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CLUBB-TIMER time_loop_init =             0.1539
CLUBB-TIMER time_clubb_advance =         3.8775
CLUBB-TIMER time_clubb_pdf =             0.0024
CLUBB-TIMER time_SILHS =                 0.0020
CLUBB-TIMER time_microphys_scheme =      0.0000
CLUBB-TIMER time_microphys_advance =     0.0000
CLUBB-TIMER time_loop_end =              0.0000
CLUBB-TIMER time_adapt_grid =            0.0000
CLUBB-TIMER time_total =                 8.0622
 Program exited normally
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (cmake 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 "$-" in
+++ __lmod_vx=x
+++ '[' -n x ']'
+++ set +x
Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for this output (/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-fq24mybyn2li6got2bxzk62ejh5d3p4z/lmod/lmod/init/bash)
Shell debugging restarted
+++ unset __lmod_vx
+++ find /usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core -print -quit
++ export MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core
++ MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core
+ module load intel netcdf-fortran
+ '[' -z '' ']'
+ case "$-" 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
+ python compile.py
-- 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
-- Performing Test NETCDF_ABI_COMPATIBLE
-- Performing Test NETCDF_ABI_COMPATIBLE - Success
-- SUCCESS: netcdf-fortran found.
--   -> Library : /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-inkjvmgdy5ao7uwihl6lzsnlpstmyoyt/lib/libnetcdff.so
--   -> Modules : /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-inkjvmgdy5ao7uwihl6lzsnlpstmyoyt/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_cmake_output_matching/build/intel_PRECdouble
Using inferred toolchain file: /home/jenkins/workspace/clubb_cmake_output_matching/cmake/toolchains/linux_x86_64_intel.cmake
Setting CLUBB installation dir: /home/jenkins/workspace/clubb_cmake_output_matching/build/intel_PRECdouble
Setting CLUBB installation dir: /home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble
about to cmnake /home/jenkins/workspace/clubb_cmake_output_matching/build/intel_PRECdouble
Running CMake configure...
Scanning dependencies of target scm_activation_lib
Scanning dependencies of target clubb_lapack_single
[  0%] Building Fortran object src/Microphys/SCM_Activation/CMakeFiles/scm_activation_lib.dir/aer_ccn_act_k.F90.o
Scanning dependencies of target clubb_lapack_shared
[  0%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/ilaslc.f.o
[  1%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/ilaslr.f.o
[  1%] Building Fortran object src/Lapack/Lapack_shared/CMakeFiles/clubb_lapack_shared.dir/lsame.f.o
[  1%] Building Fortran object src/Lapack/Lapack_shared/CMakeFiles/clubb_lapack_shared.dir/xerbla.f.o
[  1%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/isamax.f.o
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[  1%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sasum.f.o
[  1%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dasum.f.o
[  2%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/daxpy.f.o
[  2%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/saxpy.f.o
[  2%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/scopy.f.o
[  2%] Built target clubb_lapack_shared
[  3%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sdot.f.o
[  3%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbcon.f.o
[  3%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbequ.f.o
[  3%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dcopy.f.o
[  3%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/ddot.f.o
[  3%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbmv.f.o
[  3%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbcon.f.o
[  3%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbsv.f.o
[  4%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbrfs.f.o
[  5%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbequ.f.o
[  5%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbmv.f.o
[  5%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbsvx.f.o
[  5%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbrfs.f.o
[  5%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbtf2.f.o
[  5%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbtrf.f.o
[  6%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbtrs.f.o
[  6%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbsv.f.o
[  6%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgemm.f.o
[  6%] Linking Fortran static library libscm_activation_lib.a
[  6%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbsvx.f.o
[  7%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbtf2.f.o
[  7%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgemv.f.o
[  7%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbtrf.f.o
[  7%] Built target scm_activation_lib
[  7%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbtrs.f.o
[  7%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sger.f.o
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[  7%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgemm.f.o
[  8%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgemv.f.o
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[  9%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgtsvx.f.o
[  9%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgttrf.f.o
[  9%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dger.f.o
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[ 10%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgtcon.f.o
[ 10%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgtts2.f.o
[ 10%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgtrfs.f.o
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/home/jenkins/workspace/clubb_cmake_output_matching/src/CLUBB_core/advance_windm_edsclrm_module.F90(50): remark #7712: This variable has not been used.   [ORDER_XP2_XPYP]
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/home/jenkins/workspace/clubb_cmake_output_matching/src/CLUBB_core/advance_windm_edsclrm_module.F90(50): remark #7712: This variable has not been used.   [ORDER_WP2_WP3]
