Merge branch 'trunk' into improve-templating

glotzerlab · Nov 1, 2024 · 6df3933 · 6df3933
2 parents d63f5a0 + 470b470
commit 6df3933
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diff --git a/.github/workflows/pre-commit-requirements.in b/.github/workflows/pre-commit-requirements.in
@@ -1 +1 @@
-pre-commit==3.8.0
+pre-commit==4.0.1
diff --git a/.github/workflows/pre-commit-requirements.txt b/.github/workflows/pre-commit-requirements.txt
@@ -16,7 +16,7 @@ nodeenv==1.8.0
     # via pre-commit
 platformdirs==4.2.1
     # via virtualenv
-pre-commit==3.8.0
+pre-commit==4.0.1
     # via -r pre-commit-requirements.in
 pyyaml==6.0.1
     # via pre-commit

diff --git a/.github/workflows/pre-commit.yaml b/.github/workflows/pre-commit.yaml
@@ -20,7 +20,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
     - name: Checkout
-      uses: actions/checkout@d632683dd7b4114ad314bca15554477dd762a938 # v4.2.0
+      uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
     # For unknown reasons, pre-commit fails with error: component download failed for cargo-x86_64-unknown-linux-gnu: could not rename downloaded file ...
     # unless we install with rustup first manually.
     - name: Update rust
@@ -29,16 +29,16 @@ jobs:
       run: rustup component add rustfmt
     - name: Install clippy
       run: rustup component add clippy
-    - uses: actions/cache@0c45773b623bea8c8e75f6c82b208c3cf94ea4f9 # v4.0.2
+    - uses: actions/cache@6849a6489940f00c2f30c0fb92c6274307ccb58a # v4.1.2
       with:
         path: |
           ~/.cache/pre-commit/
         key: ${{ runner.os }}-pre-commit-${{ hashFiles('.pre-commit-config.yaml') }}
-    - uses: actions/setup-python@f677139bbe7f9c59b41e40162b753c062f5d49a3 # v5.2.0
+    - uses: actions/setup-python@0b93645e9fea7318ecaed2b359559ac225c90a2b # v5.3.0
       with:
         python-version: "3.12"
     - name: Set up Python environment
-      uses: glotzerlab/workflows/setup-uv@ae7e7c6931098a313ef8069ef04b88a55c3a40f6 # 0.3.0
+      uses: glotzerlab/workflows/setup-uv@1747bc5c994ec280440dd051f2928791407692c8 # 0.5.1
       with:
         lockfile: ".github/workflows/pre-commit-requirements.txt"
     - name: Run pre-commit

diff --git a/.github/workflows/release.yaml b/.github/workflows/release.yaml
@@ -35,7 +35,7 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/checkout@d632683dd7b4114ad314bca15554477dd762a938 # v4.2.0
+      uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
       with:
         path: code
 
@@ -51,7 +51,7 @@ jobs:
     - name: Tar/zstd source
       run: tar --zstd -cvf "${name}-${ref}.tar.zst" "${name}-${ref}"
 
-    - uses: actions/upload-artifact@50769540e7f4bd5e21e526ee35c689e35e0d6874 # v4.4.0
+    - uses: actions/upload-artifact@b4b15b8c7c6ac21ea08fcf65892d2ee8f75cf882 # v4.4.3
       with:
         name: source
         path: |
@@ -63,7 +63,7 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/checkout@d632683dd7b4114ad314bca15554477dd762a938 # v4.2.0
+      uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
       with:
         path: code
 
@@ -82,7 +82,7 @@ jobs:
         tee "${GITHUB_WORKSPACE}/release-notes.md"
       working-directory: code
 
-    - uses: actions/upload-artifact@50769540e7f4bd5e21e526ee35c689e35e0d6874 # v4.4.0
+    - uses: actions/upload-artifact@b4b15b8c7c6ac21ea08fcf65892d2ee8f75cf882 # v4.4.3
       with:
         name: release-notes
         path: |
@@ -104,14 +104,14 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/checkout@d632683dd7b4114ad314bca15554477dd762a938 # v4.2.0
+      uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
     - name: Determine filename-safe ref from GITHUB_REF_NAME
       run: echo ref="$(echo "${GITHUB_REF_NAME}" | sed  -e 's/\//-/g')" >> "$GITHUB_ENV"
     - name: Update rust
       run: rustup install "$RUST_VERSION" --no-self-update && rustup default "$RUST_VERSION"
     - name: Check rust installation
       run: rustc -vV
-    - uses: actions/cache@0c45773b623bea8c8e75f6c82b208c3cf94ea4f9 # v4.0.2
+    - uses: actions/cache@6849a6489940f00c2f30c0fb92c6274307ccb58a # v4.1.2
       with:
         path: |
           ~/.cargo/registry/index/
@@ -125,7 +125,7 @@ jobs:
       run: file "target/${{ matrix.target }}/release/${name}"
     - name: Compress
       run: cp "target/${{ matrix.target }}/release/${name}" . && tar --zstd -cvf "${name}-${ref}-${{ matrix.target }}.tar.zst" "${name}"
-    - uses: actions/upload-artifact@50769540e7f4bd5e21e526ee35c689e35e0d6874 # v4.4.0
+    - uses: actions/upload-artifact@b4b15b8c7c6ac21ea08fcf65892d2ee8f75cf882 # v4.4.3
       with:
         name: ${{ matrix.target }}
         path: "${{ env.name }}-${{ env.ref }}-${{ matrix.target }}.tar.zst"
@@ -145,7 +145,7 @@ jobs:
       run: ls -lR
 
