Did you get an error when you submit ‘recon-all’? Can you send recon-all.log?

Best,

Yujing

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of Fernanda Hansen P. de Moraes
Sent: Monday, November 6, 2023 11:33 AM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Running autorecon2-wm after wm edits

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Dear FreeSurfer experts,

I have been trying to manually correct a wm volume to further fix the wm and pial surfaces, but when I ran recon-all -subjid SUBJxxx -autorecon2-wm -autorecon3 nothing happened to the surfaces. I found an unknown-args.txt file under scripts, and it seems the autorecon2-wm flag is not recognized. 

How can I create new surfaces and overcome this issue?

Thank you very much in advance,

Fernanda Hansen P. de Moraes

fernandahmoraes@gmail.com

Pesquisadora no Instituto de Física da UFRJ | metaBIO (IF-UFRJ)
Doutora em Ciências Médicas | Instituto D'Or de Pesquisa e Ensino