try using --regheader

cheers

Bruce
On Sun, 12 May 2013, Jonathan DuBois wrote:

Hi Bruce, 
I would like to convert the .mgz label volume to a surface label for that
subject, but mri_vol2surf requires a registration file.

Best, 
Jonathan



On Sunday, May 12, 2013, Bruce Fischl wrote:
      Hi Jonathan

      you don't need to register it if it's shown properly in tkmedit
      or freeview. Can you tell us more about what you are trying to
      do?
      Bruce


      On Sun, 12 May 2013, Jonathan DuBois wrote:

            Hi Bruce, 
            Thanks for the quick response. The label is a
            manually traced area of the
            cortex. It is in subject scanner space and has a
            single value, so it
            probably would not work with bbregister. I can load
            it in tkmedit as a
            segmentation and the alignment is correct. I
            attached a screenshot. Is there
            a way to select the values greater than zero in
            tkmedit and save as a label
            that could be used in vol2surf? I have other labels
            that are larger so I
            would prefer not to retrace them if possible.

            Inline image 2
            Best, 
            Jonathan


            On Sun, May 12, 2013 at 10:11 AM, Bruce Fischl
            <fischl@nmr.mgh.harvard.edu>
            wrote:
                  Hi Jonathan

                  what is the label? What space is it in? If it
            has gray/white
                  contrast you could try bbregister.

                  cheers
                  Bruce
                  On Sat, 11 May 2013, Jonathan DuBois wrote:

                        Hi Freesurfer Experts, 
                        I have a binary volume label in subject
            space that I
                        converted from MINC to MGZ. I would like
            to register
                        it to
                        the surface of that subject as a flat
            label. I
                        thought I would be able to do so with
            mri_vol2surf
                        but I am not
                        sure how to generate the required
            registration file.
                        Is that the correct command, and if so,
            which
                        registration
                        file should I use?

                        Thanks
                        Jonathan




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