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----------------------------------------------------^
/home/jenkins/workspace/clubb_cmake_output_matching/src/CLUBB_core/advance_windm_edsclrm_module.F90(50): remark #7712: This variable has not been used.   [ORDER_WINDM]
                                    order_xp2_xpyp, order_wp2_wp3, order_windm, &
-------------------------------------------------------------------^
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/home/jenkins/workspace/clubb_cmake_output_matching/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
      num_categories_in_cluster = (/ 1, 1, 1, 1, 1, 1, 1, 1 /)
------^
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[ 95%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/twp_ice.F90.o
[ 95%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/arm.F90.o
[ 95%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/arm_0003.F90.o
[ 95%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/arm_3year.F90.o
[ 96%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/arm_97.F90.o
[ 96%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/astex_a209.F90.o
[ 96%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/atex.F90.o
[ 96%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/atex_long.F90.o
[ 96%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/estimate_scm_microphys_module.F90.o
[ 96%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/prescribe_forcings.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
[ 97%] Linking Fortran static library libbenchmark_cases_lib.a
[ 97%] Built target benchmark_cases_lib
[ 97%] Linking Fortran static library libG_unit_test_lib.a
[ 97%] Built target G_unit_test_lib
[ 98%] Linking Fortran static library libmicrophys_lib.a
[ 98%] Built target microphys_lib
Scanning dependencies of target G_unit_tests
Scanning dependencies of target clubb_driver_lib
[ 98%] Building Fortran object src/CMakeFiles/G_unit_tests.dir/G_unit_tests.F90.o
[ 99%] Building Fortran object src/CMakeFiles/clubb_driver_lib.dir/generalized_grid_test.F90.o
[ 99%] Linking Fortran executable G_unit_tests
[ 99%] Built target G_unit_tests
[ 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_standalone
Scanning dependencies of target clubb_driver_test
Scanning dependencies of target clubb_thread_test
[ 99%] Building Fortran object src/CMakeFiles/clubb_standalone.dir/clubb_standalone.F90.o
[ 99%] Building Fortran object src/CMakeFiles/clubb_tuner.dir/error.F90.o
[ 99%] Building Fortran object src/CMakeFiles/clubb_driver_test.dir/clubb_driver_test.F90.o
[100%] Building Fortran object src/CMakeFiles/clubb_thread_test.dir/clubb_thread_test.F90.o
[100%] Linking Fortran executable clubb_standalone
[100%] Linking Fortran executable clubb_thread_test
[100%] Linking Fortran executable clubb_driver_test
[100%] Built target clubb_standalone
[100%] Built target clubb_driver_test
[100%] Built target clubb_thread_test
[100%] Building Fortran object src/CMakeFiles/clubb_tuner.dir/clubb_tuner.F90.o
[100%] Linking Fortran executable clubb_tuner
[100%] Built target clubb_tuner
Install the project...
-- Install configuration: "Release"
-- Installing: /home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/libclubb_driver_lib.a
-- Installing: /home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/clubb_tuner
-- Set runtime path of "/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/clubb_tuner" to "/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble:/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/lib:/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-inkjvmgdy5ao7uwihl6lzsnlpstmyoyt/lib"
-- Installing: /home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/G_unit_tests
-- Set runtime path of "/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/G_unit_tests" to "/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble:/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/lib:/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-inkjvmgdy5ao7uwihl6lzsnlpstmyoyt/lib"
-- Installing: /home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/clubb_thread_test
-- Set runtime path of "/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/clubb_thread_test" to "/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble:/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/lib:/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-inkjvmgdy5ao7uwihl6lzsnlpstmyoyt/lib"
-- Installing: /home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/clubb_standalone
-- Set runtime path of "/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/clubb_standalone" to "/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble:/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/lib:/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-inkjvmgdy5ao7uwihl6lzsnlpstmyoyt/lib"
-- Installing: /home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/clubb_driver_test
-- Set runtime path of "/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/clubb_driver_test" to "/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble:/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/lib:/home/jenkins/workspace/clubb_cmake_output_matching/install/intel_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/oneapi-2023.2.0/netcdf-fortran-4.5.3-inkjvmgdy5ao7uwihl6lzsnlpstmyoyt/lib"
CLUBBStandardsCheck.py: beginning check on src
PASS: 0 checks failed for src
CLUBBStandardsCheck.py: beginning check on src/CLUBB_core
--------------------- Unused Use Imports Check: /home/jenkins/workspace/clubb_cmake_output_matching/src/CLUBB_core/advance_clubb_core_module.F90 ---------------------
WARNING: Unused names imported by 'use ..., only:' found:
line 1776 : unused import 'w_tol_sqd' in subroutine 'compute_diagnostic_cache' : use constants_clubb, only: em_min, three_halves, w_tol, w_tol_sqd
----------------------------------------------------------------------------------------------------
FAIL: 1 check(s) 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
===============================================================
CLUBBStandardsCheck FAILED
  THIS IS PRINTED IN ALL RED, CAPITAL LETTERS, AND USES
  AN EXCLAMATION MARK TO ENSURE THE DEVELOPERS FEEL SHAME!
