Hi Douglas. Thanks for the reply. Forgive me for not responding quickly.
It turns out what we really want is the interim files that are saved during recon-all if you add the -qcache option. Is there any way to generate those files after running recon-all without having to run recon-all again in its entirety? We would also be ok with running the sub command manually if we could know what the command line would be. Thanks so much. -John -----Original Message----- From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Wednesday, February 15, 2017 5:28 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Question on saving interim files when generating an fsavearge There is not a flag to do this, but you could edit the scripts so that it does not delete the tmpdir. On 02/14/2017 09:43 AM, West, John D. wrote: > > Hello. > > We are looking to save the interim subject files generated when > creating an fsaverage. These seem to be automatically deleted at the > end of the process so we were wondering if there is a flag or script > that would save these for us? > > Thanks for your help. > > *John D. West, M.S.* > > Principal Systems Analyst | Center for Neuroimaging > > Indiana University School of Medicine > > ** > > 355 West 16^th Street | GH 4100 > > Indianapolis, IN 46202 > > 317-963-7510 > > jdw...@iupui.edu <mailto:jdw...@iupui.edu> > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ 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. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
