+ 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
+ run_scripts/run_scam.bash ATEX
----- Case Setup -----
Compset longname is 2000_CAM60%SCAMATEX_CLM50%SP_CICE%PRES_DOCN%DOM_SROF_SGLC_SWAV
Compset specification file is /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime_config/config_compsets.xml
Automatically adding SESP to compset
Compset forcing is 1972-2004
ATM component is CAM cam6 physics:
LND component is clm5.0:Satellite phenology:
ICE component is Sea ICE (cice) model version 6 :prescribed cice
OCN component is DOCN prescribed ocean mode
ROF component is Stub river component
GLC component is Stub glacier (land ice) component
WAV component is Stub wave component
ESP component is Stub external system processing (ESP) component
Pes specification file is /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime_config/config_pes.xml
Compset specific settings: name is RUN_STARTDATE and value is 1969-02-15
Compset specific settings: name is STOP_N and value is 47
Compset specific settings: name is STOP_OPTION and value is nhours
Compset specific settings: name is START_TOD and value is 0
Compset specific settings: name is PTS_MODE and value is TRUE
Compset specific settings: name is PTS_LAT and value is 15.0
Compset specific settings: name is PTS_LON and value is 345.0
Machine is larson-group
vid is comment
vid is ntasks
vid is nthrds
vid is rootpe
Pes setting: grid is a%T42_l%T42_oi%T42_r%null_g%null_w%null_z%null_m%gx1v7
Pes setting: compset is 2000_CAM60%SCAMATEX_CLM50%SP_CICE%PRES_DOCN%DOM_SROF_SGLC_SWAV_SESP
Pes setting: tasks is {'NTASKS_ATM': 1, 'NTASKS_LND': 1, 'NTASKS_ROF': 1, 'NTASKS_ICE': 1, 'NTASKS_OCN': 1, 'NTASKS_GLC': 1, 'NTASKS_WAV': 1, 'NTASKS_CPL': 1}
Pes setting: threads is {'NTHRDS_ATM': 1, 'NTHRDS_LND': 1, 'NTHRDS_ROF': 1, 'NTHRDS_ICE': 1, 'NTHRDS_OCN': 1, 'NTHRDS_GLC': 1, 'NTHRDS_WAV': 1, 'NTHRDS_CPL': 1}
Pes setting: rootpe is {'ROOTPE_ATM': 0, 'ROOTPE_LND': 0, 'ROOTPE_ROF': 0, 'ROOTPE_ICE': 0, 'ROOTPE_OCN': 0, 'ROOTPE_GLC': 0, 'ROOTPE_WAV': 0, 'ROOTPE_CPL': 0}
Pes setting: pstrid is {}
Pes other settings: {}
Pes comments: none
setting additional fields from config_pes: {}
Compset is: 2000_CAM60%SCAMATEX_CLM50%SP_CICE%PRES_DOCN%DOM_SROF_SGLC_SWAV_SESP
Grid is: a%T42_l%T42_oi%T42_r%null_g%null_w%null_z%null_m%gx1v7
Components in compset are: ['cam', 'clm', 'cice', 'docn', 'srof', 'sglc', 'swav', 'sesp']
This is a CESM scientifically supported compset at this resolution.
