Hi Mona,

Potentially you have a bad skull strip resulting in a huge defect which will take a long time to correct. Simply fix your skull strip and you should be fine.

Best,

Falk

Von: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> Im Auftrag von Nasiriavanaki, Zahra
Gesendet: Dienstag, 20. August 2019 16:19
An: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Betreff: [Freesurfer] recon_all hires

Dear Freesurfer experts

I am doing recon-all on one of my subjects and it seems that it's stuck for days and not going through. I even re-run it and it's still stuck at the same spot as before.

I attached the log file and here is my command:

recon-all -all -s $subj -i /$subj/anat/$run/mT1v2.nii -expert expertopts/expert.opts -hires -mail zn025 -parallel

I appreciate any help.

Thanks

Mona

Zahra (Mona) Nasiriavanaki

Postdoctoral Research Fellow

Martinos Center for Biomedical Imaging

Massachusetts General Hospital

149 13th Street, 149-2615

Charlestown, MA, USA, 02129