Started by an SCM change
Obtained jenkins_tests/clubb_plot_ifort_debug/Jenkinsfile from git https://github.com/larson-group/clubb.git
[Pipeline] Start of Pipeline
[Pipeline] node
Running on Jenkins in /home/jenkins/workspace/clubb_plot_ifort_debug
[Pipeline] {
[Pipeline] stage
[Pipeline] { (Declarative: Checkout SCM)
[Pipeline] checkout
The recommended git tool is: git
 > git rev-parse --resolve-git-dir /home/jenkins/workspace/clubb_plot_ifort_debug/.git # timeout=10
Fetching changes from the remote Git repository
 > git config remote.origin.url https://github.com/larson-group/clubb.git # timeout=10
Cleaning workspace
 > 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 2.34.1'
 > 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
Checking out Revision 2fe6e56761356da5b20a7fba14c72ec69fdc9d02 (refs/remotes/origin/master)
 > git config core.sparsecheckout # timeout=10
 > git checkout -f 2fe6e56761356da5b20a7fba14c72ec69fdc9d02 # timeout=10
Commit message: "Switching default call to advance_clubb_core in python and jax drivers to use the python api version, rather than the python ported version."
 > git rev-list --no-walk 5e3cfdd6efddf098dbddb41a5848e3ef4189aac8 # timeout=10
[Pipeline] }
[Pipeline] // stage
[Pipeline] withEnv
[Pipeline] {
[Pipeline] withEnv
[Pipeline] {
[Pipeline] stage
[Pipeline] { (Compile)
[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 "$-" in
+++ __lmod_vx=x
+++ '[' -n x ']'
+++ set +x
Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for this output (/usr/local/spack/opt/spack/linux-pop22-cascadelake/gcc-12.2.0/lmod-8.7.37-bi3kyxcdrfgw3y7vv2k7c5rjxg75qzju/lmod/lmod/init/bash)
Shell debugging restarted
+++ unset __lmod_vx
+++ find /usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core -print -quit
++ export MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core
++ MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core
+ module load intel netcdf-fortran
+ '[' -z '' ']'
+ case "$-" in
+ __lmod_sh_dbg=x
+ '[' -n x ']'
+ set +x
Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for Lmod's output
Shell debugging restarted
+ unset __lmod_sh_dbg
+ return 0
+ ./compile.py -debug
-- The Fortran compiler identification is IntelLLVM 2023.2.0
-- The C compiler identification is IntelLLVM 2023.2.0
-- The CXX compiler identification is IntelLLVM 2023.2.0
-- Detecting Fortran compiler ABI info
-- Detecting Fortran compiler ABI info - done
-- Check for working Fortran compiler: /usr/local/spack/opt/spack/linux-pop22-cascadelake/gcc-12.2.0/intel-oneapi-compilers-2023.2.0-fmyvemnurthfcavvd7ujk6wskls73vdp/compiler/2023.2.0/linux/bin/ifx - skipped
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/local/spack/opt/spack/linux-pop22-cascadelake/gcc-12.2.0/intel-oneapi-compilers-2023.2.0-fmyvemnurthfcavvd7ujk6wskls73vdp/compiler/2023.2.0/linux/bin/icx - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/local/spack/opt/spack/linux-pop22-cascadelake/gcc-12.2.0/intel-oneapi-compilers-2023.2.0-fmyvemnurthfcavvd7ujk6wskls73vdp/compiler/2023.2.0/linux/bin/icpx - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Compiling with double precision
-- Performing Test NETCDF_ABI_COMPATIBLE
-- Performing Test NETCDF_ABI_COMPATIBLE - Success
-- SUCCESS: netcdf-fortran found.
--   -> Library : /usr/local/spack/opt/spack/linux-pop22-cascadelake/oneapi-2023.2.0/netcdf-fortran-4.5.3-dse32dm7kmsorqtyicefw5hz4kl24mhf/lib/libnetcdff.so
--   -> Modules : /usr/local/spack/opt/spack/linux-pop22-cascadelake/oneapi-2023.2.0/netcdf-fortran-4.5.3-dse32dm7kmsorqtyicefw5hz4kl24mhf/include
-- Configuring done
-- Generating done
CMake Warning:
  Manually-specified variables were not used by the project:

    NetCDF_C_INCLUDE_DIR
    NetCDF_C_LIBRARY
    NetCDF_Fortran_INCLUDE_DIR
    NetCDF_Fortran_LIBRARY