No project info available
No charge_account info available, using value from PROJECT
cesm model version found: cam_4ncar_20240605_2f3c896-655-g1d86f1d2
Batch_system_type is none
Creating Case directory /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/scripts/test_scam_ATEX
This component includes user_mods /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime_config/usermods_dirs/scam_mandatory
Adding user mods directory /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime_config/usermods_dirs/scam_mandatory
RUN: /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/scripts/test_scam_ATEX/shell_commands
FROM: /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/scripts/test_scam_ATEX
Creating batch scripts
Writing case.run script from input template /home/jenkins/workspace/cam_scam_gfortran_debug_test/ccs_config/machines/template.case.run
Creating file .case.run
Writing case.st_archive script from input template /home/jenkins/workspace/cam_scam_gfortran_debug_test/ccs_config/machines/template.st_archive
Creating file case.st_archive
Creating user_nl_xxx files for components and cpl
Running cam.case_setup.py
If an old case build already exists, might want to run 'case.build --clean' before building
You can now run './preview_run' to get more info on how your case will be run
----- Compile Configuration -----
----- Run configuration -----
----- Compile -----
Building case in directory /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/scripts/test_scam_ATEX
sharedlib_only is False
model_only is False
Generating component namelists as part of build
2024-09-27 03:48:03 atm
Create namelist for component cam
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime_config/buildnml
...calling cam buildcpp to set build time options
CAM namelist copy: file1 /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/scripts/test_scam_ATEX/Buildconf/camconf/atm_in file2 /home/jenkins/cam_output/scratch/test_scam_ATEX/run/atm_in
2024-09-27 03:48:04 lnd
Create namelist for component clm
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/components/clm//cime_config/buildnml
WARNING: CLM is starting up from a cold state
2024-09-27 03:48:04 ice
Create namelist for component cice
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/components/cice//cime_config/buildnml
2024-09-27 03:48:04 ocn
Create namelist for component docn
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/components/cdeps/docn/cime_config/buildnml
docn_mode is prescribed
2024-09-27 03:48:04 rof
Create namelist for component srof
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/CIME/non_py/src/components/stub_comps_nuopc/srof/cime_config/buildnml
2024-09-27 03:48:04 glc
Create namelist for component sglc
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sglc/cime_config/buildnml
2024-09-27 03:48:04 wav
Create namelist for component swav
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/CIME/non_py/src/components/stub_comps_nuopc/swav/cime_config/buildnml
2024-09-27 03:48:04 esp
Create namelist for component sesp
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sesp/cime_config/buildnml
2024-09-27 03:48:04 cpl
Create namelist for component drv
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/components/cmeps/cime_config/buildnml
Writing nuopc_runconfig for components ['CPL', 'ATM', 'LND', 'ICE', 'OCN']
Building gptl with output to file /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/gptl.bldlog.240927-034803
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/CIME/build_scripts/buildlib.gptl
Component gptl build complete with 21 warnings
Building pio with output to file /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/pio.bldlog.240927-034803
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/CIME/build_scripts/buildlib.pio
Building csm_share with output to file /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/csm_share.bldlog.240927-034803
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/share/buildlib.csm_share
Component csm_share build complete with 254 warnings
Building CDEPS with output to file /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/CDEPS.bldlog.240927-034803
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/components/cdeps/cime_config/buildlib
Component CDEPS build complete with 200 warnings
- Building clm library
Building lnd with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/lnd.bldlog.240927-034803
Component lnd build complete with 2623 warnings
clm built in 82.573090 seconds
- Building atm Library
Building atm with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/atm.bldlog.240927-034803
- Building ice Library
Building ice with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/ice.bldlog.240927-034803
- Building ocn Library
Building ocn with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/ocn.bldlog.240927-034803
docn built in 0.629256 seconds
Component atm build complete with 5675 warnings
cam built in 151.686501 seconds
Component ice build complete with 467 warnings
cice built in 175.442681 seconds
