* Remove deprecated `gb.io.from_numpy` (and `to_numpy`)

These have been deprecated since 2023-02-27, so could be removed after 2023-10-27 per our policy.

* Remove deprecated `gb.core.agg`

This was deprecated on 2023-03-31, so we can remove it after 2023-11-30 per our deprecation policy.

These have been deprecated since 2022-11-16, so it's been over a year.
We wanted to give these a longer deprecation cycle to allow people to
swith to `to_coo` and `from_coo`, but I think it's time to clean up.

updates:
- [github.com/psf/black: 23.12.0 → 23.12.1](psf/black@23.12.0...23.12.1)
- [github.com/astral-sh/ruff-pre-commit: v0.1.8 → v0.1.9](astral-sh/ruff-pre-commit@v0.1.8...v0.1.9)
- [github.com/astral-sh/ruff-pre-commit: v0.1.8 → v0.1.9](astral-sh/ruff-pre-commit@v0.1.8...v0.1.9)

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

Bumps [actions/upload-artifact](https://github.com/actions/upload-artifact) from 3 to 4.
- [Release notes](https://github.com/actions/upload-artifact/releases)
- [Commits](actions/upload-artifact@v3...v4)

---
updated-dependencies:
- dependency-name: actions/upload-artifact
  dependency-type: direct:production
  update-type: version-update:semver-major
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

Bumps [pre-commit/action](https://github.com/pre-commit/action) from 3.0.0 to 3.0.1.
- [Release notes](https://github.com/pre-commit/action/releases)
- [Commits](pre-commit/action@v3.0.0...v3.0.1)

---
updated-dependencies:
- dependency-name: pre-commit/action
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

Include quotes when installing with pip

Support latest versions: Python 3.13, numpy 2, numba 0.61, SS:GB 9.3.1, etc.

Also, add pre-commit hooks: prettier, taplo, actionlint, check-jsonschema, yamllint, zizmore, meta
---------

Co-authored-by: Jim Kitchen <jkitchen@anaconda.com>

Bumps [codecov/codecov-action](https://github.com/codecov/codecov-action) from 4 to 5.
- [Release notes](https://github.com/codecov/codecov-action/releases)
- [Changelog](https://github.com/codecov/codecov-action/blob/main/CHANGELOG.md)
- [Commits](codecov/codecov-action@v4...v5)

---
updated-dependencies:
- dependency-name: codecov/codecov-action
  dependency-type: direct:production
  update-type: version-update:semver-major
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

Bumps [pypa/gh-action-pypi-publish](https://github.com/pypa/gh-action-pypi-publish) from 1.9.0 to 1.12.4.
- [Release notes](https://github.com/pypa/gh-action-pypi-publish/releases)
- [Commits](pypa/gh-action-pypi-publish@v1.9.0...v1.12.4)

---
updated-dependencies:
- dependency-name: pypa/gh-action-pypi-publish
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>