Hi Douglas,

Thank you for your help,

So I still can't convert my volumetric file to a surface file and I don't know what I am doing wrong.

My nifti volumetric file looks like : 1. screenshot
As you said, i have first registered the volumetric file 

 using bbregister.

 I have used this command line :
tkregister2 --mov segment_7.nii --reg register7.dat --surf

 (knowing that segment_7.nii is my volumetric file which looks like 1.screenshot).

With this command line, my output is this file : 2.screenshot (attached).

Am I satisfied with this file ? if not what can I do to improve the result and the matching ?

And after that, I have tried to convert my volumetric file to surface file with this command line :

mri_vol2surf --src segment_7.nii --srcreg register7.dat --hemi lh --o ./segment_7-lh.nii --float2int round

But with this command when I load the file with freeview it does not work and with tkregister the file is empty.

Or this one :

mri_vol2surf --src segment_7.nii --srcreg register7.dat --hemi lh --o ./segment_7-lh.w --out_type paint --float2int tkregister

But with this command I have this warning :

Warning: all vertex values are zero

Thank you by advance for your precious help,

Have a nice day,

Redwan 

On 1 March 2017 at 07:31, Douglas Greve <greve@nmr.mgh.harvard.edu> wrote:

Hi Redwan,

You'll need to register your volume to an FS-analyzed data set (probably using bbregister). Then apply mri_vol2surf (run with --help to get examples)

doug

On 2/28/17 5:17 PM, Redwan Maatoug wrote:

Hi all !

I would like to convert my files : volumetrics nifti files to surfaces files.
My volumetrics nifti files come from an Atlas and I would like to convert them to surfaces files (i need the surfaces files).
 
Could you please tell me the process because I have tried many things like :

mri_vol2surf --src pathwaytomyfile --hemi lh --float2int round --out thepathwayIwantToputmySurfaceFileAfterConversion

And it did not work.

Thank you for your help,
Redwan

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