Hi, Soo Hyun-

Yeah, that is a bit tricky, I am afraid. Hopefully the following will work. I did this using the AFNI Bootcamp data as an example, and that is where some of the dset file names come from (in this directory of the downloadable Bootcamp data: "AFNI_data6/FT_analysis/FT/SUMA/").

1) Open the SUMA surface (I ran the "run.suma.00.both.141" in the above Bootcamp directory), and then draw one or more ROIs, giving each a different number and label. In my case, I made three ROIs, with the following index=label combinations: 1=abc, 2=def, 3=ghi.

2) In the GUI, save the dset, in my case I gave it the prefix "three_rois.lh", because I had that many ROIs drawn on the left hemisphere.

3) Convert ROI to surface dset. The "-input .." must be at end:

ROI2dataset                                         \
    -label_dset three_rois.lh.niml.dset             \
    -input three_rois.lh.niml.roi

Note: I had to use "-label_dset .." instead of "-prefix .." to preserve the ROI labels in the dataset header in a labeltable, which will be used later. You can see this information in the output as follows:

3dinfo -labeltable three_rois.lh.niml.dset

... which for me produced the following output:

<VALUE_LABEL_DTABLE
  ni_type="2*String"
  ni_dimen="3" >
 "1" "abc"
 "2" "def"
 "3" "ghi"
</VALUE_LABEL_DTABLE>

4) Convert the surface dataset (*.niml.dset) to a volumetric one (BRIK/HEAD or NIFTI); the command I use here mostly just follows "run.roi2dset" script example in this Bootcamp directory:

3dSurf2Vol                                          \
    -spec std.141.FT_lh.spec                        \
    -surf_A smoothwm                                \
    -surf_B pial                                    \
    -sv FT_SurfVol.nii                              \
    -grid_parent FT_SurfVol.nii                     \
    -map_func mode                                  \
    -f_steps 12                                     \
    -sdata three_rois.lh.niml.dset                  \
    -prefix three_rois.lh.s2v.roi

Note: At this point, three_rois.lh.s2v.roi+orig does *not* have labels; this can be seen by running:

3dinfo -labeltable three_rois.lh.s2v.roi+orig

... which just produces the message:

NO_LABEL_TABLE

...so we need to attach the labeltable from the earlier-made file.

5) Attach the labeltable from earlier dset that has it:

3drefit -copytables three_rois.lh.niml.dset three_rois.lh.s2v.roi+orig.

... and you can verify either in the AFNI GUI or using "3dinfo -labeltable ..." again that the three_rois.lh.s2v.roi+orig.* dset has its labels now.

--pt



Edited 1 time(s). Last edit at 06/29/2020 10:58PM by ptaylor.