[Bioclusters] SGE and parallel Blast

Ivo Grosse bioclusters@bioinformatics.org
Fri, 07 Jun 2002 11:59:12 -0400

There could be one additional reason why running Blast with the flag 
"-a 2" on a dual-processor SMP could be of advantage: it needs less 
memory than two (independent) Blast jobs simultaneously running on the 
same node.  Can somebody tell me the simplest (or most elegant) way of 
submitting "blast -a 2" jobs through SGE?



Perhaps: qsub -pe threads 2 <my_blast_script>?

Or something else instead of threads?