  IF YOU ARE ONE OF THESE "DEVELOPERS" CHECK THE
  LOG FILE FOR DETAILS: /home/jenkins/workspace/clubb_cmake_output_matching/build/intel_PRECdouble/cmake_build_output.txt
===============================================================

Build completed successfully, but some source code checks have failed.
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (cmake Run)
[Pipeline] sh
+ run_scripts/run_scm.py -out_dir output_cmake arm
 - using executable: /home/jenkins/workspace/clubb_cmake_output_matching/run_scripts/../install/latest/clubb_standalone
=================== Running arm ===================
2026/05/28 04:43:54
 
 --------------------------------------------------
 Latest git log entry
 --------------------------------------------------
 
 
A detailed git diff can be found at the end of this file

 --------------------------------------------------
 Tunable Parameters:
 --------------------------------------------------
 --------------------------------------------------
 Preprocessing Directives:
 --------------------------------------------------
 -DNETCDF enabled
 -DCOAMPS_MICRO enabled
 -DTUNER disabled
 -DSILHS enabled
 -Dnooverlap enabled
 -Draoffline enabled
 -DUSE_BUGSrad_ocast_random disabled
 -DBYTESWAP_IO disabled
 --------------------------------------------------
 &model_setting
 --------------------------------------------------
 runtype = arm
 nzmax =          110
 grid_type =            1
 deltaz =    40.0000000000000     
 zm_init =   0.000000000000000E+000
 zm_top =    5350.00000000000     
 zt_grid_fname =
 zm_grid_fname =
 day =           21
 month =            6
 year =         1997
 lat_vals =    36.6200000000000     
 lon_vals =   -97.5000000000000     
 sfc_elevation =   0.000000000000000E+000
 time_initial =    41400.0000000000     
 time_final =    93600.0000000000     
 dt_main =    60.0000000000000     
 dt_rad =    60.0000000000000     
 sfctype =            1
 T_sfc =    288.000000000000     
 p_sfc =    97000.0000000000     
 sens_ht =   0.000000000000000E+000
 latent_ht =   0.000000000000000E+000
 fcor =   8.500000000000001E-005
 fcor_y =   1.170525409671300E-004
 T0 =    300.000000000000     
 ts_nudge =    86400.0000000000     
 forcings_file_path =
 l_t_dependent =  T
 l_ignore_forcings =  F
 l_modify_ic_with_cubic_int =  F
 l_modify_bc_for_cnvg_test =  F
 l_input_xpwp_sfc =  F
 saturation_formula =            3
 thlm_sponge_damp_settings%l_sponge_damping =  F
 rtm_sponge_damp_settings%l_sponge_damping =  F
 uv_sponge_damp_settings%l_sponge_damping =  F
 wp2_sponge_damp_settings%l_sponge_damping =  F
 wp3_sponge_damp_settings%l_sponge_damping =  F
 up2_vp2_sponge_damp_settings%l_sponge_damping =  F
 thlm_sponge_damp_settings%tau_sponge_damp_min =    60.0000000000000     
 thlm_sponge_damp_settings%tau_sponge_damp_max =    1800.00000000000     
 thlm_sponge_damp_settings%sponge_damp_depth =   0.250000000000000     
 rtm_sponge_damp_settings%tau_sponge_damp_min =    60.0000000000000     
 rtm_sponge_damp_settings%tau_sponge_damp_max =    1800.00000000000     
 rtm_sponge_damp_settings%sponge_damp_depth =   0.250000000000000     
 uv_sponge_damp_settings%tau_sponge_damp_min =    60.0000000000000     
 uv_sponge_damp_settings%tau_sponge_damp_max =    1800.00000000000     
 uv_sponge_damp_settings%sponge_damp_depth =   0.250000000000000     
 wp2_sponge_damp_settings%tau_sponge_damp_min =    60.0000000000000     
 wp2_sponge_damp_settings%tau_sponge_damp_max =    1800.00000000000     
 wp2_sponge_damp_settings%sponge_damp_depth =   0.250000000000000     
 wp3_sponge_damp_settings%tau_sponge_damp_min =    60.0000000000000     
 wp3_sponge_damp_settings%tau_sponge_damp_max =    1800.00000000000     
