Hi Miguel

depending on the lesions it may not be fixable (since they may change the
topology of the cortex). If you upload the subject we will take a look, or
you can try manually filling in the lesion in the wm.mgz (or marking it as
lesion in the aseg.mgz) and seeing if that helps

cheers
Bruce
On Wed, 26 Jun 2019, Miguel Ángel Rivas
Fernández wrote:

>
>         External Email - Use Caution        
>
>
>  I ran the recon-all in one subject and and this process was stopped in the topology correction. In
> particular during the
>
>  "CORRECTING DEFECT 36 (vertices=19847, convex hull=5892, v0=94733)". 
>
> I reviewed the lh.inflated.nofix and the lh.orig.nofix files in Freeview and I noticed that the this
> error would be located in the lh.inflated.nofix file. I am not completely sure but I suspect that
> this error may be due to the fact that there is a large amount of brain lesion and this would
> difficult the topology correction. How can I fix this problem?
>
> Thanks in advance.
>
> Best regards,
>
> --
> Miguel Ángel Rivas Fernández
>
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