This should work:
tkmedit good_output brainmask.mgz \ lh.white -aux T1.mgz \ -aux-surface rh.white \ -segmentation mri/aseg.mgz \ $FREESURFER_HOME/FreeSurferColorLUT.txt
On Thu, 2007-04-12 at 16:54 +0100, Morgan Hough wrote:
I have a quick question about an error we are getting with FS 3.0.5 when we are using tkmedit as described in the tutorial to display the segmentations overlaid on the T1.
tkmedit good_output brainmask.mgz lh.white -aux T1.mgz -aux-surface rh.white -segmentation aseg.mgz
The first error seems to regard the new requirement that a color LUT be passed with the segmentation option. If we add
tkmedit good_output brainmask.mgz lh.white -aux T1.mgz -aux-surface rh.white -segmentation aseg.mgz tkmeditColorsCMA
Then the message reduces to a problem of opening the segmentation file which it says is not in the right .cor format. I assume this is a legacy error message but I am not sure if I need to rename the aseg.mgz file or pass in another option with the file type.
Thanks in advance for your time.
Cheers,
-Morgan _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer