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 Still waiting to schedule task Waiting for next available executor Running on nelson in /home/jenkins/workspace/clubb_plot_ifort_debug [Pipeline] { [Pipeline] stage [Pipeline] { (Declarative: Checkout SCM) [Pipeline] checkout The recommended git tool is: git Fetching changes from the remote Git repository Cleaning workspace > git rev-parse --resolve-git-dir /home/jenkins/workspace/clubb_plot_ifort_debug/.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 2.34.1' > git fetch --tags --force --progress -- https://github.com/larson-group/clubb.git +refs/heads/*:refs/remotes/origin/* # timeout=10 Checking out Revision 475e7687de4f2ba141334ba0046a2175b611eb75 (refs/remotes/origin/master) Commit message: "Adding -fresh flag to compile.py to remove the previous build before compiling" > git rev-parse refs/remotes/origin/master^{commit} # timeout=10 > git config core.sparsecheckout # timeout=10 > git checkout -f 475e7687de4f2ba141334ba0046a2175b611eb75 # timeout=10 > git rev-list --no-walk adfc58ffc5ad4d9bef00fc5e766b6d5a52079d8e # 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 "$-" in +++ __lmod_vx=x +++ '[' -n x ']' +++ set +x Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for this output (/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/init/bash) Shell debugging restarted +++ unset __lmod_vx +++ find /usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core -print -quit ++ export MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core ++ MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core + module load intel netcdf-fortran + '[' -z '' ']' + case "$-" 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-skylake_avx512/gcc-12.2.0/intel-oneapi-compilers-2023.2.0-od6qbkw4h7zydnyvjahatxrprimcyseq/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-skylake_avx512/gcc-12.2.0/intel-oneapi-compilers-2023.2.0-od6qbkw4h7zydnyvjahatxrprimcyseq/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-skylake_avx512/gcc-12.2.0/intel-oneapi-compilers-2023.2.0-od6qbkw4h7zydnyvjahatxrprimcyseq/compiler/2023.2.0/linux/bin/icpx - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Compiling with double precision -- Found PkgConfig: /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/pkgconf-2.2.0-m7jt4djj7ycrz7g6yadslcm2qmulsagd/bin/pkg-config (found version "2.2.0") -- Checking for module 'netcdf-fortran' -- Found netcdf-fortran, version 4.5.3 -- netcdf-fortran found via pkg-config -- Include dirs: /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-vnle5nytdsohpf3fkn6waiuu5mcv5t6g/include;/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-c-4.9.2-mrmfc7travjahj5qigj26qtr5jqutebk/include -- Libraries: netcdff -- Derived NetCDFFortran_ROOT = /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-vnle5nytdsohpf3fkn6waiuu5mcv5t6g -- Configuring done -- Generating done -- 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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src/Microphys/CMakeFiles/microphys_lib.dir/mixed_moment_PDF_integrals.F90.o [ 95%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/advance_microphys_module.F90.o [ 95%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/coamps_microphys_driver_module.F90.o [ 95%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/morrison_microphys_module.F90.o [ 96%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/microphys_init_cleanup.F90.o [ 96%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/pdf_hydromet_microphys_wrapper.F90.o [ 96%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/KK_microphys_module.F90.o [ 96%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/estimate_scm_microphys_module.F90.o [ 96%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/lh_microphys_driver_module.F90.o [ 97%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/microphys_driver.F90.o [ 98%] Linking Fortran static library libmicrophys_lib.a [ 98%] Built target microphys_lib Scanning dependencies of target clubb_driver_lib [ 99%] Building Fortran object src/CMakeFiles/clubb_driver_lib.dir/generalized_grid_test.F90.o [ 99%] Building Fortran object src/CMakeFiles/clubb_driver_lib.dir/clubb_driver.F90.o [ 99%] Linking Fortran static library libclubb_driver_lib.a [ 99%] Built target clubb_driver_lib Scanning dependencies of target clubb_tuner Scanning dependencies of target clubb_driver_test Scanning dependencies of target clubb_standalone Scanning dependencies of target clubb_thread_test [ 99%] Building Fortran object src/CMakeFiles/clubb_tuner.dir/error.F90.o [ 99%] Building Fortran object src/CMakeFiles/clubb_standalone.dir/clubb_standalone.F90.o [100%] Building Fortran object src/CMakeFiles/clubb_thread_test.dir/clubb_thread_test.F90.o [100%] Building Fortran object src/CMakeFiles/clubb_driver_test.dir/clubb_driver_test.F90.o [100%] Linking Fortran executable clubb_thread_test [100%] Linking Fortran executable clubb_driver_test [100%] Linking Fortran executable clubb_standalone [100%] Building Fortran object src/CMakeFiles/clubb_tuner.dir/clubb_tuner.F90.o [100%] Linking Fortran executable clubb_tuner [100%] Built target clubb_thread_test [100%] Built target clubb_standalone [100%] Built target clubb_driver_test [100%] Built target clubb_tuner 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 "/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-vnle5nytdsohpf3fkn6waiuu5mcv5t6g:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-vnle5nytdsohpf3fkn6waiuu5mcv5t6g/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 "/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-vnle5nytdsohpf3fkn6waiuu5mcv5t6g:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-vnle5nytdsohpf3fkn6waiuu5mcv5t6g/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 "/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-vnle5nytdsohpf3fkn6waiuu5mcv5t6g:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-vnle5nytdsohpf3fkn6waiuu5mcv5t6g/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 "/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-vnle5nytdsohpf3fkn6waiuu5mcv5t6g:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-vnle5nytdsohpf3fkn6waiuu5mcv5t6g/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 "/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-vnle5nytdsohpf3fkn6waiuu5mcv5t6g:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-vnle5nytdsohpf3fkn6waiuu5mcv5t6g/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 [92mBuild completed successfully, and all source code checks passed.[0m [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 -- cgils_s11 COMPLETE -- dycoms2_rf02_so COMPLETE -- fire 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 -- gabls3 COMPLETE -- rico_silhs COMPLETE -- lba 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_475e768 + 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_475e768 cur_out/cpu_adfc58f -o 475e768_vs_master_adfc58f ******************************************* 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. ---------- Progress: 0 of ? total .png panels complete Progress: 25 of 204 total .png panels complete Progress: 29 of 204 total .png panels complete Progress: 34 of 204 total .png panels complete Progress: 38 of 204 total .png panels complete Progress: 42 of 204 total .png panels complete Progress: 47 of 204 total .png panels complete Progress: 51 of 204 total .png panels complete Progress: 56 of 204 total .png panels complete Progress: 59 of 265 total .png panels complete Progress: 63 of 265 total .png panels complete Progress: 69 of 265 total .png panels complete Progress: 76 of 348 total .png panels complete Progress: 82 of 348 total .png panels complete Progress: 86 of 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of 1973 total .png panels complete Progress: 1973 of 1973 total .png panels complete ------------------------------------------- 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/475e768_vs_master_adfc58f/index.html with a web browser Pyplotgen ran in 101 seconds. See error.log in the output folder for detailed info including warnings. error.log messages include: 26-04-08 04:39:55.225 proc_id: 2996983 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 475e768_vs_master_adfc58f 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_475e768 cur_out [Pipeline] sh + echo 475e768 [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