Hi Emily - Replace "sub238/DTI/i*.MRDC.1" with a single file name.
a.y On Thu, 13 Mar 2014, ebell...@uwm.edu wrote: > Hello, > > I recently modified my script so that it would work on a cluster. I had been > running it successfully locally but am now having some trouble on the > cluster. The only thing I changed in the dmrirc script were some pathways. > However, I keep getting an error of must specify as many dicoms as subjects. > I did not change any dicom numbers in this once successfully working script. > > Attached is my script. Any thoughts? > > Thanks, > > Emily > > ----- Original Message ----- > From: ebell...@uwm.edu > To: "Anastasia Yendiki" <ayend...@nmr.mgh.harvard.edu> > Cc: "freesurfer" <freesurfer@nmr.mgh.harvard.edu> > Sent: Wednesday, March 5, 2014 3:25:00 PM > Subject: Re: [Freesurfer] Running Tracula on a cluster > > Hi Anastasia, > > We use SLURM. > > I have not personally yet run bedpost off of the cluster, but one of my > colleagues was able to run his data off of our cluster ( the whole pathway > including bedpost) without any problem. However he (Jon Wieser) made an > individual dmrirc configuration file script for every subject and then made > sure each one got assigned to a different processor in another script. > > Thanks, > > Emily > > ----- Original Message ----- > From: "Anastasia Yendiki" <ayend...@nmr.mgh.harvard.edu> > To: ebell...@uwm.edu > Cc: "freesurfer" <freesurfer@nmr.mgh.harvard.edu> > Sent: Wednesday, March 5, 2014 3:02:14 PM > Subject: Re: [Freesurfer] Running Tracula on a cluster > > > Hi Emily - Which job management system does your cluster run on? Have you > ever tried to run any of the FSL parallelized programs, like bedpostx, on > your cluster? > > a.y > > On Wed, 5 Mar 2014, ebell...@uwm.edu wrote: > >> >> Hello, >> >> I plan on running a batch of subjects (around 80) on a computer cluster. >> >> I am assuming that in the dmrirc configuration file, I can enter all of the >> subjects in subjlist? >> >> However, do I have to add something to it to make sure that each subject >> gets sent to a different processor on the cluster? >> >> I have attached my dmrirc file as well as the files needed for it to run on >> the cluster. >> >> Thanks, >> >> Emily > > > 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. > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
