Re: [Freesurfer] wm.mgz and lh.orig.nofix not matching

2014-03-11 Thread Bruce Fischl
Hi Mike mri_pretess that is causing this behavior. I guess we delete the pretess output after ceating the surfaces, which makes it harder to diagnose this kind of thing. I ran (which I got from the recon-all.log): mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz

[Freesurfer] wm.mgz and lh.orig.nofix not matching

2014-03-11 Thread Harms, Michael
Hi guys, I was wondering if someone could take a look at a subject that I just uploaded (L217_100908.zip). An RA was editing wm.mgz to attempt to fix a topology problem in the LH visual cortex.  The edited wm.mgz that she created looks fine to me, but after re-running FS, the surfaces still ar