     - name: Create release
-      uses: softprops/action-gh-release@c062e08bd532815e2082a85e87e3ef29c3e6d191 # v2.0.8
+      uses: softprops/action-gh-release@e7a8f85e1c67a31e6ed99a94b41bd0b71bbee6b8 # v2.0.9
       if: startsWith(github.ref, 'refs/tags/')
       with:
         files: |
@@ -160,12 +160,12 @@ jobs:
     runs-on: ubuntu-latest
     steps:
     - name: Checkout
-      uses: actions/checkout@d632683dd7b4114ad314bca15554477dd762a938 # v4.2.0
+      uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
     - name: Update rust
       run: rustup install "$RUST_VERSION" --no-self-update && rustup default "$RUST_VERSION"
     - name: Check rust installation
       run: rustc -vV
-    - uses: actions/cache@0c45773b623bea8c8e75f6c82b208c3cf94ea4f9 # v4.0.2
+    - uses: actions/cache@6849a6489940f00c2f30c0fb92c6274307ccb58a # v4.1.2
       with:
         path: |
           ~/.cargo/registry/index/

diff --git a/.github/workflows/stale.yaml b/.github/workflows/stale.yaml
@@ -8,4 +8,4 @@ on:
 
 jobs:
   stale:
-    uses: glotzerlab/workflows/.github/workflows/stale.yaml@ae7e7c6931098a313ef8069ef04b88a55c3a40f6 # 0.3.0
+    uses: glotzerlab/workflows/.github/workflows/stale.yaml@1747bc5c994ec280440dd051f2928791407692c8 # 0.5.1
diff --git a/.github/workflows/test.yaml b/.github/workflows/test.yaml
@@ -46,12 +46,12 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/checkout@d632683dd7b4114ad314bca15554477dd762a938 # v4.2.0
+      uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
     - name: Update rust
       run: rustup install ${{ matrix.rust }} --no-self-update && rustup default ${{ matrix.rust }}
     - name: Check rust installation
       run: rustc -vV
-    - uses: actions/cache@0c45773b623bea8c8e75f6c82b208c3cf94ea4f9 # v4.0.2
+    - uses: actions/cache@6849a6489940f00c2f30c0fb92c6274307ccb58a # v4.1.2
       with:
         path: |
           ~/.cargo/registry/index/
@@ -69,12 +69,12 @@ jobs:
     runs-on: ubuntu-22.04
     steps:
     - name: Checkout
-      uses: actions/checkout@d632683dd7b4114ad314bca15554477dd762a938 # v4.2.0
+      uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
     - name: Update rust
       run: rustup install "$RUST_LATEST_VERSION" --no-self-update && rustup default "$RUST_LATEST_VERSION"
     - name: Check rust installation
       run: rustc -vV
-    - uses: actions/cache@0c45773b623bea8c8e75f6c82b208c3cf94ea4f9 # v4.0.2
+    - uses: actions/cache@6849a6489940f00c2f30c0fb92c6274307ccb58a # v4.1.2
       with:
         path: |
           ~/.cargo/registry/index/
@@ -96,11 +96,11 @@ jobs:
         ROW_YES: "true"
     # The signac test requires python
     - name: Set up Python
-      uses: actions/setup-python@f677139bbe7f9c59b41e40162b753c062f5d49a3 # v5.2.0
+      uses: actions/setup-python@0b93645e9fea7318ecaed2b359559ac225c90a2b # v5.3.0
       with:
         python-version: "3.12"
     - name: Set up Python environment
-      uses: glotzerlab/workflows/setup-uv@ae7e7c6931098a313ef8069ef04b88a55c3a40f6 # 0.3.0
+      uses: glotzerlab/workflows/setup-uv@1747bc5c994ec280440dd051f2928791407692c8 # 0.5.1
       with:
         lockfile: ".github/workflows/signac-requirements.txt"
     - name: Run signac.sh
@@ -114,15 +114,15 @@ jobs:
     runs-on: ubuntu-22.04
     steps:
     - name: Checkout
-      uses: actions/checkout@d632683dd7b4114ad314bca15554477dd762a938 # v4.2.0
+      uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
     - name: Set up mdbook
-      uses: glotzerlab/workflows/setup-mdbook@ae7e7c6931098a313ef8069ef04b88a55c3a40f6 # 0.3.0
+      uses: glotzerlab/workflows/setup-mdbook@1747bc5c994ec280440dd051f2928791407692c8 # 0.5.1
     - name: Build documentation
       run: mdbook build doc
       env:
         RUST_LOG: "mdbook=info"
     - name: Check links
-      uses: lycheeverse/lychee-action@2b973e86fc7b1f6b36a93795fe2c9c6ae1118621  # v1.10.0
+      uses: lycheeverse/lychee-action@7cd0af4c74a61395d455af97419279d86aafaede  # v2.0.2
       with:
         args: -n .
         fail: true
@@ -132,9 +132,9 @@ jobs:
     runs-on: ubuntu-22.04
     steps:
     - name: Checkout
-      uses: actions/checkout@d632683dd7b4114ad314bca15554477dd762a938 # v4.2.0
+      uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
     - name: Set up cargo-bundle-licenses
-      uses: glotzerlab/workflows/setup-cargo-bundle-licenses@ae7e7c6931098a313ef8069ef04b88a55c3a40f6 # 0.3.0
+      uses: glotzerlab/workflows/setup-cargo-bundle-licenses@1747bc5c994ec280440dd051f2928791407692c8 # 0.5.1
     - name: Check bundled licenses
       run: cargo bundle-licenses --format yaml --output CI.yaml --previous THIRDPARTY.yaml --check-previous