Hi Nick,
Looks like it's working great! Thanks for the help.
-Kevin
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Nick Schmansky Sent: Monday, June 01, 2009 2:16 PM To: k.scheibel@ucla.edu Cc: Freesurfer Mailing List Subject: Re: [Freesurfer] changing psubmit to qsub in rebuild script
Kevin,
The flags "-l nodes=1:opteron –m $USER" included with the pbsubmit command are not necessary to run the rebuild_gca_atlas.csh script. The first just selects nodes with Opteron processors (which happen to be the faster processors in our cluster) and the second just emails the user of the submission.
So just submit whatever is in the '$cmd' var to qsub.
Nick
On Mon, 2009-06-01 at 12:29 -0700, Kevin Scheibel wrote:
Hey All,
The cluster that I submit jobs to uses qsub instead of psubmit, but I’m trying to preserve the way that rebuild_gca_atlas.csh runs. Here is the man page for qsub:
http://gridengine.sunsource.net/nonav/source/browse/~checkout~/gridengine/do...
I guess I’m looking for the equivalent of psubmit’s configuration settings in qsub. I.e. how would I write the following homologous command in qsub?:
psubmit -l nodes=1:opteron –m $USER -c “$cmd”
Kevin Scheibel
k.scheibel@ucla.edu
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