Do you have fsl installed? This is needed for creating the brain masks.
Balaji Goparaju wrote:
Hi Doug and all,
I used the new version of mkbrainmask-sess. It looks like the file is
getting created but it cannot find fslmaths for avmaths.
Is this error something to do with the freesurfer software itself, or
is there anything I can do about it?
Thu Jul 24 09:15:51 EDT 2008
/Users/balajigoparaju/Desktop/subjectdata
mkbrainmask-sess -maskstem brain -fsd bold -s LD-functional -d
/Users/balajigoparaju/Desktop/subjectdata -update
----------------------------------------
------------------------------------------------
------------------------------------------------
/Users/balajigoparaju/Desktop/subjectdata/LD-functional
Thu Jul 24 09:15:52 EDT 2008
--------------------------------------------------
/Users/balajigoparaju/Desktop/subjectdata/LD-functional/bold
mkbrainmask -i 006/f.bhdr -o masks/brain.nii -thresh 0.1 -ndil 1 -nerode 0
--------------------------------------------------
ERROR: cannot find either fslmaths for avwmaths
ERROR: mkbrainmask failed
ERROR: mkbrainmask-sess failed
Thank you for any help!
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
[EMAIL PROTECTED]
Phone Number: 617-724-2358
Fax: 617-726-7422
In order to help us help you, please follow the steps in:
surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
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