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ci(dependabot): bump actions/download-artifact from 6 to 7 (#387) Bumps [actions/download-artifact](https://github.com/actions/download-artifact) from 6 to 7. <details> <summary>Release notes</summary> <p><em>Sourced from <a href="https://github.com/actions/download-artifact/releases">actions/download-artifact's releases</a>.</em></p> <blockquote> <h2>v7.0.0</h2> <h2>v7 - What's new</h2> <blockquote> <p>[!IMPORTANT] actions/download-artifact@v7 now runs on Node.js 24 (<code>runs.using: node24</code>) and requires a minimum Actions Runner version of 2.327.1. If you are using self-hosted runners, ensure they are updated before upgrading.</p> </blockquote> <h3>Node.js 24</h3> <p>This release updates the runtime to Node.js 24. v6 had preliminary support for Node 24, however this action was by default still running on Node.js 20. Now this action by default will run on Node.js 24.</p> <h2>What's Changed</h2> <ul> <li>Update GHES guidance to include reference to Node 20 version by <a href="https://github.com/patrikpolyak"><code>@patrikpolyak</code></a> in <a href="https://redirect.github.com/actions/download-artifact/pull/440">actions/download-artifact#440</a></li> <li>Download Artifact Node24 support by <a href="https://github.com/salmanmkc"><code>@salmanmkc</code></a> in <a href="https://redirect.github.com/actions/download-artifact/pull/415">actions/download-artifact#415</a></li> <li>fix: update <code>@actions/artifact</code> to fix Node.js 24 punycode deprecation by <a href="https://github.com/salmanmkc"><code>@salmanmkc</code></a> in <a href="https://redirect.github.com/actions/download-artifact/pull/451">actions/download-artifact#451</a></li> <li>prepare release v7.0.0 for Node.js 24 support by <a href="https://github.com/salmanmkc"><code>@salmanmkc</code></a> in <a href="https://redirect.github.com/actions/download-artifact/pull/452">actions/download-artifact#452</a></li> </ul> <h2>New Contributors</h2> <ul> <li><a href="https://github.com/patrikpolyak"><code>@patrikpolyak</code></a> made their first contribution in <a href="https://redirect.github.com/actions/download-artifact/pull/440">actions/download-artifact#440</a></li> <li><a href="https://github.com/salmanmkc"><code>@salmanmkc</code></a> made their first contribution in <a href="https://redirect.github.com/actions/download-artifact/pull/415">actions/download-artifact#415</a></li> </ul> <p><strong>Full Changelog</strong>: <a href="https://github.com/actions/download-artifact/compare/v6.0.0...v7.0.0">https://github.com/actions/download-artifact/compare/v6.0.0...v7.0.0</a></p> </blockquote> </details> <details> <summary>Commits</summary> <ul> <li><a href="https://github.com/actions/download-artifact/commit/37930b1c2abaa49bbe596cd826c3c89aef350131"><code>37930b1</code></a> Merge pull request <a href="https://redirect.github.com/actions/download-artifact/issues/452">#452</a> from actions/download-artifact-v7-release</li> <li><a href="https://github.com/actions/download-artifact/commit/72582b9e0acd370909e83fa4a1fd0fca3ad452d8"><code>72582b9</code></a> doc: update readme</li> <li><a href="https://github.com/actions/download-artifact/commit/0d2ec9d4cbcefe257d822f108de2a1f15f8da9f6"><code>0d2ec9d</code></a> chore: release v7.0.0 for Node.js 24 support</li> <li><a href="https://github.com/actions/download-artifact/commit/fd7ae8fda6dc16277a9ffbc91cdb0eedf156e912"><code>fd7ae8f</code></a> Merge pull request <a href="https://redirect.github.com/actions/download-artifact/issues/451">#451</a> from actions/fix-storage-blob</li> <li><a href="https://github.com/actions/download-artifact/commit/d484700543354b15886d6a52910cf61b7f1d2b27"><code>d484700</code></a> chore: restore minimatch.dep.yml license file</li> <li><a href="https://github.com/actions/download-artifact/commit/03a808050efe42bb6ad85281890afd4e4546672c"><code>03a8080</code></a> chore: remove obsolete dependency license files</li> <li><a href="https://github.com/actions/download-artifact/commit/56fe6d904b0968950f8b68ea17774c54973ed5e2"><code>56fe6d9</code></a> chore: update <code>@actions/artifact</code> license file to 5.0.1</li> <li><a