segmentation fault on generic unix computer with compset X

[klinck@ccpo_odu_edu]

I am a new user of the cesm code. I need to run standalone ocean cases to set up the ocean model for a southern ocean coupled calculation as part of an EaSM project.

I have the cesm1_0_4 code. (I tried to use the cesm1_1 code, but the generic machine files are not present). I have set up the compset X as described in the users guide. I am running the code on a linux computer with 4 dual core processers (a sunfire x2200). I am using mpi (mpich2). I have the intel compilers and mpi was compiled with the intel compilers.

The model build finishes without error. I have submitted the job with mpiexec using 6 processors.

mpiexec -n 6 -f $CASEROOT/charybdisfile ./ccsm.exe >&! ccsm.log.$LID

The run finishes with a segment fault (see part of the run log below). I can not find any information in the logs what process segment faults. I suspect that I have a problem with the distribution of processes so I have included the task distribution from the pes file. I am sending small slices of the output files to reduce the bulk, but I will send copies of whatever files might be useful. None of the individual model log files have any indication of an error.

I am hoping for suggestions of what to change, or at least where to find what went wrong.

Thanks in advance for your suggestions.

John

lines from env_mach_pes.xml (modified from the distribution with xmlchange)





































ccsm.log

(deleted lines)

(seq_mct_drv) : Initialize atm component
(seq_mct_drv) : Initialize lnd component
(seq_mct_drv) : Initialize ocn component
(seq_mct_drv) : Initialize ice component
(seq_mct_drv) : Initialize glc component

=====================================================================================
= BAD TERMINATION OF ONE OF YOUR APPLICATION PROCESSES
= EXIT CODE: 139
= CLEANING UP REMAINING PROCESSES
= YOU CAN IGNORE THE BELOW CLEANUP MESSAGES
=====================================================================================
APPLICATION TERMINATED WITH THE EXIT STRING: Segmentation fault (signal 11)

 

[jedwards]

The porting process for generic machines is still there, but has changed, we think it is an improvement over the old generic machines method, you can find documentation in the users manual:
http://www.cesm.ucar.edu/models/cesm1.1/cesm/doc/usersguide/c1779.html

It is difficult to tell what the problem might be with your build below, but a common problem is the stacksize limit in your user environment, try setting it to unlimited.

 

[klinck@ccpo_odu_edu]

Jim,

The model ran with stacksize set to unlimited. Thanks for your help. Now on to Compset A.

Thanks,

John