Merge pull request #5250 from pybamm-team/25.10.0

Release v25.10.0

Author: valentinsulzer

.github/workflows/benchmark_on_push.yml

@@ -20,11 +20,11 @@ jobs:
     permissions:
       contents: read
     steps:
-      - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+      - uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           persist-credentials: false
       - name: Set up Python 3.12
-        uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
+        uses: actions/setup-python@e797f83bcb11b83ae66e0230d6156d7c80228e7c # v6.0.0
         with:
           python-version: 3.12
 

.github/workflows/docker.yml

@@ -18,7 +18,7 @@ jobs:
 
     steps:
       - name: Checkout
-        uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+        uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           persist-credentials: false
 
@@ -31,7 +31,7 @@ jobs:
         with:
           cache-binary: false
       - name: Login to Docker Hub
-        uses: docker/login-action@74a5d142397b4f367a81961eba4e8cd7edddf772 # v3.4.0
+        uses: docker/login-action@5e57cd118135c172c3672efd75eb46360885c0ef # v3.6.0
         with:
             username: ${{ secrets.DOCKERHUB_USERNAME }}
             password: ${{ secrets.DOCKERHUB_TOKEN }}

.github/workflows/lychee_url_checker.yml

@@ -23,20 +23,20 @@ jobs:
 
       # cache Lychee results to avoid hitting rate limits
       - name: Restore lychee cache
-        uses: actions/cache@5a3ec84eff668545956fd18022155c47e93e2684 # v4.2.3
+        uses: actions/cache@0057852bfaa89a56745cba8c7296529d2fc39830 # v4.3.0
         with:
           path: .lycheecache
           key: cache-lychee-${{ github.sha }}
           restore-keys: cache-lychee-
 
       # check URLs with Lychee
-      - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+      - uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           persist-credentials: false
 
       # use stable version for now to avoid breaking changes
       - name: Lychee URL checker
-        uses: lycheeverse/lychee-action@82202e5e9c2f4ef1a55a3d02563e1cb6041e5332 # v2.4.1
+        uses: lycheeverse/lychee-action@885c65f3dc543b57c898c8099f4e08c8afd178a2 # v2.6.1
         with:
           # arguments with file types to check
           args: >-

.github/workflows/periodic_benchmarks.yml

@@ -28,12 +28,12 @@ jobs:
       contents: read
 
     steps:
-      - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+      - uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           persist-credentials: false
 
       - name: Set up Python 3.12
-        uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
+        uses: actions/setup-python@e797f83bcb11b83ae66e0230d6156d7c80228e7c # v6.0.0
         with:
           python-version: 3.12
 
@@ -55,7 +55,7 @@ jobs:
           asv run --machine "GitHubRunner" NEW --show-stderr -v
 
       - name: Upload results as artifact
-        uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4.6.2
+        uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5.0.0
         with:
           name: asv_periodic_results
           path: results
@@ -70,22 +70,22 @@ jobs:
       contents: write
     steps:
       - name: Set up Python 3.12
-        uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
+        uses: actions/setup-python@e797f83bcb11b83ae66e0230d6156d7c80228e7c # v6.0.0
         with:
           python-version: 3.12
 
       - name: Install asv
         run: pip install asv
 
       - name: Checkout pybamm-bench repo
-        uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+        uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           repository: pybamm-team/pybamm-bench
           token: ${{ secrets.BENCH_PAT }}
           persist-credentials: false
 
       - name: Download results artifact(s)
-        uses: actions/download-artifact@d3f86a106a0bac45b974a628896c90dbdf5c8093 # v4.3.0
+        uses: actions/download-artifact@018cc2cf5baa6db3ef3c5f8a56943fffe632ef53 # v6.0.0
         with:
           path: results
           merge-multiple: true

.github/workflows/publish_pypi.yml

@@ -13,18 +13,18 @@ jobs:
       contents: read
 
     steps:
-      - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+      - uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           persist-credentials: true
-      - uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
+      - uses: actions/setup-python@e797f83bcb11b83ae66e0230d6156d7c80228e7c # v6.0.0
         with:
           python-version: 3.12
 
