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