[CIG-MC] running citcoms using pbs scheduler
CLINT CONRAD
clintc at hawaii.edu
Fri Mar 12 16:32:48 PST 2010
Hi,
I am setting up some CitcomS runs on a new shared system. We are
required to submit jobs using the pbs system in a slightly different
way than I have done before. Specifically, we have to submit an
account number using
#PBS -A accountnumber
It seems that -A is not included in the job or scheduler options that
you can set in the Citcom.cfg file.
(the available options are: name, queue, walltime, stdin, stdout, and
stderr). Is there an easy way to run citcom using pbs scheduler
that allows me to input the account? I've pasted a sample pbs script
below for running on this system.
Thanks in advance for any help!
Clint
#!/bin/bash
# 10 minute wall time
#PBS -l walltime=00:10:00
# selecting 2 nodes = 2 * 4 = 8 processors for use, mpiprocs needs to
equal ncpus and doesn't exceed 4
#PBS -l select=2:mpiprocs=4:ncpus=4
# scatter required
#PBS -l place=scatter
# account required
#PBS -A STAFF0000
cd $PBS_O_WORKDIR
echo "RUNNING ON: `/usr/bin/uniq $PBS_NODEFILE`"
# note you must use mpirun_jaws to submit MPI jobs on our cluster
mpirun_jaws ./my_openmpi_executable
---------------------------------------------
Clint Conrad Assistant Professor
Dept. Geology & Geophysics, SOEST, 804 POST
Univ. Hawaii at Manoa ph: 808-956-6649
1680 East-West Road fax: 808-956-5154
Honolulu, HI 96822 clintc at hawaii.edu
http://www.soest.hawaii.edu/GG/FACULTY/conrad
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