Hi Rashmi
how did you create this dataset? The non-black background is probably going to cause trouble. Is it an mp2rage or something similar? Could you try replacing the background value (386.997) with 0 and see if that helps. If there are really big defects the topology fixer will take forever, and probably won't generate the correct solution anyway
cheers Bruce
On Tue, 7 Jan 2014, Rashmi Singh wrote:
Hello FreeSurfer experts, I am having problem with running reconall. I am using version 5.1. Attached is data set on which I ran reconall. Because I was getting tailrace failure I ran it with –notal-check flag( the run with -use–mritotal flag failed too, so I used the –notal check flag ) Recon all ran OK, but its has got stuck at a point (topology detection stage) and its not moving forward (my terminal shows that its still running) May you please help me troubleshoot this issue.
Thanks, Rashmi