The version is freesurfer-Linux-rh9-stable-pub-v3.0.2. The error message happens when I try to run recon-all -s <subj> -segmentation, which fails to locate the brain.mgz file (the brainmask.mgz is there instead).
Besides this, I can't run tksurfer because an error message appears saying: mrisReadTriangleFile(~/freesurfer/subjects/bert/surf/rh.sphere.reg): surface doesn't match ~/freesurfer/subjects/bert/surf/rh.smoothwm mrisReadTriangleFile failed Then I only have a transparent window... Thanks again! -----Original Message----- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] Behalf Of Jenni Pacheco Sent: 28 April 2006 12:14 To: 'Joao Pereira'; freesurfer@nmr.mgh.harvard.edu Subject: RE: [Freesurfer] Skullstripping 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: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] 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 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
