Hi Saad,
No, I mean I don't get an fdt_paths.nii.gz image at all!
I didn't use the -f option in my original tractography (I haven't used the
command line thus far -- what I sent previously was the contents of the
probtrackx.log from my waypoints analysis). In my original attempt, I put a
seed in left posterior cingulum, along with a midline exclusion mask, and got a
beautiful result that wraps around the callosum as it should. I put a waypoint
seed in the middle of the A-P extent of the cingulum hoping to constrain the
anlaysis, and that's where I'm stuck (nb, I had used the same exclude mask in
both analyses, I tried the waypoint analysis without the exclude mask, but still
no luck).
I just verified that the tract from the seed roi passes directly through the
waypoint mask, so that shouldn't be the problem either.
Best,
Matt
PS. My sequence should be fine: 30 directions, 7 b=0 images, b=0, 800.
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