That would be great. However, I am launching recon-all -all by entering the environment for freesurfer 6 in my terminal (we still have version 5_3 installed in our computers). So there is no way I can copy the files from the 2nd link in the folder $FREESURFER_HOME/bin (I have no access to that folder).

Is there another way to apply the command -conf2hires without having version 6 installed?

Thank you,

Vale

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edu>
Sent: Thursday, May 23, 2019 3:46:30 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] XL defect in recon-all

You can look at this tutorial
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/TopologicalDefect_freeview

But if you are using high res, I would run high res stream I put
together for the HCP:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0-patch/hcp/

On 5/23/19 2:59 PM, Barletta, Valeria wrote:
>
> Dear Freesurfers,
>
> I tried to launch "recon-all -all" for an high-resolution 7T 0.75
> isotropic MEMPRAGE, but the process got stuck on a XL defect in rh,
> numbered 54, measuring over 20,000 voxels!!
>
>
> How do I check, and eventually fix, this defect?
>
>
> Thank you,
>
> Vale
>
>
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> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
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