Hi

I am having a problem getting recon-all to finish on 1 subject.

The first time I ran recon-all -all I got an mri_watershed error. (see attached log).

Based on one of the posts to the list I then ran:
recon-all -skullstrip -no-wsgcaatlas -s <subj id>

This completed successfully.
Then I ran:
recon-all -autorecon2 -autorecon3 -s <subj id>

This did not complete successfully with the error that it can't find the brain.mgz file.
I did look at the orig.mgz and T1.mgz files and they look fine. The talairach transform I think is also fine.

What do I do about this?

Thanks,
Darren