Cluster Usage: Difference between revisions
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qrsh | qrsh | ||
Or for a shell on a specific set of nodes (say any from the node-5-* or node-6-* sets): | Or for a shell on a specific set of nodes (say any from the node-5-* or node-6-* sets): | ||
qrsh -q all.q -l hostname="node-[56]*" | qrsh -q all.q -l hostname="node-[56]*" -now no | ||
The -now no parameter is necessary if the cluster is otherwise full and you'll have to wait to get a job. | |||
If you're interested in writing your own cluster scripts, the nice way of doing this is to use the following lines: | If you're interested in writing your own cluster scripts, the nice way of doing this is to use the following lines: | ||
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This line (modify the 500 to mean the max) should be used in concert with $SGE_TASK_ID to write array job scripts, instead of scripts that only run single jobs. | This line (modify the 500 to mean the max) should be used in concert with $SGE_TASK_ID to write array job scripts, instead of scripts that only run single jobs. | ||
Back to [[ | Back to [[:Category:Cluster]] | ||
[[Category:Internal]] | [[Category:Internal]] | ||
[[Category:Cluster]] | |||
Latest revision as of 16:51, 14 May 2014
Information on how to use the Shoichet Lab Cluster. Note this information is only relevant if you have ssh access to the cluster.
To request a shell on a cluster node, type
qrsh
Or for a shell on a specific set of nodes (say any from the node-5-* or node-6-* sets):
qrsh -q all.q -l hostname="node-[56]*" -now no
The -now no parameter is necessary if the cluster is otherwise full and you'll have to wait to get a job.
If you're interested in writing your own cluster scripts, the nice way of doing this is to use the following lines:
#$ -q all.q
The first line uses the correct queue, all.q for basically any job.
#$ -t 1-500
This line (modify the 500 to mean the max) should be used in concert with $SGE_TASK_ID to write array job scripts, instead of scripts that only run single jobs.
Back to Category:Cluster