BatchUsage < Computing/Documentation

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---+ Using the Batch System

You can use the standard PBS commands [[http://www.clusterresources.com/torquedocs/commands/qsub.shtml][qsub]] and [[http://www.clusterresources.com/torquedocs/commands/qstat.shtml][qstat]] to submit and query jobs; or instead some more convenient local commands =bqsub=, =qjobs=, and =qpeek=.

---++ PBS Commands

<verbatim>
qsub -q prod script.sh
qstat -u USER 
qstat -q
</verbatim>

The =prod= queue runs jobs on the 64-bit SL5 nodes.

Note that the =prod= queue has quite low default =walltime=, =cputime= and =memory= limits of 8 hours cpu or wall time and 500MB memory but more can be requested when submitting the job with the =-l= option:

<verbatim>
qsub -q prod -l cput=24:00:00 -l walltime=36:00:00 -l mem=2000mb
</verbatim>

---++ Local Commands

The PPD interactive machines have some local commands for making the PBS batch system a bit more convenient to use and more like the LSF system used on lxplus at CERN.

You can use =bqsub= to submit jobs (similar to LSF's bsub command). This has nicer defaults than =qsub= (eg. you don't need to specify =-q prod=) and any command can be specified on the command-line ( =qsub= only allows a script to be given, with no arguments). Specify a time limit with =bqsub -c hh:mm=. The default is 8:00, with a maximum of 72:00 (3 days). eg.

<verbatim>
bqsub -c 24:00 Sherpa PTCUT:=20 EVENTS=1000
</verbatim>

=qjobs= (like LSF's =bjobs=) lists your running jobs (ie. you don't have to specify the =-u= option) with more helpful information.

=qpeek= (like LSF's =bpeek=) shows a running job's logfile (this prompts for your password to ssh to the batch worker node).

Use =bqsub -h=, =qjobs -h=, or =qpeek -h= for help.

-- Main.ChrisBrew - 2010-06-29
Topic revision: r2 - 2010-06-29 - ChrisBrew