 wp3_sponge_damp_settings%sponge_damp_depth =   0.250000000000000     
 up2_vp2_sponge_damp_settings%tau_sponge_damp_min =    60.0000000000000     
 up2_vp2_sponge_damp_settings%tau_sponge_damp_max =    1800.00000000000     
 up2_vp2_sponge_damp_settings%sponge_damp_depth =   0.250000000000000     
 l_soil_veg =  F
 l_restart =  F
 l_input_fields =  F
 restart_path_case = restart/arm
 time_restart =   0.000000000000000E+000
 debug_level =            2
 sclr_dim =            0
 edsclr_dim =            0
 iisclr_thl =           -2
 iisclr_rt =           -1
 iisclr_CO2 =           -1
 sclr_tol = 
 --------------------------------------------------
 &stats_setting
 --------------------------------------------------
 l_stats =  T
 output_dir = /home/jenkins/workspace/clubb_cmake_output_matching/output_cmake/
 fname_prefix = arm
 stats_fmt = netcdf
 stats_tsamp =    60.0000000000000     
 stats_tout =    60.0000000000000     
 l_allow_small_stats_tout =  F
 Constant flags:
 l_pos_def =  F
 l_gamma_Skw =  T
 l_byteswap_io =  F
 Constant tolerances [units]
 rt_tol [kg/kg] =   1.000000000000000E-008
 thl_tol [K] =   1.000000000000000E-002
 w_tol [m/s] =   2.000000000000000E-002
    Parameter          Value
    ---------          -----
C1                           =      1.00000000000000000000
C1b                          =      1.00000000000000000000
C1c                          =      1.00000000000000000000
C2rt                         =      2.00000000000000000000
C2thl                        =      2.00000000000000000000
C2rtthl                      =      2.00000000000000000000
C4                           =      2.00000000000000000000
C_uu_shr                     =      0.40000000000000002220
C_uu_buoy                    =      0.29999999999999998890
C6rt                         =      2.00000000000000000000
C6rtb                        =      2.00000000000000000000
C6rtc                        =      1.00000000000000000000
C6thl                        =      2.00000000000000000000
C6thlb                       =      2.00000000000000000000
C6thlc                       =      1.00000000000000000000
C7                           =      0.50000000000000000000
C7b                          =      0.50000000000000000000
C7c                          =      0.50000000000000000000
C8                           =      0.50000000000000000000
C8b                          =      0.02000000000000000042
C10                          =      3.29999999999999982236
C11                          =      0.40000000000000002220
C11b                         =      0.40000000000000002220
C11c                         =      0.50000000000000000000
C12                          =      1.00000000000000000000
C13                          =      0.10000000000000000555
C14                          =      1.00000000000000000000
C_wp2_pr_dfsn                =      0.00000000000000000000
C_wp3_pr_tp                  =      0.00000000000000000000
C_wp3_pr_turb                =      1.00000000000000000000
C_wp3_pr_dfsn                =      0.00000000000000000000
C_wp2_splat                  =      0.00000000000000000000
C6rt_Lscale0                 =     14.00000000000000000000
C6thl_Lscale0                =     14.00000000000000000000
C7_Lscale0                   =      0.84999999999999997780
wpxp_L_thresh                =     60.00000000000000000000
c_K                          =      0.20000000000000001110
c_K1                         =      0.20000000000000001110
nu1                          =     20.00000000000000000000
c_K2                         =      0.02500000000000000139
nu2                          =      1.00000000000000000000
c_K6                         =      0.37500000000000000000
nu6                          =      5.00000000000000000000
