build(deps): bump actions/checkout from 4 to 5 (#528)

Bumps [actions/checkout](https://github.com/actions/checkout) from 4 to
5.
<details>
<summary>Release notes</summary>
<p><em>Sourced from <a
href="https://github.com/actions/checkout/releases">actions/checkout's
releases</a>.</em></p>
<blockquote>
<h2>v5.0.0</h2>
<h2>What's Changed</h2>
<ul>
<li>Update actions checkout to use node 24 by <a
href="https://github.com/salmanmkc"><code>@​salmanmkc</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/2226">actions/checkout#2226</a></li>
<li>Prepare v5.0.0 release by <a
href="https://github.com/salmanmkc"><code>@​salmanmkc</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/2238">actions/checkout#2238</a></li>
</ul>
<h2>⚠️ Minimum Compatible Runner Version</h2>
<p><strong>v2.327.1</strong><br />
<a
href="https://github.com/actions/runner/releases/tag/v2.327.1">Release
Notes</a></p>
<p>Make sure your runner is updated to this version or newer to use this
release.</p>
<p><strong>Full Changelog</strong>: <a
href="https://github.com/actions/checkout/compare/v4...v5.0.0">https://github.com/actions/checkout/compare/v4...v5.0.0</a></p>
<h2>v4.3.0</h2>
<h2>What's Changed</h2>
<ul>
<li>docs: update README.md by <a
href="https://github.com/motss"><code>@​motss</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1971">actions/checkout#1971</a></li>
<li>Add internal repos for checking out multiple repositories by <a
href="https://github.com/mouismail"><code>@​mouismail</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1977">actions/checkout#1977</a></li>
<li>Documentation update - add recommended permissions to Readme by <a
href="https://github.com/benwells"><code>@​benwells</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/2043">actions/checkout#2043</a></li>
<li>Adjust positioning of user email note and permissions heading by <a
href="https://github.com/joshmgross"><code>@​joshmgross</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/2044">actions/checkout#2044</a></li>
<li>Update README.md by <a
href="https://github.com/nebuk89"><code>@​nebuk89</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/2194">actions/checkout#2194</a></li>
<li>Update CODEOWNERS for actions by <a
href="https://github.com/TingluoHuang"><code>@​TingluoHuang</code></a>
in <a
href="https://redirect.github.com/actions/checkout/pull/2224">actions/checkout#2224</a></li>
<li>Update package dependencies by <a
href="https://github.com/salmanmkc"><code>@​salmanmkc</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/2236">actions/checkout#2236</a></li>
<li>Prepare release v4.3.0 by <a
href="https://github.com/salmanmkc"><code>@​salmanmkc</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/2237">actions/checkout#2237</a></li>
</ul>
<h2>New Contributors</h2>
<ul>
<li><a href="https://github.com/motss"><code>@​motss</code></a> made
their first contribution in <a
href="https://redirect.github.com/actions/checkout/pull/1971">actions/checkout#1971</a></li>
<li><a href="https://github.com/mouismail"><code>@​mouismail</code></a>
made their first contribution in <a
href="https://redirect.github.com/actions/checkout/pull/1977">actions/checkout#1977</a></li>
<li><a href="https://github.com/benwells"><code>@​benwells</code></a>
made their first contribution in <a
href="https://redirect.github.com/actions/checkout/pull/2043">actions/checkout#2043</a></li>
<li><a href="https://github.com/nebuk89"><code>@​nebuk89</code></a> made
their first contribution in <a
href="https://redirect.github.com/actions/checkout/pull/2194">actions/checkout#2194</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/checkout/pull/2236">actions/checkout#2236</a></li>
</ul>
<p><strong>Full Changelog</strong>: <a
href="https://github.com/actions/checkout/compare/v4...v4.3.0">https://github.com/actions/checkout/compare/v4...v4.3.0</a></p>
<h2>v4.2.2</h2>
<h2>What's Changed</h2>
<ul>
<li><code>url-helper.ts</code> now leverages well-known environment
variables by <a href="https://github.com/jww3"><code>@​jww3</code></a>
in <a
href="https://redirect.github.com/actions/checkout/pull/1941">actions/checkout#1941</a></li>
<li>Expand unit test coverage for <code>isGhes</code> by <a
href="https://github.com/jww3"><code>@​jww3</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1946">actions/checkout#1946</a></li>
</ul>
<p><strong>Full Changelog</strong>: <a
href="https://github.com/actions/checkout/compare/v4.2.1...v4.2.2">https://github.com/actions/checkout/compare/v4.2.1...v4.2.2</a></p>
<h2>v4.2.1</h2>
<h2>What's Changed</h2>
<ul>
<li>Check out other refs/* by commit if provided, fall back to ref by <a
href="https://github.com/orhantoy"><code>@​orhantoy</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1924">actions/checkout#1924</a></li>
</ul>
<h2>New Contributors</h2>
<ul>
<li><a href="https://github.com/Jcambass"><code>@​Jcambass</code></a>
made their first contribution in <a
href="https://redirect.github.com/actions/checkout/pull/1919">actions/checkout#1919</a></li>
</ul>
<p><strong>Full Changelog</strong>: <a
href="https://github.com/actions/checkout/compare/v4.2.0...v4.2.1">https://github.com/actions/checkout/compare/v4.2.0...v4.2.1</a></p>
<!-- raw HTML omitted -->
</blockquote>
<p>... (truncated)</p>
</details>
<details>
<summary>Changelog</summary>
<p><em>Sourced from <a
href="https://github.com/actions/checkout/blob/main/CHANGELOG.md">actions/checkout's
changelog</a>.</em></p>
<blockquote>
<h1>Changelog</h1>
<h2>V5.0.0</h2>
<ul>
<li>Update actions checkout to use node 24 by <a
href="https://github.com/salmanmkc"><code>@​salmanmkc</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/2226">actions/checkout#2226</a></li>
</ul>
<h2>V4.3.0</h2>
<ul>
<li>docs: update README.md by <a
href="https://github.com/motss"><code>@​motss</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1971">actions/checkout#1971</a></li>
<li>Add internal repos for checking out multiple repositories by <a
href="https://github.com/mouismail"><code>@​mouismail</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1977">actions/checkout#1977</a></li>
