Morgan Botdorf, M.S.

Graduate Student

Neurocognitive Development Lab

University of Maryland, College Park

>Date: Thu, 7 Feb 2019 22:29:43 +0000
>From: "Greve, Douglas N.,Ph.D." <DGREVE@mgh.harvard.edu>
>Subject: Re: [Freesurfer] zero values when run recon-all with T2pial
>        flag (V6.0)
>To: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu>
>Message-ID: <6ea86bbf-6001-e95d-dcee-84cc8ba5d6e9@mgh.harvard.edu>
>Content-Type: text/plain; charset="utf-8"

>

>I have not. Can you send the recon-all.log file?

>On 2/1/19 6:01 PM, Morgan Botdorf wrote:
>
> ????????External Email - Use Caution
>
> Dear all,
>
> I recently ran recon-all on data using the T2pial flag to improve the 
> pial surface (using version 6.0). The T2 images seemed to improve the 
> pial surfaces; however, when I extract stats using the Destrieux 
> atlas, I get zero values for several regions and for 
> BrainSegVolNotVent and eTIV. If I run recon-all without the T2 image, 
> I get data for these regions,?BrainSegVolNotVent, and eTIV. Has anyone 
> run into similar issues using the T2pial flag or have an idea of what 
> may be causing this problem?
>
> Thank you in advance?for your help!
>
> Morgan