Release 2.4.1 - dependency updates by KatyTaylor · Pull Request #280 · sanger/tol-lab-share

KatyTaylor · 2025-11-14T11:25:54Z

Closes #

Changes proposed in this pull request

Dependency updates from the last 9 months.

Instructions for Reviewers

[All PRs] - Confirm PR template filled
[Feature Branches] - Review code
[Production Merges to main]
- Check story numbers included
- Check for debug code
- Check version

Bumps [mypy](https://github.com/python/mypy) from 1.14.1 to 1.15.0. - [Changelog](https://github.com/python/mypy/blob/master/CHANGELOG.md) - [Commits](python/mypy@v1.14.1...v1.15.0) --- updated-dependencies: - dependency-name: mypy dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [flake8](https://github.com/pycqa/flake8) from 7.1.1 to 7.1.2. - [Commits](PyCQA/flake8@7.1.1...7.1.2) --- updated-dependencies: - dependency-name: flake8 dependency-type: direct:development update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <support@github.com>

chore(deps-dev): Bump mypy from 1.14.1 to 1.15.0

Bumps [sphinx-autodoc-typehints](https://github.com/tox-dev/sphinx-autodoc-typehints) from 3.0.1 to 3.1.0. - [Release notes](https://github.com/tox-dev/sphinx-autodoc-typehints/releases) - [Commits](tox-dev/sphinx-autodoc-typehints@3.0.1...3.1.0) --- updated-dependencies: - dependency-name: sphinx-autodoc-typehints dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [pytest](https://github.com/pytest-dev/pytest) from 8.3.4 to 8.3.5. - [Release notes](https://github.com/pytest-dev/pytest/releases) - [Changelog](https://github.com/pytest-dev/pytest/blob/main/CHANGELOG.rst) - [Commits](pytest-dev/pytest@8.3.4...8.3.5) --- updated-dependencies: - dependency-name: pytest dependency-type: direct:development update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [jinja2](https://github.com/pallets/jinja) from 3.1.5 to 3.1.6. - [Release notes](https://github.com/pallets/jinja/releases) - [Changelog](https://github.com/pallets/jinja/blob/main/CHANGES.rst) - [Commits](pallets/jinja@3.1.5...3.1.6) --- updated-dependencies: - dependency-name: jinja2 dependency-type: indirect ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [types-requests](https://github.com/python/typeshed) from 2.32.0.20241016 to 2.32.0.20250306. - [Commits](https://github.com/python/typeshed/commits) --- updated-dependencies: - dependency-name: types-requests dependency-type: direct:production update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [responses](https://github.com/getsentry/responses) from 0.25.6 to 0.25.7. - [Release notes](https://github.com/getsentry/responses/releases) - [Changelog](https://github.com/getsentry/responses/blob/master/CHANGES) - [Commits](getsentry/responses@0.25.6...0.25.7) --- updated-dependencies: - dependency-name: responses dependency-type: direct:development update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [coverage](https://github.com/nedbat/coveragepy) from 7.6.10 to 7.7.0. - [Release notes](https://github.com/nedbat/coveragepy/releases) - [Changelog](https://github.com/nedbat/coveragepy/blob/master/CHANGES.rst) - [Commits](coveragepy/coveragepy@7.6.10...7.7.0) --- updated-dependencies: - dependency-name: coverage dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

