chores: update build dependencies and workflow verisons (#330)

* GitHub Actions(deps): bump actions/checkout from 4 to 5 (#325)

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

---
updated-dependencies:
- dependency-name: actions/checkout
  dependency-version: '5'
  dependency-type: direct:production
  update-type: version-update:semver-major
...

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

* pip(deps-dev): bump mkdocs-material from 9.6.16 to 9.6.18 (#326)

Bumps [mkdocs-material](https://github.com/squidfunk/mkdocs-material) from 9.6.16 to 9.6.18.
- [Release notes](https://github.com/squidfunk/mkdocs-material/releases)
- [Changelog](https://github.com/squidfunk/mkdocs-material/blob/master/CHANGELOG)
- [Commits](squidfunk/mkdocs-material@9.6.16...9.6.18)

---
updated-dependencies:
- dependency-name: mkdocs-material
  dependency-version: 9.6.18
  dependency-type: direct:development
  update-type: version-update:semver-patch
...

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

* pip(deps-dev): bump mkdocstrings-python from 1.16.12 to 1.18.2 (#327)

Bumps [mkdocstrings-python](https://github.com/mkdocstrings/python) from 1.16.12 to 1.18.2.
- [Release notes](https://github.com/mkdocstrings/python/releases)
- [Changelog](https://github.com/mkdocstrings/python/blob/main/CHANGELOG.md)
- [Commits](mkdocstrings/python@1.16.12...1.18.2)

---
updated-dependencies:
- dependency-name: mkdocstrings-python
  dependency-version: 1.18.2
  dependency-type: direct:development
  update-type: version-update:semver-minor
...

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

* pip(deps-dev): bump pyright from 1.1.403 to 1.1.404 (#328)

Bumps [pyright](https://github.com/RobertCraigie/pyright-python) from 1.1.403 to 1.1.404.
- [Release notes](https://github.com/RobertCraigie/pyright-python/releases)
- [Commits](RobertCraigie/pyright-python@v1.1.403...v1.1.404)

---
updated-dependencies:
- dependency-name: pyright
  dependency-version: 1.1.404
  dependency-type: direct:development
  update-type: version-update:semver-patch
...

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

* bump workflow (#329)

Co-authored-by: Gordon J. Köhn <gordon.koehn@dbsse.ethz.ch>

---------

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: Gordon J. Köhn <gordon.koehn@dbsse.ethz.ch>

Author: 3 people

poetry.lock

@@ -4,7 +4,7 @@ channels:
   - conda-forge
   - defaults
 dependencies:
-  - sr2silo=1.3.0
+  - sr2silo=1.4.0
   - snakemake=8.18  # fixed as snakemake unit tests fail with 8.19
   - diamond>=2.1.0
   - smallgenomeutilities>=0.5.2