href="https://github.com/actions/download-artifact/commit/8e3ebc4ab4d2e095e5eb44ba1a4a53b6b03976ad"><code>8e3ebc4</code></a> chore: update package-lock.json with <code>@actions/artifact</code><a href="https://github.com/5"><code>@5</code></a>.0.1</li> <li><a href="https://github.com/actions/download-artifact/commit/1e3c4b4d4906c98ab57453c24efefdf16c078044"><code>1e3c4b4</code></a> fix: update <code>@actions/artifact</code> to ^5.0.0 for Node.js 24 punycode fix</li> <li><a href="https://github.com/actions/download-artifact/commit/458627d354794c71bc386c8d5839d20b5885fe2a"><code>458627d</code></a> chore: use local <code>@actions/artifact</code> package for Node.js 24 testing</li> <li>Additional commits viewable in <a href="https://github.com/actions/download-artifact/compare/v6...v7">compare view</a></li> </ul> </details> <br /> [](https://docs.github.com/en/github/managing-security-vulnerabilities/about-dependabot-security-updates#about-compatibility-scores) Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting `@dependabot rebase`. [//]: # (dependabot-automerge-start) [//]: # (dependabot-automerge-end) --- <details> <summary>Dependabot commands and options</summary> <br /> You can trigger Dependabot actions by commenting on this PR: - `@dependabot rebase` will rebase this PR - `@dependabot recreate` will recreate this PR, overwriting any edits that have been made to it - `@dependabot merge` will merge this PR after your CI passes on it - `@dependabot squash and merge` will squash and merge this PR after your CI passes on it - `@dependabot cancel merge` will cancel a previously requested merge and block automerging - `@dependabot reopen` will reopen this PR if it is closed - `@dependabot close` will close this PR and stop Dependabot recreating it. You can achieve the same result by closing it manually - `@dependabot show <dependency name> ignore conditions` will show all of the ignore conditions of the specified dependency - `@dependabot ignore this major version` will close this PR and stop Dependabot creating any more for this major version (unless you reopen the PR or upgrade to it yourself) - `@dependabot ignore this minor version` will close this PR and stop Dependabot creating any more for this minor version (unless you reopen the PR or upgrade to it yourself) - `@dependabot ignore this dependency` will close this PR and stop Dependabot creating any more for this dependency (unless you reopen the PR or upgrade to it yourself) </details> Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Caroline Malin-Mayor <malinmayorc@janelia.hhmi.org>
main
4 days ago
ci(dependabot): bump actions/download-artifact from 6 to 7 (#387) Bumps [actions/download-artifact](https://github.com/actions/download-artifact) from 6 to 7. <details> <summary>Release notes</summary> <p><em>Sourced from <a href="https://github.com/actions/download-artifact/releases">actions/download-artifact's releases</a>.</em></p> <blockquote> <h2>v7.0.0</h2> <h2>v7 - What's new</h2> <blockquote> <p>[!IMPORTANT] actions/download-artifact@v7 now runs on Node.js 24 (<code>runs.using: node24</code>) and requires a minimum Actions Runner version of 2.327.1. If you are using self-hosted runners, ensure they are updated before upgrading.</p> </blockquote> <h3>Node.js 24</h3> <p>This release updates the runtime to Node.js 24. v6 had preliminary support for Node 24, however this action was by default still running on Node.js 20. Now this action by default will run on Node.js 24.</p> <h2>What's Changed</h2> <ul> <li>Update GHES guidance to include reference to Node 20 version by <a href="https://github.com/patrikpolyak"><code>@patrikpolyak</code></a> in <a href="https://redirect.github.com/actions/download-artifact/pull/440">actions/download-artifact#440</a></li> <li>Download Artifact Node24 support by <a href="https://github.com/salmanmkc"><code>@salmanmkc</code></a> in <a href="https://redirect.github.com/actions/download-artifact/pull/415">actions/download-artifact#415</a></li> <li>fix: update <code>@actions/artifact</code> to fix Node.js 24 punycode deprecation by <a href="https://github.com/salmanmkc"><code>@salmanmkc</code></a> in <a href="https://redirect.github.com/actions/download-artifact/pull/451">actions/download-artifact#451</a></li> <li>prepare release v7.0.0 for Node.js 24 support by <a href="https://github.com/salmanmkc"><code>@salmanmkc</code></a> in <a href="https://redirect.github.com/actions/download-artifact/pull/452">actions/download-artifact#452</a></li> </ul> <h2>New Contributors</h2> <ul> <li><a href="https://github.com/patrikpolyak"><code>@patrikpolyak</code></a> made their first contribution in <a href="https://redirect.github.com/actions/download-artifact/pull/440">actions/download-artifact#440</a></li> <li><a href="https://github.com/salmanmkc"><code>@salmanmkc</code></a> made their first contribution in <a href="https://redirect.github.com/actions/download-artifact/pull/415">actions/download-artifact#415</a></li> </ul> <p><strong>Full Changelog</strong>: <a href="https://github.com/actions/download-artifact/compare/v6.0.0...v7.0.0">https://github.com/actions/download-artifact/compare/v6.0.0...v7.0.0</a></p> </blockquote> </details> <details> <summary>Commits</summary> <ul> <li><a href="https://github.com/actions/download-artifact/commit/37930b1c2abaa49bbe596cd826c3c89aef350131"><code>37930b1</code></a> Merge pull request <a href="https://redirect.github.com/actions/download-artifact/issues/452">#452</a> from actions/download-artifact-v7-release</li> <li><a href="https://github.com/actions/download-artifact/commit/72582b9e0acd370909e83fa4a1fd0fca3ad452d8"><code>72582b9</code></a> doc: update readme</li> <li><a href="https://github.com/actions/download-artifact/commit/0d2ec9d4cbcefe257d822f108de2a1f15f8da9f6"><code>0d2ec9d</code></a> chore: release v7.0.0 for Node.js 24 support</li> <li><a href="https://github.com/actions/download-artifact/commit/fd7ae8fda6dc16277a9ffbc91cdb0eedf156e912"><code>fd7ae8f</code></a> Merge pull request <a href="https://redirect.github.com/actions/download-artifact/issues/451">#451</a> from actions/fix-storage-blob</li> <li><a href="https://github.com/actions/download-artifact/commit/d484700543354b15886d6a52910cf61b7f1d2b27"><code>d484700</code></a> chore: restore minimatch.dep.yml license file</li> <li><a href="https://github.com/actions/download-artifact/commit/03a808050efe42bb6ad85281890afd4e4546672c"><code>03a8080</code></a> chore: remove obsolete dependency license files</li> <li><a href="https://github.com/actions/download-artifact/commit/56fe6d904b0968950f8b68ea17774c54973ed5e2"><code>56fe6d9</code></a> chore: update <code>@actions/artifact</code> license file to 5.0.1</li> <li><a href="https://github.com/actions/download-artifact/commit/8e3ebc4ab4d2e095e5eb44ba1a4a53b6b03976ad"><code>8e3ebc4</code></a> chore: update package-lock.json with <code>@actions/artifact</code><a href="https://github.com/5"><code>@5</code></a>.0.1</li> <li><a href="https://github.com/actions/download-artifact/commit/1e3c4b4d4906c98ab57453c24efefdf16c078044"><code>1e3c4b4</code></a> fix: update <code>@actions/artifact</code> to ^5.0.0 for Node.js 24 punycode fix</li> <li><a href="https://github.com/actions/download-artifact/commit/458627d354794c71bc386c8d5839d20b5885fe2a"><code>458627d</code></a> chore: use local <code>@actions/artifact</code> package for Node.js 24 testing</li> <li>Additional commits viewable in <a href="https://github.com/actions/download-artifact/compare/v6...v7">compare view</a></li> </ul> </details> <br /> [](https://docs.github.com/en/github/managing-security-vulnerabilities/about-dependabot-security-updates#about-compatibility-scores) Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting `@dependabot rebase`. [//]: # (dependabot-automerge-start) [//]: # (dependabot-automerge-end) --- <details> <summary>Dependabot commands and options</summary> <br /> You can trigger Dependabot actions by commenting on this PR: - `@dependabot rebase` will rebase this PR - `@dependabot recreate` will recreate this PR, overwriting any edits that have been made to it - `@dependabot merge` will merge this PR after your CI passes on it - `@dependabot squash and merge` will squash and merge this PR after your CI passes on it - `@dependabot cancel merge` will cancel