Hi Michael, With 5.0, gcut is run by default I believe. If you look at the recon-all.log for that subject and search for gcut, you should be able to see if it ran. Allison
On Thu, 7 Apr 2011, Dougherty, Michael wrote: > Hello all, > I would like to take advantage of the gcut feature to remove dura that gets > included in many subjects in my dataset. I am using v5.0.0, but when i enter > the command from the wiki: recon-all -skullstrip -clean-bm -gcut -subjid > <subjid> , i get an exit recon-all with errors, saying "ERROR: Flag -gcut > unrecognized." > > Any suggestions, so that I can avoid doing all of these edits manually? > > Michael > > _______________________________________________ > 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.