c_K8                         =      5.00000000000000000000
nu8                          =     20.00000000000000000000
c_K9                         =      0.10000000000000000555
nu9                          =     10.00000000000000000000
nu10                         =      0.00000000000000000000
c_K_hm                       =      0.75000000000000000000
c_K_hmb                      =      0.75000000000000000000
K_hm_min_coef                =      0.10000000000000000555
nu_hm                        =      1.50000000000000000000
slope_coef_spread_DG_means_w =     21.00000000000000000000
pdf_component_stdev_factor_w =      1.00000000000000000000
coef_spread_DG_means_rt      =      0.80000000000000004441
coef_spread_DG_means_thl     =      0.80000000000000004441
gamma_coef                   =      0.25000000000000000000
gamma_coefb                  =      0.25000000000000000000
gamma_coefc                  =      5.00000000000000000000
mu                           =      0.00100000000000000002
beta                         =      1.00000000000000000000
lmin_coef                    =      0.50000000000000000000
omicron                      =      0.50000000000000000000
zeta_vrnce_rat               =      0.00000000000000000000
upsilon_precip_frac_rat      =      0.55000000000000004441
lambda0_stability_coef       =      0.02999999999999999889
mult_coef                    =      0.50000000000000000000
taumin                       =     90.00000000000000000000
taumax                       =   3600.00000000000000000000
Lscale_mu_coef               =      2.00000000000000000000
Lscale_pert_coef             =      0.10000000000000000555
alpha_corr                   =      0.14999999999999999445
Skw_denom_coef               =      4.00000000000000000000
c_K10                        =      1.00000000000000000000
c_K10h                       =      1.00000000000000000000
thlp2_rad_coef               =      1.00000000000000000000
thlp2_rad_cloud_frac_thresh  =      0.10000000000000000555
up2_sfc_coef                 =      4.00000000000000000000
Skw_max_mag                  =     10.00000000000000000000
C_invrs_tau_bkgnd            =      1.10000000000000008882
C_invrs_tau_sfc              =      0.10000000000000000555
C_invrs_tau_shear            =      0.14999999999999999445
C_invrs_tau_N2               =      0.40000000000000002220
C_invrs_tau_N2_wp2           =      0.20000000000000001110
C_invrs_tau_N2_xp2           =      0.05000000000000000278
C_invrs_tau_N2_wpxp          =      0.00000000000000000000
C_invrs_tau_N2_clear_wp3     =      1.00000000000000000000
C_invrs_tau_wpxp_Ri          =      0.34999999999999997780
C_invrs_tau_wpxp_N2_thresh   =      0.00033000000000000000
xp3_coef_base                =      0.25000000000000000000
xp3_coef_slope               =      0.01000000000000000021
altitude_threshold           =    100.00000000000000000000
rtp2_clip_coef               =      0.50000000000000000000
Cx_min                       =      0.33000000000000001554
Cx_max                       =      0.94999999999999995559
Richardson_num_min           =      0.25000000000000000000
Richardson_num_max           =    400.00000000000000000000
a3_coef_min                  =      1.00000000000000000000
a_const                      =      1.80000000000000004441
bv_efold                     =      5.00000000000000000000
wpxp_Ri_exp                  =      0.50000000000000000000
z_displace                   =     25.00000000000000000000
 --------------------------------------------------
 &microphysics_setting
 --------------------------------------------------
 microphys_scheme = none
 l_cloud_sed =  F
 sigma_g =    1.50000000000000     
 l_graupel =  F
 l_hail =  F
 l_seifert_beheng =  F
