Hi Bruce,
The exact input is:
mri_mask T1.mgz brain.mgz brain.mgz
This command was invoked by "recon-all -subjid subject
-normalization2", which is part of "recon-all -subjid subject
-autorecon2". Because of the bug, after this command, the manual
edited brain.mgz went back to pre-manual editing state.
It appears that by adding a threshold (mri_mask -T 20 T1.mgz brain.mgz
brain.mgz) the mask is properly executed. However, this does mean that
one cannot run autorecon2 or normalization2, which calls for mri_mask
without specifying a threshold. Perhaps someone should fix this
command (as well as autorecon2 and normalization2)??
--Yuhong
=============================================================================
Yuhong Jiang [EMAIL PROTECTED]
617-876-2054 http://web.mit.edu/yuhong/www
=============================================================================
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