Follow-up to high-level dataset API: integrate the API into the code of webknossos-cuber

[rschwanhold]

Issue #325 list many files, which still use wkw directly. This issue is used to track the progress.

• Integrate the Dataset API into the CLI:
  • [ ] recubing.py
  • [x] cubing.py
  • [ ] tile_cubing.py
  • [ ] export_wkw_as_tiff.py
  • [ ] convert_knossos.py
  • [ ] compare_wkw.py
• Integrate the Dataset API into the utils:
  • [ ] wkcuber/utils.py
  • [ ] metadata.py
  • [ ] dataset/downsampling_utils.py
• Tests:
  • [ ] test_buffered_slice_utils.py
  • [ ] test_dataset.py
  • [ ] test_downsampling.py
  • [ ] test_export_wkw_as_nifti.py
  • [ ] test_export_wkw_as_tiff.py
  • [ ] test_metadata.py
  • [ ] test_utils.py