Sure, glad it worked out
Bruce
On Aug 17, 2012, at 3:03 PM, Alex Kell wrote:
> ah, thanks -- i didn't realize the distinction.
>
> also, i think i've figured out what was wrong. i shouldn't sample to the
> inflated surface -- i should sample to the white surface.
>
> the call that lead to
ah, thanks -- i didn't realize the distinction.
also, i think i've figured out what was wrong. i shouldn't sample to the
inflated surface -- i should sample to the white surface.
the call that lead to misplacement:
mri_vol2surf --mov --regheader --hemi rh
--inflated --o
the call that lead to
Ah, I did not see that you had used inflated in your original vol2surf
command. That is definitely the source of the misplaced label. The
surf_name.mgz file is not a surface, it is an overlay. If you are trying
to load it as a surface in tksurfer (or getting info from mris_info),
then it will t
what is your command line? You have to load it as an overlay, it isn't a
surface just a scalar field over the surface
On Fri, 17 Aug 2012, Alex Kell
wrote:
hi doug,
i can't visualize it. when i try to use tksurfer (or even mris_info) i get
the following error messages repeatedly (like >100 ti
hi doug,
i can't visualize it. when i try to use tksurfer (or even mris_info) i get
the following error messages repeatedly (like >100 times and keeps going
until i interrupt the call).
freadFloat: fread failed
No such file or directory
i tried mri_vol2surf using the white surface instead of th
Hi Alex, does the output of mri_vol2surf look ok on the surface? When
you run mri_cor2label, you should use the white or pial surface instead
of inflated, but I don't think that is the problem here. Another thing
to look at is
tkregister2 --mov volumetric-mask --regheader --reg junk.dat --s
sub
Hi Alex
I think Doug is the one to help you. Hopefully he has enough info at this
point
Bruce
On Fri, 17 Aug 2012, Alex Kell wrote:
i don't really use tkmedit. with freeview it's right where it should be --
e.g., see attached.
alex
On Fri, Aug 17, 2012 at 11:43 AM, Bruce Fischl
wrote:
does it align with say the orig.mgz when viewed in tkmedit?
On Fri, 17 Aug
2012, Alex Kell wrote:
hi bruce,
the mask was generated by morphing a binary mask from CVS space back to the
subject's anatomical space. the cvs mask was generated from a functional
parcellation algorithm our lab uses.
hi bruce,
the mask was generated by morphing a binary mask from CVS space back to the
subject's anatomical space. the cvs mask was generated from a functional
parcellation algorithm our lab uses.
if it's useful -- the registration header in the anatomical-space mask is
identical to the orig.mgz'
Hi Alex
when you say it is in the native anatomical space can you elaborate? How
did you create the mask?
Bruce
On Fri, 17 Aug 2012, Alex Kell wrote:
> hi freesurfers,
>
> i'm trying to move a volume from a subject's native anatomical space
> to that subject's surface space, and i'm running int
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