-- Build files have been written to: /home/jenkins/workspace/clubb_plot_ifort_debug/build/intel_DEBUG_PRECdouble
Using inferred toolchain file: /home/jenkins/workspace/clubb_plot_ifort_debug/cmake/toolchains/linux_x86_64_intel.cmake
Setting CLUBB installation dir: /home/jenkins/workspace/clubb_plot_ifort_debug/build/intel_DEBUG_PRECdouble
Setting CLUBB installation dir: /home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble
about to cmnake /home/jenkins/workspace/clubb_plot_ifort_debug/build/intel_DEBUG_PRECdouble
Running CMake configure...
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/home/jenkins/workspace/clubb_plot_ifort_debug/src/SILHS/silhs_importance_sample_module.F90(901): warning #5462: Global name too long, shortened from: silhs_importance_sample_moduleeight_cluster_allocation_mp_NUM_CATEGORIES_IN_CLUSTER to: s_importance_sample_moduleeight_cluster_allocation_mp_NUM_CATEGORIES_IN_CLUSTER
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[872/915] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/prescribe_forcings.F90.o
[873/915] Linking Fortran static library src/Benchmark_cases/libbenchmark_cases_lib.a
[874/915] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/rev_direction_grid_test.F90.o
[875/915] Linking Fortran static library src/G_unit_test_types/libG_unit_test_lib.a
[876/915] Building Fortran object src/Microphys/Morrison_microphys/CMakeFiles/morrison_microphys_lib.dir/module_mp_graupel.F90.o
[877/915] Linking Fortran static library src/Microphys/Morrison_microphys/libmorrison_microphys_lib.a
[878/915] Generating Fortran dyndep file src/Microphys/CMakeFiles/microphys_lib.dir/Fortran.dd
[879/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/parameters_microphys.F90.o
[880/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/cloud_sed_module.F90.o
[881/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/silhs_category_variance_module.F90.o
[882/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/ice_dfsn_module.F90.o
[883/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/gfdl_activation.F90.o
[884/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/mixed_moment_PDF_integrals.F90.o
[885/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/pdf_hydromet_microphys_wrapper.F90.o
/home/jenkins/workspace/clubb_plot_ifort_debug/src/Microphys/pdf_hydromet_microphys_wrapper.F90(15): remark #7712: This variable has not been used.   [DT_MAIN]
               itime, dt_main, vert_decorr_coef,                & ! In
----------------------^
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[887/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/advance_microphys_module.F90.o
[888/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/KK_microphys_module.F90.o
[889/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/estimate_scm_microphys_module.F90.o
[890/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/lh_microphys_driver_module.F90.o
[891/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/morrison_microphys_module.F90.o
[892/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/coamps_microphys_driver_module.F90.o
[893/915] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/microphys_driver.F90.o
[894/915] Linking Fortran static library src/Microphys/libmicrophys_lib.a
[895/915] Generating Fortran dyndep file src/CMakeFiles/clubb_driver_lib.dir/Fortran.dd
[896/915] Generating Fortran dyndep file src/CMakeFiles/G_unit_tests.dir/Fortran.dd
[897/915] Building Fortran object src/CMakeFiles/G_unit_tests.dir/G_unit_tests.F90.o
[898/915] Linking Fortran executable src/G_unit_tests
[899/915] Building Fortran object src/CMakeFiles/clubb_driver_lib.dir/generalized_grid_test.F90.o
[900/915] Building Fortran object src/CMakeFiles/clubb_driver_lib.dir/clubb_driver.F90.o
[901/915] Linking Fortran static library src/libclubb_driver_lib.a
[902/915] Generating Fortran dyndep file src/CMakeFiles/clubb_standalone.dir/Fortran.dd
[903/915] Generating Fortran dyndep file src/CMakeFiles/clubb_thread_test.dir/Fortran.dd
[904/915] Generating Fortran dyndep file src/CMakeFiles/clubb_driver_test.dir/Fortran.dd
[905/915] Generating Fortran dyndep file src/CMakeFiles/clubb_tuner.dir/Fortran.dd
[906/915] Building Fortran object src/CMakeFiles/clubb_thread_test.dir/clubb_thread_test.F90.o
[907/915] Building Fortran object src/CMakeFiles/clubb_standalone.dir/clubb_standalone.F90.o
[908/915] Building Fortran object src/CMakeFiles/clubb_driver_test.dir/clubb_driver_test.F90.o
[909/915] Building Fortran object src/CMakeFiles/clubb_tuner.dir/error.F90.o
[910/915] Building Fortran object src/CMakeFiles/clubb_tuner.dir/clubb_tuner.F90.o
[911/915] Linking Fortran executable src/clubb_driver_test
[912/915] Linking Fortran executable src/clubb_thread_test
[913/915] Linking Fortran executable src/clubb_standalone
[914/915] Linking Fortran executable src/clubb_tuner
[914/915] Install the project...
-- Install configuration: "Debug"
-- Installing: /home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/libclubb_driver_lib.a
-- Installing: /home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/clubb_tuner
-- Set runtime path of "/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/clubb_tuner" to "/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-cascadelake/oneapi-2023.2.0/netcdf-fortran-4.5.3-dse32dm7kmsorqtyicefw5hz4kl24mhf/lib"
-- Installing: /home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/G_unit_tests
-- Set runtime path of "/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/G_unit_tests" to "/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-cascadelake/oneapi-2023.2.0/netcdf-fortran-4.5.3-dse32dm7kmsorqtyicefw5hz4kl24mhf/lib"
-- Installing: /home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/clubb_thread_test
-- Set runtime path of "/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/clubb_thread_test" to "/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-cascadelake/oneapi-2023.2.0/netcdf-fortran-4.5.3-dse32dm7kmsorqtyicefw5hz4kl24mhf/lib"
-- Installing: /home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/clubb_standalone
-- Set runtime path of "/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/clubb_standalone" to "/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-cascadelake/oneapi-2023.2.0/netcdf-fortran-4.5.3-dse32dm7kmsorqtyicefw5hz4kl24mhf/lib"
-- Installing: /home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/clubb_driver_test
-- Set runtime path of "/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/clubb_driver_test" to "/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_plot_ifort_debug/install/intel_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-cascadelake/oneapi-2023.2.0/netcdf-fortran-4.5.3-dse32dm7kmsorqtyicefw5hz4kl24mhf/lib"
CLUBBStandardsCheck.py: beginning check on src
PASS: 0 checks failed for src
CLUBBStandardsCheck.py: beginning check on src/CLUBB_core
PASS: 0 checks failed for src/CLUBB_core
CLUBBStandardsCheck.py: beginning check on src/SILHS
PASS: 0 checks failed for src/SILHS
CLUBBStandardsCheck.py: beginning check on src/Benchmark_cases
PASS: 0 checks failed for src/Benchmark_cases
CLUBBStandardsCheck.py: beginning check on src/Radiation
PASS: 0 checks failed for src/Radiation
CLUBBStandardsCheck.py: beginning check on src/Microphys
PASS: 0 checks failed for src/Microphys
CLUBBStandardsCheck.py: beginning check on src/Microphys/KK_microphys
PASS: 0 checks failed for src/Microphys/KK_microphys
CLUBBStandardsCheck.py: beginning check on src/G_unit_test_types
PASS: 0 checks failed for src/G_unit_test_types

