RE: [Freesurfer] read_surf/patch issue

Hi Jooman,

That worked! Thanks.

-Corey

-----Original Message----- From: Jooman Han [mailto:jooman@nmr.mgh.harvard.edu] Sent: Monday, February 02, 2009 4:35 PM To: Keller, Corey J. Cc: Freesurfer Mailing List Subject: Re: [Freesurfer] read_surf/patch issue

Corey,

Matlab uses vertex numbers starting from one. However, the vertex numbers from Freesurfer start from zero. This error in matlab can be fixed by adding 1 to the vertex numbers.

Jooman

On Mon, 2009-02-02 at 16:14 -0500, Keller, Corey J. wrote:

Hi Freesurfers,

I am having some issues plotting a reconstructed brain in matlab. I have used the read_surf function to load in the pial surface file lh.pial and save the lh_pial.vert and lh_pial.tri. I get the following output:

fv.vertices fv.faces] = read_surf('lh.pial')

fv =

vertices: [140817x3 double]
   faces: [281630x3 double]

h = patch(fv,'FaceColor',[.5 .5 .5]) ??? Error using ==> patch Faces values must be >= 1.0.

My first 10 face values are:

fv.faces(1:10,1:3)

ans = 0 1 5 6 5 1 0 26 1 27 1 26 0 5 26 39 26 5 1 2 6 7 6 2 1 27 28 1 28 2

This seems to be the issue because every other row the faces values are

greater

than zero. Do you know why all of my recon output pial files look like this

and

how I can fix the issue. Thanks.

Best, Corey

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