Update check_release_version.yml

chore(deps-dev): Bump flake8 from 7.1.1 to 7.1.2

…ehints-3.1.0 chore(deps-dev): Bump sphinx-autodoc-typehints from 3.0.1 to 3.1.0

chore(deps-dev): Bump pytest from 8.3.4 to 8.3.5

chore(deps-dev): Bump jinja2 from 3.1.5 to 3.1.6

chore(deps-dev): Bump responses from 0.25.6 to 0.25.7

chore(deps-dev): Bump coverage from 7.6.10 to 7.7.0

Bumps [sphinx](https://github.com/sphinx-doc/sphinx) from 8.1.3 to 8.2.3. - [Release notes](https://github.com/sphinx-doc/sphinx/releases) - [Changelog](https://github.com/sphinx-doc/sphinx/blob/master/CHANGES.rst) - [Commits](sphinx-doc/sphinx@v8.1.3...v8.2.3) --- updated-dependencies: - dependency-name: sphinx dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

chore(deps-dev): Bump sphinx from 8.1.3 to 8.2.3

Bumps [python-dotenv](https://github.com/theskumar/python-dotenv) from 1.0.1 to 1.1.0. - [Release notes](https://github.com/theskumar/python-dotenv/releases) - [Changelog](https://github.com/theskumar/python-dotenv/blob/main/CHANGELOG.md) - [Commits](theskumar/python-dotenv@v1.0.1...v1.1.0) --- updated-dependencies: - dependency-name: python-dotenv dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

…2.0.20250306 chore(deps): Bump types-requests from 2.32.0.20241016 to 2.32.0.20250306

Bumps [types-requests](https://github.com/python/typeshed) from 2.32.0.20250306 to 2.32.0.20250328. - [Commits](https://github.com/python/typeshed/commits) --- updated-dependencies: - dependency-name: types-requests dependency-type: direct:production update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [flake8](https://github.com/pycqa/flake8) from 7.1.2 to 7.2.0. - [Commits](PyCQA/flake8@7.1.2...7.2.0) --- updated-dependencies: - dependency-name: flake8 dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [coverage](https://github.com/nedbat/coveragepy) from 7.7.0 to 7.8.0. - [Release notes](https://github.com/nedbat/coveragepy/releases) - [Changelog](https://github.com/nedbat/coveragepy/blob/master/CHANGES.rst) - [Commits](coveragepy/coveragepy@7.7.0...7.8.0) --- updated-dependencies: - dependency-name: coverage dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [pytest-cov](https://github.com/pytest-dev/pytest-cov) from 6.0.0 to 6.1.0. - [Changelog](https://github.com/pytest-dev/pytest-cov/blob/master/CHANGELOG.rst) - [Commits](pytest-dev/pytest-cov@v6.0.0...v6.1.0) --- updated-dependencies: - dependency-name: pytest-cov dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

chore(deps): Bump python-dotenv from 1.0.1 to 1.1.0

…2.0.20250328 chore(deps): Bump types-requests from 2.32.0.20250306 to 2.32.0.20250328

chore(deps-dev): Bump flake8 from 7.1.2 to 7.2.0

chore(deps-dev): Bump coverage from 7.7.0 to 7.8.0

chore(deps-dev): Bump pytest-cov from 6.0.0 to 6.1.0

chore(deps-dev): Bump mypy from 1.17.1 to 1.18.2

…ehints-3.5.2 chore(deps-dev): Bump sphinx-autodoc-typehints from 3.2.0 to 3.5.2

chore(deps-dev): Bump markdown from 3.9 to 3.10

chore(deps): Bump python-dotenv from 1.1.1 to 1.2.1

Bumps [black](https://github.com/psf/black) from 25.1.0 to 25.11.0. - [Release notes](https://github.com/psf/black/releases) - [Changelog](https://github.com/psf/black/blob/main/CHANGES.md) - [Commits](psf/black@25.1.0...25.11.0) --- updated-dependencies: - dependency-name: black dependency-version: 25.11.0 dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [colorlog](https://github.com/borntyping/python-colorlog) from 6.9.0 to 6.10.1. - [Release notes](https://github.com/borntyping/python-colorlog/releases) - [Commits](borntyping/python-colorlog@v6.9.0...v6.10.1) --- updated-dependencies: - dependency-name: colorlog dependency-version: 6.10.1 dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

