hmmm. And are the edits reflected in the filled.mgz? Is the chiasm gone? How about in the ?h.orig and ?h.orig.nofix? On Tue, 31 Jul 2012, Peter McNally wrote:
Hi Bruce,
Thank you for your speedy response. Yes, I ran -autorecon2-wm -autorecon3.
Best, Peter
On Tue, Jul 31, 2012 at 2:03 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: Hi Peter what did you run after editing it out of the wm.mgz? You should be running -autorecon2-wm -autorecon3
cheers Bruce On Tue, 31 Jul 2012, Peter McNally wrote: Dear FreeSurfer Experts, I am using Freesurfer version 5.1 over at the University of Pennsylvania, and I have been running into issues with the optic chiasm. Despite having edited it out on both the brainmask.mgz and wm.mgz volumes, FreeSurfer has been insisting that it be included as a surface on multiple participants. Does anyone know a way to resolve this? Thank you very much for your time. Best, Peter McNally PS: I have included an example as an attachment (.pdf)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.