> My second question is: suppose I have run
> Freesurfer and @SUMA_make_spec_FS and thus have
> aseg.nii and aparc*+aseg*.nii datasets. Since I
> gave Freesurfer surfaces in ORIG space, I should
> be able to lookup the label for any xyz coordinate
> in the subject's native space.
Can I use
> whereami to obtain a label from a subject-specific
> FS atlas?
>
Looks like the answer is yes. The caveat is that the whereami command doesn't always work on the first try with ORIG datasets. Specifically, ORIG doesn't always get registered as a template space during the @SUMA_make_spec_FS pipeline. I fixed this by adding the following template_space xml block to my SessionAtlases.niml or ~/abain/AFNI_atlas_spaces.niml file (note that by editing an abin/ file, this change will probably not outlive an afni update_binaries call).
<TEMPLATE_SPACE
space_name="ORIG"
generic_space="ORIG"
comment="Native space of subject"
></TEMPLATE_SPACE>
Edited 1 time(s). Last edit at 10/16/2017 10:52AM by mstrotta.
