ClustalW MPI

Write a file called clustalw-mpi.pbs (shown below). Then use the qsub command:

qsub -v file=filename clustalw-mpi.pbs

clustalw-mpi.pbs

 #!/bin/sh  
 #PBS -l nodes=1:ppn=8

 source /usr/modules/init/bash  
 module load openmpi  openmpi-apps/1.6.4/clustalw

 mpirun clustalw-mpi myfile  -outfile=myfile.aln -type=protein -align