Hi Marie, 

The full command is:

mris_compute_lgi --i lh.pial --close_sphere_size 30 --smooth_iters 6

and 

mris_compute_lgi --i rh.pial --close_sphere_size 30 --smooth_iters 60

Where can i find the error log? I'm looking in the scripts folder and i see recon-all.log (attached)?

Thanks so much,

m

---

From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Marie Schaer [Marie.Schaer@unige.ch]
Sent: Wednesday, June 04, 2014 2:09 PM
To: Freesurfer support list
Cc: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] pial layers

Hi Mia,

I'm not sure to understand what you mean with pial layers. Recon-all -lgi computes the local gyrification index. Can you please send the full command and full log of the error that you get?

Best,

Marie

On 4 juin 2014, at 19:47, "Borzello, Mia" <MBORZELLO@partners.org> wrote:

Hi Freesurfers, 

I ran mris_compute_lgi to make the pial layers but they've error- I've included a screenshot. It says it can't find that directory, but I'm pretty sure that directly exists. 

Thanks so much for your help, 

Mia 

<freesurfer.PNG>

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