it's run as part of recon-all. If you grab a new one and run recon-all -make all ...
you should be all set Bruce On Fri, 18 Jan 2013, Borzello, Mia wrote: > great. is there a freesurfer page on mris_topo_fixer? I'm not sure how/where > to run this and I don't see a page on the freesurfer site. > > Thanks so much, > m > ________________________________________ > From: Bruce Fischl [fis...@nmr.mgh.harvard.edu] > Sent: Thursday, January 17, 2013 1:30 PM > To: Borzello, Mia > Cc: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] pial not computing > > Hi Mia > > this is fixed in the newest version. You can grab a new mris_topo_fixer > and you rerun and it should be all set. You probably should take a look > at the ?h.orig.nofix to make sure it's reasonable (meaning no cerebellum > or skull attached, and the hemispherees successfully separated) > > cheers > Bruce > On Thu, 17 > Jan 2013, Borzello, Mia wrote: > >> Okay, so it didn't complete without error. I've attached the recon-all.log. >> Also, I was using another post op patient's MRI scans. >> >> thanks so much, >> m >> ________________________________________ >> From: freesurfer-boun...@nmr.mgh.harvard.edu >> [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl >> [fis...@nmr.mgh.harvard.edu] >> Sent: Thursday, January 17, 2013 11:22 AM >> To: Borzello, Mia >> Cc: freesurfer@nmr.mgh.harvard.edu >> Subject: Re: [Freesurfer] pial not computing >> >> Hi Mia >> >> we need to see the recon-all.log. Did it end with an error? >> Bruce >> On Thu, 17 Jan >> 2013, Borzello, Mia wrote: >> >>> Hi Freesurfers, >>> >>> I just ran a recon, and it seems that only the lh.pial computed, but not >>> the rh.pial. What would be the cause of this? >>> Thanks, >>> m >>> >>> _______________________________________________ >>> 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 > > _______________________________________________ > 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.
