Started by an SCM change
Obtained jenkins_tests/clubb_BFB_r8029_flags_gfortran_test/Jenkinsfile from git <a href='https://github.com/larson-group/clubb.git'>https://github.com/larson-group/clubb.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/(built-in)/' class='jenkins-table__link model-link model-link--float'>Jenkins</a> in /home/jenkins/workspace/clubb_BFB_r8029_flags_gfortran_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/clubb.git'>https://github.com/larson-group/clubb.git</a>
 &gt; git init /home/jenkins/workspace/clubb_BFB_r8029_flags_gfortran_test # timeout=10
Fetching upstream changes from <a href='https://github.com/larson-group/clubb.git'>https://github.com/larson-group/clubb.git</a>
 &gt; git --version # timeout=10
 &gt; git --version # 'git version 2.34.1'
using GIT_ASKPASS to set credentials larsongroupsysadmin github token
 &gt; git fetch --tags --force --progress -- <a href='https://github.com/larson-group/clubb.git'>https://github.com/larson-group/clubb.git</a> +refs/heads/*:refs/remotes/origin/* # timeout=10
 &gt; git config remote.origin.url <a href='https://github.com/larson-group/clubb.git'>https://github.com/larson-group/clubb.git</a> # timeout=10
 &gt; git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10
Avoid second fetch
 &gt; git rev-parse refs/remotes/origin/master^{commit} # timeout=10
Checking out Revision 77b73e25b7c54c85e9714178efbd6dc893834dc5 (refs/remotes/origin/master)
 &gt; git config core.sparsecheckout # timeout=10
 &gt; git checkout -f 77b73e25b7c54c85e9714178efbd6dc893834dc5 # timeout=10
Commit message: "Making certain things differentiation safe, various parts had issues with sqrt or divisions that needed clipping for reverse mode calcualtions. Lot's of code sections seemed to already have worked around this with a safe_sqrt method (or some variation) that I standardized and put in advance_helper. (#1361)"
 &gt; git rev-list --no-walk 17b29a7e938300692cec5c6c7e78aae7b9578568 # 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="Update sys_admin Repo">[Pipeline] { (Update sys_admin Repo)
</span><span class="pipeline-new-node" nodeId="14" enclosingId="13">[Pipeline] sh
</span><span class="pipeline-node-14">+ git -C /home/pub/jenkins_BFB_test_configs/sys_admin pull
Already up to date.
</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="Run Python Test">[Pipeline] { (Run Python Test)
</span><span class="pipeline-new-node" nodeId="19" enclosingId="18">[Pipeline] sh
</span><span class="pipeline-node-19">+ 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 "$-" in
+++ __lmod_vx=x
+++ '[' -n x ']'
+++ set +x
Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for this output (/usr/local/spack/opt/spack/linux-pop22-cascadelake/gcc-12.2.0/lmod-8.7.37-bi3kyxcdrfgw3y7vv2k7c5rjxg75qzju/lmod/lmod/init/bash)
Shell debugging restarted
+++ unset __lmod_vx
+++ find /usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core -print -quit
++ export MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core
++ MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core
+ module load gcc netcdf-fortran
+ '[' -z '' ']'
+ case "$-" in
+ __lmod_sh_dbg=x
+ '[' -n x ']'
+ set +x
Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for Lmod's output
Lmod Warning:
-------------------------------------------------------------------------------
The following dependent module(s) are not currently loaded:
gcc-runtime/13.1.0-gzedt3f (required by: mpich/4.2.1, hdf5/1.14.3-42x3zrv,
netcdf-c/4.9.2, netcdf-fortran/4.5.3)
-------------------------------------------------------------------------------



Shell debugging restarted
+ unset __lmod_sh_dbg
+ return 0
+ python3 /home/pub/jenkins_BFB_test_configs/sys_admin/python_nightly_test_suite/run_test.py -c /home/pub/jenkins_BFB_test_configs/clubb_BFB_r8029_flags_gfortran_test_config
Directory 1 is 77b73e25b7c54c85e9714178efbd6dc893834dc5
Directory 2 is 17b29a7e938300692cec5c6c7e78aae7b9578568
Using reporting threshold:  0.0 


The following cases will be compared: ['bomex', 'dycoms2_rf01']


================================================ bomex ================================================
&gt;No differences detected by the linux diff in bomex_stats.nc&lt;
&gt;&gt;&gt;The linux diff could not detect any differences in the file pairs for case bomex.&lt;&lt;&lt;

