Hi, Sondos-
That isn't the format for providing the DTI parameter files. It's described here:
-dti_in INPREF :basename of DTI volumes output by, e.g., 3dDWItoDT.
NB- following volumes are *required* to be present:
INPREF_FA, INPREF_MD, INPREF_L1,
INPREF_V1, INPREF_V2, INPREF_V3,
and (now) INPREF_RD (**now output by 3dTrackID**).
Additionally, the program will search for all other
scalar (=single brik) files with name INPREF* and will
load these in as additional quantities for WM-ROI
stats; this could be useful if, for example, you have
PD or anatomical measures and want mean/stdev values
in the WM-ROIs (to turn this feature off, see below,
'dti_search_NO'); all the INPREF* files must be in same
DWI space.
Sidenote: including/omitting a '_' at the end of INPREF
makes no difference in the hunt for files.
So, instead of:
-dti_in /Users/dti-afni_*.nii.gz
I guess you would want:
-dti_in /Users/dti-afni
(though, that looks like you are writing DTI outputs to your /Users/ directory?)
In short, if you want to use dti_FA.nii.gz, dti_MD.nii.gz, etc., then provide "-dti_in dti"-- just the prefixes without extensions.
--pt