Hi Chindhuri remove the "-l nodes=1:opteron" from your command line. Also, you probably want to send emails like this to h...@nmr.mgh.harvard.edu in the future, as they are Martinos-specific.
cheers Bruce On Wed, 22 Jun 2011, Chindhuri Selvadurai wrote: > > > I thought the default was p10, so I just used that to try again, however > I'm still getting that error with no extra info in the log. what is the > name of the queue, maybe that is my problem: > > command: > > pbsubmit -q p10 -l nodes=1:opteron -m chinsel -c 'recon-all -s RMAUT021 > -all -i > /cluster/archive/292/siemens/TrioTim-35006-20110508-105030-353000/353000-000004-000001.dcm > -mail chin...@nmr.mgh.harvard.edu -force' > > output: > > Opening pbsjob_4 > qsub -V -S /bin/sh -m abe -M chinsel -q p10 -l nodes=1:opteron -r n > /pbs/chinsel/pbsjob_4 > qsub: Job exceeds queue resource limits MSG=cannot locate feasible nodes > FATAL: qsub call failed. Check above for error messages. > [1] + Done gedit pbsjob_3 > > > >> What exact website page are you using for help on launchpad? launchpad > has no >> opteron nodes so you should not be specifying that resource. Its queue > names >> are also different than seychelles. There is no sergeant queue. Read: >> https://www.nmr.mgh.harvard.edu/martinos/itgroup/launchpad.html >> On Tue, 21 Jun 2011, Chindhuri Selvadurai wrote: >>> Hello, >>> I am trying to do recon-all using launchpad, and I am not sure how to > fix >>> the error I am getting. I checked IT's launchpad help website, but > can't seem to figure it out. >>> Using fs v4 >>> subjects_dir: /space/ventzl/36/users/RespMon12C/subjects >>> command: pbsubmit -q sergeant -l nodes=1:opteron -m chinsel -c >>> 'recon-all >>> -s RMAUT021 -all -i >>> /cluster/archive/292/siemens/TrioTim-35006-20110508-105030-353000/353000-000004-000001.dcm > -mail chin...@nmr.mgh.harvard.edu -force' >>> This is the output I'm getting: >>> Opening pbsjob_3 >>> qsub -V -S /bin/sh -m abe -M chinsel -q sergeant -l nodes=1:opteron > -r n >>> /pbs/chinsel/pbsjob_3 >>> qsub: Unknown queue MSG=cannot locate queue >>> FATAL: qsub call failed. Check above for error messages. >>> I'm also not getting any e-mails. Is there a way to check an error log > like on seychelles? >>> Best, >>> Chindhuri Selvadurai >>> Psychiatric Neuroimaging, Manoach Lab >>> Martinos Center for Biomedical Imaging, MGH >>> Phone: (617)726-0307 >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> --------------------------------------------------------------- >> Paul Raines email: raines at nmr.mgh.harvard.edu >> MGH/MIT/HMS Athinoula A. Martinos Center for Biomedical Imaging >> 149 (2301) 13th Street Charlestown, MA 02129 USA > > > Best, > > Chindhuri Selvadurai > > Psychiatric Neuroimaging, Manoach Lab > Martinos Center for Biomedical Imaging, MGH > Phone: (617)726-0307 > > > > Best, > > Chindhuri Selvadurai > > Psychiatric Neuroimaging, Manoach Lab > Martinos Center for Biomedical Imaging, MGH > Phone: (617)726-0307 > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