<li>Documentation update - add recommended permissions to Readme by <a
href="https://github.com/benwells"><code>@​benwells</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/2043">actions/checkout#2043</a></li>
<li>Adjust positioning of user email note and permissions heading by <a
href="https://github.com/joshmgross"><code>@​joshmgross</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/2044">actions/checkout#2044</a></li>
<li>Update README.md by <a
href="https://github.com/nebuk89"><code>@​nebuk89</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/2194">actions/checkout#2194</a></li>
<li>Update CODEOWNERS for actions by <a
href="https://github.com/TingluoHuang"><code>@​TingluoHuang</code></a>
in <a
href="https://redirect.github.com/actions/checkout/pull/2224">actions/checkout#2224</a></li>
<li>Update package dependencies by <a
href="https://github.com/salmanmkc"><code>@​salmanmkc</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/2236">actions/checkout#2236</a></li>
</ul>
<h2>v4.2.2</h2>
<ul>
<li><code>url-helper.ts</code> now leverages well-known environment
variables by <a href="https://github.com/jww3"><code>@​jww3</code></a>
in <a
href="https://redirect.github.com/actions/checkout/pull/1941">actions/checkout#1941</a></li>
<li>Expand unit test coverage for <code>isGhes</code> by <a
href="https://github.com/jww3"><code>@​jww3</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1946">actions/checkout#1946</a></li>
</ul>
<h2>v4.2.1</h2>
<ul>
<li>Check out other refs/* by commit if provided, fall back to ref by <a
href="https://github.com/orhantoy"><code>@​orhantoy</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1924">actions/checkout#1924</a></li>
</ul>
<h2>v4.2.0</h2>
<ul>
<li>Add Ref and Commit outputs by <a
href="https://github.com/lucacome"><code>@​lucacome</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1180">actions/checkout#1180</a></li>
<li>Dependency updates by <a
href="https://github.com/dependabot"><code>@​dependabot</code></a>- <a
href="https://redirect.github.com/actions/checkout/pull/1777">actions/checkout#1777</a>,
<a
href="https://redirect.github.com/actions/checkout/pull/1872">actions/checkout#1872</a></li>
</ul>
<h2>v4.1.7</h2>
<ul>
<li>Bump the minor-npm-dependencies group across 1 directory with 4
updates by <a
href="https://github.com/dependabot"><code>@​dependabot</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1739">actions/checkout#1739</a></li>
<li>Bump actions/checkout from 3 to 4 by <a
href="https://github.com/dependabot"><code>@​dependabot</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1697">actions/checkout#1697</a></li>
<li>Check out other refs/* by commit by <a
href="https://github.com/orhantoy"><code>@​orhantoy</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1774">actions/checkout#1774</a></li>
<li>Pin actions/checkout's own workflows to a known, good, stable
version. by <a href="https://github.com/jww3"><code>@​jww3</code></a> in
<a
href="https://redirect.github.com/actions/checkout/pull/1776">actions/checkout#1776</a></li>
</ul>
<h2>v4.1.6</h2>
<ul>
<li>Check platform to set archive extension appropriately by <a
href="https://github.com/cory-miller"><code>@​cory-miller</code></a> in
<a
href="https://redirect.github.com/actions/checkout/pull/1732">actions/checkout#1732</a></li>
</ul>
<h2>v4.1.5</h2>
<ul>
<li>Update NPM dependencies by <a
href="https://github.com/cory-miller"><code>@​cory-miller</code></a> in
<a
href="https://redirect.github.com/actions/checkout/pull/1703">actions/checkout#1703</a></li>
<li>Bump github/codeql-action from 2 to 3 by <a
href="https://github.com/dependabot"><code>@​dependabot</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1694">actions/checkout#1694</a></li>
<li>Bump actions/setup-node from 1 to 4 by <a
href="https://github.com/dependabot"><code>@​dependabot</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1696">actions/checkout#1696</a></li>
<li>Bump actions/upload-artifact from 2 to 4 by <a
href="https://github.com/dependabot"><code>@​dependabot</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1695">actions/checkout#1695</a></li>
<li>README: Suggest <code>user.email</code> to be
<code>41898282+github-actions[bot]@users.noreply.github.com</code> by <a
href="https://github.com/cory-miller"><code>@​cory-miller</code></a> in
<a
href="https://redirect.github.com/actions/checkout/pull/1707">actions/checkout#1707</a></li>
</ul>
<h2>v4.1.4</h2>
<ul>
<li>Disable <code>extensions.worktreeConfig</code> when disabling
<code>sparse-checkout</code> by <a
href="https://github.com/jww3"><code>@​jww3</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1692">actions/checkout#1692</a></li>
<li>Add dependabot config by <a
href="https://github.com/cory-miller"><code>@​cory-miller</code></a> in
<a
href="https://redirect.github.com/actions/checkout/pull/1688">actions/checkout#1688</a></li>
<li>Bump the minor-actions-dependencies group with 2 updates by <a
href="https://github.com/dependabot"><code>@​dependabot</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1693">actions/checkout#1693</a></li>
<li>Bump word-wrap from 1.2.3 to 1.2.5 by <a
href="https://github.com/dependabot"><code>@​dependabot</code></a> in <a
href="https://redirect.github.com/actions/checkout/pull/1643">actions/checkout#1643</a></li>
</ul>
<h2>v4.1.3</h2>
<!-- raw HTML omitted -->
</blockquote>
<p>... (truncated)</p>
</details>
<details>
<summary>Commits</summary>
<ul>
<li><a
href="https://github.com/actions/checkout/commit/08c6903cd8c0fde910a37f88322edcfb5dd907a8"><code>08c6903</code></a>
Prepare v5.0.0 release (<a
href="https://redirect.github.com/actions/checkout/issues/2238">#2238</a>)</li>
<li><a
href="https://github.com/actions/checkout/commit/9f265659d3bb64ab1440b03b12f4d47a24320917"><code>9f26565</code></a>
Update actions checkout to use node 24 (<a
href="https://redirect.github.com/actions/checkout/issues/2226">#2226</a>)</li>
<li>See full diff in <a
href="https://github.com/actions/checkout/compare/v4...v5">compare
view</a></li>
</ul>
</details>
<br />


