PrincetonUniversity / PsyNeuLink / 30030372271

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Migrate build configuration to pyproject.toml

Consolidate build, packaging, and tooling configuration into a single
pyproject.toml and remove the setup.py/versioneer machinery:

- Add pyproject.toml with the setuptools build backend. Project metadata,
  pytest, coverage, and ruff config all live here. Dependencies and
  optional-dependencies are read dynamically from the *requirements.txt
  files, preserving them as the source of truth for CI/dependabot.
- Replace versioneer with setuptools-scm for git-tag-based versioning.
  Delete versioneer.py and the generated, tracked _version.py (now a
  build-time artifact, gitignored). __version__ is imported from the
  generated _version.py with an importlib.metadata fallback for
  un-built source trees.
- Fold ruff.toml into [tool.ruff]; delete ruff.toml.
- Trim setup.cfg to only the [pycodestyle] section, since pycodestyle
  cannot be configured from pyproject.toml (it reads setup.cfg/tox.ini).
- Update the CI build step to `python -m build`, and update docs
  conf.py and MANIFEST.in accordingly.

Assisted-By: Claude Opus 4.8 <noreply@anthropic.com>

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