refs/remotes/origin/clubb_silhs_devel^{commit} # timeout=10
 &gt; git config core.sparsecheckout # timeout=10
 &gt; git checkout -f ef17c4e116ce9f8b4c56caee26c37353bd20eaf9 # timeout=10
Commit message: "Autoupdated SILHS Commit 942e02ac28ca0981f9a54f4e56d8fc8a16b49b65 Author: domkesteffen Date: Tue May 13 12:55:59 2025 -0500 Removed simple wrappers from clubb_api_module (#1245) * Removed simple wrappers from clubb_api_module CLUBB ticket #1223"
 &gt; git rev-list --no-walk ab8fae7439ce66431e0d473ed3ba29ef0d35d424 # timeout=10
</span><span class="pipeline-new-node" nodeId="8" startId="6">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="9" startId="5">[Pipeline] // stage
</span><span class="pipeline-new-node" nodeId="10" startId="10" enclosingId="4">[Pipeline] withEnv
</span><span class="pipeline-new-node" nodeId="11" startId="11" enclosingId="10">[Pipeline] {
</span><span class="pipeline-new-node" nodeId="12" startId="12" enclosingId="11">[Pipeline] stage
</span><span class="pipeline-new-node" nodeId="13" startId="13" enclosingId="12" label="Checkout Externals and Copy Custom Files">[Pipeline] { (Checkout Externals and Copy Custom Files)
</span><span class="pipeline-new-node" nodeId="14" enclosingId="13">[Pipeline] sh
</span><span class="pipeline-node-14">+ python run_scripts/set_up_repo.py .
Checking out externals...
Copying ccs_config files
</span><span class="pipeline-new-node" nodeId="15" startId="13">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="16" startId="12">[Pipeline] // stage
</span><span class="pipeline-new-node" nodeId="17" startId="17" enclosingId="11">[Pipeline] stage
</span><span class="pipeline-new-node" nodeId="18" startId="18" enclosingId="17" label="Sed Commands">[Pipeline] { (Sed Commands)
</span><span class="pipeline-new-node" nodeId="19" enclosingId="18">[Pipeline] sh
</span><span class="pipeline-node-19">+ sed -i 's/DEBUG="TRUE"/DEBUG="FALSE"/g' run_scripts/run_scam.bash
</span><span class="pipeline-new-node" nodeId="20" startId="18">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="21" startId="17">[Pipeline] // stage
</span><span class="pipeline-new-node" nodeId="22" startId="22" enclosingId="11">[Pipeline] stage
</span><span class="pipeline-new-node" nodeId="23" startId="23" enclosingId="22" label="Remove Old Output">[Pipeline] { (Remove Old Output)
</span><span class="pipeline-new-node" nodeId="24" enclosingId="23">[Pipeline] sh
</span><span class="pipeline-node-24">+ rm -rf /home/jenkins/cam_output/scratch/test_scam_ATEX /home/jenkins/cam_output/scratch/test_scam_ARM97
</span><span class="pipeline-new-node" nodeId="25" startId="25" enclosingId="23">[Pipeline] script
</span><span class="pipeline-new-node" nodeId="26" startId="26" enclosingId="25">[Pipeline] {
</span><span class="pipeline-new-node" nodeId="27" startId="26">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="28" startId="25">[Pipeline] // script
</span><span class="pipeline-new-node" nodeId="29" startId="23">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="30" startId="22">[Pipeline] // stage
</span><span class="pipeline-new-node" nodeId="31" startId="31" enclosingId="11">[Pipeline] stage
</span><span class="pipeline-new-node" nodeId="32" startId="32" enclosingId="31" label="Run test script">[Pipeline] { (Run test script)
</span><span class="pipeline-new-node" nodeId="33" startId="33" enclosingId="32">[Pipeline] dir
</span><span class="pipeline-node-33">Running in /home/jenkins/workspace/cam_clubb_error_handling_test/jenkins_tests/cam_clubb_error_handling_test
</span><span class="pipeline-new-node" nodeId="34" startId="34" enclosingId="33">[Pipeline] {
</span><span class="pipeline-new-node" nodeId="35" enclosingId="34">[Pipeline] sh
</span><span class="pipeline-node-35">+ 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
+ ./cam_test_fatal_error_handling.bash
----- Case Setup -----
Compset longname is 2000_CAM60%SCAMATEX_CLM50%SP_CICE%PRES_DOCN%DOM_SROF_SGLC_SWAV
Compset specification file is /home/jenkins/workspace/cam_clubb_error_handling_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_clubb_error_handling_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_2f3c896-813-gef17c4e1
Batch_system_type is none
