Started by user <a href='/jenkins/user/sdomke' class='jenkins-table__link model-link model-link--float'>Steffen Domke</a>
Obtained jenkins_tests/cam_scam_gfortran_debug_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">Running on <a href='/jenkins/computer/mitch/' class='jenkins-table__link model-link model-link--float'>mitch</a> in /home/jenkins/workspace/cam_scam_gfortran_debug_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_scam_gfortran_debug_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 35b3ea889451c9a36beb1e305052ba99b0ec15e0 (refs/remotes/origin/clubb_silhs_devel)
Commit message: "Autoupdated CLUBB_core Commit cb9c724afbacef68636111b671d273df57166a6d Author: bmg929 Date: Tue Apr 22 13:57:37 2025 -0500 I updated adj_low_res_nu for use with a generalized grid. It is not called from within advance_clubb_core or from within SILHS. It is not necessary to be generalized for tests within standalone CLUBB. However, it is necessary to generalize this code for use within host models, particularly for CAM and E3SM."
 &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 35b3ea889451c9a36beb1e305052ba99b0ec15e0 # timeout=10
 &gt; git rev-list --no-walk 35b3ea889451c9a36beb1e305052ba99b0ec15e0 # 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="Remove Old Output">[Pipeline] { (Remove Old Output)
</span><span class="pipeline-new-node" nodeId="19" enclosingId="18">[Pipeline] sh
</span><span class="pipeline-node-19">+ 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="20" startId="20" enclosingId="18">[Pipeline] script
</span><span class="pipeline-new-node" nodeId="21" startId="21" enclosingId="20">[Pipeline] {
</span><span class="pipeline-new-node" nodeId="22" startId="21">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="23" startId="20">[Pipeline] // script
</span><span class="pipeline-new-node" nodeId="24" startId="18">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="25" startId="17">[Pipeline] // stage
</span><span class="pipeline-new-node" nodeId="26" startId="26" enclosingId="11">[Pipeline] stage
</span><span class="pipeline-new-node" nodeId="27" startId="27" enclosingId="26" label="Run atex">[Pipeline] { (Run atex)
</span><span class="pipeline-new-node" nodeId="28" enclosingId="27">[Pipeline] sh
</span><span class="pipeline-node-28">+ 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
+ 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/cam_scam_gfortran_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_gfortran_debug_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_2f3c896-784-g35b3ea88
Batch_system_type is none
 Creating Case directory /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/scripts/test_scam_ATEX
This component includes user_mods /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime_config/usermods_dirs/scam_mandatory
Adding user mods directory /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime_config/usermods_dirs/scam_mandatory
RUN: /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/scripts/test_scam_ATEX/shell_commands
FROM: /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/scripts/test_scam_ATEX
ERROR: inputdata root is not a directory or is not readable: /home/pub/cam_inputdata
</span><span class="pipeline-new-node" nodeId="29" startId="27">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="30" startId="26">[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 ARM97 with SILHS">[Pipeline] { (Run ARM97 with SILHS)
</span>Stage "Run ARM97 with SILHS" skipped due to earlier failure(s)
<span class="pipeline-new-node" nodeId="33" enclosingId="32">[Pipeline] getContext
</span><span class="pipeline-new-node" nodeId="34" startId="32">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="35" startId="31">[Pipeline] // stage
</span><span class="pipeline-new-node" nodeId="36" startId="36" enclosingId="11">[Pipeline] stage
</span><span class="pipeline-new-node" nodeId="37" startId="37" enclosingId="36" label="Declarative: Post Actions">[Pipeline] { (Declarative: Post Actions)
</span><span class="pipeline-new-node" nodeId="38" startId="38" enclosingId="37">[Pipeline] script
</span><span class="pipeline-new-node" nodeId="39" startId="39" enclosingId="38">[Pipeline] {
</span><span class="pipeline-new-node" nodeId="40" enclosingId="39">[Pipeline] sh
</span><span class="pipeline-node-40">+ chmod -R 755 /home/jenkins/cam_output/
