Case Submit

After a new case is built, the tool that submits the experiment to start it running is case.submit. This tool is located in the $CASEROOT directory.

Running this script results in the following actions:

• Checking archive and run options

• Checking in namelists that need to be rebuilt

• Checking input data

• Submitting the case.run script to the NCAR HPC batch job scheduler

• Submitting the case.st_archive script to archive the model output. This step is dependent on the successful completion of case.run

Figure: Detailed view of the location of case.submit

For the current tutorial on derecho, the paths are:

• $SRCROOT = /glade/u/home/$USER/code/my_cesm_code

• $CASEROOT = /glade/u/home/$USER/cases/$CASE

• $CIME_OUTPUT_ROOT = /glade/derecho/scratch/$USER

• $EXEROOT =/glade/derecho/scratch/$USER/$CASE/bld

• $RUNDIR =/glade/derecho/scratch/$USER/$CASE/run

Command Syntax

You should still be in the CASEROOT directory after running case.build

cd /glade/u/home/$USER/cases/CASE

Example case.submit command:

./case.submit

NOTE: Do not enter the example above at the command line. You will create your first case in the Exercise at the end of this section.

Click here for example output

 - Prestaging REFCASE (/glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01) to /glade/derecho/scratch/$USER/b1850.basics/run
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.ocn.restart
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.ice
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.lnd
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.rof
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.atm
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.ocn.tavg.5
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.glc
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.ocn.ovf
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.drv
Creating component namelists
   Calling /glade/u/home/$USER/my_cesm_code/components/cam//cime_config/buildnml
CAM namelist copy: file1 /glade/u/home/$USER/cases/b1850.basics/Buildconf/camconf/atm_in file2 /glade/derecho/scratch/$USER/b1850.basics/run/atm_in 
   Calling /glade/u/home/$USER/my_cesm_code/components/clm//cime_config/buildnml
   Calling /glade/u/home/$USER/my_cesm_code/components/cice//cime_config/buildnml
   Calling /glade/u/home/$USER/my_cesm_code/components/pop//cime_config/buildnml
     given is deprecated at /glade/u/home/$USER/my_cesm_code/components/pop/bld/build-namelist line 2666.
when is deprecated at /glade/u/home/$USER/my_cesm_code/components/pop/bld/build-namelist line 2667.
when is deprecated at /glade/u/home/$USER/my_cesm_code/components/pop/bld/build-namelist line 2668.
when is deprecated at /glade/u/home/$USER/my_cesm_code/components/pop/bld/build-namelist line 2675.
when is deprecated at /glade/u/home/$USER/my_cesm_code/components/pop/bld/build-namelist line 2676.
when is deprecated at /glade/u/home/$USER/my_cesm_code/components/pop/bld/build-namelist line 2677.
when is deprecated at /glade/u/home/$USER/my_cesm_code/components/pop/bld/build-namelist line 2678.
when is deprecated at /glade/u/home/$USER/my_cesm_code/components/pop/bld/build-namelist line 2679.
when is deprecated at /glade/u/home/$USER/my_cesm_code/components/pop/bld/build-namelist line 2680.
when is deprecated at /glade/u/home/$USER/my_cesm_code/components/pop/bld/build-namelist line 2681.
when is deprecated at /glade/u/home/$USER/my_cesm_code/components/pop/bld/build-namelist line 2682.
when is deprecated at /glade/u/home/$USER/my_cesm_code/components/pop/bld/build-namelist line 2683.
when is deprecated at /glade/u/home/$USER/my_cesm_code/components/pop/bld/build-namelist line 2684.
   Calling /glade/u/home/$USER/my_cesm_code/components/mosart//cime_config/buildnml
   Running /glade/u/home/$USER/my_cesm_code/components/cism//cime_config/buildnml 
   Calling /glade/u/home/$USER/my_cesm_code/components/ww3//cime_config/buildnml
   Calling /glade/u/home/$USER/my_cesm_code/cime/src/components/stub_comps/sesp/cime_config/buildnml
   Calling /glade/u/home/$USER/my_cesm_code/cime/src/drivers/mct/cime_config/buildnml
Finished creating component namelists
Checking that inputdata is available as part of case submission
Loading input file list: 'Buildconf/clm.input_data_list'
Loading input file list: 'Buildconf/cpl.input_data_list'
Loading input file list: 'Buildconf/pop.input_data_list'
Loading input file list: 'Buildconf/ww3.input_data_list'
Loading input file list: 'Buildconf/cice.input_data_list'
Loading input file list: 'Buildconf/cism.input_data_list'
Loading input file list: 'Buildconf/mosart.input_data_list'
Loading input file list: 'Buildconf/cam.input_data_list'
 - Prestaging REFCASE (/glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01) to /glade/derecho/scratch/$USER/b1850.basics/run
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.ocn.restart
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.ice
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.lnd
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.rof
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.atm
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.ocn.tavg.5
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.glc
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.ocn.ovf
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.drv
 - Prestaging REFCASE (/glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01) to /glade/derecho/scratch/$USER/b1850.basics/run
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.ocn.restart
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.ice
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.lnd
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.rof
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.atm
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.ocn.tavg.5
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.glc
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.ocn.ovf
Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.drv
Creating component namelists
Finished creating component namelists
Check case OK
submit_jobs case.run
Submit job case.run
Submitting job script qsub -q main -l walltime=12:00:00 -A $PROJECT -l job_priority=regular -v ARGS_FOR_SCRIPT='--resubmit' .case.run
Submitted job id is 4743615.desched1
Submit job case.st_archive
Submitting job script qsub -q main -l walltime=0:20:00 -A $PROJECT -l job_priority=regular  -W depend=afterok:4743615.desched1 -v ARGS_FOR_SCRIPT='--resubmit' case.st_archive
Submitted job id is 4743616.desched1
Submitted job case.run with id 4743615.desched1
Submitted job case.st_archive with id 4743616.desched1

Notes:

• case.submit coordinates all the tasks of running CESM.

• case.run is submitted to the batch job scheduler by case.submit. Do not try to submit case.run separately.

• CESM runs in the Build/Run Directory.

• case.st_archive moves the history files to the archive directory runs only after case.run completes successfully. If a model run was unsuccessful the output remains in the Run Directory.