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Error with case.submit in CESM2

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projy001@...
Error with case.submit in CESM2

I am trying to install and run CESM2. 

Following https://ncar.github.io/CAM/doc/build/html/users_guide/atmospheric-config..., 4.2.2.2.1 . sample the base run, there was no problem to build it with cray and gnu compiler and I could get  "cesm.exe" in both compiler without error. 

But when I tried to do "case.submit" with cesm.exe, it failed with both execute files.


1. using cesm.exe compiled cray-compiler- Err: "freelocale.c: No such file directory"

 After submitting, it gave me "Segmentfault Error" with core file.

 The core file message is "freelocale.c: No such file directory". Please check the attached files. 

 

2. using cesm.exe compiled gnu - Err: "_HR_ already on list"

 After submitting, I got an error message related with "_HR_alrealy on list" but I could not find any _HR_ list in masterlist_addfld code and log. 

 

Would you please let me know how to solve this problem? I really want to cry. 

 

The result of preview_run is like below:---------------------------------------------------

CASE INFO:

  nodes: 4

  total tasks: 96

  tasks per node: 24

  thread count: 1

 

BATCH INFO:

  FOR JOB: case.run

    ENV:

      module command is /opt/modules/default/bin/modulecmd python rm PrgEnv-intel PrgEnv-cray PrgEnv-gnu intel cce cray-parallel-netcdf cray-parallel-hdf5 pmi cray-libsci cray-mpich2 cray-mpich cray-netcdf cray-hdf5 cray-netcdf-hdf5parallel craype-sandybridge craype-ivybridge craype

      module command is /opt/modules/default/bin/modulecmd python load PrgEnv-gnu

      module command is /opt/modules/default/bin/modulecmd python switch gcc gcc/6.3.0

      module command is /opt/modules/default/bin/modulecmd python swap alps alps/5.2.4-2.0502.9822.32.1.ari

      module command is /opt/modules/default/bin/modulecmd python load papi/5.5.1.1

      module command is /opt/modules/default/bin/modulecmd python swap craype/2.2.1 craype/2.5.10

      module command is /opt/modules/default/bin/modulecmd python switch cray-libsci cray-libsci/16.11.1

      module command is /opt/modules/default/bin/modulecmd python switch cray-mpich/7.1.1 cray-mpich/7.5.5

      module command is /opt/modules/default/bin/modulecmd python load cray-netcdf-hdf5parallel/4.4.1.1 cray-hdf5-parallel/1.10.0.1 cray-parallel-netcdf/1.8.0 cmake/2.8.12.1 subversion/1.8.11

      Setting Environment MPICC= cc 

      Setting Environment MPICXX= CC 

      Setting Environment MPIFC= ftn 

      Setting Environment SCC= cc 

      Setting Environment SCXX= CC 

      Setting Environment SFC= ftn 

      Setting Environment OMP_STACKSIZE=256M

      Setting Environment NETCDF_PATH=/opt/cray/netcdf-hdf5parallel/4.4.1.1/GNU/5.1

      Setting Environment NETCDF_C_PATH=/opt/cray/netcdf-hdf5parallel/4.4.1.1/GNU/5.1

      Setting Environment NETCDF_FORTRAN_PATH=/opt/cray/netcdf-hdf5parallel/4.4.1.1/GNU/5.1

      Setting Environment PNETCDFROOT=/opt/cray/parallel-netcdf/1.8.0/GNU/5.1

    SUBMIT CMD:

      qsub -q normal -l walltime=00:20:00 -v ARGS_FOR_SCRIPT='--resubmit' .case.run

 

  FOR JOB: case.st_archive

    ENV:

      module command is /opt/modules/default/bin/modulecmd python rm PrgEnv-intel PrgEnv-cray PrgEnv-gnu intel cce cray-parallel-netcdf cray-parallel-hdf5 pmi cray-libsci cray-mpich2 cray-mpich cray-netcdf cray-hdf5 cray-netcdf-hdf5parallel craype-sandybridge craype-ivybridge craype

      module command is /opt/modules/default/bin/modulecmd python load PrgEnv-gnu

      module command is /opt/modules/default/bin/modulecmd python switch gcc gcc/6.3.0

      module command is /opt/modules/default/bin/modulecmd python swap alps alps/5.2.4-2.0502.9822.32.1.ari

      module command is /opt/modules/default/bin/modulecmd python load papi/5.5.1.1

      module command is /opt/modules/default/bin/modulecmd python swap craype/2.2.1 craype/2.5.10

      module command is /opt/modules/default/bin/modulecmd python switch cray-libsci cray-libsci/16.11.1

      module command is /opt/modules/default/bin/modulecmd python switch cray-mpich/7.1.1 cray-mpich/7.5.5

      module command is /opt/modules/default/bin/modulecmd python load cray-netcdf-hdf5parallel/4.4.1.1 cray-hdf5-parallel/1.10.0.1 cray-parallel-netcdf/1.8.0 cmake/2.8.12.1 subversion/1.8.11

      Setting Environment MPICC= cc 

      Setting Environment MPICXX= CC 

      Setting Environment MPIFC= ftn 

      Setting Environment SCC= cc 

      Setting Environment SCXX= CC 

      Setting Environment SFC= ftn 

      Setting Environment OMP_STACKSIZE=256M

      Setting Environment NETCDF_PATH=/opt/cray/netcdf-hdf5parallel/4.4.1.1/GNU/5.1

      Setting Environment NETCDF_C_PATH=/opt/cray/netcdf-hdf5parallel/4.4.1.1/GNU/5.1

      Setting Environment NETCDF_FORTRAN_PATH=/opt/cray/netcdf-hdf5parallel/4.4.1.1/GNU/5.1

      Setting Environment PNETCDFROOT=/opt/cray/parallel-netcdf/1.8.0/GNU/5.1

    SUBMIT CMD:

      qsub -q normal -l walltime=0:20:00  -W depend=afterok:0 -v ARGS_FOR_SCRIPT='--resubmit' case.st_archive

 

MPIRUN:

  aprun -n 96 -N 24 -d 1 /s3/scratch/nwpr/projy/tmpdir/base_run_case_gnu/bld/cesm.exe    >> cesm.log.$LID 2>&1 

 

-------------------------------------------------------------------------------------------------------------------------------------

 

 

JiyoungOh

jedwards

CESM Software Engineer

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