Re: [Freesurfer] FREESURFER Recon all not working

Just add -cw256 to the recon-all command line

On 11/23/2021 8:34 AM, Alison McDonnell wrote:

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Hi Tim,

I looked at orig.mgz and it seemed fine and could see the whole head. i dont know what is meant by the flag -cw256 error. I am taking over a project from someone else so used the same command line as them

Thanks, Ali

On Tue, 23 Nov 2021 at 13:29, Tim Schäfer <ts+ml@rcmd.org mailto:ts%2Bml@rcmd.org> wrote:

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Dear Alison,

Did you already try what is suggested in the error message
(include the flag -cw256 with recon-all and inspect orig.mgz)? If
so, what were the results?

Best,

Tim

--
Dr. Tim Schäfer
Postdoc Computational Neuroimaging
Department of Child and Adolescent Psychiatry, Psychosomatics and
Psychotherapy
University Hospital Frankfurt, Goethe University Frankfurt am
Main, Germany

> On 11/23/2021 2:15 PM Alison McDonnell <amcdonn8@tcd.ie> wrote:
>
>
> External Email - Use Caution
>
> When i run recon all the only thing created is in the mri
folder. all the
> rest are left blank. i have attached all relevant screenshots
including one
> that has the original data being used is in the right format and
right
> place and the recon all log. any advice would be appreciated.
this is being
> done via teamviewer from pc to mac but i cant see why that would
cause any
> issues[image: Xquartz_screenshot.png][image: error_screenshot.png]
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