chore(deps): Bump colorlog from 6.9.0 to 6.10.1

Bumps [types-python-dateutil](https://github.com/typeshed-internal/stub_uploader) from 2.9.0.20251008 to 2.9.0.20251115. - [Commits](https://github.com/typeshed-internal/stub_uploader/commits) --- updated-dependencies: - dependency-name: types-python-dateutil dependency-version: 2.9.0.20251115 dependency-type: direct:development update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [coverage](https://github.com/coveragepy/coveragepy) from 7.11.0 to 7.12.0. - [Release notes](https://github.com/coveragepy/coveragepy/releases) - [Changelog](https://github.com/coveragepy/coveragepy/blob/main/CHANGES.rst) - [Commits](coveragepy/coveragepy@7.11.0...7.12.0) --- updated-dependencies: - dependency-name: coverage dependency-version: 7.12.0 dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

chore(deps-dev): Bump black from 25.1.0 to 25.11.0

chore(deps-dev): Bump coverage from 7.11.0 to 7.12.0

Bumps [mypy](https://github.com/python/mypy) from 1.18.2 to 1.19.0. - [Changelog](https://github.com/python/mypy/blob/master/CHANGELOG.md) - [Commits](python/mypy@v1.18.2...v1.19.0) --- updated-dependencies: - dependency-name: mypy dependency-version: 1.19.0 dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [pytest](https://github.com/pytest-dev/pytest) from 8.4.2 to 9.0.2. - [Release notes](https://github.com/pytest-dev/pytest/releases) - [Changelog](https://github.com/pytest-dev/pytest/blob/main/CHANGELOG.rst) - [Commits](pytest-dev/pytest@8.4.2...9.0.2) --- updated-dependencies: - dependency-name: pytest dependency-version: 9.0.2 dependency-type: direct:development update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [black](https://github.com/psf/black) from 25.11.0 to 25.12.0. - [Release notes](https://github.com/psf/black/releases) - [Changelog](https://github.com/psf/black/blob/main/CHANGES.md) - [Commits](psf/black@25.11.0...25.12.0) --- updated-dependencies: - dependency-name: black dependency-version: 25.12.0 dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [coverage](https://github.com/coveragepy/coveragepy) from 7.12.0 to 7.13.0. - [Release notes](https://github.com/coveragepy/coveragepy/releases) - [Changelog](https://github.com/coveragepy/coveragepy/blob/main/CHANGES.rst) - [Commits](coveragepy/coveragepy@7.12.0...7.13.0) --- updated-dependencies: - dependency-name: coverage dependency-version: 7.13.0 dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [sphinx-autodoc-typehints](https://github.com/tox-dev/sphinx-autodoc-typehints) from 3.5.2 to 3.6.0. - [Release notes](https://github.com/tox-dev/sphinx-autodoc-typehints/releases) - [Commits](tox-dev/sphinx-autodoc-typehints@3.5.2...3.6.0) --- updated-dependencies: - dependency-name: sphinx-autodoc-typehints dependency-version: 3.6.0 dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com>

Bumps [sphinx](https://github.com/sphinx-doc/sphinx) from 8.2.3 to 9.0.4. - [Release notes](https://github.com/sphinx-doc/sphinx/releases) - [Changelog](https://github.com/sphinx-doc/sphinx/blob/v9.0.4/CHANGES.rst) - [Commits](sphinx-doc/sphinx@v8.2.3...v9.0.4) --- updated-dependencies: - dependency-name: sphinx dependency-version: 9.0.4 dependency-type: direct:development update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com>

