Hi-
Yes, the program should. What version of @animal_warper and AFNI do you have?
afni -ver
@animal_warper -ver
?
... that being said, I see in the code that the atlas followers are copied, and then I put a commented note:
# ----- SHOULD ALL FOLLOWERS BE COPIED HERE AS WELL ???
... because I wasn't sure if copying all files would lead to too many files being present (something people have commented on).
At the moment, the template, brainmask and atlas followers are all copied over, as well as the "input" (=subject) anatomical. Would it be useful to you to have all the followers copied in?
--pt