Hi, FSLers,
I'm using FSL 4.1.0 and want to set the orientation in the header for our NIFTI
files. I've changed the L-R orientation with AIR prior to conversion to NIFTI
(using fslchfiletype). It doesn't appear that the "forceneurological" option modifies
my headers. What might I be doing wrong?
[jed@eros ANATOMY]$ fslorient -getorient mprage1.nii.gz
RADIOLOGICAL
[jed@eros ANATOMY]$ fslorient -getqform mprage1.nii.gz
1 0 0 0 0 0.9375 0 0 0 0 0.9375 0 0 0 0 1
[jed@eros ANATOMY]$ fslorient -getsform mprage1.nii.gz
-1 0 0 0 0 0.9375 0 0 0 0 0.9375 0 0 0 0 1
[jed@eros ANATOMY]$ fslorient -forceneurological mprage1.nii.gz
[jed@eros ANATOMY]$ fslorient -getorient mprage1.nii.gz
RADIOLOGICAL
[jed@eros ANATOMY]$ fslorient -getqform mprage1.nii.gz
1 0 0 0 0 0.9375 0 0 0 0 0.9375 0 0 0 0 1
[jed@eros ANATOMY]$ fslorient -getsform mprage1.nii.gz
-1 0 0 0 0 0.9375 0 0 0 0 0.9375 0 0 0 0 1
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