Dear Freesurfer experts,

 

When I run recon-all batch command it did not produce all the files normally kept in subject/mri folder. Importantly brainmask.mgz file is missing, so I can't run reg-feat2anat command.

 

Please advise me what I can do.

 

Many thanks,

 

Iwo Bohr, PhD

School of Computing Science

University of Newcastle, UK