I am getting two errors when creating NIFTI files from dicoms using mri_convert.
The first is that the 4D images are being spatially contactonated. It does not seem to be treating it as a timeseries. This is the command:
mri_convert -it dicom -ot nii s6761334/i6761335.MRDC.1 run.nii.gz
Additionally it is an oblique acquizition so the coronal view is not displaying the plane of acquizition (as intended), but an orthogonal cut through multiple slices. Am I missing an option or additional information? I searched the options and couldn't figure out anything that helped. The problem applies to the co-planar oblique structural scan too.
I'm guessing there is something simple that I am overlooking. What may that be?
thanks
~julia
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