Merge branch 'main' into patch-2025-09-19-15-24

Author: tdavidcl

.clangd

@@ -17,6 +17,8 @@ Diagnostics:
   UnusedIncludes: Strict
   # >= clangd-17
   MissingIncludes: None
+  # >=clangd-12 - Enable clang-tidy and read configuration from .clang-tidy
+  ClangTidy: {}
 
 Hover:
   # >= clangd-14

.github/dockerfiles/intel_oneapi/Dockerfile

@@ -6,7 +6,7 @@ RUN apt-get update && \
 
 WORKDIR /opt/Shamrock_src
 
-COPY . .
+ADD repo.tar.gz .
 
 RUN ls -la
 

.github/dockerfiles/phys_test_image_acpp_omp/Dockerfile

@@ -4,15 +4,17 @@ ARG CLANGVERSION=18
 
 RUN wget https://apt.llvm.org/llvm.sh && \
     chmod +x llvm.sh && \
+    sudo apt update && \
     sudo ./llvm.sh ${CLANGVERSION} && \
     sudo apt install -y libclang-${CLANGVERSION}-dev clang-tools-${CLANGVERSION} libomp-${CLANGVERSION}-dev && \
     rm llvm.sh
 
+RUN sudo apt install -y gfortran
 RUN pip install matplotlib numpy scipy h5py
 
 WORKDIR /opt/Shamrock_src
 
-COPY . .
+ADD repo.tar.gz .
 
 RUN ls -la
 

.github/workflows/autofix-pr.yml

@@ -0,0 +1,88 @@
+name: autofix-pr
+
+on:
+  push:
+    branches:
+      - main
+
+concurrency:
+  group: ${{ github.workflow }}-${{ github.ref }}
+  cancel-in-progress: true
+
+permissions:
+  contents: write
+  pull-requests: write
+
+jobs:
+  autofix-pr:
+    name: "Auto-fix and create PR if needed"
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v6
+        with:
+          fetch-depth: 0
+          token: ${{ secrets.GHACTION_PAT }}
+
+      - uses: actions/setup-python@v5
+        with:
+          python-version: '>=3.10'
+
+      - name: Run pre-commit
+        id: precommit
+        continue-on-error: true
+        uses: pre-commit/action@v3.0.1
+
+      - name: Run author update script
+        id: author-update
+        continue-on-error: true
+        run: |
+          python3 buildbot/update_authors.py
+
+      - name: Check for changes
+        id: check-changes
+        run: |
+          if [[ -n $(git status --porcelain) ]]; then
+            echo "changes=true" >> $GITHUB_OUTPUT
+            echo "Changes detected:"
+            git status --short
+          else
+            echo "changes=false" >> $GITHUB_OUTPUT
+            echo "No changes detected"
+          fi
+
+      - name: Create Pull Request
+        if: steps.check-changes.outputs.changes == 'true'
+        uses: peter-evans/create-pull-request@v8
+        with:
+          token: ${{ secrets.GHACTION_PAT }}
+          commit-message: "[autofix] automatic fix after main branch workflow fail"
+          branch: "actions/autofix"
+          delete-branch: true
+          title: "[autofix] automatic fix after main branch workflow fail"
+          labels: |
+            autofix.ci
+            trigger-ci
+          body: |
+            ## Auto-generated fixes
+
+            This PR contains automatic fixes from pre-commit hooks and author updates.
+
+            **Triggered by**: ${{ github.event_name }} on `${{ github.ref_name }}`
+            **Commit**: ${{ github.sha }}
+
+            ### Changes:
+            - Pre-commit hook fixes
+            - Author information updates
+
+            Please review the changes before merging.
+
+      - name: Summary
+        if: always()
+        run: |
+          echo "## Autofix PR Workflow Summary" >> $GITHUB_STEP_SUMMARY
+          echo "" >> $GITHUB_STEP_SUMMARY
+          if [[ "${{ steps.check-changes.outputs.changes }}" == "true" ]]; then
+            echo "✅ Changes detected and PR created" >> $GITHUB_STEP_SUMMARY
+          else
+            echo "✅ No changes needed" >> $GITHUB_STEP_SUMMARY
+          fi

.github/workflows/autofix.yml

@@ -0,0 +1,41 @@
+name: autofix.ci  # needed to securely identify the workflow
+
+on:
+  pull_request:
+    types: [opened, synchronize, labeled]
+
+concurrency:
+  group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.sha }}
+  cancel-in-progress: ${{ github.ref_name != 'main' }}
+
+permissions:
+  contents: read
+
+jobs:
+  autofix:
+    if: ${{ contains(github.event.pull_request.labels.*.name, 'autofix.ci') }}
+    runs-on: ubuntu-latest
+    env:
+      FIX_MODE: "${{ contains(github.event.pull_request.labels.*.name, 'autofix.ci') && 'fix' || 'check' }}"
+    steps:
+      - uses: actions/checkout@v6
+        with:
+          fetch-depth: 0
+
+      - uses: actions/setup-python@v5
+        with:
+           python-version: '>=3.10'
+
+      - uses: pre-commit/action@v3.0.1
+        continue-on-error: true
+
+      - name: "Run author update script"
+        continue-on-error: true
+        run: |
+          python3 buildbot/update_authors.py
+
+      - name: Commit and push if changed
+        if: env.FIX_MODE == 'fix'
+        uses: autofix-ci/action@635ffb0c9798bd160680f18fd73371e355b85f27
+        with:
+          commit-message: '[autofix.ci] fix file authorship & pre-commit'

.github/workflows/build-and-push.yml

@@ -35,7 +35,7 @@ jobs:
 
   build-and-push:
     name: ${{ inputs.imagename }}:${{ inputs.imagetag }}
-    runs-on: ${{ inputs.runson }}
+    runs-on: ${{ fromJSON(inputs.runson) }}
     permissions:
       contents: read
       packages: write
@@ -47,9 +47,15 @@ jobs:
       - name: Checkout repository
         uses: actions/checkout@v4
         with:
+          path: repo
           fetch-depth: 0
           submodules: recursive
 
+      - name: Create repository archive
+        run: |
+          tar -czf repo.tar.gz -C repo .
+          cp repo/${{ inputs.imagepath }}/Dockerfile .
+
       # Install the cosign tool except on PR
       # https://github.com/sigstore/cosign-installer
       - name: Install cosign
@@ -98,7 +104,7 @@ jobs:
         uses: docker/build-push-action@0565240e2d4ab88bba5387d719585280857ece09 # v5.0.0
         with:
           context: .
-          file: ${{ inputs.imagepath }}/Dockerfile
+          file: Dockerfile
           push: ${{ github.event_name != 'pull_request' }}
           tags: ${{ steps.meta.outputs.tags }}
           labels: ${{ steps.meta.outputs.labels }}

.github/workflows/build-dockerfiles.yml

@@ -25,5 +25,5 @@ jobs:
       imagename: shamrock
       imagetag: oneapi
       imagepath: .github/dockerfiles/intel_oneapi
-      runson: ubuntu-latest
+      runson: '["self-hosted", "docker-runner"]'
       usetagonlatest: false