=====================================================================================================

================================================ dycoms2_rf01 ================================================
&gt;No differences detected by the linux diff in dycoms2_rf01_stats.nc&lt;
&gt;&gt;&gt;The linux diff could not detect any differences in the file pairs for case dycoms2_rf01.&lt;&lt;&lt;

=====================================================================================================

SUMMARY:
Linux diff did not detect any differences in the compared files.
Pass: 2 cases ['bomex', 'dycoms2_rf01']
Fail: 0 cases []

=============================== Configuring Test ===============================


Working directory set to: /home/jenkins/workspace/clubb_BFB_r8029_flags_gfortran_test
Checking specified repo: /home/jenkins/workspace/clubb_BFB_r8029_flags_gfortran_test

Using /home/jenkins/workspace/clubb_BFB_r8029_flags_gfortran_test with origin <a href='https://github.com/larson-group/clubb.git'>https://github.com/larson-group/clubb.git</a>

Output Save Mode: none

Using branch: master

Making list from 'UnresolvedCommits':

CheckRange = True: Getting commit range

Run Output Path: output

Run commands: ['python compile.py -debug', '\nrm -rf output', 'mkdir output', '\npython run_scripts/run_scm.py -config compatible_r8029 bomex', '\npython run_scripts/run_scm.py -config compatible_r8029 dycoms2_rf01']

Diffing command: python3 run_scripts/run_bindiff_all.py

=============================== Running Test ===============================

Parsing message from commit: af35e5202409ab58c575e8d2841f59d31ba80c94
Parsing message from commit: 5b5bf5f74f30e0332db965215e3de5e6baf72d6e
Parsing message from commit: 77b73e25b7c54c85e9714178efbd6dc893834dc5

Checking Commit: af35e5202409ab58c575e8d2841f59d31ba80c94
	Skipping: not final commit and not labelled BIT_CHANGING

Checking Commit: 5b5bf5f74f30e0332db965215e3de5e6baf72d6e
	Skipping: not final commit and not labelled BIT_CHANGING

Checking Commit: 77b73e25b7c54c85e9714178efbd6dc893834dc5
	Running: final commit to check, not labelled BIT_CHANGING
	Checking out 77b73e25b7c54c85e9714178efbd6dc893834dc5
	Running: 'python compile.py -debug'
	Running: 'rm -rf output'
	Running: 'mkdir output'
	Running: 'python run_scripts/run_scm.py -config compatible_r8029 bomex'
	Running: 'python run_scripts/run_scm.py -config compatible_r8029 dycoms2_rf01'
	Checking out 17b29a7e938300692cec5c6c7e78aae7b9578568
	Running: 'python compile.py -debug'
	Running: 'rm -rf output'
	Running: 'mkdir output'
	Running: 'python run_scripts/run_scm.py -config compatible_r8029 bomex'
	Running: 'python run_scripts/run_scm.py -config compatible_r8029 dycoms2_rf01'
	Diffing: 'python3 run_scripts/run_bindiff_all.py 77b73e25b7c54c85e9714178efbd6dc893834dc5 17b29a7e938300692cec5c6c7e78aae7b9578568'

=============================== Test Results ===============================

Commit Range Checked = 17b29a7e938300692cec5c6c7e78aae7b9578568...77b73e25b7c54c85e9714178efbd6dc893834dc5

No new Unresolved commits found.

No fake BIT_CHANGING commits found.

No remaining Unresolved Commits.

=============================== Updating Config File ===============================


Saving into UnresolvedCommits: 

Saving into BaselineCommit: 77b73e25b7c54c85e9714178efbd6dc893834dc5

=============================== Cleanup ===============================

Removing all generated output
	REMOVING: 17b29a7e938300692cec5c6c7e78aae7b9578568
	REMOVING: 77b73e25b7c54c85e9714178efbd6dc893834dc5

================== Unresolved Commit Status ==================

No remaining Unresolved Commits.

Exiting with code: 0
</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="11">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="23" startId="10">[Pipeline] // withEnv
</span><span class="pipeline-new-node" nodeId="24" startId="4">[Pipeline] }
</span><span class="pipeline-new-node" nodeId="25" startId="3">[Pipeline] // node
</span><span class="pipeline-new-node" nodeId="26" startId="2">[Pipeline] End of Pipeline
</span>Finished: SUCCESS