yea, this is a bug. I've just fixed it.
doug
Michael Waskom wrote:
Hey developers,
It seems as if the --cortex and --mask flags for mri_vol2surf are not doing anything. E.g., if I use the exact same command line:
mri_vol2surf --hemi rh --o rh.w-cortex.nii.gz --out_type niigz --reg register.dat --reshape --projfrac-avg 0 1 .1 --mov cope2.nii.gz --cortex
With and without "--cortex" and then diff the output, they are identical. When you load the overlay in tksurfer, the medial wall has values that are not 0.
Here's my bugr data:
FREESURFER_HOME: /software/Freesurfer/5.0.0
Build stamp: freesurfer-Linux-centos5_x86_64-stable-pub-v5.0.0
Debian version: squeeze/sid
Kernel info: Linux 2.6.31-22-generic x86_64
Best, Mike _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer