Because it looks like your datasets are somewhat far apart to start, consider adding -giant_move, or even -ginormous_move to your command. I personally love the last option both for it being fun to say the word "ginormous" (thanks Daniel) and that it runs the align centers.
The default options assume the epi and anat datasets start off fairly close,
as is normally the case when the epi dataset closely precedes or follows an
anatomical dataset acquisition. If the two data are acquired over separate
sessions, or accurate coordinate data is not available in the dataset header
(as sometimes occurs for oblique data), various options allow for larger
movement including "-cmass cmass", "-big_move","-giant_move",
"-ginormous_move", and -align_centers yes". Each of these options
is described below. If the datasets do not share the same
coordinate space at all, it may be useful to use the "-ginormous_move",
"-align_centers" options or run @Align_Centers script first.
Edited 1 time(s). Last edit at 08/05/2015 02:54PM by Peter Molfese.
