What FreeSurfer version are you using?  Very small changes to the input images (e.g. a different random see for FreeSurfer) may be able to kick mris_make_surfaces out of that bug, though perhaps Bruce has fixed it.

Peace,

Matt.

From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Chris Adamson <chris.adamson@mcri.edu.au>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Sunday, March 6, 2016 at 6:14 PM
To: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] T2pial shrinks pial surface

The T2pial option mostly works beautifully. I have a few cases where the pial surface just shrinks globally and wraps over the white surface (see attached). I have checked the T2.mgz and the registration with the T1 is fine. This happens sometimes in one hemisphere only.

Any ideas?

 

Chris Adamson
Senior Research Officer
Developmental Imaging
Murdoch Childrens Research Institute
The Royal Children’s Hospital
Flemington Rd Parkville, Victoria 3052 AUS
T: (03) 9936 6780
E: chris.adamson@mcri.edu.au
www.mcri.edu.au

 

 

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