Hi Matt
looks like you ahve a pretty big (almost 18K vertices) defect. It will
eventually fix it, but possibly not in the correct way. You can load the
lh.inflated.nofix in freeview and theoverlay lh.defect_labels to see
what's going on (this is the first defect). It may be that some of the
skull was left around or the cerebellum or something, in which case you'll
want to manually correct the wm.mgz to remove the non-brain tissue
cheers
Bruce
On Tue, 24 Jan 2017, Hibert,
Matthew Louis wrote:
Hi Freesurfer Devs,
I'm trying to re-process a subject who had a right temporal lobectomy using
FS6 but the recon hangs at the mris_fix_topology step, saying "XL defect
detected...". It continues to use a CPU for several days if allowed, but
does not actually progress from that point. This scan was able to be
processed in both stable 4 and stable 5.3. I've attached the recon-all log
from the recon using the Martinos installation of "stable6". Any
suggestions?
Thanks,
Matt
_______________________________________________
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.
