Hi Ri
I think you can just run it all as one recon-all command.
cheers
Bruce
On Mon, 18 Jul
2016, Ritobrato Datta wrote:
> Hi All,
>
> We have some subjects who have both wm errors and gm errors.
>
> Is the following workflow possible
>
>
> Step 1) control points for the white matter edits. DONT RUN recon-all
>
> Step 2) add the pial surface edits. DONT RUN recon-all
>
> Step 3) Run recon-all to incorporate control points for wm edits (recon-all
> -autorecon2-cp -autorecon3 -subjid cp_before)
>
> AFTER step 3 is COMPLETE, run
>
> Step 4) Run recon-all to create a fixed pial surface (recon-all
> -autorecon-pial -subjid pial_edits_before)
>
> OR
>
> Can step 3 and Step 4 be run together as recon-all -autorecon2-cp
> -autorecon-pial -autorecon3 -subjid cp_before
>
> Please let me know.
>
> Thanks
>
> Ri
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