Got it. Yes this works better. I forgot we have collected these dummy scans, which seems very helpful for alignment. So maybe I should do this for all subjects (even for those that worked Ok). Do you recommend?
I generated the original proc.py script from uber_subject, but when I want to do this align_epi_ext_dset option, I can't seem to find a place in the GUI to specify that. I had to directly edit the proc.py script. Is that right?--no uber nicety to specify the option. That's fine for me but just want to check if I missed something.
Thank you,
-ts
