I get this behavior with --out_orientation, but not with --in_orientation. Are you sure it happens with both? And are you sure you want to be changing the orientation? If you have a volume from a person in the scanner head-first supine, then the answer is almost surely no.

doug

Reza Farivar wrote:

Hello,

I'm encountering a strange problem with mri_convert. Basically, if I just ask it to convert a set of dicoms into a 4D NIFTI, it does this fine, but if I specify anything about the input and/or output orientation (using --in_orientation or --out_orientation), it only spits out 1 image, not the entire time series. Am I doing something wrong?

Thanks,

Reza

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Reza Farivar, Ph.D. Research Fellow Harvard Medical School Massachusetts General Hospital Dept. of Radiology Building 149, Room 2301 13th Street Charlestown, MA 02129

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