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Unfortunately no, same shift and rotation. And in addition messed up vertices...
Nicole
-----Oorspronkelijk bericht----- Van: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] Namens Douglas N. Greve Verzonden: 3 mei 18 0:08 Aan: freesurfer@nmr.mgh.harvard.edu Onderwerp: Re: [Freesurfer] combinesurfs problem: shifts and rotates
Does it work if you don't save it as an stl file?
On 05/02/2018 06:39 AM, Klink-3, N.E.C. van wrote:
Dear all,
I am struggling with coverting and combining pial surfaces back to native space. My result is 90 degrees rotated, and shifted from the original MRI.
The initial lh.pial and rh.pial look good, and when I translate them to native space they still look good. However when I combined them, they suddenly shift and rotate. Does anyone know what happens, how I can prevent it, or reliably can shift and rotate back?
Also, if I do not save directly to STL, the surfaces get messed up in -combinesurfs, with a lot of vertices shifted to the center of the surface (see picture below). But this is not my biggest problem, as I want STL in the end.
My code:
/tkregister2 --mov rawavg.mgz --targ orig.mgz --reg register.native.dat --noedit -regheader/
//
/mri_surf2surf --sval-xyz pial --reg register.native.dat rawavg.mgz --tval lh.pial.native --tval-xyz --hemi lh --s {SUBJECT}/
/mri_surf2surf --sval-xyz pial --reg register.native.dat rawavg.mgz --tval rh.pial.native --tval-xyz --hemi rh --s {SUBJECT}/
//
/mris_convert --combinesurfs $SUBJECTS_DIR/${subject}/surf/lh.pial.native $SUBJECTS_DIR/${subject}/surf/rh.pial.native $SUBJECTS_DIR/bh_native.stl/
Thanks in advance,
Nicole
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