ERROR: Unknown error submitted to shr_abort_abort.

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lixiao

李霄
New Member
Dear all,
I have a problem when running clm5.0.35.

I did a regional simulation by cutting domain and surfdata file.
cd /data/lixiao/clm5.0.35/tools/ncl_scripts
vim sample_inlist
fatmlndfrc = '/data/lixiao/cesm/inputdata/share/domains/domain.lnd.fv0.23x0.31_gx1v6.100517.nc'
fsurdat = '/data/lixiao/cesm/inputdata/lnd/clm2/surfdata_map/lixiao_ex/surfdata_0.23x0.31_simyr1850_c100404.nc'
vim sample_outlist
fatmlndfrc = 'domain.lnd.fv0.23x0.31_gx1v6.100517_Yangtze.nc'
fsurdat = 'surfdata_0.23x0.31_simyr1850_c100404_Yangtze.nc'
./getregional_datasets.pl -ne 38,125 -sw 22,88 -i sample_inlist -o sample_outlist
cp domain.lnd.fv0.23x0.31_gx1v6.100517_Yangtze.nc /data/lixiao/cesm/inputdata/share/domains
cp surfdata_0.23x0.31_simyr1850_c100404_Yangtze.nc /data/lixiao/cesm/inputdata/lnd/clm2/surfdata_map/lixiao_ex
cd /data/lixiao/clm5.0.35/cime/scripts/
./create_newcase --case CLM50Sp_GSWP --res f02_g17 --compset 1850_DATM%GSWP3v1_CLM50%SP_SICE_SOCN_MOSART_SGLC_SWAV --compiler intel --mach myintel --run-unsupported
cd /data/lixiao/clm5.0.35/cime/scripts/CLM50Sp_GSWP
./xmlchange DATM_CLMNCEP_YR_START=2013
./xmlchange DATM_CLMNCEP_YR_END=2014
./xmlchange RUN_STARTDATE=2013-01-01
./xmlchange STOP_OPTION=nmonths
./xmlchange STOP_N=24
./xmlchange REST_OPTION=nyears
./xmlchange REST_N=1
./xmlchange RUN_TYPE=startup
./xmlchange CONTINUE_RUN=TRUE
./xmlchange LND_DOMAIN_FILE=domain.lnd.fv0.23x0.31_gx1v6.100517_Yangtze.nc
./xmlchange ATM_DOMAIN_FILE=domain.lnd.fv0.23x0.31_gx1v6.100517_Yangtze.nc
./case.setup
./preview_run
vim user_nl_clm

fsurdat = "/data/lixiao/cesm/inputdata/lnd/clm2/surfdata_map/lixiao_ex/surfdata_0.23x0.31_simyr1850_c100404_Yangtze.nc"
hist_empty_htapes = .true.
hist_mfilt = 12
hist_nhtfrq = 0
hist_fincl1 = 'QH2OSFC:A', 'QH2OSFC:X', 'QH2OSFC:M'
hist_fincl2 = 'TWS:A', 'TWS:X', 'TWS:M'
hist_fincl3 = 'QFLOOD:A', 'QFLOOD:X', 'QFLOOD:M'
hist_fincl4 = 'QOVER:A', 'QOVER:X', 'QOVER:M'
./preview_namelists
./check_input_data
./case.build --skip-provenance-check
./case.submit

But I met an run fail:
2022-09-18 11:22:11 MODEL EXECUTION BEGINS HERE
run command is mpirun -np 96 /data/lixiao/cesm/scratch/CLM50Sp_GSWP/bld/cesm.exe >> cesm.log.$LID 2>&1
ERROR: RUN FAIL: Command 'mpirun -np 96 /data/lixiao/cesm/scratch/CLM50Sp_GSWP/bld/cesm.exe >> cesm.log.$LID 2>&1 ' failed
See log file for details: /data/lixiao/cesm/scratch/CLM50Sp_GSWP/run/cesm.log.220918-112211

The log file and xml files are attached and I'm looking forward to your reply!
 
L

lixiao

李霄
New Member
lixiao said:
Dear all,
I have a problem when running clm5.0.35.