Building cesm from /home/jenkins/workspace/cam_scam_gfortran_debug_test/components/cmeps/cime_config/buildexe with output to /home/jenkins/cam_output/scratch/test_scam_ATEX/bld/cesm.bldlog.240927-034803
Component cesm exe build complete with 50 warnings
Total build time: 342.304167 seconds
MODEL BUILD HAS FINISHED SUCCESSFULLY
----- Run Submission -----
2024-09-27 03:53:46 atm
Create namelist for component cam
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime_config/buildnml
CAM namelist copy: file1 /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/scripts/test_scam_ATEX/Buildconf/camconf/atm_in file2 /home/jenkins/cam_output/scratch/test_scam_ATEX/run/atm_in
2024-09-27 03:53:46 lnd
Create namelist for component clm
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/components/clm//cime_config/buildnml
WARNING: CLM is starting up from a cold state
2024-09-27 03:53:46 ice
Create namelist for component cice
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/components/cice//cime_config/buildnml
2024-09-27 03:53:46 ocn
Create namelist for component docn
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/components/cdeps/docn/cime_config/buildnml
docn_mode is prescribed
2024-09-27 03:53:46 rof
Create namelist for component srof
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/CIME/non_py/src/components/stub_comps_nuopc/srof/cime_config/buildnml
2024-09-27 03:53:46 glc
Create namelist for component sglc
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sglc/cime_config/buildnml
2024-09-27 03:53:46 wav
Create namelist for component swav
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/CIME/non_py/src/components/stub_comps_nuopc/swav/cime_config/buildnml
2024-09-27 03:53:46 esp
Create namelist for component sesp
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/cime/CIME/non_py/src/components/stub_comps_nuopc/sesp/cime_config/buildnml
2024-09-27 03:53:46 cpl
Create namelist for component drv
Calling /home/jenkins/workspace/cam_scam_gfortran_debug_test/components/cmeps/cime_config/buildnml
Writing nuopc_runconfig for components ['CPL', 'ATM', 'LND', 'ICE', 'OCN']
Checking that inputdata is available as part of case submission
Loading input file list: 'Buildconf/cice.input_data_list'
Loading input file list: 'Buildconf/cam.input_data_list'
Loading input file list: 'Buildconf/cpl.input_data_list'
Loading input file list: 'Buildconf/docn.input_data_list'
Loading input file list: 'Buildconf/ctsm.input_data_list'
Model ctsm missing file paramfile = '/home/pub/cam_inputdata/lnd/clm2/paramdata/clm50_params.c240814.nc'
Model ctsm missing file fsurdat = '/home/pub/cam_inputdata/lnd/clm2/surfdata_esmf/ctsm5.2.0/surfdata_T42_hist_2000_78pfts_c240425.nc'
Model ctsm missing file stream_meshfile_cropcal = '/home/pub/cam_inputdata/lnd/clm2/cropdata/calendars/processed/360x720_120830_ESMFmesh_c20210507_cdf5.tweaked_latlons.nc'
Checking server ftp://gridanon.cgd.ucar.edu:2811/cesm/inputdata/ with protocol gftp
Client protocol gftp not enabled
Checking server ftp://ftp.cgd.ucar.edu/cesm/inputdata/ with protocol wget
Using protocol wget with user anonymous and passwd user@example.edu
Loading input file list: 'Buildconf/cice.input_data_list'
Loading input file list: 'Buildconf/cam.input_data_list'
Loading input file list: 'Buildconf/cpl.input_data_list'
Loading input file list: 'Buildconf/docn.input_data_list'
Loading input file list: 'Buildconf/ctsm.input_data_list'
Model ctsm missing file paramfile = '/home/pub/cam_inputdata/lnd/clm2/paramdata/clm50_params.c240814.nc'
Trying to download file: 'lnd/clm2/paramdata/clm50_params.c240814.nc' to path '/home/pub/cam_inputdata/lnd/clm2/paramdata/clm50_params.c240814.nc' using WGET protocol.
wget failed with output: and errput --2024-09-27 03:53:48-- ftp://ftp.cgd.ucar.edu/cesm/inputdata/lnd/clm2/paramdata/clm50_params.c240814.nc
=> ‘/home/pub/cam_inputdata/lnd/clm2/paramdata/clm50_params.c240814.nc’
Resolving ftp.cgd.ucar.edu (ftp.cgd.ucar.edu)... 128.117.13.41
Connecting to ftp.cgd.ucar.edu (ftp.cgd.ucar.edu)|128.117.13.41|:21... connected.
Logging in as anonymous ... Logged in!
==> SYST ... done. ==> PWD ... done.
==> TYPE I ... done. ==> CWD (1) /cesm/inputdata/lnd/clm2/paramdata ... done.
==> SIZE clm50_params.c240814.nc ... done.
==> PASV ... done. ==> RETR clm50_params.c240814.nc ...
No such file ‘clm50_params.c240814.nc’.
Model ctsm missing file fsurdat = '/home/pub/cam_inputdata/lnd/clm2/surfdata_esmf/ctsm5.2.0/surfdata_T42_hist_2000_78pfts_c240425.nc'
Trying to download file: 'lnd/clm2/surfdata_esmf/ctsm5.2.0/surfdata_T42_hist_2000_78pfts_c240425.nc' to path '/home/pub/cam_inputdata/lnd/clm2/surfdata_esmf/ctsm5.2.0/surfdata_T42_hist_2000_78pfts_c240425.nc' using WGET protocol.
wget failed with output: and errput --2024-09-27 03:53:48-- ftp://ftp.cgd.ucar.edu/cesm/inputdata/lnd/clm2/surfdata_esmf/ctsm5.2.0/surfdata_T42_hist_2000_78pfts_c240425.nc
=> ‘/home/pub/cam_inputdata/lnd/clm2/surfdata_esmf/ctsm5.2.0/surfdata_T42_hist_2000_78pfts_c240425.nc’
Resolving ftp.cgd.ucar.edu (ftp.cgd.ucar.edu)... 128.117.13.41
Connecting to ftp.cgd.ucar.edu (ftp.cgd.ucar.edu)|128.117.13.41|:21... connected.