 l_predict_Nc =  F
 l_const_Nc_in_cloud =  F
 specify_aerosol = morrison_lognormal
 l_subgrid_w =  T
 l_arctic_nucl =  F
 l_cloud_edge_activation =  F
 l_fix_pgam =  F
 l_in_cloud_Nc_diff =  T
 l_var_covar_src =  F
 l_upwind_diff_sed =  F
 lh_microphys_type = disabled
 lh_num_samples =            2
 lh_sequence_length =            1
 lh_seed =         5489
 l_fix_w_chi_eta_correlations =  T
 l_silhs_KK_convergence_adj_mean =  F
 importance_prob_thresh =   1.000000000000000E-008
 host_dx =    1000000.00000000     
 host_dy =    1000000.00000000     
 hmp2_ip_on_hmm2_ip_slope%rr =   2.120000000000000E-005
 hmp2_ip_on_hmm2_ip_slope%ri =   2.120000000000000E-005
 hmp2_ip_on_hmm2_ip_slope%rs =   2.120000000000000E-005
 hmp2_ip_on_hmm2_ip_slope%rg =   2.120000000000000E-005
 hmp2_ip_on_hmm2_ip_slope%Nr =   2.120000000000000E-005
 hmp2_ip_on_hmm2_ip_slope%Ni =   2.120000000000000E-005
 hmp2_ip_on_hmm2_ip_slope%Ni =   2.120000000000000E-005
 hmp2_ip_on_hmm2_ip_slope%Ng =   2.120000000000000E-005
 hmp2_ip_on_hmm2_ip_intrcpt%rr =   0.540000000000000     
 hmp2_ip_on_hmm2_ip_intrcpt%ri =   0.540000000000000     
 hmp2_ip_on_hmm2_ip_intrcpt%rs =   0.540000000000000     
 hmp2_ip_on_hmm2_ip_intrcpt%rg =   0.540000000000000     
 hmp2_ip_on_hmm2_ip_intrcpt%Nr =   0.540000000000000     
 hmp2_ip_on_hmm2_ip_intrcpt%Ni =   0.540000000000000     
 hmp2_ip_on_hmm2_ip_intrcpt%Ni =   0.540000000000000     
 hmp2_ip_on_hmm2_ip_intrcpt%Ng =   0.540000000000000     
 Ncnp2_on_Ncnm2 =    1.00000000000000     
 C_evap =   0.860000000000000     
 r_0 =   2.500000000000000E-005
 microphys_start_time =   0.000000000000000E+000
 Nc0_in_cloud =    100000000.000000     
 ccnconst =    120.000000000000     
 ccnexpnt =   0.400000005960464     
 aer_rm1 =   1.100000002196566E-008
 aer_rm2 =   5.999999785899490E-008
 aer_n1 =    125000000.000000     
 aer_n2 =    65000000.0000000     
 aer_sig1 =    1.20000004768372     
 aer_sig2 =    1.70000004768372     
 pgam_fixed =    5.00000000000000     
 precip_frac_calc_type =            2
 --------------------------------------------------
 &SILHS_setting
 --------------------------------------------------
 Warning: missing correlation input file(s): ../input/case_setups/arm_corr_array
 _cloud.in and/or ../input/case_setups/arm_corr_array_below.in
 The default correlation arrays will be used.
 --------------------------------------------------
 &radiation_setting
 --------------------------------------------------
 rad_scheme = none
 sol_const =    1367.00000000000     
 alvdr =   0.100000000000000     
 alvdf =   0.100000000000000     
 alndr =   0.100000000000000     
 alndf =   0.100000000000000     
 radiation_top =    50000.0000000000     
 F0 =    100.000000000000     
 F1 =    20.0000000000000     
 kappa =    119.000000000000     
 gc =   0.860000000000000     
 omega =   0.996500000000000     
 slr =    1.00000000000000     
 l_rad_above_cloud =  F
 l_sw_radiation =  F
 l_fix_cos_solar_zen =  F
 l_use_default_std_atmosphere =  T
 Fs_values =   0.000000000000000E+000  0.000000000000000E+000
  0.000000000000000E+000  0.000000000000000E+000  0.000000000000000E+000
  0.000000000000000E+000  0.000000000000000E+000  0.000000000000000E+000
  0.000000000000000E+000  0.000000000000000E+000  0.000000000000000E+000
  0.000000000000000E+000  0.000000000000000E+000  0.000000000000000E+000
  0.000000000000000E+000  0.000000000000000E+000  0.000000000000000E+000
  0.000000000000000E+000  0.000000000000000E+000  0.000000000000000E+000
 cos_solar_zen_values =   -999.000000000000       -999.000000000000     
  -999.000000000000       -999.000000000000       -999.000000000000     
  -999.000000000000       -999.000000000000       -999.000000000000     
