Hi Rohin

Can you send us your command line and full screen output? Probably you need to include th e-all directive to recon-all

Cheers Bruce

-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Rohin Singh Sent: Friday, August 7, 2020 10:11 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Directories not populating after recon-all

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Hello,

I am a student at the Mayo Clinic trying to do a project with fresurfer. When I run recon-all, it only creates one file “001.mgz” in the MRI directory and the rest of the folders are blank. I am not sure why this is as it completes the process without any errors and I followed the set up instructions exactly.

Any help would be greatly appreciated.

Thanks, Rohin Singh

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