       - name: Build wheel
         run: pipx run build --outdir deploy
 
       - name: Upload package
-        uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4.6.2
+        uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5.0.0
         with:
           name: distributions
           path: deploy/
@@ -39,12 +39,12 @@ jobs:
 
     steps:
       - name: Download artifacts
-        uses: actions/download-artifact@d3f86a106a0bac45b974a628896c90dbdf5c8093 # v4.3.0
+        uses: actions/download-artifact@018cc2cf5baa6db3ef3c5f8a56943fffe632ef53 # v6.0.0
         with:
           path: deploy
           merge-multiple: true
 
       - name: Publish on PyPI
-        uses: pypa/gh-action-pypi-publish@76f52bc884231f62b9a034ebfe128415bbaabdfc # v1.12.4
+        uses: pypa/gh-action-pypi-publish@ed0c53931b1dc9bd32cbe73a98c7f6766f8a527e # v1.13.0
         with:
           packages-dir: deploy/

.github/workflows/run_benchmarks_over_history.yml

@@ -37,11 +37,11 @@ jobs:
     permissions:
       contents: read
     steps:
-      - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+      - uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           persist-credentials: false
       - name: Set up Python 3.12
-        uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
+        uses: actions/setup-python@e797f83bcb11b83ae66e0230d6156d7c80228e7c # v6.0.0
         with:
           python-version: 3.12
 
@@ -58,7 +58,7 @@ jobs:
 
       - name: Validate commit_start
         id: validate_start
-        uses: actions/github-script@60a0d83039c74a4aee543508d2ffcb1c3799cdea # v7.0.1
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
         with:
           script: |
             const input = context.payload.inputs.commit_start;
@@ -70,7 +70,7 @@ jobs:
 
       - name: Validate commit_end
         id: validate_end
-        uses: actions/github-script@60a0d83039c74a4aee543508d2ffcb1c3799cdea # v7.0.1
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
         with:
           script: |
             const input = context.payload.inputs.commit_end;
@@ -82,7 +82,7 @@ jobs:
 
       - name: Validate ncommits
         id: validate_ncommits
-        uses: actions/github-script@60a0d83039c74a4aee543508d2ffcb1c3799cdea # v7.0.1
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
         with:
           script: |
             const input = context.payload.inputs.ncommits;
@@ -117,7 +117,7 @@ jobs:
           $COMMIT_START..$COMMIT_END
 
       - name: Upload results as artifact
-        uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4.6.2
+        uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5.0.0
         with:
           name: asv_over_history_results
           path: results
@@ -132,22 +132,22 @@ jobs:
       contents: write
     steps:
       - name: Set up Python 3.12
-        uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
+        uses: actions/setup-python@e797f83bcb11b83ae66e0230d6156d7c80228e7c # v6.0.0
         with:
           python-version: 3.12
 
       - name: Install asv
         run: pip install asv
 
       - name: Checkout pybamm-bench repo
-        uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+        uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           repository: pybamm-team/pybamm-bench
           token: ${{ secrets.BENCH_PAT }}
           persist-credentials: false
 
       - name: Download results artifact(s)
-        uses: actions/download-artifact@d3f86a106a0bac45b974a628896c90dbdf5c8093 # v4.6.2
+        uses: actions/download-artifact@018cc2cf5baa6db3ef3c5f8a56943fffe632ef53 # v4.6.2
         with:
           name: asv_over_history_results
           path: results

.github/workflows/run_periodic_tests.yml

@@ -30,13 +30,13 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        os: [ ubuntu-latest, macos-13, macos-latest, windows-latest ]
+        os: [ ubuntu-latest, macos-15-intel, macos-latest, windows-latest ]
         python-version: ["3.10", "3.11", "3.12"]
     name: Tests (${{ matrix.os }} / Python ${{ matrix.python-version }})
 
     steps:
       - name: Check out PyBaMM repository
-        uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+        uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           persist-credentials: false
 
@@ -48,7 +48,7 @@ jobs:
           sudo apt-get install libopenblas-dev texlive-latex-extra dvipng
 
