Which version of Freesurfer are you using? The newest versions write a file called brainmask.mgz, but the subsequent steps do recognize and use this. Can you elaborate more on the specific problems/error messages you are encountering?
Jenni
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Joao Pereira Sent: Friday, April 28, 2006 6:51 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Skullstripping
Can someone explain me why my the recon-all skull stripping option is writting a file named brainmask.mgz instead of brain.mgz? This is a problem because the subsequent procedures do not recognize the file.
Thank you!
JP
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