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.github/workflows/ci-docker.yml

@@ -12,7 +12,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
     - name: Check out the repo
-      uses: actions/checkout@v4
+      uses: actions/checkout@v5
 
     - name: Log in to Docker Hub
       uses: docker/login-action@v3

.github/workflows/machines.yml

@@ -15,7 +15,7 @@ jobs:
           - ssh
           - ssh_rsync
     steps:
-    - uses: actions/checkout@v4
+    - uses: actions/checkout@v5
     - run: ./ci/${{ matrix.machine }}.sh
       env:
         CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}

.github/workflows/publish_conda.yml

@@ -9,7 +9,7 @@ jobs:
   publish:
     runs-on: ubuntu-latest
     steps:
-    - uses: actions/checkout@v4
+    - uses: actions/checkout@v5
     - name: publish-to-conda
       uses: felix5572/conda-publish-action@v1.9
       with:

.github/workflows/pyright.yml

@@ -7,7 +7,7 @@ jobs:
     name: pyright
     runs-on: ubuntu-latest
     steps:
-    - uses: actions/checkout@v4
+    - uses: actions/checkout@v5
     - uses: actions/setup-python@v5
       with:
         python-version: '3.11'

.github/workflows/release.yml

@@ -8,7 +8,7 @@ jobs:
         # IMPORTANT: this permission is mandatory for trusted publishing
         id-token: write
     steps:
-    - uses: actions/checkout@v4
+    - uses: actions/checkout@v5
     - name: Setup python
       uses: actions/setup-python@v5
       with:

.github/workflows/test-bohrium.yml

@@ -12,7 +12,7 @@ jobs:
     environment: bohrium
     if: github.repository_owner == 'deepmodeling' && (github.event.label.name == 'Test Bohrium' || github.event_name == 'push')
     steps:
-    - uses: actions/checkout@v4
+    - uses: actions/checkout@v5
       with:
         ref: "${{ github.event.pull_request.merge_commit_sha }}"
     - name: Set up Python 3.12

.github/workflows/test.yml

@@ -26,7 +26,7 @@ jobs:
           - python-version: "3.7"
             platform: macos-13
     steps:
-    - uses: actions/checkout@v4
+    - uses: actions/checkout@v5
     - name: Set up Python ${{ matrix.python-version }}
       uses: actions/setup-python@v5
       with: