Hey Bruce, I got a notification saying the email my recon-all.log file attachment was too large and had to await moderator approval to be posted to the support list. I was just wondering if you received it or if I should resend it.
Best, Champe Sent from my iPhone > On Mar 6, 2016, at 9:53 AM, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > > Hi Champe > > can you send us the recon-all.log file? > > cheers > Bruce >> On Sun, 6 Mar 2016, Champe Barton wrote: >> >> Hi Freesurfer People, >> I’m working on a 2015 Macbook Pro with OS X El Capitan version 10.11.2 and I >> have System Integrity Protection disabled (though I hadn’t experienced any >> issues that could have been a result of that function). Everything in >> FreeSurfer works fine for me—I ran recon-all and successfully processed >> dicom files, I successfully viewed the T1.mgz and brainmask.mgz volumes and >> the pial and white surfaces, and I successfully deleted unnecessary voxels >> and added a set of control points (in both cases, being careful to make and >> save the changes on all necessary slices with the brainmask volume >> highlighted). My only issue is that when I reprocess the data using >> recon-all -autorecon2-cp -autorecon3 -subjid <my subject ID>, it runs >> through the reconstruction without error and then shows no changes at all in >> freeview when I view the volumes/surfaces. The deleted voxels still appear >> deleted and I can still load the control points, so why wouldn’t it make the >> changes? >> And just to provide a little extra info: I encounter the same problem when I >> reprocess the tutorial data for the pial edits tutorial. I delete the voxels >> as instructed, save the file, reprocess it without error, and then nothing’s >> changed when I view it all again in freeview. >> Any help would be HUGELY appreciated—I’ve stressed over this for weeks >> trying to get my computer to function properly so that I can begin my work >> as a research assistant in a neuropsych lab editing and analyzing brain >> scans with FreeSurfer. >> Thanks, >> Champe > _______________________________________________ > 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
