When I open some DICOM SEG with the corresponding CT in the MITK Workbench, everything is working and presented correctly in the viewer.
When I then save this DICOM SEG as NIFTI (nii.gz), the resulting dimensions of the NIFTI are not identical to the CT image.
I guess this is because of skipping of empty slices during the export to NIFTI.
This is probably fine for some applications, but we have issues with this behavior within Kaapana and our pipelines (it expects similar dimensions).
-> Is there a way to include the empty slices in the exported file? (This is still a guess, though..)
MITK version: MITK-snapshots_2021-01-25-linux-x86_64
Example files can be found in T28214 (ct_images.zip)
Dimensions of this example data:
CT: [512, 512, 140]
NIFTI: [512, 512, 7]