How do I submit a parallel MPI job?

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A specific parallel environment needs to be specified, to let the system know which environment and how many processors are going to be used. This is done via the script line:

#$ -pe 16

where the number of processors is 16 in this case.

In the standard mpirun command, you do not have to specify the number of processes through the -np option, because the Cluster Tools runtime system knows that resource allocation will be done by Grid Engine and determines the number of processes from the -pe directive.

To run this job you simply type