NOTES: For most 3D image registration purposes, we now recommend that you
=====  use Daniel Glen's script align_epi_anat.py (which, despite its name,
       can do many more registration problems than EPI-to-T1-weighted).
  -->> In particular, using 3dAllineate with the 'lpc' cost functional
       (to align EPI and T1-weighted volumes) requires using a '-weight'
       volume to get good results, and the align_epi_anat.py script will
       automagically generate such a weight dataset that works well for
       EPI-to-structural alignment.
  -->> This script can also be used for other alignment purposes, such
       as T1-weighted alignment between field strengths using the
       '-lpa' cost functional.  Investigate align_epi_anat.py to
       see if it will do what you need -- you might make your life
       a little easier and nicer and happier and more tranquil.
  -->> Also, if/when you ask for registration help on the AFNI
       message board, we'll probably start by recommending that you
       try align_epi_anat.py if you haven't already done so.