Dear all, I want to create a surface of a partially altered brain T1 (temporal lobe cut away by hand).
I figured out that this would be done with mri_vol2surf. This command asks for a register.dat file. I think that I can get it using this command: SUBJECT_DIR=/Users/FREESURFER bbregister --s /mri/brain_T1.mgz --mov /Users/FREESURFER/mri/brain_T1_ins.mgz --reg /FREESURFER/mri/register.dat --t1 --init-spm I well starts calculation, but suddenly stops and complains that there is no brainmask /Users/FREESURFER/mri/brain_T1.mgz/mri/brainmask.mgz which makes somehow no sense as the brainmask is in /Users/FREESURFER/mri/brainmask.mgz of course. But I don't find a option to specify the brainmask in bbregister. What am I doing wrong? Thanks for any help! Markus
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