 Creating Case directory /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX
This component includes user_mods /home/jenkins/workspace/cam_clubb_error_handling_test/cime_config/usermods_dirs/scam_mandatory
Adding user mods directory /home/jenkins/workspace/cam_clubb_error_handling_test/cime_config/usermods_dirs/scam_mandatory
RUN: /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX/shell_commands
FROM: /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX
Creating batch scripts
Writing case.run script from input template /home/jenkins/workspace/cam_clubb_error_handling_test/ccs_config/machines/template.case.run
Creating file .case.run
Writing case.st_archive script from input template /home/jenkins/workspace/cam_clubb_error_handling_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_clubb_error_handling_test/cime/scripts/test_scam_ATEX
sharedlib_only is False
model_only is False
Generating component namelists as part of build
  2025-05-14 03:53:12 atm 
Create namelist for component cam
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime_config/buildnml
     ...calling cam buildcpp to set build time options
CAM namelist copy: file1 /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX/Buildconf/camconf/atm_in file2 /home/jenkins/cam_output/scratch/test_scam_ATEX/run/atm_in 
  2025-05-14 03:53:12 lnd 
Create namelist for component clm
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/clm//cime_config/buildnml
WARNING: CLM is starting up from a cold state
  2025-05-14 03:53:12 ice 
Create namelist for component cice
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cice//cime_config/buildnml
  2025-05-14 03:53:12 ocn 
Create namelist for component docn
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cdeps/docn/cime_config/buildnml
docn_mode is prescribed
  2025-05-14 03:53:12 rof 
Create namelist for component srof
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/srof/cime_config/buildnml
  2025-05-14 03:53:12 glc 
Create namelist for component sglc
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sglc/cime_config/buildnml
  2025-05-14 03:53:12 wav 
Create namelist for component swav
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/swav/cime_config/buildnml
  2025-05-14 03:53:12 esp 
Create namelist for component sesp
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sesp/cime_config/buildnml
  2025-05-14 03:53:12 cpl 
Create namelist for component drv
   Calling /home/jenkins/workspace/cam_clubb_error_handling_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.250514-035311
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/build_scripts/buildlib.gptl
Component gptl build complete with 2 warnings
Building pio with output to file /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/pio.bldlog.250514-035311
   Calling /home/jenkins/workspace/cam_clubb_error_handling_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.250514-035311
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/share/buildlib.csm_share
Component csm_share build complete with 28 warnings
Building CDEPS with output to file /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/CDEPS.bldlog.250514-035311
   Calling /home/jenkins/workspace/cam_clubb_error_handling_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.250514-035311
Component lnd build complete with 4 warnings
clm built in 60.873427 seconds
         - Building atm Library 
Building atm with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/atm.bldlog.250514-035311
         - Building ice Library 
Building ice with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/ice.bldlog.250514-035311
         - Building ocn Library 
Building ocn with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/ocn.bldlog.250514-035311
docn built in 0.423801 seconds
cice built in 111.640740 seconds
Component atm build complete with 110 warnings
cam built in 135.430899 seconds
Building cesm from /home/jenkins/workspace/cam_clubb_error_handling_test/components/cmeps/cime_config/buildexe with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/cesm.bldlog.250514-035311 
Total build time: 276.681103 seconds
MODEL BUILD HAS FINISHED SUCCESSFULLY
----- Run Submission -----
  2025-05-14 03:57:48 atm 
Create namelist for component cam
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime_config/buildnml
CAM namelist copy: file1 /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX/Buildconf/camconf/atm_in file2 /home/jenkins/cam_output/scratch/test_scam_ATEX/run/atm_in 
  2025-05-14 03:57:49 lnd 
Create namelist for component clm
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/clm//cime_config/buildnml
WARNING: CLM is starting up from a cold state
  2025-05-14 03:57:49 ice 
Create namelist for component cice
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cice//cime_config/buildnml
  2025-05-14 03:57:49 ocn 
Create namelist for component docn
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cdeps/docn/cime_config/buildnml
docn_mode is prescribed
  2025-05-14 03:57:49 rof 
Create namelist for component srof
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/srof/cime_config/buildnml
  2025-05-14 03:57:49 glc 
Create namelist for component sglc
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sglc/cime_config/buildnml
  2025-05-14 03:57:49 wav 
Create namelist for component swav
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/swav/cime_config/buildnml
  2025-05-14 03:57:49 esp 
Create namelist for component sesp
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sesp/cime_config/buildnml
  2025-05-14 03:57:49 cpl 
Create namelist for component drv
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cmeps/cime_config/buildnml
Writing nuopc_runconfig for components ['CPL', 'ATM', 'LND', 'ICE', 'OCN']
Checking that inputdata is available as part of case submission
Loading input file list: 'Buildconf/ctsm.input_data_list'
Loading input file list: 'Buildconf/docn.input_data_list'
Loading input file list: 'Buildconf/cam.input_data_list'
Loading input file list: 'Buildconf/cpl.input_data_list'
Loading input file list: 'Buildconf/cice.input_data_list'
Check case OK
submit_jobs case.run
Submit job case.run
Starting job script case.run
Generating namelists for /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX
  2025-05-14 03:57:50 atm 
Create namelist for component cam
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime_config/buildnml
CAM namelist copy: file1 /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX/Buildconf/camconf/atm_in file2 /home/jenkins/cam_output/scratch/test_scam_ATEX/run/atm_in 
  2025-05-14 03:57:50 lnd 
Create namelist for component clm
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/clm//cime_config/buildnml
WARNING: CLM is starting up from a cold state
  2025-05-14 03:57:50 ice 
Create namelist for component cice
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cice//cime_config/buildnml
  2025-05-14 03:57:51 ocn 
Create namelist for component docn
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cdeps/docn/cime_config/buildnml
docn_mode is prescribed
  2025-05-14 03:57:51 rof 
Create namelist for component srof
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/srof/cime_config/buildnml
  2025-05-14 03:57:51 glc 
Create namelist for component sglc
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sglc/cime_config/buildnml
  2025-05-14 03:57:51 wav 
Create namelist for component swav
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/swav/cime_config/buildnml
  2025-05-14 03:57:51 esp 
Create namelist for component sesp
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sesp/cime_config/buildnml
  2025-05-14 03:57:51 cpl 
Create namelist for component drv
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cmeps/cime_config/buildnml
Writing nuopc_runconfig for components ['CPL', 'ATM', 'LND', 'ICE', 'OCN']
-------------------------------------------------------------------------
 - Prestage required restarts into /home/jenkins/cam_output/scratch/test_scam_ATEX/run
 - Case input data directory (DIN_LOC_ROOT) is /home/pub/cam_inputdata 
 - Checking for required input datasets in DIN_LOC_ROOT
-------------------------------------------------------------------------
run command is mpirun  -np 1 /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/cesm.exe   &gt;&gt; cesm.log.$LID 2&gt;&amp;1  