  -999.000000000000       -999.000000000000       -999.000000000000     
  -999.000000000000       -999.000000000000       -999.000000000000     
  -999.000000000000       -999.000000000000       -999.000000000000     
  -999.000000000000       -999.000000000000       -999.000000000000     
 cos_solar_zen_times =   -999.000000000000       -999.000000000000     
  -999.000000000000       -999.000000000000       -999.000000000000     
  -999.000000000000       -999.000000000000       -999.000000000000     
  -999.000000000000       -999.000000000000       -999.000000000000     
  -999.000000000000       -999.000000000000       -999.000000000000     
  -999.000000000000       -999.000000000000       -999.000000000000     
  -999.000000000000       -999.000000000000       -999.000000000000     
 eff_drop_radius =   1.000000000000000E-005
 --------------------------------------------------
 &configurable_clubb_flags_nl
 --------------------------------------------------
 iiPDF_type =            1
 ipdf_call_placement =            2
 penta_solve_method =            2
 tridiag_solve_method =            2
 grid_remap_method =            1
 grid_adapt_in_time_method =            0
 l_use_precip_frac =  T
 l_predict_upwp_vpwp =  T
 l_ho_nontrad_coriolis =  F
 l_ho_trad_coriolis =  F
 l_min_wp2_from_corr_wx =  F
 l_min_xp2_from_corr_wx =  T
 l_C2_cloud_frac =  F
 l_diffuse_rtm_and_thlm =  F
 l_stability_correct_Kh_N2_zm =  F
 l_calc_thlp2_rad =  F
 l_upwind_xpyp_ta =  T
 l_upwind_xm_ma =  T
 l_uv_nudge =  F
 l_rtm_nudge =  F
 l_tke_aniso =  T
 l_vert_avg_closure =  F
 l_trapezoidal_rule_zt =  F
 l_trapezoidal_rule_zm =  F
 l_call_pdf_closure_twice =  F
 l_standard_term_ta =  F
 l_partial_upwind_wp3 =  F
 l_godunov_upwind_wpxp_ta =  F
 l_godunov_upwind_xpyp_ta =  F
 l_use_cloud_cover =  F
 l_diagnose_correlations =  F
 l_calc_w_corr =  F
 l_const_Nc_in_cloud =  F
 l_fix_w_chi_eta_correlations =  T
 l_stability_correct_tau_zm =  F
 l_damp_wp2_using_em =  T
 l_do_expldiff_rtm_thlm =  F
 l_Lscale_plume_centered =  F
 l_diag_Lscale_from_tau =  T
 l_use_C7_Richardson =  T
 l_use_C11_Richardson =  F
 l_use_shear_Richardson =  F
 l_brunt_vaisala_freq_moist =  F
 l_use_thvm_in_bv_freq =  F
 l_rcm_supersat_adj =  T
 l_damp_wp3_Skw_squared =  T
 l_prescribed_avg_deltaz =  F
 l_lmm_stepping =  F
 l_e3sm_config =  F
 l_vary_convect_depth =  F
 l_use_tke_in_wp3_pr_turb_term =  T
 l_use_tke_in_wp2_wp3_K_dfsn =  F
 l_use_wp3_lim_with_smth_Heaviside =  F
 l_smooth_Heaviside_tau_wpxp =  T
 l_modify_limiters_for_cnvg_test =  F
 l_enable_relaxed_clipping =  F
 l_linearize_pbl_winds =  F
 l_mono_flux_lim_thlm =  T
 l_mono_flux_lim_rtm =  T
 l_mono_flux_lim_um =  T
 l_mono_flux_lim_vm =  T
 l_mono_flux_lim_spikefix =  T
 l_host_applies_sfc_fluxes =  F
 l_wp2_fill_holes_tke =  T
 l_add_dycore_grid =  F
 --------------------------------------------------
 git diff src/
 --------------------------------------------------
 See *setup.txt file in output folder

 Path to sounding: arm_sounding.in
 File exists?  T
 Path to sclr_sounding: arm_sclr_sounding.in
 File exists?  T
 Path to edsclr_sounding: arm_edsclr_sounding.in
 File exists?  T
 Reading in sounding information
 z =   0.000000000000000E+000   50.0000000000000        350.000000000000     
   650.000000000000        700.000000000000        1300.00000000000     
   2500.00000000000        5500.00000000000     
 u =    10.0000000000000        10.0000000000000        10.0000000000000     
   10.0000000000000        10.0000000000000        10.0000000000000     
   10.0000000000000        10.0000000000000     
 v =   0.000000000000000E+000  0.000000000000000E+000  0.000000000000000E+000
  0.000000000000000E+000  0.000000000000000E+000  0.000000000000000E+000
