Dear Bruce, 

The patch (only 16 kb ???) was successfully created via label2patch. But loading it in tksurfer after having loaded a surface the following error occured:

% surface not flattened - disabling 2d code...

What am I doing wrong? Isn't there a way via the command mri_vol2surf? What output format should I use for the surface I create with this command?

Thanks, Holger



2012/2/16 Bruce Fischl <fischl@nmr.mgh.harvard.edu>
p.s. could you cc the list on your replies so others can learn (I did on mine)


On Thu, 16 Feb 2012, Klein, Holger wrote:

Dear Bruce, 
Thanks for your help. I did what you advised me to do in freeview. It works,
but the problem is that an overlay does not ameliorate my view on the Heschl
Gyrus. Thus I am looking for a solution to only view the pial surface of
this certain label without the rest of the brain, i.e. just the surface of
the volume that I created with mri_label2vol.

Do you have a clue to do that?

Thanks, Holger

2012/2/16 Bruce Fischl <fischl@nmr.mgh.harvard.edu>
     Hi Holger

     the file you are outputing isn't a surface, it's a surface
     overlay. Try loading the inflated surface then load the .w file
     with tksurfer load overlay

     cheers
     Bruce


     On Thu, 16 Feb 2012, Klein, Holger wrote:


           Dear FreeSurfers,

           To get a better view on the pial surface of the
           Heschl' Gyri I used the
           command mri_vol2surf after having created the
           suitable volume with
           label2vol. My goal is to get the pial surface of
           this single label.

           My Command is:  *mri_vol2surf --src pf_lh_vol.mgz
           --hemi lh --surf pial --sr
           creg
           register.dat --out_type paint --o A1surf-lh.w*

           The output file was created without any error, but
           loading the file in
           freeview or tksurfer an error occured:

           *command: tksurfer WH lh A1surf-lh.w

           *subject is WH*
           *hemi    is lh*
           *surface is A1surf-lh.w*
           *surfer: current subjects dir:
           /Volumes/Macintosh/Freesurfer/Kontrollen/A1_Wilts_Heide*
           *surfer: not in "scripts" dir ==> using cwd for
           session root*
           *surfer: session root data dir ($session) set to:*
           *surfer:     /freesurfer/Kontrollen/A1_Wilts_Heide*
           *checking for nofix files in 'A1surf-lh.w'*
           *Reading image info
           (/Volumes/Macintosh/Freesurfer/Kontrollen/A1_Wilts_Heide/WH)*
           *Reading
           /Volumes/Macintosh/Freesurfer/Kontrollen/A1_Wilts_Heide/WH/mri/orig.mgz*
           *surfer: Reading header info from
           /Volumes/Macintosh/Freesurfer/Kontrollen/A1_Wilts_Heide/WH/mri/orig.mgz*
           *ERROR: MRISread: file
'/Volumes/Macintosh/Freesurfer/Kontrollen/A1_Wilts_Heide/WH/surf/lh.A1surf-
           l
           h.w'
           has 0 vertices!*
           *Probably trying to use a scalar data file as a
           surface!*

           What am I doing wrong?

           Any help would be greatly appreciated. Thanks in
           advance

           Holger





The information in this e-mail is intended only for the person to whom
it is
addressed. If you believe this e-mail was sent to you in error and the
e-mail
contains patient information, please contact the Partners Compliance
HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you
in error
but does not contain patient information, please contact the sender
and properly
dispose of the e-mail.