--- updated-dependencies: - dependency-name: aiohttp dependency-version: 3.13.3 dependency-type: indirect ... Signed-off-by: dependabot[bot] <support@github.com>

chore(deps-dev): Bump pytest-cov from 6.2.1 to 7.0.0

…til-2.9.0.20251115 chore(deps-dev): Bump types-python-dateutil from 2.9.0.20251008 to 2.9.0.20251115

chore(deps-dev): Bump mypy from 1.18.2 to 1.19.0

chore(deps-dev): Bump pytest from 8.4.2 to 9.0.2

chore(deps-dev): Bump black from 25.11.0 to 25.12.0

chore(deps-dev): Bump coverage from 7.12.0 to 7.13.0

…ehints-3.6.0 chore(deps-dev): Bump sphinx-autodoc-typehints from 3.5.2 to 3.6.0

Bumps [urllib3](https://github.com/urllib3/urllib3) from 2.5.0 to 2.6.3. - [Release notes](https://github.com/urllib3/urllib3/releases) - [Changelog](https://github.com/urllib3/urllib3/blob/main/CHANGES.rst) - [Commits](urllib3/urllib3@2.5.0...2.6.3) --- updated-dependencies: - dependency-name: urllib3 dependency-version: 2.6.3 dependency-type: indirect ... Signed-off-by: dependabot[bot] <support@github.com>

chore(deps-dev): Bump sphinx from 8.2.3 to 9.0.4

chore(deps): Bump aiohttp from 3.12.14 to 3.13.3

chore(deps): Bump urllib3 from 2.5.0 to 2.6.3

dependabot bot and others added 30 commits February 5, 2025 08:05

Merge pull request #194 from sanger/dependabot/pip/mypy-1.15.0

5babb38

chore(deps-dev): Bump mypy from 1.14.1 to 1.15.0

Update check_release_version.yml

a770406

Merge pull request #209 from sanger/patch-ci

385c320

Update check_release_version.yml

Merge pull request #198 from sanger/dependabot/pip/flake8-7.1.2

653e0a4

chore(deps-dev): Bump flake8 from 7.1.1 to 7.1.2

Merge pull request #199 from sanger/dependabot/pip/sphinx-autodoc-typ…

b4495b3

…ehints-3.1.0 chore(deps-dev): Bump sphinx-autodoc-typehints from 3.0.1 to 3.1.0

Merge pull request #202 from sanger/dependabot/pip/pytest-8.3.5

b35c366

chore(deps-dev): Bump pytest from 8.3.4 to 8.3.5

Merge pull request #205 from sanger/dependabot/pip/jinja2-3.1.6

bd3fba3

chore(deps-dev): Bump jinja2 from 3.1.5 to 3.1.6

Merge pull request #207 from sanger/dependabot/pip/responses-0.25.7

4d8d595

chore(deps-dev): Bump responses from 0.25.6 to 0.25.7

Merge pull request #208 from sanger/dependabot/pip/coverage-7.7.0

64e2f3f

chore(deps-dev): Bump coverage from 7.6.10 to 7.7.0

Merge pull request #203 from sanger/dependabot/pip/sphinx-8.2.3

908e9b3

chore(deps-dev): Bump sphinx from 8.1.3 to 8.2.3

Merge pull request #206 from sanger/dependabot/pip/types-requests-2.3…

e8f023b

…2.0.20250306 chore(deps): Bump types-requests from 2.32.0.20241016 to 2.32.0.20250306

Merge pull request #211 from sanger/dependabot/pip/python-dotenv-1.1.0

9d2115d

chore(deps): Bump python-dotenv from 1.0.1 to 1.1.0

Merge pull request #212 from sanger/dependabot/pip/types-requests-2.3…

01f3f2d

…2.0.20250328 chore(deps): Bump types-requests from 2.32.0.20250306 to 2.32.0.20250328