Exception from case_run: ERROR: RUN FAIL: Command 'mpirun  -np 1 /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/cesm.exe   &gt;&gt; cesm.log.$LID 2&gt;&amp;1 ' failed
See log file for details: /home/jenkins/cam_output/scratch/test_scam_ATEX/run/cesm.log.250514-035750
Submitted job case.run with id None
gzip: /home/jenkins/cam_output/scratch/test_scam_ATEX/run/cesm.log.*.gz: No such file or directory
----- Case Setup -----
Compset longname is 2000_CAM60%SCAMATEX_CLM50%SP_CICE%PRES_DOCN%DOM_SROF_SGLC_SWAV
Compset specification file is /home/jenkins/workspace/cam_clubb_error_handling_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_clubb_error_handling_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_2f3c896-813-gef17c4e1
Batch_system_type is none
 Creating Case directory /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX
This component includes user_mods /home/jenkins/workspace/cam_clubb_error_handling_test/cime_config/usermods_dirs/scam_mandatory
Adding user mods directory /home/jenkins/workspace/cam_clubb_error_handling_test/cime_config/usermods_dirs/scam_mandatory
RUN: /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX/shell_commands
FROM: /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX
Creating batch scripts
Writing case.run script from input template /home/jenkins/workspace/cam_clubb_error_handling_test/ccs_config/machines/template.case.run
Creating file .case.run
Writing case.st_archive script from input template /home/jenkins/workspace/cam_clubb_error_handling_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_clubb_error_handling_test/cime/scripts/test_scam_ATEX
sharedlib_only is False
model_only is False
Generating component namelists as part of build
  2025-05-14 03:58:01 atm 
Create namelist for component cam
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime_config/buildnml
     ...calling cam buildcpp to set build time options
CAM namelist copy: file1 /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX/Buildconf/camconf/atm_in file2 /home/jenkins/cam_output/scratch/test_scam_ATEX/run/atm_in 
  2025-05-14 03:58:01 lnd 
Create namelist for component clm
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/clm//cime_config/buildnml
WARNING: CLM is starting up from a cold state
  2025-05-14 03:58:01 ice 
Create namelist for component cice
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cice//cime_config/buildnml
  2025-05-14 03:58:01 ocn 
Create namelist for component docn
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cdeps/docn/cime_config/buildnml
docn_mode is prescribed
  2025-05-14 03:58:01 rof 
Create namelist for component srof
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/srof/cime_config/buildnml
  2025-05-14 03:58:01 glc 
Create namelist for component sglc
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sglc/cime_config/buildnml
  2025-05-14 03:58:01 wav 
Create namelist for component swav
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/swav/cime_config/buildnml
  2025-05-14 03:58:01 esp 
Create namelist for component sesp
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sesp/cime_config/buildnml
  2025-05-14 03:58:01 cpl 
Create namelist for component drv
   Calling /home/jenkins/workspace/cam_clubb_error_handling_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.250514-035801
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/build_scripts/buildlib.gptl
Component gptl build complete with 2 warnings
Building pio with output to file /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/pio.bldlog.250514-035801
   Calling /home/jenkins/workspace/cam_clubb_error_handling_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.250514-035801
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/share/buildlib.csm_share
Component csm_share build complete with 28 warnings
Building CDEPS with output to file /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/CDEPS.bldlog.250514-035801
   Calling /home/jenkins/workspace/cam_clubb_error_handling_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.250514-035801
Component lnd build complete with 4 warnings
clm built in 63.916835 seconds
         - Building atm Library 
Building atm with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/atm.bldlog.250514-035801