</span><span class="pipeline-new-node" nodeId="41" enclosingId="39">[Pipeline] sh
</span><span class="pipeline-node-41">+ gzip -d '/home/jenkins/cam_output/scratch/test_scam_ATEX/bld/cesm.bldlog.*.gz'
gzip: /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/cesm.bldlog.*.gz: No such file or directory
</span><span class="pipeline-new-node" nodeId="42" enclosingId="39">[Pipeline] echo
</span><span class="pipeline-node-42">ATEX WARNING: One or more of the build logs were not zipped, this means compilation did not finish
</span><span class="pipeline-new-node" nodeId="43" enclosingId="39">[Pipeline] sh
</span><span class="pipeline-node-43">+ gzip -d '/home/jenkins/cam_output/scratch/test_scam_ATEX/run/cesm.log.*.gz'
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="44" enclosingId="39">[Pipeline] echo
</span><span class="pipeline-node-44">ATEX WARNING: One or more of the run logs were not zipped, this means the code did not run to completion
</span><span class="pipeline-new-node" nodeId="45" enclosingId="39">[Pipeline] sh
</span><span class="pipeline-node-45">+ cat '/home/jenkins/cam_output/scratch/test_scam_ATEX/bld/cesm.bldlog.*'
cat: '/home/jenkins/cam_output/scratch/test_scam_ATEX/bld/cesm.bldlog.*': No such file or directory
</span><span class="pipeline-new-node" nodeId="46" enclosingId="39">[Pipeline] echo
</span><span class="pipeline-node-46">ATEX WARNING: One of the log files (build or run) were not found - the failure must have occured before their creation
</span><span class="pipeline-new-node" nodeId="47" enclosingId="39">[Pipeline] sh
</span><span class="pipeline-node-47">+ gzip -d '/home/jenkins/cam_output/scratch/test_scam_ARM97/bld/cesm.bldlog.*.gz'
gzip: /home/jenkins/cam_output/scratch/test_scam_ARM97/bld/cesm.bldlog.*.gz: No such file or directory
</span><span class="pipeline-new-node" nodeId="48" enclosingId="39">[Pipeline] echo
</span><span class="pipeline-node-48">ARM97 WARNING: One or more of the build logs were not zipped, this means compilation did not finish
</span><span class="pipeline-new-node" nodeId="49" enclosingId="39">[Pipeline] sh
</span><span class="pipeline-node-49">+ gzip -d '/home/jenkins/cam_output/scratch/test_scam_ARM97/run/cesm.log.*.gz'
gzip: /home/jenkins/cam_output/scratch/test_scam_ARM97/run/cesm.log.*.gz: No such file or directory
</span><span class="pipeline-new-node" nodeId="50" enclosingId="39">[Pipeline] echo
</span><span class="pipeline-node-50">ARM97 WARNING: One or more of the run logs were not zipped, this means the code did not run to completion
</span><span class="pipeline-new-node" nodeId="51" enclosingId="39">[Pipeline] sh
</span><span class="pipeline-node-51">+ cat '/home/jenkins/cam_output/scratch/test_scam_ARM97/bld/cesm.bldlog.*'
cat: '/home/jenkins/cam_output/scratch/test_scam_ARM97/bld/cesm.bldlog.*': No such file or directory
</span><span class="pipeline-new-node" nodeId="52" enclosingId="39">[Pipeline] echo
</span><span class="pipeline-node-52">ARM97 WARNING: One of the log files (build or run) were not found - the failure must have occured before their creation
</span><span class="pipeline-new-node" nodeId="53" startId="39">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="54" startId="38">[Pipeline] // script
</span><span class="pipeline-new-node" nodeId="55" startId="55" enclosingId="37">[Pipeline] script
</span><span class="pipeline-new-node" nodeId="56" startId="56" enclosingId="55">[Pipeline] {
</span><span class="pipeline-new-node" nodeId="57" enclosingId="56">[Pipeline] emailext
</span><span class="pipeline-node-57">Sending email to: messnermet@uwm.edu
</span><span class="pipeline-new-node" nodeId="58" startId="56">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="59" startId="55">[Pipeline] // script
</span><span class="pipeline-new-node" nodeId="60" startId="37">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="61" startId="36">[Pipeline] // stage
</span><span class="pipeline-new-node" nodeId="62" startId="11">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="63" startId="10">[Pipeline] // withEnv
</span><span class="pipeline-new-node" nodeId="64" startId="4">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="65" startId="3">[Pipeline] // node
</span><span class="pipeline-new-node" nodeId="66" startId="2">[Pipeline] End of Pipeline
</span>ERROR: script returned exit code 1
Finished: FAILURE