Kathy,
Can you send me the 001.mgz file for one of these subjects? Send it via the filedrop:
https://www.nmr.mgh.harvard.edu/facility/filedrop/index.html
The 001.mgz file is in the <subj>/mri/orig directory (and you might have a 002.mgz file as well, if you had two structurals for this subject).
Nick
On Thu, 2009-02-05 at 14:59 -0500, Kathy Zhang wrote:
Hello all,
I've been working with a set of about 200 brains, and in 19 of these I'm getting the error "mri_watershed Error: GLOBAL region of the brain empty !". I've checked the talairach transformation with tkregister2, and in 17 of those cases, the transformations look fine (the two other cases were just bad scans). I'm using freesurfer version 4.0.5 for linux, and have already tried previous suggestions to run a skull strip off orig.mgz and checking the FOV values on T1.mgz and orig.mgz.
Does anyone know what I could do to fix this error or somehow work around it to continue the skull strip?
Thanks, Kathy Zhang _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer