#PBS -N mpi-hpc-clust-align
#PBS -l nodes=10:ppn=4
#PBS -l mem=50gb
#PBS -l walltime=01:00:00:00
#PBS -q biocluster-6
#PBS -j oe
#PBS -o $HOME/job_output_files/hpc-clust-deepc.$PBS_JOBID

module unload gcc/4.7.2
module load intel/14.0.2 openmpi/1.6

INPUT=$HOME/data/qiime_files/all_gom_seqs/test_fastas/infernal_align_hpc_clust/pre_clustered_seqs_sized_sorted_aligned.11280223.shared-sched.pace.gatech.edu.pfam
PROCS=`wc -l < ${PBS_NODEFILE}`

echo "started on `/bin/hostname`"
echo
echo "PATH is [$PATH]"
echo
echo "Nodes chosen are:"
cat $PBS_NODEFILE
echo

COMMAND="mpirun -np $PROCS -hostfile $PBS_NODEFILE /usr/local/packages/hpc-clust/1.1.1/openmpi-1.6.2/intel-14.0.2/bin/hpc-clust-mpi -al true $INPUT"

time $COMMAND

echo $COMMAND