Okay, more newbie questions. As always, please tell me to RTFM (with a link please ;) if that's the solution.

I'm trying to use 3dmaskave:

3dmaskave -mask Lamyg1_Ramyg2+tlrc -quiet -mrange 1 1 scan1_norm+tlrc

*** Input and mask datasets are not same dimensions!

Okay so I figure I'll resample my amygdala to the same anat that the dataset was aligned to. As an aside, that gives me a strange warning:

adwarp -apar ../002_at+tlrc -dpar Lamyg1_Ramyg2+tlrc -prefix amygdala_resampled -force...
++ Warning: -apar & -dpar are in same +view!
*+ WARNING: Over-writing dataset ./amygdala_resampled+tlrc.HEAD

It shouldn't be "overwriting" anything, because that's a new file.

Anyway -- perhaps unsurprisingly -- using the resampled amygdala doesn't resolve the warning about having different dimensions. My intuition that both being in Talairach coordinates (that's the "+view" referred to in adwarp, right?) is sufficient to align two bricks is apparently wrong.

If it helps, the following underlay/overlay pairs look fine in afni:

TT_N27 / original amygdala
002_at+tlrc / original amygdala
002_at+trlc / scan1_norm+tlrc

Neither anatomical "works" with the resampled amygdala (as in, I don't see the two blobs I expect anywhere). And clearly the original amygdala doesn't "work" with the scan data, in the sense that 3dmaskave thinks they're not aligned.

Where have I gone wrong?

Thanks a million!
Aditya