Hi Jennine,

Just as a quick note, both 3dSurf2Vol and 3dVol2Surf are
able to do mappings over the entire thickness of the gray
matter (even shifting, shrinking or expanding it). So if
your label file is a result of doing such a mapping, you
might consider using 3dSurf2Vol to directly map a thick
surface to a volume

---

If your only goal is to map these coordinates to a volume,
you might just try:

3dSurf2Vol -surf_xyz_1D MY_COORDS.1D'[1-3]' \
-grid_parent AFNI_DSET+orig \
-map_func mask
-prefix SURF_DSET

Here, MY_COORDS.1D is your coordinate file. Columns 0 and
4 are ignored, and 1-3 hold the coordinates. SURF_DSET is
whatever prefix you want for your AFNI dataset.

For more information on this, see "3dSurf2Vol -help",
example #4. Note that you need version 3.4 for this, as I
had trashed the -surf_xyz_1D option in version 3.0.

Please let me know how it goes.

- rick