Hi,

When I am running AutoTract, the final results from classification are wrong. For example, in the folder IFOF, IFOF fiber file is not included in those big-size files, with maybe fornix being the file with biggest size in IFOF folder. Additionally, when I loaded the nrrd file of IFOF from classifiation/extarcted_fibers and IFOF.nrrd file in the 3.PostProcess folder to Slicer, there were no IFOF-like fiber showing but a mixture of some other fibers. 

Therefore, I checked files in 4 big folders, and then I found the WMmask.nrrd is not correct. The problem might be originated from the otsuFA.nrrd to otsuFAeroded.nrrd. otsuFA.nrrd looks fine but for the eroded one, it should be wrong, which did not look like a white matter mask.

I am posting this issue to ask if there will be any advice on the problem and I am very looking forward to your reply.

Thanks.