Interactive jobs

From HP-SEE Wiki

CMSLTM @IMBB

Jobs were submitted to the PBS queue manager

Example script:

#!/bin/bash
#PBS -q lifesci
#PBS -l nodes=2:ppn=5
#PBS -l walltime=10:00:00
#  PBS_O_WORKDIR=/home/gkastel/layer_V1/experiment/
#  PBS_NODEFILE="/home/gkastel/layer_V1/experiment/nodelist.txt"
MPIEXEC="/usr/mpi/gcc/openmpi-1.4.3/bin/mpiexec"
cd $PBS_O_WORKDIR
NPROCS=10
NRNIV=/home/gkastel/src/nrn-7.1/x86_64/bin/nrniv
NLIBS=/home/gkastel/layer_V1/mechanism/x86_64/.libs/libnrnmech.so
date +%s > times.txt
echo  >> times.txt
$MPIEXEC -np NPROCS $NRNIV -dll "$NLIBS" -mpi finalpar.hoc
date +%s >> times.txt

Invocation: qsub script-name.sh