         - Building ice Library 
Building ice with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/ice.bldlog.250514-035801
         - Building ocn Library 
Building ocn with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/ocn.bldlog.250514-035801
docn built in 0.408307 seconds
cice built in 112.606194 seconds
Component atm build complete with 110 warnings
cam built in 138.578271 seconds
Building cesm from /home/jenkins/workspace/cam_clubb_error_handling_test/components/cmeps/cime_config/buildexe with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/cesm.bldlog.250514-035801 
Total build time: 277.067120 seconds
MODEL BUILD HAS FINISHED SUCCESSFULLY
----- Run Submission -----
  2025-05-14 04:02:38 atm 
Create namelist for component cam
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime_config/buildnml
CAM namelist copy: file1 /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX/Buildconf/camconf/atm_in file2 /home/jenkins/cam_output/scratch/test_scam_ATEX/run/atm_in 
  2025-05-14 04:02:38 lnd 
Create namelist for component clm
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/clm//cime_config/buildnml
WARNING: CLM is starting up from a cold state
  2025-05-14 04:02:39 ice 
Create namelist for component cice
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cice//cime_config/buildnml
  2025-05-14 04:02:39 ocn 
Create namelist for component docn
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cdeps/docn/cime_config/buildnml
docn_mode is prescribed
  2025-05-14 04:02:39 rof 
Create namelist for component srof
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/srof/cime_config/buildnml
  2025-05-14 04:02:39 glc 
Create namelist for component sglc
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sglc/cime_config/buildnml
  2025-05-14 04:02:39 wav 
Create namelist for component swav
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/swav/cime_config/buildnml
  2025-05-14 04:02:39 esp 
Create namelist for component sesp
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sesp/cime_config/buildnml
  2025-05-14 04:02:39 cpl 
Create namelist for component drv
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cmeps/cime_config/buildnml
Writing nuopc_runconfig for components ['CPL', 'ATM', 'LND', 'ICE', 'OCN']
Checking that inputdata is available as part of case submission
Loading input file list: 'Buildconf/ctsm.input_data_list'
Loading input file list: 'Buildconf/docn.input_data_list'
Loading input file list: 'Buildconf/cam.input_data_list'
Loading input file list: 'Buildconf/cpl.input_data_list'
Loading input file list: 'Buildconf/cice.input_data_list'
Check case OK
submit_jobs case.run
Submit job case.run
Starting job script case.run
Generating namelists for /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX
  2025-05-14 04:02:40 atm 
Create namelist for component cam
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime_config/buildnml
CAM namelist copy: file1 /home/jenkins/workspace/cam_clubb_error_handling_test/cime/scripts/test_scam_ATEX/Buildconf/camconf/atm_in file2 /home/jenkins/cam_output/scratch/test_scam_ATEX/run/atm_in 
  2025-05-14 04:02:40 lnd 
Create namelist for component clm
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/clm//cime_config/buildnml
WARNING: CLM is starting up from a cold state
  2025-05-14 04:02:40 ice 
Create namelist for component cice
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cice//cime_config/buildnml
  2025-05-14 04:02:40 ocn 
Create namelist for component docn
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cdeps/docn/cime_config/buildnml
docn_mode is prescribed
  2025-05-14 04:02:40 rof 
Create namelist for component srof
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/srof/cime_config/buildnml
  2025-05-14 04:02:40 glc 
Create namelist for component sglc
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sglc/cime_config/buildnml
  2025-05-14 04:02:40 wav 
Create namelist for component swav
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/swav/cime_config/buildnml
  2025-05-14 04:02:40 esp 
Create namelist for component sesp
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sesp/cime_config/buildnml
  2025-05-14 04:02:40 cpl 
