External Email - Use Caution
Sorry, here goes one example of a slice with the corrections in wm (in yellow) and the final wm (yellow) and pial (red) surfaces. [image: image.png] 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
On Tue, Nov 7, 2023 at 9:49 AM Fernanda Hansen P. de Moraes < fernandahmoraes@gmail.com> wrote:
Hi, thank you for replying.
There is no error on recon-all, apparently. please find attached the log file.
Thank you very much again.
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
On Mon, Nov 6, 2023 at 2:09 PM Huang, Yujing YHUANG43@mgh.harvard.edu wrote:
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
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
fernandahmoraes@gmail.com
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