I don't think this made it through to the list the first time...
Hi,
Like others on the list I got the ran out of memory error, which seems to be the result of a gross error somewhere:
CORRECTING DEFECT 1 (vertices=109084, convex hull=14490) Excessive topologic defect encountered: could not allocate 649386741 edges for retessellation Cannot allocate memory Linux bach 2.6.24-27-server #1 SMP Fri Mar 12 01:23:09 UTC 2010 x86_64 GNU/Linux
recon-all -s freesurfer_results exited with ERRORS at Thu Sep 9 22:15:45 EDT 2010
Anyway, it looks like my skull strip is okay, but my wm.mgz and thus my filled.mgz files are where I have the gross errors. It looks like a lot of WM voxels are missing, and not just due to lesions.
Skull: http://imgur.com/hJO5U.jpg WM: http://imgur.com/r6nGT.jpg Filled: http://imgur.com/LanJS.jpg
My questions is, should I just fix the WM using this page: https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/WhiteMatterEdits, or is this a problem at the normalization step, or is there something else I can try?
thanks, mishkin
p.s i tired using 4.5.0 and 5.0.0