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Started by user Gunther Huebler
Obtained jenkins_tests/clubb_BFB_e3sm_flags_gfortran_test/Jenkinsfile from git https://github.com/larson-group/clubb.git
[Pipeline] Start of Pipeline
[Pipeline] node
Running on malan in /home/jenkins/workspace/clubb_BFB_e3sm_flags_gfortran_test
[Pipeline] {
[Pipeline] stage
[Pipeline] { (Declarative: Checkout SCM)
[Pipeline] checkout
The recommended git tool is: git
Fetching changes from the remote Git repository
Cleaning workspace
Checking out Revision 2651012ea532b1d38ef6006d7457571806e34908 (refs/remotes/origin/master)
Commit message: "Small improvements to bindiff script."
 > git rev-parse --resolve-git-dir /home/jenkins/workspace/clubb_BFB_e3sm_flags_gfortran_test/.git # timeout=10
 > git config remote.origin.url https://github.com/larson-group/clubb.git # timeout=10
 > 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/clubb.git
 > git --version # timeout=10
 > git --version # 'git version 2.30.2'
 > git fetch --tags --force --progress -- https://github.com/larson-group/clubb.git +refs/heads/*:refs/remotes/origin/* # timeout=10
 > git rev-parse refs/remotes/origin/master^{commit} # timeout=10
 > git config core.sparsecheckout # timeout=10
 > git checkout -f 2651012ea532b1d38ef6006d7457571806e34908 # timeout=10
 > git rev-list --no-walk 0bb668e3a21dce9af466abc9f0e747fbb7b36eab # 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
hint: Pulling without specifying how to reconcile divergent branches is
hint: discouraged. You can squelch this message by running one of the following
hint: commands sometime before your next pull:
hint: 
hint:   git config pull.rebase false  # merge (the default strategy)
hint:   git config pull.rebase true   # rebase
hint:   git config pull.ff only       # fast-forward only
hint: 
hint: You can replace "git config" with "git config --global" to set a default
hint: preference for all repositories. You can also pass --rebase, --no-rebase,
hint: or --ff-only on the command line to override the configured default per
hint: invocation.
From https://github.com/larson-group/sys_admin
   bde28f6..a563882  master     -> origin/master
Updating bde28f6..a563882
Fast-forward
 python_nightly_test_suite/tests/bit_diff_test.py | 4 ++++
 1 file changed, 4 insertions(+)
[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 "$-" in
+++ __lmod_vx=x
+++ '[' -n x ']'
+++ set +x
Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for this output (/usr/local/spack/opt/spack/linux-pop21-skylake_avx512/gcc-12.2.0/lmod-8.7.37-d6vyrvvncsuguygovgvimahv5kfyaunp/lmod/lmod/init/bash)
Shell debugging restarted
+++ unset __lmod_vx
+++ find /usr/local/spack/share/spack/lmod/linux-pop21-x86_64/Core -print -quit
++ export MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop21-x86_64/Core
++ MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop21-x86_64/Core
+ module load gcc netcdf-fortran
+ '[' -z '' ']'
+ case "$-" 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-eheq3uy (required by: mpich/4.2.1, hdf5/1.14.3-2o6xqva,
netcdf-c/4.9.2, netcdf-fortran/4.5.3), glibc/2.33-3y65nib (required by:
mpich/4.2.1, hdf5/1.14.3-2o6xqva, 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_e3sm_flags_gfortran_test_config

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


Working directory set to: /home/jenkins/workspace/clubb_BFB_e3sm_flags_gfortran_test
Checking specified repo: /home/jenkins/workspace/clubb_BFB_e3sm_flags_gfortran_test

Using /home/jenkins/workspace/clubb_BFB_e3sm_flags_gfortran_test with origin https://github.com/larson-group/clubb.git

Output Save Mode: none

Using branch: master

Making list from 'UnresolvedCommits':

CheckRange = True: Getting commit range

Run Output Path: output

Run commands: ['compile/compile.bash', '\nrm -rf output', '\nmkdir output', '\nmv input/tunable_parameters_e3sm/configurable_model_flags.in input/tunable_parameters', '\nrun_scripts/run_scm_all.bash --min-cases']

Diffing command: run_scripts/run_bindiff_all.py

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

Parsing message from commit: 63d63ba7a3755fa87c6c9aeae24e60a9c2f1fe22
Parsing message from commit: f2ae5b70703e3a86d145983b4fea098cbb8925a3
Parsing message from commit: 75fd9262981e736aed8bc8995ec4f2c88bd03d12
Parsing message from commit: ec720a8fe4132c9af37967fd3060080097b13182

Checking Commit: 63d63ba7a3755fa87c6c9aeae24e60a9c2f1fe22
	Skipping: not final commit and not labelled BIT_CHANGING

Checking Commit: f2ae5b70703e3a86d145983b4fea098cbb8925a3
	Skipping: not final commit and not labelled BIT_CHANGING

Checking Commit: 75fd9262981e736aed8bc8995ec4f2c88bd03d12
	Skipping: not final commit and not labelled BIT_CHANGING

Checking Commit: ec720a8fe4132c9af37967fd3060080097b13182
	Running: final commit to check, not labelled BIT_CHANGING

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

Commit Range Checked = ec720a8fe4132c9af37967fd3060080097b13182...ec720a8fe4132c9af37967fd3060080097b13182

No new Unresolved commits found.

No fake BIT_CHANGING commits found.

No remaining Unresolved Commits.

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


Saving into UnresolvedCommits: 
Ignoring ec720a8fe4132c9af37967fd3060080097b13182 since it failed to produce output.
Ignoring 75fd9262981e736aed8bc8995ec4f2c88bd03d12 since it failed to produce output.
Ignoring f2ae5b70703e3a86d145983b4fea098cbb8925a3 since it failed to produce output.
Ignoring 63d63ba7a3755fa87c6c9aeae24e60a9c2f1fe22 since it failed to produce output.

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

Removing all generated output

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

No remaining Unresolved Commits.

Exiting with code: 0
[Pipeline] }
[Pipeline] // stage
[Pipeline] }
[Pipeline] // withEnv
[Pipeline] }
[Pipeline] // node
[Pipeline] End of Pipeline
Finished: SUCCESS