Resubmit after submit still intend to initial file

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./xmlchange RESUBMIT=1
./xmlchange DATA_ASSIMILATION_SCRIPT=''
./xmlchange DATA_ASSIMILATION_ATM=false
./case.submit

./xmlchange RESUBMIT=0
./xmlchange CONTINUE_RUN=true
./xmlchange DATA_ASSIMILATION_SCRIPT=/projects-SSD/public/cases/fwdart_t/assimilate.csh
./xmlchange DATA_ASSIMILATION_ATM=true
cp ./../t/input.nml0 ./input.nml -f
./case.submit

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The above are my settings, but I unexpectedly found that after the first submit, the second time it still reports error e.g.

ERROR: GETFIL: FAILED to get cam_initial_0001.nc

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, with

&cam_initfiles_nl
ncdata = 'cam_initial_0001.nc'

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being my setting (user_nl_cam) still pointing to the original file.

I hope the model runs freely for three days and starts assimilation on the last day. Does this mean I need to modify the e.g. cam_initial_0001.nc to point to the new restart file before the second submission?

E.g. rpointer.atm file point to the new restart file, and if run assilimate.csh, cam_initial.nc will point to new restart file too.

Hi Mark, thanks for writing. The ncdata file would not be used in a restart run (the atmosphere is initialized from the cam.r. restart files instead of the cam.i. initial files in ncdata), nor where CONTINUE_RUN=true. The ncdata file is only read if the run is an initial (startup) run.

Does the ncdata file (cam_initial_0001.nc) exist?
Can the first case.submit run successfully?

Hi, thank you for the detailed explanation.

In my case, the first run completed successfully. Before submitting the second run (with CONTINUE_RUN = TRUE), I accidentally deleted the file pointed to by ncdata. My run type has always been hybrid. Based on your earlier explanation, I understand that ncdata is not used in restart or hybrid runs — so I was surprised to see an error related to the missing ncdata file when trying to submit the second run.

Thank you for your help!