Hi, there,
I used FreeSurfer pipeline to study a subject, I convert my .nii file to .mgz
file, and then
send it to FreeSurfer pipeline.Everything works well. Now I want to convert the
wmparc.mgz back to the space that the original volume was.
I tried two command
mri_covert wmparc.mgz -rl orig.nii new.nii
and
mri_vol2vol --mov wmparc.mgz --targ orig.nii --regheader --o new.ii
Both of them gave me the same problem.
My original volume is :
qform_name Aligned Anat
qform_code 2
qto_xyz:1 -1.198313 -0.049354 0.044215 94.332878
qto_xyz:2 -0.041108 1.237333 0.172261 -131.942123
qto_xyz:3 0.048546 -0.170504 1.237284 -105.448372
qto_xyz:4 0.000000 0.000000 0.000000 1.000000
qform_xorient Right-to-Left
qform_yorient Posterior-to-Anterior
qform_zorient Inferior-to-Superior
sform_name Aligned Anat
sform_code 2
sto_xyz:1 -1.198313 -0.049354 0.044217 94.332878
sto_xyz:2 -0.041108 1.237333 0.172261 -131.942108
sto_xyz:3 0.048547 -0.170504 1.237284 -105.448372
sto_xyz:4 0.000000 0.000000 0.000000 1.000000
sform_xorient Right-to-Left
sform_yorient Posterior-to-Anterior
sform_zorient Inferior-to-Superior
Now the new resampled volume is:
qform_name Scanner Anat
qform_code 1
qto_xyz:1 1.198313 -0.049354 0.044217 -96.198837
qto_xyz:2 0.041108 1.237333 0.172261 -138.478333
qto_xyz:3 -0.048547 -0.170504 1.237284 -97.729370
qto_xyz:4 0.000000 0.000000 0.000000 1.000000
qform_xorient Left-to-Right
qform_yorient Posterior-to-Anterior
qform_zorient Inferior-to-Superior
sform_name Scanner Anat
sform_code 1
sto_xyz:1 1.198313 -0.049354 0.044217 -96.198837
sto_xyz:2 0.041108 1.237333 0.172261 -138.478333
sto_xyz:3 -0.048547 -0.170504 1.237284 -97.729370
sto_xyz:4 0.000000 0.000000 0.000000 1.000000
sform_xorient Left-to-Right
sform_yorient Posterior-to-Anterior
sform_zorient Inferior-to-Superior
When I use fslview to view these two volumes, their orientations were swapped.
Could you help me fix this problems?
Thanks a lot!
Guang
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