a previously requested merge and block automerging - `@dependabot reopen` will reopen this PR if it is closed - `@dependabot close` will close this PR and stop Dependabot recreating it. You can achieve the same result by closing it manually - `@dependabot show <dependency name> ignore conditions` will show all of the ignore conditions of the specified dependency - `@dependabot ignore this major version` will close this PR and stop Dependabot creating any more for this major version (unless you reopen the PR or upgrade to it yourself) - `@dependabot ignore this minor version` will close this PR and stop Dependabot creating any more for this minor version (unless you reopen the PR or upgrade to it yourself) - `@dependabot ignore this dependency` will close this PR and stop Dependabot creating any more for this dependency (unless you reopen the PR or upgrade to it yourself) </details> Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Caroline Malin-Mayor <malinmayorc@janelia.hhmi.org>
main
8 days ago
Dask future warning (#389) # Proposed Change Tests with latest released version of dask were failing because of a future warning in the to_zarr function signature. Options: 1. Ignore the warning (what I chose for now) 2. Update to the new signature and pin to >= the release from last week (seemed too prohibitive) 3. Do a dask version check the same way we do a zarr version check and pass the arguments based on version Depending on when dask actually removes the backward compatible **kwargs pattern, we may still need to do option 3 instead of option 2, but I'd rather wait and see if it is necessary. To detect the actual breaking changed, I also added weekly scheduled runs of the testing CI. # Types of Changes What types of changes does your code introduce? Delete those that do not apply. - Maintenance (e.g. dependencies, CI, releases, etc.) Which topics does your change affect? Delete those that do not apply. - Convert (where we are using dask.to_zarr) - Testing # Checklist Put an x in the boxes that apply. You can also fill these out after creating the PR. If you're unsure about any of them, don't hesitate to ask. We're here to help! This is simply a reminder of what we are going to look for before merging your code. - [x] I have read the [developer/contributing](https://github.com/live-image-tracking-tools/geff/blob/main/CONTRIBUTING) docs. - [x] I have added tests that prove that my feature works in various situations or tests the bugfix (if appropriate). - [x] I have checked that I maintained or improved code coverage. - [x] I have written docstrings and checked that they render correctly by looking at the docs preview (link left as a comment on the PR).
main
9 days ago
Merge branch 'main' into dependabot/github_actions/actions/download-artifact-7
dependabot/github_actions/actions/download-artifact-7
9 days ago
Merge branch 'main' into dependabot/github_actions/actions/cache-5
dependabot/github_actions/actions/cache-5
9 days ago
Add weekly scheduled runs of tests
dask-future-warning
10 days ago
ci(pre-commit.ci): autoupdate (#386) <!--pre-commit.ci start--> updates: - [github.com/adhtruong/mirrors-typos: v1.39.0 → v1.40.0](https://github.com/adhtruong/mirrors-typos/compare/v1.39.0...v1.40.0) - [github.com/astral-sh/ruff-pre-commit: v0.14.3 → v0.14.7](https://github.com/astral-sh/ruff-pre-commit/compare/v0.14.3...v0.14.7) - [github.com/pre-commit/mirrors-mypy: v1.18.2 → v1.19.0](https://github.com/pre-commit/mirrors-mypy/compare/v1.18.2...v1.19.0) <!--pre-commit.ci end--> Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
main
10 days ago
ci(dependabot): bump actions/cache from 4 to 5 Bumps [actions/cache](https://github.com/actions/cache) from 4 to 5. - [Release notes](https://github.com/actions/cache/releases) - [Changelog](https://github.com/actions/cache/blob/main/RELEASES.md) - [Commits](https://github.com/actions/cache/compare/v4...v5) --- updated-dependencies: - dependency-name: actions/cache dependency-version: '5' dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com>
dependabot/github_actions/actions/cache-5
11 days ago
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