error in mkmapdata.sh

[jiamengl]

Hi, I met errors while running mkmapdata.sh on cheyenne. Can anyone help me with this?

My code:
setenv GRIDNAME f19_g17_DK_SOR
setenv CDATE `date +%y%m%d`
cd ~/my_cesm_sandbox/components/clm//tools/mkmapdata
./mknoocnmap.pl -p 55.5,11.6 -n $GRIDNAME
setenv MAPFILE ~/my_cesm_sandbox/components/clm//tools/mkmapgrids/map_${GRIDNAME}_noocean_to_${GRIDNAME}_nomask_aave_da_${CDATE}.nc
setenv GRIDFILE ~/my_cesm_sandbox/components/clm//tools/mkmapgrids/SCRIPgrid_${GRIDNAME}_nomask_c${CDATE}.nc
cd ~/my_cesm_sandbox/components/clm/tools/mkmapdata
./mkmapdata.sh -r $GRIDNAME -f $GRIDFILE -t regional

Error message:
./mkmapdata.sh
Script to create mapping files required by mksurfdata_map
query command is ./../../bld/queryDefaultNamelist.pl -silent -namelist clmexp -justvalue -options sim_year=2000 -csmdata /glade/p/cesm/cseg/inputdata

Using user specified scrip grid file: /glade/u/home/jiamengl/my_cesm_sandbox/components/clm/tools/mkmapgrids/SCRIPgrid_f19_g17_DK_SOR_nomask_c220522.nc
Output grid resolution is f19_g17_DK_SOR
Hostname = cheyenne2

Lmod is automatically replacing "gnu/8.3.0" with "intel/18.0.5".

Due to MODULEPATH changes, the following have been reloaded:
1) esmf_libs/7.1.0r 2) ncarcompilers/0.5.0 3) ncl/6.6.2 4) netcdf/4.7.4

rm: cannot remove 'PET*.Log': No such file or directory
Creating mapping file: map_0.5x0.5_AVHRR_to_f19_g17_DK_SOR_nomask_aave_da_c220522.nc
From input grid: /glade/p/cesm/cseg/inputdata/lnd/clm2/mappingdata/grids/SCRIPgrid_0.5x0.5_AVHRR_c110228.nc
For output grid: /glade/u/home/jiamengl/my_cesm_sandbox/components/clm/tools/mkmapgrids/SCRIPgrid_f19_g17_DK_SOR_nomask_c220522.nc

/glade/u/apps/ch/opt/esmf-mpi-netcdf/7.1.0r/mpt/2.19/intel/18.0.5//bin/binO/Linux.intel.64.mpi.default/ESMF_RegridWeightGen: error while loading shared libraries: libmpi.so: cannot open shared object file: No such file or directory
Error status returned from mkmapdata script

 

[oleson]

I tried this on cheyenne and it appeared to be working. Is it working for you now? It's possible that some libraries were not setup correctly after the HPC downtime. I'd also suggest running your last command like this to ensure you have enough memory and you use the compute nodes and not the login nodes:

qcmd –A $PROJECT –l walltime=04:00:00 -l select=3:ncpus=1:mpiprocs=1:mem=109GB -- ./mkmapdata.sh -r $GRIDNAME -f $GRIDFILE -t regional