Hi Alex

you have to identify what is causing it first. There should be an overlay named ?h.defect_labels that you can load on the ?h.inflated.nofiex surface to find defect 31, then go into the volume and see what is causing it (skull attached, etc...)

cheers Bruce

On Tue, 7 Aug 2018, Rockhill, Alexander P. wrote:

Hi all,

I am running recon-all and the command is stuck on the output

CORRECTING DEFECT 31 (vertices=8161, convex hull=3290, v0=29848) XL defect detected...

It has been on that step overnight. Is there some way to ignore the defect or correct it without taking so long?

This is using freesurfer 6.

Thanks,

Alex Rockhill

Translational NeuroEngineering Laboratory Division of Neurotherapeutics, Department of Psychiatry Massachusetts General Hospital, Martinos Center 149 13th St Charlestown #2301, Boston, MA 02129