Did you get an error when you submit ‘recon-all’? Can you send recon-all.log?
Best,
Yujing
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@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
External Email - Use Caution
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
fernandahmor...@gmail.com<mailto:fernandahmor...@gmail.com>
Pesquisadora no Instituto de Física da UFRJ | metaBIO (IF-UFRJ)
Doutora em Ciências Médicas | Instituto D'Or de Pesquisa e Ensino
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Mass General Brigham
Compliance HelpLine at https://www.massgeneralbrigham.org/complianceline
<https://www.massgeneralbrigham.org/complianceline> .
Please note that this e-mail is not secure (encrypted). If you do not wish to
continue communication over unencrypted e-mail, please notify the sender of
this message immediately. Continuing to send or respond to e-mail after
receiving this message means you understand and accept this risk and wish to
continue to communicate over unencrypted e-mail.