Logging in as anonymous ... Logged in!
==> SYST ... done. ==> PWD ... done.
==> TYPE I ... done. ==> CWD (1) /cesm/inputdata/lnd/clm2/surfdata_esmf/ctsm5.2.0 ...
No such directory ‘cesm/inputdata/lnd/clm2/surfdata_esmf/ctsm5.2.0’.
Model ctsm missing file stream_meshfile_cropcal = '/home/pub/cam_inputdata/lnd/clm2/cropdata/calendars/processed/360x720_120830_ESMFmesh_c20210507_cdf5.tweaked_latlons.nc'
Trying to download file: 'lnd/clm2/cropdata/calendars/processed/360x720_120830_ESMFmesh_c20210507_cdf5.tweaked_latlons.nc' to path '/home/pub/cam_inputdata/lnd/clm2/cropdata/calendars/processed/360x720_120830_ESMFmesh_c20210507_cdf5.tweaked_latlons.nc' using WGET protocol.
wget failed with output: and errput --2024-09-27 03:53:49-- ftp://ftp.cgd.ucar.edu/cesm/inputdata/lnd/clm2/cropdata/calendars/processed/360x720_120830_ESMFmesh_c20210507_cdf5.tweaked_latlons.nc
=> ‘/home/pub/cam_inputdata/lnd/clm2/cropdata/calendars/processed/360x720_120830_ESMFmesh_c20210507_cdf5.tweaked_latlons.nc’
Resolving ftp.cgd.ucar.edu (ftp.cgd.ucar.edu)... 128.117.13.41
Connecting to ftp.cgd.ucar.edu (ftp.cgd.ucar.edu)|128.117.13.41|:21... connected.
Logging in as anonymous ... Logged in!
==> SYST ... done. ==> PWD ... done.
==> TYPE I ... done. ==> CWD (1) /cesm/inputdata/lnd/clm2/cropdata/calendars/processed ...
No such directory ‘cesm/inputdata/lnd/clm2/cropdata/calendars/processed’.
Checking server ftp.cgd.ucar.edu/cesm/inputdata with protocol ftp
Using protocol ftp with user anonymous and passwd user@example.edu
server address ftp.cgd.ucar.edu root path cesm/inputdata
Loading input file list: 'Buildconf/cice.input_data_list'
Loading input file list: 'Buildconf/cam.input_data_list'
Loading input file list: 'Buildconf/cpl.input_data_list'
Loading input file list: 'Buildconf/docn.input_data_list'
Loading input file list: 'Buildconf/ctsm.input_data_list'
Model ctsm missing file paramfile = '/home/pub/cam_inputdata/lnd/clm2/paramdata/clm50_params.c240814.nc'
Trying to download file: 'lnd/clm2/paramdata/clm50_params.c240814.nc' to path '/home/pub/cam_inputdata/lnd/clm2/paramdata/clm50_params.c240814.nc' using FTP protocol.
ERROR from ftp server, trying next server
Model ctsm missing file fsurdat = '/home/pub/cam_inputdata/lnd/clm2/surfdata_esmf/ctsm5.2.0/surfdata_T42_hist_2000_78pfts_c240425.nc'
Trying to download file: 'lnd/clm2/surfdata_esmf/ctsm5.2.0/surfdata_T42_hist_2000_78pfts_c240425.nc' to path '/home/pub/cam_inputdata/lnd/clm2/surfdata_esmf/ctsm5.2.0/surfdata_T42_hist_2000_78pfts_c240425.nc' using FTP protocol.
ERROR from ftp server, trying next server
Model ctsm missing file stream_meshfile_cropcal = '/home/pub/cam_inputdata/lnd/clm2/cropdata/calendars/processed/360x720_120830_ESMFmesh_c20210507_cdf5.tweaked_latlons.nc'
Trying to download file: 'lnd/clm2/cropdata/calendars/processed/360x720_120830_ESMFmesh_c20210507_cdf5.tweaked_latlons.nc' to path '/home/pub/cam_inputdata/lnd/clm2/cropdata/calendars/processed/360x720_120830_ESMFmesh_c20210507_cdf5.tweaked_latlons.nc' using FTP protocol.
ERROR from ftp server, trying next server
Checking server https://svn-ccsm-inputdata.cgd.ucar.edu/trunk/inputdata with protocol svn
Client protocol svn not enabled
Checking server None with protocol None
Client protocol None not enabled
ERROR: Could not find all inputdata on any server
Error submitting run
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