Hello Doug, Is it possible using mri_convert to just reorder the way in which the data is stored, without any resampling of the actual voxel values?
i.e., I have Siemen's MPRAGE DICOMs, and if run mri_convert, I get a default "PIL" orientation. I would like to just reorder the way in which the data is stored, to get a "LAS" orientation instead.
I tried using "--out_orientation LAS", but that does a resampling (interpolation) such that the resulting xform has strictly 0's on the off-diagonal. And reading the mri_convert help, it clearly states that the --out_orientation flag is to be used when the input orientation is WRONG, which is not the case here (since I presume that the input orientation is correctly read out of the DICOMs).
I tried "--reorder 2 1 3", to see what effect that has on a file already in nii format, but I got the message: in nii format, but I got the message: reordering axes... MRIreorder: incorrect dst width error reordering axes
I've checked the archives, and read through the mri_convert help, but just can't seem to figure out if reordering from one orientation to another (without resampling) is possible using mri_convert.
thanks, -MH