Hi Paul,
To visualize my tract (basolateral amygdala to vmPFC, with the centromedial amygdala as an exclusion mask, I used the following:
$ suma -vol PAIRMAP_NAME[0] -gdset o.PR_000.niml.dset -vol FA_FILE
However, I ran into the following error: Error SUMA_LoadDsetOntoSO_eng (SUMA_Color.c:10118):
Could not find network_file "o.PR_000.niml.tract" on disk for dset
The o.PR_000.niml.tract was not created. Also, I did use the -dump_rois AFNI and I did NOT have a NET_000_ROI_001_002+orig. created. I see that I have created a NET_000_ROI_001_001+orig and NET_000_ROI_002_002+orig.
Any thoughts on what I might be missing and why these files are not being created!
Thanks for responding so throughly and timely to my questions! Much appreciated!
Emily