Hi Arman - Have you ruled out any issues with the gradient directions? In situations where the problem is wide-spread, this seems to be the usual suspect. If you've checked the eigenvectors and they're ok, can you send an example case where the problem persists? You can use this page to upload a tar ball of all the tracula-related directories of the subject: https://www.nmr.mgh.harvard.edu/facility/filedrop/index.html

Thanks! a.y

On Mon, 26 Nov 2012, Arman Eshaghi wrote:

Dear all, I have difficulty sorting out the problem with some tracts in several subjects, tracts are incomplete or missing. As it has come up quite a few times on the list, for this sort of problem I have first set "reinit=1" and then increased control points to 7, and re-ran trac-all with "-prior" flag. This has worked for some tracts in several subjects, however there are a few subjects that still have this problem.

It would be great if someone could let me know what else I might be able to do in order to correct missing/faulty tracts in my subjects. (The problem is not limited to a specific tract, it varies in different subjects)

All the best, -Arman