job_leda

#!/bin/bash 
#!
#! Sample PBS file for an InfiniPath MPI job
#!
### EDIT TO SET CORRECT PATHS


#! Name of job
#PBS -N lenspix

#! First entry: Number of nodes:cores per node.
#!  The total number of tasks passed to mpirun will be nodes*ppn.
#! Second entry: Total amount of memory requested across all nodes.
#!  Divide this by the number of nodes to get the memory requested per node.
#!  NB most nodes have no more than 7972mb available in practice.
#! Third entry: Total amount of wall-clock time (true time) required.
#!  02:00:00 indicates 02 hours.

#PBS -l nodes=2:ppn=4

##,mem=63776mb,walltime=02:00:00

#! Mail to user when job terminates or aborts
###PBS -m ae


#! Full path to application + application name
application=./simlens

#! Run options for the application
options=params.ini

#! Work directory
workdir=/home/aml1005/git/lenspix

#! MPIrun
runmpi=/usr/local/openmpi/intel10/64/1.2.2/bin/mpirun


###############################################################
### You should not have to change anything below this line ####
###############################################################

#! change the working directory (default is home directory)

cd $workdir

echo Running on host `hostname`
echo Time is `date`
echo Directory is `pwd`
echo PBS job ID is $PBS_JOBID
echo This jobs runs on the following machines:
echo `cat $PBS_NODEFILE | uniq`
 
#! Create a machine file for MPI
cat $PBS_NODEFILE | uniq > machine.file.$PBS_JOBID

numnodes=`wc $PBS_NODEFILE | awk '{ print $1 }'`

#! Run the parallel MPI executable (nodes*ppn)

echo "Running mpirun -np $numnodes -machinefile machine.file.$PBS_JOBID $application $options"
time $runmpi $application $options

##$runmpi  -np $numnodes -machinefile machine.file.$PBS_JOBID $application $options