Dear freesurfer developers,

I’d like to ask about an error I encountered in Freesurfer v6.0 with mkbrainmask-sess. I am using macOS Sierra.

Here is the error:

error:"ERROR: cannot find /Users/lguo15/Documents/MATLAB/fMRI_P3/Fisch_P3_01/bold/register.dof6.lta, you might need to run register-sess”

The error goes away if I run register-sess before mkbrainmask-sess. However, my lab mates use v5.3 and ran the exact same preprocess pipeline without this error. The order for them is mkbrainmask-sess first and register-sess later.

I’d like to ask whether it is true that maybe in v6.0 mkbrainmask-sess now depends on register-sess to generate the register.dof6.lta file? Or how should I interpret this? Does running registration and masks have some fixed order at all or it doesn’t matter?

Best,