v2.0.0

[jacob-rosenthal]

What's new in v2.0.0:

• Changed h5path format and refactored h5manager to improve performance (Refactor h5manager and h5path format for performance gains #231)
• support XYZCT images for TileDataset (support XYZCT images for TileDataset #233)
• Cleaned up versioning tracker (Versioning #236)
• fix bug when reading region from openslide backend at higher levels (fix bug when reading region from openslide backend at higher levels #242)
• Add support for multi-series images with BioformatsBackend (Bioformats #251)
• Pin python-bioformats version to avoid any possibility of log4j hacks (avoid log4j #256)
• Added optional flag in SlideDataset.run() to write slides to h5path as they finish processing (added write functionality within run with optional flag, defaulting t… #226)
• Added GitHub Actions workflow to automatically build package and publish to PyPI when a new release is created (add pypi publish to github workflows #235)

Because the file format is changed in this version, .h5path files saved in older versions will not be able to be loaded in this one, and vice versa (i.e. breaking backwards compatibility, hence the bumped major version).

[codecov-commenter]

Codecov Report

Merging #257 (a4fddcd) into master (5f30ae1) will decrease coverage by 0.69%.
The diff coverage is 94.21%.

@@            Coverage Diff             @@
##           master     #257      +/-   ##
==========================================
- Coverage   85.31%   84.62%   -0.70%     
==========================================
  Files          26       26              
  Lines        2540     2432     -108     
==========================================
- Hits         2167     2058     -109     
- Misses        373      374       +1     

Impacted Files	Coverage Δ
pathml/datasets/utils.py	100.00% <ø> (+9.09%)	⬆️
pathml/core/slide_data.py	85.39% <81.25%> (-0.32%)	⬇️
pathml/core/tiles.py	93.61% <85.71%> (-2.94%)	⬇️
pathml/utils.py	88.88% <88.23%> (-0.19%)	⬇️
pathml/core/h5managers.py	80.58% <94.44%> (-6.87%)	⬇️
pathml/_version.py	100.00% <100.00%> (ø)
pathml/core/slide_backends.py	96.76% <100.00%> (+0.54%)	⬆️
pathml/core/slide_dataset.py	70.45% <100.00%> (-2.05%)	⬇️
pathml/core/tile.py	75.75% <100.00%> (+0.37%)	⬆️
pathml/datasets/deepfocus.py	52.30% <100.00%> (ø)
... and 5 more

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