Build completed successfully, and all source code checks passed.
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Run)
[Pipeline] sh
+ run_scripts/run_scm_all.py
Performing standard run
Using 8 process(es)
Cases to run: arm, arm_97, astex_a209, atex, bomex, cgils_s6, cgils_s11, cgils_s12, clex9_nov02, clex9_oct14, dycoms2_rf01, dycoms2_rf01_fixed_sst, dycoms2_rf02_do, dycoms2_rf02_ds, dycoms2_rf02_nd, dycoms2_rf02_so, fire, gabls2, gabls3, gabls3_night, jun25_altocu, lba, mc3e, mpace_a, mpace_b, mpace_b_silhs, nov11_altocu, rico, rico_silhs, twp_ice, wangara
COMPLETE -- bomex
COMPLETE -- atex
COMPLETE -- arm
COMPLETE -- clex9_nov02
COMPLETE -- dycoms2_rf01_fixed_sst
COMPLETE -- dycoms2_rf01
COMPLETE -- clex9_oct14
COMPLETE -- dycoms2_rf02_nd
COMPLETE -- dycoms2_rf02_do
COMPLETE -- dycoms2_rf02_so
COMPLETE -- fire
COMPLETE -- cgils_s11
COMPLETE -- cgils_s12
COMPLETE -- dycoms2_rf02_ds
COMPLETE -- astex_a209
COMPLETE -- cgils_s6
COMPLETE -- jun25_altocu
COMPLETE -- gabls3_night
COMPLETE -- mpace_b
COMPLETE -- mpace_b_silhs
COMPLETE -- nov11_altocu
COMPLETE -- rico
COMPLETE -- lba
COMPLETE -- gabls3
COMPLETE -- rico_silhs
COMPLETE -- wangara
COMPLETE -- gabls2
COMPLETE -- twp_ice
COMPLETE -- mpace_a
COMPLETE -- arm_97
COMPLETE -- mc3e