  0.000000000000000E+000  0.000000000000000E+000
 ug =    10.0000000000000        10.0000000000000        10.0000000000000     
   10.0000000000000        10.0000000000000        10.0000000000000     
   10.0000000000000        10.0000000000000     
 vg =   0.000000000000000E+000  0.000000000000000E+000  0.000000000000000E+000
  0.000000000000000E+000  0.000000000000000E+000  0.000000000000000E+000
  0.000000000000000E+000  0.000000000000000E+000
 theta =    299.000000000000        301.500000000000     
   302.500000000000        303.530000000000        303.700000000000     
   307.130000000000        314.000000000000        343.200000000000     
 rt =   1.520000000000000E-002  1.517000000000000E-002  1.498000000000000E-002
  1.480000000000000E-002  1.470000000000000E-002  1.350000000000000E-002
  3.000000000000000E-003  3.000000000000000E-003
 p_in_Pa =   -999.900000000000       -999.900000000000     
  -999.900000000000       -999.900000000000       -999.900000000000     
  -999.900000000000       -999.900000000000       -999.900000000000     
 subs =   0.000000000000000E+000  0.000000000000000E+000  0.000000000000000E+000
  0.000000000000000E+000  0.000000000000000E+000  0.000000000000000E+000
  0.000000000000000E+000  0.000000000000000E+000
 When the l_diag_Lscale_from_tau flag is enabled, C2rt must have a value of 1.
 C2rt =    2.00000000000000     
 Warning in check_clubb_settings_api
 When the l_diag_Lscale_from_tau flag is enabled, C2thl must have a value of 1.
 C2thl =    2.00000000000000     
 Warning in check_clubb_settings_api
 When the l_diag_Lscale_from_tau flag is enabled, C2rtthl must have a value of 1
 .
 C2rtthl =    2.00000000000000     
 Warning in check_clubb_settings_api
 When the l_diag_Lscale_from_tau flag is enabled, C6rt must have a value of 1.
 C6rt =    2.00000000000000     
 Warning in check_clubb_settings_api
 When the l_diag_Lscale_from_tau flag is enabled, C6rtb must have a value of 1.
 C6rtb =    2.00000000000000     
 Warning in check_clubb_settings_api
 When the l_diag_Lscale_from_tau flag is enabled, C6thl must have a value of 1.
 C6thl =    2.00000000000000     
 Warning in check_clubb_settings_api
 When the l_diag_Lscale_from_tau flag is enabled, C6thlb must have a value of 1.
 C6thlb =    2.00000000000000     
 Warning in check_clubb_settings_api
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iteration:      870 /      870 -- time =    93600.0 /    93600.0
CLUBB-TIMER time_loop_init =             0.1626
CLUBB-TIMER time_clubb_advance =         3.8877
CLUBB-TIMER time_clubb_pdf =             0.0023
CLUBB-TIMER time_SILHS =                 0.0020
CLUBB-TIMER time_microphys_scheme =      0.0000
CLUBB-TIMER time_microphys_advance =     0.0000
CLUBB-TIMER time_loop_end =              0.0000
CLUBB-TIMER time_adapt_grid =            0.0000
CLUBB-TIMER time_total =                 8.1860
 Program exited normally
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Compare Outputs)
[Pipeline] sh
+ run_scripts/run_bindiff_all.py output_legacy output_cmake -v 2
Directory 1 is output_legacy
Directory 2 is output_cmake
Using reporting threshold:  0.0 


The following cases will be compared: ['arm']


================================================ arm ================================================
>No differences detected by the linux diff in arm_stats.nc<
>>>The linux diff could not detect any differences in the file pairs for case arm.<<<

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

SUMMARY:
Linux diff did not detect any differences in the compared files.
Pass: 1 cases ['arm']
Fail: 0 cases []
[Pipeline] }
[Pipeline] // stage
[Pipeline] }
[Pipeline] // withEnv
[Pipeline] }
[Pipeline] // node
[Pipeline] End of Pipeline
Finished: SUCCESS