🔧 mypy type check wsicore

[Jiaqi-Lv]

Fix typing for files in tiatoolbox/wsicore/

• tiatoolbox/wsicore/__init__.py
• tiatoolbox/wsicore/wsimeta.py
• tiatoolbox/wsicore/metadata/

Will work on tiatoolbox/wsicore/wsireader.py after #825

[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 99.69%. Comparing base (c0da691) to head (435a34a).
⚠️ Report is 8 commits behind head on develop.

Additional details and impacted files

@@           Coverage Diff            @@
##           develop     #935   +/-   ##
========================================
  Coverage    99.69%   99.69%           
========================================
  Files           71       71           
  Lines         8934     8939    +5     
  Branches      1171     1170    -1     
========================================
+ Hits          8907     8912    +5     
  Misses          23       23           
  Partials         4        4           

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[shaneahmed]

Pin tifffile <=v2025.5.10

[Copilot]

Pull Request Overview

Enable strict mypy type checking in the tiatoolbox/wsicore package by refining type hints, default values, and adding missing tests.

• Refined wsimeta.py with explicit imports, default fallbacks, and enforced return types
• Enhanced metadata/ngff.py by adding __iter__ to Multiscales and tightening Window field types
• Added tests for non-tiled TIFF detection and Multiscales iteration; updated CI to include new files in mypy checks

Reviewed Changes

Copilot reviewed 5 out of 5 changed files in this pull request and generated 2 comments.

Show a summary per file

File	Description
tiatoolbox/wsicore/wsimeta.py	Added cast, defaulted level_downsamples, explicit returns, and refactored scale logic for typing
tiatoolbox/wsicore/metadata/ngff.py	Implemented __iter__ on Multiscales, changed Window fields to int
tests/test_wsireader.py	New test_is_not_tiled_tiff to cover non-tiled TIFF cases
tests/test_meta_ngff_dataclasses.py	New test for Multiscales iteration order
.github/workflows/mypy-type-check.yml	Included wsicore files and directories in mypy job

Comments suppressed due to low confidence (2)

tiatoolbox/wsicore/wsimeta.py:124

• A default list of [1.0] is used when level_downsamples is None, but there are no tests verifying this fallback. Consider adding tests for this scenario.

else [1.0]

tiatoolbox/wsicore/wsimeta.py:275

• The name 'Resolution' is not imported or defined, causing a NameError. Consider importing or defining the 'Resolution' type alias.

def np_pair(x: Resolution) -> np.ndarray:

[shaneahmed]

Thanks @Jiaqi-Lv