       - name: Install macOS system dependencies
-        if: matrix.os == 'macos-13' || matrix.os == 'macos-latest'
+        if: matrix.os == 'macos-15-intel' || matrix.os == 'macos-latest'
         env:
           HOMEBREW_NO_INSTALL_CLEANUP: 1
           HOMEBREW_NO_AUTO_UPDATE: 1
@@ -66,7 +66,7 @@ jobs:
         run: choco install graphviz --version=8.0.5
 
       - name: Set up Python ${{ matrix.python-version }}
-        uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
+        uses: actions/setup-python@e797f83bcb11b83ae66e0230d6156d7c80228e7c # v6.0.0
         with:
           python-version: ${{ matrix.python-version }}
 
@@ -86,7 +86,7 @@ jobs:
 
       - name: Upload coverage report
         if: matrix.os == 'ubuntu-latest' && matrix.python-version == '3.12'
-        uses: codecov/codecov-action@18283e04ce6e62d37312384ff67231eb8fd56d24 # v5.4.3
+        uses: codecov/codecov-action@5a1091511ad55cbe89839c7260b706298ca349f7 # v5.5.1
         with:
           token: ${{ secrets.CODECOV_TOKEN }}
 
@@ -103,7 +103,7 @@ jobs:
 
     steps:
       - name: Check out PyBaMM repository
-        uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+        uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           persist-credentials: false
           fetch-depth: 0
@@ -115,7 +115,7 @@ jobs:
           sudo apt-get install texlive-latex-extra dvipng
 
       - name: Set up Python
-        uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
+        uses: actions/setup-python@e797f83bcb11b83ae66e0230d6156d7c80228e7c # v6.0.0
         with:
           python-version: 3.11
 
@@ -141,7 +141,7 @@ jobs:
 
     steps:
       - name: Check out PyBaMM repository
-        uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+        uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           persist-credentials: false
 
@@ -152,7 +152,7 @@ jobs:
           sudo apt-get install libopenblas-dev texlive-latex-extra dvipng
 
       - name: Set up Python 3.12
-        uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
+        uses: actions/setup-python@e797f83bcb11b83ae66e0230d6156d7c80228e7c # v6.0.0
         with:
           python-version: 3.12
 
@@ -175,7 +175,7 @@ jobs:
 
     steps:
       - name: Check out PyBaMM repository
-        uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+        uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           persist-credentials: false
 
@@ -186,7 +186,7 @@ jobs:
           sudo apt-get install libopenblas-dev texlive-latex-extra dvipng
 
       - name: Set up Python 3.12
-        uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
+        uses: actions/setup-python@e797f83bcb11b83ae66e0230d6156d7c80228e7c # v6.0.0
         with:
           python-version: 3.12
 

.github/workflows/scorecard.yml

@@ -29,12 +29,12 @@ jobs:
 
     steps:
       - name: "Checkout code"
-        uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+        uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           persist-credentials: false
 
       - name: "Run analysis"
-        uses: ossf/scorecard-action@05b42c624433fc40578a4040d5cf5e36ddca8cde # v2.4.2
+        uses: ossf/scorecard-action@4eaacf0543bb3f2c246792bd56e8cdeffafb205a # v2.4.3
         with:
           results_file: results.sarif
           results_format: sarif
@@ -56,7 +56,7 @@ jobs:
       # Upload the results as artifacts (optional). Commenting out will disable uploads of run results in SARIF
       # format to the repository Actions tab.
       - name: "Upload artifact"
-        uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4.6.2
+        uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5.0.0
         with:
           name: SARIF file
           path: results.sarif
@@ -65,6 +65,6 @@ jobs:
       # Upload the results to GitHub's code scanning dashboard (optional).
       # Commenting out will disable upload of results to your repo's Code Scanning dashboard
       - name: "Upload to code-scanning"
-        uses: github/codeql-action/upload-sarif@181d5eefc20863364f96762470ba6f862bdef56b # v3.29.2
+        uses: github/codeql-action/upload-sarif@4e94bd11f71e507f7f87df81788dff88d1dacbfb # v3.29.5
         with:
           sarif_file: results.sarif