I did a regional simulation by cutting domain and surfdata file.
cd /data/lixiao/clm5.0.35/tools/ncl_scripts
vim sample_inlist
fatmlndfrc = '/data/lixiao/cesm/inputdata/share/domains/domain.lnd.fv0.23x0.31_gx1v6.100517.nc'
fsurdat = '/data/lixiao/cesm/inputdata/lnd/clm2/surfdata_map/lixiao_ex/surfdata_0.23x0.31_simyr1850_c100404.nc'
vim sample_outlist
fatmlndfrc = 'domain.lnd.fv0.23x0.31_gx1v6.100517_Yangtze.nc'
fsurdat = 'surfdata_0.23x0.31_simyr1850_c100404_Yangtze.nc'
./getregional_datasets.pl -ne 38,125 -sw 22,88 -i sample_inlist -o sample_outlist
cp domain.lnd.fv0.23x0.31_gx1v6.100517_Yangtze.nc /data/lixiao/cesm/inputdata/share/domains
cp surfdata_0.23x0.31_simyr1850_c100404_Yangtze.nc /data/lixiao/cesm/inputdata/lnd/clm2/surfdata_map/lixiao_ex
cd /data/lixiao/clm5.0.35/cime/scripts/
./create_newcase --case CLM50Sp_GSWP --res f02_g17 --compset 1850_DATM%GSWP3v1_CLM50%SP_SICE_SOCN_MOSART_SGLC_SWAV --compiler intel --mach myintel --run-unsupported
cd /data/lixiao/clm5.0.35/cime/scripts/CLM50Sp_GSWP
./xmlchange DATM_CLMNCEP_YR_START=2013
./xmlchange DATM_CLMNCEP_YR_END=2014
./xmlchange RUN_STARTDATE=2013-01-01
./xmlchange STOP_OPTION=nmonths
./xmlchange STOP_N=24
./xmlchange REST_OPTION=nyears
./xmlchange REST_N=1
./xmlchange RUN_TYPE=startup
./xmlchange CONTINUE_RUN=TRUE
./xmlchange LND_DOMAIN_FILE=domain.lnd.fv0.23x0.31_gx1v6.100517_Yangtze.nc
./xmlchange ATM_DOMAIN_FILE=domain.lnd.fv0.23x0.31_gx1v6.100517_Yangtze.nc
./case.setup
./preview_run
vim user_nl_clm

fsurdat = "/data/lixiao/cesm/inputdata/lnd/clm2/surfdata_map/lixiao_ex/surfdata_0.23x0.31_simyr1850_c100404_Yangtze.nc"
hist_empty_htapes = .true.
hist_mfilt = 12
hist_nhtfrq = 0
hist_fincl1 = 'QH2OSFC:A', 'QH2OSFC:X', 'QH2OSFC:M'
hist_fincl2 = 'TWS:A', 'TWS:X', 'TWS:M'
hist_fincl3 = 'QFLOOD:A', 'QFLOOD:X', 'QFLOOD:M'
hist_fincl4 = 'QOVER:A', 'QOVER:X', 'QOVER:M'
./preview_namelists
./check_input_data
./case.build --skip-provenance-check
./case.submit

But I met an run fail:
2022-09-18 11:22:11 MODEL EXECUTION BEGINS HERE
run command is mpirun -np 96 /data/lixiao/cesm/scratch/CLM50Sp_GSWP/bld/cesm.exe >> cesm.log.$LID 2>&1
ERROR: RUN FAIL: Command 'mpirun -np 96 /data/lixiao/cesm/scratch/CLM50Sp_GSWP/bld/cesm.exe >> cesm.log.$LID 2>&1 ' failed
See log file for details: /data/lixiao/cesm/scratch/CLM50Sp_GSWP/run/cesm.log.220918-112211

The log file and xml files are attached and I'm looking forward to your reply!
Click to expand...
 

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oleson

Keith Oleson
CSEG and Liaisons
Staff member
The traceback indicates that the model is failing when trying to read seq_infodata_nextsw_cday, which I think should be a variable on the cpl restart file:

call seq_io_read(infodata%restart_file,pioid,infodata%nextsw_cday ,'seq_infodata_nextsw_cday')

The lines above that imply that this is a restart run:

call shr_mpi_bcast(infodata%read_restart,mpicom)
if (infodata%read_restart) then

Is it a restart run?
I see you set ./xmlchange CONTINUE_RUN=TRUE, but that should only be set if you are restarting (continuing) a simulation.
 
L

lixiao

李霄
New Member
Thanks for your reply. I set ./xmlchange CONTINUE_RUN=FALSE and submit again.
However, I met a new error: ERROR: GLACIER_REGION NOT on surfdata fileERROR in glcBehaviorMod.F90 at line 662.
The region that I want to simulate does not include glacier, so how can I solve this problem?

Looking forward to your reply!
 

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oleson

Keith Oleson
CSEG and Liaisons
Staff member
You need a surface dataset that has GLACIER_REGION on it regardless of whether or not you are running with CISM.
So, you will need to subset a newer surface dataset that has GLACIER_REGION on it.
 
L

lixiao

李霄
New Member
oleson said:
You need a surface dataset that has GLACIER_REGION on it regardless of whether or not you are running with CISM.
So, you will need to subset a newer surface dataset that has GLACIER_REGION on it.
Click to expand...
Thank you! I'll try again as soon as possible.
 
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