Merge pull request #213 from sanger/dependabot/pip/flake8-7.2.0

31e7e5e

chore(deps-dev): Bump flake8 from 7.1.2 to 7.2.0

Merge pull request #214 from sanger/dependabot/pip/coverage-7.8.0

0594176

chore(deps-dev): Bump coverage from 7.7.0 to 7.8.0

Merge pull request #215 from sanger/dependabot/pip/pytest-cov-6.1.0

68220f3

chore(deps-dev): Bump pytest-cov from 6.0.0 to 6.1.0

KatyTaylor and others added 30 commits November 14, 2025 10:55

Merge pull request #274 from sanger/dependabot/pip/mypy-1.18.2

959cadd

chore(deps-dev): Bump mypy from 1.17.1 to 1.18.2

Merge pull request #273 from sanger/dependabot/pip/sphinx-autodoc-typ…

1dd2f80

…ehints-3.5.2 chore(deps-dev): Bump sphinx-autodoc-typehints from 3.2.0 to 3.5.2

Merge pull request #270 from sanger/dependabot/pip/markdown-3.10

ceeab05

chore(deps-dev): Bump markdown from 3.9 to 3.10

Merge pull request #277 from sanger/dependabot/pip/python-dotenv-1.2.1

bc3061d

chore(deps): Bump python-dotenv from 1.1.1 to 1.2.1

Merge pull request #272 from sanger/dependabot/pip/colorlog-6.10.1

6cbd6df

chore(deps): Bump colorlog from 6.9.0 to 6.10.1

Merge pull request #279 from sanger/dependabot/pip/black-25.11.0

1b3bcfc

chore(deps-dev): Bump black from 25.1.0 to 25.11.0

Merge pull request #284 from sanger/dependabot/pip/coverage-7.12.0

07bcf61

chore(deps-dev): Bump coverage from 7.11.0 to 7.12.0

chore(deps): Bump aiohttp from 3.12.14 to 3.13.3

910c7ca

--- updated-dependencies: - dependency-name: aiohttp dependency-version: 3.13.3 dependency-type: indirect ... Signed-off-by: dependabot[bot] <support@github.com>

Merge pull request #275 from sanger/dependabot/pip/pytest-cov-7.0.0

c643591

chore(deps-dev): Bump pytest-cov from 6.2.1 to 7.0.0

Update .release-version

ad90c1a

Merge pull request #281 from sanger/dependabot/pip/types-python-dateu…

1bd2e8b

…til-2.9.0.20251115 chore(deps-dev): Bump types-python-dateutil from 2.9.0.20251008 to 2.9.0.20251115

Merge pull request #286 from sanger/dependabot/pip/mypy-1.19.0

bfa0720

chore(deps-dev): Bump mypy from 1.18.2 to 1.19.0

Merge pull request #288 from sanger/dependabot/pip/pytest-9.0.2

b308971

chore(deps-dev): Bump pytest from 8.4.2 to 9.0.2

Merge pull request #289 from sanger/dependabot/pip/black-25.12.0

a0f91cb

chore(deps-dev): Bump black from 25.11.0 to 25.12.0

Merge pull request #290 from sanger/dependabot/pip/coverage-7.13.0

86db3c2

chore(deps-dev): Bump coverage from 7.12.0 to 7.13.0

Merge pull request #291 from sanger/dependabot/pip/sphinx-autodoc-typ…

3c306ce

…ehints-3.6.0 chore(deps-dev): Bump sphinx-autodoc-typehints from 3.5.2 to 3.6.0

Merge pull request #292 from sanger/dependabot/pip/sphinx-9.0.4

e0bf952

chore(deps-dev): Bump sphinx from 8.2.3 to 9.0.4

Merge pull request #293 from sanger/dependabot/pip/aiohttp-3.13.3

2860377

chore(deps): Bump aiohttp from 3.12.14 to 3.13.3

Merge pull request #294 from sanger/dependabot/pip/urllib3-2.6.3

176b3d7

chore(deps): Bump urllib3 from 2.5.0 to 2.6.3

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Release 2.4.1 - dependency updates#280

Release 2.4.1 - dependency updates#280
KatyTaylor wants to merge 120 commits intomasterfrom
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KatyTaylor commented Nov 14, 2025 •

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KatyTaylor commented Nov 14, 2025 •

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