Create namelist for component drv
   Calling /home/jenkins/workspace/cam_clubb_error_handling_test/components/cmeps/cime_config/buildnml
Writing nuopc_runconfig for components ['CPL', 'ATM', 'LND', 'ICE', 'OCN']
-------------------------------------------------------------------------
 - Prestage required restarts into /home/jenkins/cam_output/scratch/test_scam_ATEX/run
 - Case input data directory (DIN_LOC_ROOT) is /home/pub/cam_inputdata 
 - Checking for required input datasets in DIN_LOC_ROOT
-------------------------------------------------------------------------
run command is mpirun  -np 1 /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/cesm.exe   &gt;&gt; cesm.log.$LID 2&gt;&amp;1  
Exception from case_run: ERROR: RUN FAIL: Command 'mpirun  -np 1 /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/cesm.exe   &gt;&gt; cesm.log.$LID 2&gt;&amp;1 ' failed
See log file for details: /home/jenkins/cam_output/scratch/test_scam_ATEX/run/cesm.log.250514-040239
Submitted job case.run with id None
gzip: /home/jenkins/cam_output/scratch/test_scam_ATEX/run/cesm.log.*.gz: No such file or directory
</span><span class="pipeline-new-node" nodeId="36" startId="34">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="37" startId="33">[Pipeline] // dir
</span><span class="pipeline-new-node" nodeId="38" startId="32">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="39" startId="31">[Pipeline] // stage
</span><span class="pipeline-new-node" nodeId="40" startId="40" enclosingId="11">[Pipeline] stage
</span><span class="pipeline-new-node" nodeId="41" startId="41" enclosingId="40" label="Check for wp2 NaN error from advance_wp2_wp3">[Pipeline] { (Check for wp2 NaN error from advance_wp2_wp3)
</span><span class="pipeline-new-node" nodeId="42" enclosingId="41">[Pipeline] sh
</span><span class="pipeline-node-42">+ grep 'Error calling advance_wp2_wp3' run_scripts/advance_wp2_wp3_bad_wp2
 Error calling advance_wp2_wp3 in advance_clubb_core
</span><span class="pipeline-new-node" nodeId="43" startId="41">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="44" startId="40">[Pipeline] // stage
</span><span class="pipeline-new-node" nodeId="45" startId="45" enclosingId="11">[Pipeline] stage
</span><span class="pipeline-new-node" nodeId="46" startId="46" enclosingId="45" label="Check for wp2 NaN error from advance_wm_wpxp">[Pipeline] { (Check for wp2 NaN error from advance_wm_wpxp)
</span><span class="pipeline-new-node" nodeId="47" enclosingId="46">[Pipeline] sh
</span><span class="pipeline-node-47">+ grep 'Error calling advance_xm_wpxp' run_scripts/advance_xm_wpxp_bad_wp2
 Error calling advance_xm_wpxp in advance_clubb_core
</span><span class="pipeline-new-node" nodeId="48" startId="46">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="49" startId="45">[Pipeline] // stage
</span><span class="pipeline-new-node" nodeId="50" startId="50" enclosingId="11">[Pipeline] stage
</span><span class="pipeline-new-node" nodeId="51" startId="51" enclosingId="50" label="Declarative: Post Actions">[Pipeline] { (Declarative: Post Actions)
</span><span class="pipeline-new-node" nodeId="52" startId="52" enclosingId="51">[Pipeline] script
</span><span class="pipeline-new-node" nodeId="53" startId="53" enclosingId="52">[Pipeline] {
</span><span class="pipeline-new-node" nodeId="54" enclosingId="53">[Pipeline] cleanWs
</span><span class="pipeline-node-54">[WS-CLEANUP] Deleting project workspace...
[WS-CLEANUP] Deferred wipeout is used...
[WS-CLEANUP] done
</span><span class="pipeline-new-node" nodeId="55" startId="53">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="56" startId="52">[Pipeline] // script
</span><span class="pipeline-new-node" nodeId="57" startId="51">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="58" startId="50">[Pipeline] // stage
</span><span class="pipeline-new-node" nodeId="59" startId="11">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="60" startId="10">[Pipeline] // withEnv
</span><span class="pipeline-new-node" nodeId="61" startId="4">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="62" startId="3">[Pipeline] // node
</span><span class="pipeline-new-node" nodeId="63" startId="2">[Pipeline] End of Pipeline
</span>Finished: SUCCESS