I would start by looking at the ?h.orig.nofix surface on the wm.mgz and brain.finalsurfs.mgz and look around for some big defect (eg, cerebellum or error in skull stripping)

https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/TopologicalDefect_freeview

On 6/15/2020 4:31 AM, KennethSPrice wrote:

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Hello freesurfers,

I am running recon-all on one of my subjects and it is hanging on a defect. How do I examine the reason it is hanging? Freeview the defect? Any help would be appreciated.

Thanks,

Ken

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