=================== Runs Complete ===================
All cases ran to completion.
+ mv output cpu_2fe6e56
+ mkdir output
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Plot)
[Pipeline] sh
+ scp -r carson:/home/pub/web_plots/clubb_ifort_plots/master/cur_out .
[Pipeline] sh
++ cat cur_out/commit
+ python postprocessing/pyplotgen/pyplotgen.py -l -c cpu_2fe6e56 cur_out/cpu_5e3cfdd -o 2fe6e56_vs_master_5e3cfdd
*******************************************
Welcome to PyPlotGen.
*******************************************
                                           
Checking for model benchmark output...
Benchmark output found in /home/pub/les_and_clubb_benchmark_runs/.
-------------------------------------------
Running...
----------
NOTE: If processing multiple cases (ARM, BOMEX, etc.) with multithreading,
the total number of panels to be processed may increase as threads complete
and begin processing new cases.
----------

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-------------------------------------------
ARM: SUCCESS --> Images found.
ARM_97: SUCCESS --> Images found.
ASTEX_A209: SUCCESS --> Images found.
ATEX: SUCCESS --> Images found.
BOMEX: SUCCESS --> Images found.
CGILS_S11: SUCCESS --> Images found.
CGILS_S12: SUCCESS --> Images found.
CGILS_S6: SUCCESS --> Images found.
CLEX9_NOV02: SUCCESS --> Images found.
CLEX9_OCT14: SUCCESS --> Images found.
DYCOMS2_RF01: SUCCESS --> Images found.
DYCOMS2_RF01_FIXED_SST: SUCCESS --> Images found.
DYCOMS2_RF02_DO: SUCCESS --> Images found.
DYCOMS2_RF02_DS: SUCCESS --> Images found.
DYCOMS2_RF02_ND: SUCCESS --> Images found.
DYCOMS2_RF02_SO: SUCCESS --> Images found.
FIRE: SUCCESS --> Images found.
GABLS2: SUCCESS --> Images found.
GABLS2_NIGHTLY: SUCCESS --> Images found.
GABLS3: SUCCESS --> Images found.
GABLS3_NIGHT: SUCCESS --> Images found.
JUN25_ALTOCU: SUCCESS --> Images found.
LBA: SUCCESS --> Images found.
MC3E: SUCCESS --> Images found.
MPACE_A: SUCCESS --> Images found.
MPACE_B: SUCCESS --> Images found.
MPACE_B_SILHS: SUCCESS --> Images found.
NOV11_ALTOCU: SUCCESS --> Images found.
RICO: SUCCESS --> Images found.
RICO_SILHS: SUCCESS --> Images found.
TWP_ICE: SUCCESS --> Images found.
WANGARA: SUCCESS --> Images found.
-------------------------------------------
Output can be viewed at file:///home/jenkins/workspace/clubb_plot_ifort_debug/2fe6e56_vs_master_5e3cfdd/index.html with a web browser
Pyplotgen ran in 78 seconds.
See error.log in the output folder for detailed info including warnings.

error.log messages include:

26-05-08 04:15:15.188 proc_id: 3767340	Warning, unknown model detected. PyPlotgen doesn't know where this netcdf dependent_data is from. <class 'netCDF4._netCDF4.Dataset'>

[Pipeline] sh
+ ssh carson 'mkdir -p /home/pub/web_plots/clubb_ifort_plots/master'
[Pipeline] sh
+ scp -r 2fe6e56_vs_master_5e3cfdd carson:/home/pub/web_plots/clubb_ifort_plots/master
[Pipeline] sh
+ ssh carson '/home/pub/web_plots/generate_plot_directory_page.py /home/pub/web_plots/clubb_ifort_plots/'
/home/pub/web_plots/clubb_ifort_plots/ updated successfully.
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Update Master Output)
[Pipeline] sh
+ rm -rf cur_out
[Pipeline] sh
+ mkdir cur_out
[Pipeline] sh
+ mv cpu_2fe6e56 cur_out
[Pipeline] sh
+ echo 2fe6e56
[Pipeline] sh
+ ssh carson 'rm -rf /home/pub/web_plots/clubb_ifort_plots/master/cur_out'
[Pipeline] sh
+ scp -r cur_out carson:/home/pub/web_plots/clubb_ifort_plots/master/
[Pipeline] }
[Pipeline] // stage
[Pipeline] }
[Pipeline] // withEnv
[Pipeline] }
[Pipeline] // withEnv
[Pipeline] }
[Pipeline] // node
[Pipeline] End of Pipeline
Finished: SUCCESS