[Bioclusters] Re: BLAST job on SGE
Juan Carlos Perin
bic at genome.chop.edu
Fri Dec 3 14:52:49 EST 2004
I'm also interested in this, and have been playing with the configuration.
Our friends at Penn have fixed this and created a queue configuration that
allows single jobs to execute on all available nodes, as opposed to running
two jobs per node, which isn't desirable. It seems to me that the idea was
to run one blast job on each CPU, thus two jobs on each machine, but the
architecture doesn't necessarily work like that, and instead waits for one
to finish, or re-queues the job.
This is a configuration that was suggested by the very kind people at Penn,
that seems to work for this situation:
# qconf -sp smp
I have yet to test it myself.
Children's Hospital of Philadelphia
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