Hello, again-

Ok, glad that's all working fine.

Now, if I'm not mistaken, are you running probabilistic tractography? That is, '3dTrackID -mode PROB ....'? If so, this does not produce a tract file (which would have an ending *.niml.tract). Probabilistic tracking produces volumes of voxels where white matter is likely to be going- the trade-off in using PROB tracking is that, while you don't get explicit tracts, you do get much more robust locations of white matter (hopefully), because lots of Monte Carlo simulations of perturbed DTI parameters are run, and only those voxels that get hit a lot get kept. In this case, what you would view is a volume of white matter, which is what your file "NET_000_ROI_001_002+orig" would be showing you in your command:

$suma -vol /media/larson_buffalo/MRI7/KAward/Conditioning_From_Cluster/K_dti/sub238/dmri/DTI/o.PR/NET_000_ROI_001_002+orig -vol /media/larson_buffalo/MRI7/KAward/Conditioning_From_Cluster/K_dti/sub238/dmri/DTI/o.PR_000_PAIRMAP+orig -gdset /media/larson_buffalo/MRI7/KAward/Conditioning_From_Cluster/K_dti/sub238/dmri/DTI/o.PR_000.niml.dset -vol /media/larson_buffalo/MRI7/KAward/Conditioning_From_Cluster/K_dti/sub238/DTI/DT_FA+orig

If you *had* run deterministic tracking, or if you want to do so for comparison and/or tract viewing, then you can run '3dTrackID -mode DET' and you will get, along wtih the PAIRMAP and INDIMAP volume files, a file of ending in 'niml.tract'. This you would load into SUMA with 'suma -tract FILENAME.niml.tract ....' with other stuff, and then you will see tracts.

If you have fairly sparse targets around the brain that you are connecting, then you can also use the mini-probabilistic tracking mode, to view tracts *while also* taking into account uncertainty a bit. This would be with '3dTrackID -mode MINIP ...', and there's an example in the FATCAT_DEMO set in script Do_08dti_miniprob_track.tcsh.

--pt