chore(deps): remove MANIFEST.in and upgrade dependencies

[mikeqfu]

Summary

Cleans up legacy packaging configuration files and updates project dependencies across all environments for maintenance purposes.

Key Changes

• Packaging cleanup: Removed the redundant MANIFEST.in file. Hatchling handles asset and data file inclusion natively using the artifacts configuration in pyproject.toml.
• Dependency upgrades: Refreshed uv.lock by upgrading all locked dependencies across project groups (including dev, docs and test) using uv lock --upgrade.

Verification

Confirmed that the local environment and build remain functional:

uv run pytest
uv build

[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 84.89%. Comparing base (8195aa4) to head (003470e).

Additional details and impacted files

@@           Coverage Diff           @@
##           master      #96   +/-   ##
=======================================
  Coverage   84.89%   84.89%           
=======================================
  Files          25       25           
  Lines        3629     3629           
  Branches      662      662           
=======================================
  Hits         3081     3081           
  Misses        313      313           
  Partials      235      235           

Flag	Coverage Δ
py3.12	84.89% <ø> (ø)
py3.13	84.89% <ø> (ø)
py3.14	84.89% <ø> (ø)
py3.15	84.89% <ø> (ø)

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