fixes issue with UPath 0.3.x

[normanrz]

Description:

• Fixes for upath 0.3.x. With this new release, UPath is no longer a subclass of Path. This PR removes Path almost entirely in favor of UPath inside our codebase. Users can still pass in Paths and the examples also still have paths.

Todos:

Make sure to delete unnecessary points or to check all before merging:

• Updated Changelog
• Added / Updated Tests

[normanrz]

Still working on the coverage reports, Windows tests and Changelog, but the rest is already reviewable.

[github-actions]

☂️ Python Coverage

current status: ✅

Overall Coverage

Lines	Covered	Coverage	Threshold	Status
10162	8372	82%	80%	🟢

New Files

File	Coverage	Status
webknossos/webknossos/dataset/properties.py	0%	🟢
TOTAL	0%	🟢

Modified Files

File	Coverage	Status
webknossos/webknossos/annotation/annotation.py	79%	🟢
webknossos/webknossos/annotation/volume_layer.py	98%	🟢
webknossos/webknossos/cli/convert_knossos.py	37%	🟢
webknossos/webknossos/cli/convert_raw.py	66%	🟢
webknossos/webknossos/cli/convert_zarr.py	35%	🟢
webknossos/webknossos/cli/export_as_tiff.py	54%	🟢
webknossos/webknossos/client/_download_dataset.py	95%	🟢
webknossos/webknossos/client/_resumable/chunk.py	74%	🟢
webknossos/webknossos/client/_resumable/core.py	84%	🟢
webknossos/webknossos/client/_resumable/file.py	96%	🟢
webknossos/webknossos/client/_resumable/util.py	100%	🟢
webknossos/webknossos/client/_upload_dataset.py	86%	🟢
webknossos/webknossos/dataset/_utils/pims_czi_reader.py	66%	🟢
webknossos/webknossos/dataset/_utils/pims_dm_readers.py	83%	🟢
webknossos/webknossos/dataset/_utils/pims_images.py	87%	🟢
webknossos/webknossos/dataset/_utils/pims_tiff_reader.py	95%	🟢
webknossos/webknossos/dataset/_utils/segmentation_recognition.py	91%	🟢
webknossos/webknossos/dataset/dataset.py	75%	🟢
webknossos/webknossos/dataset/layer/layer.py	86%	🟢
webknossos/webknossos/dataset/layer/segmentation_layer/attachments/attachments.py	86%	🟢
webknossos/webknossos/dataset/layer/segmentation_layer/remote_segmentation_layer.py	47%	🟢
webknossos/webknossos/dataset/layer/view/_array.py	87%	🟢
webknossos/webknossos/dataset/layer/view/mag_view.py	90%	🟢
webknossos/webknossos/dataset/remote_dataset.py	84%	🟢
webknossos/webknossos/skeleton/skeleton.py	92%	🟢
webknossos/webknossos/utils.py	77%	🟢
TOTAL	79%	🟢

updated for commit: afdd964 by action🐍

[fm3]

Cool stuff, thanks for pushing this through!

I added a couple of comments, mostly concerning consistency in the type hints. Not all of those things were introduced in this PR, but I noticed them now while reading the respective code.

One thing I encountered a couple of times: I assumed that functions should either support taking UPath only or str | PathLike | UPath. However, I also found other combinations, like PathLike | UPath but not string, and I also found other orderings like PathLike | UPath | str. Maybe this could be unified. Of course, if there is a specific reason for the differences, feel free to explain it.

Also, I’m not sure about the changes in ci.yml. Were they necessary because you updated other dependencies? Could you explain the changes?