CI: Run PETPrep

.github/workflows/docker.yml

@@ -1,4 +1,4 @@
-name: Docker build
+name: Docker build & smoke test
 
 on:
   workflow_dispatch:
@@ -24,41 +24,89 @@ jobs:
       contents: read
       packages: write
     steps:
-      - name: Checkout repository
-        uses: actions/checkout@v5
-        with:
-          fetch-depth: 200
-          fetch-tags: true
+    - name: Checkout repository
+      uses: actions/checkout@v5
+      with:
+        fetch-depth: 200
+        fetch-tags: true
 
-      - name: Setup Docker buildx
-        uses: docker/setup-buildx-action@v3
+    - name: Setup Docker buildx
+      uses: docker/setup-buildx-action@v3
 
-      - name: Log into registry ${{ env.REGISTRY }}
-        if: github.event_name != 'pull_request'
-        uses: docker/login-action@v3
-        with:
-          registry: ${{ env.REGISTRY }}
-          username: ${{ github.actor }}
-          password: ${{ secrets.GITHUB_TOKEN }}
+    - name: Log into registry ${{ env.REGISTRY }}
+      if: github.event_name != 'pull_request'
+      uses: docker/login-action@v3
+      with:
+        registry: ${{ env.REGISTRY }}
+        username: ${{ github.actor }}
+        password: ${{ secrets.GITHUB_TOKEN }}
 
-      - name: Extract Docker metadata
-        id: meta
-        uses: docker/metadata-action@v5
-        with:
-          images: ${{ env.REGISTRY }}/${{ env.IMAGE_NAME }}
+    - name: Extract Docker metadata
+      id: meta
+      uses: docker/metadata-action@v5
+      with:
+        images: ${{ env.REGISTRY }}/${{ env.IMAGE_NAME }}
 
-      - name: Build and push Docker image
-        uses: docker/build-push-action@v6
-        with:
-          context: .
-          push: ${{ github.event_name != 'pull_request' }}
-          tags: ${{ steps.meta.outputs.tags }}
-          labels: ${{ steps.meta.outputs.labels }}
-          platforms: linux/amd64
-          cache-from: |
-            type=registry,ref=${{ env.REGISTRY }}/${{ env.IMAGE_NAME }}:main
-            type=registry,ref=${{ env.REGISTRY }}/${{ env.IMAGE_NAME }}:${{ env.TARGET_BRANCH }}
-            type=registry,ref=${{ env.REGISTRY }}/${{ env.IMAGE_NAME }}:${{ steps.meta.outputs.tags[0] }}
-          cache-to: type=inline
-        env:
-          TARGET_BRANCH: ${{ github.base_ref || github.ref_name }}
+    - name: Build and push Docker image
+      uses: docker/build-push-action@v6
+      with:
+        context: .
+        push: false
+        tags: ${{ steps.meta.outputs.tags }}
+        labels: ${{ steps.meta.outputs.labels }}
+        platforms: linux/amd64
+        cache-from: |
+          type=registry,ref=${{ env.REGISTRY }}/${{ env.IMAGE_NAME }}:main
+          type=registry,ref=${{ env.REGISTRY }}/${{ env.IMAGE_NAME }}:${{ env.TARGET_BRANCH }}
+          type=registry,ref=${{ env.REGISTRY }}/${{ env.IMAGE_NAME }}:${{ steps.meta.outputs.tags[0] }}
+        cache-to: type=inline
+      env:
+        TARGET_BRANCH: ${{ github.base_ref || github.ref_name }}
+
+  smoke-test:
+    runs-on: docker
+    steps:
+    - uses: actions/checkout@v5
+    - uses: astral-sh/setup-uv@v6
+    - name: Install dependencies
+      run: |
+        sudo apt update
+        sudo apt install -y --no-install-recommends graphviz
+    - name: Check if data needs to be pulled
+      run: |
+        if [ ! -d "test/data" ]; then
+          echo "Fetching data..."
+          uv run petprep/scripts/collect_test_data.py -o bids -d smriprep freesurfer
+        fi
+    - name: Install PETPrep wrapper
+      run: |
+        uv tool install petprep/wrapper
+    - name: Run PETPrep smoke test
+      run: |
+        uvx petprep_wrapper bids derivatives/output participant -i $PETPREP_DOCKER_IMAGE --participant-label 01
+      env:
+        PETPREP_DOCKER_IMAGE: ${{ env.REGISTRY }}/${{ env.IMAGE_NAME }}:${{ steps.meta.outputs.tags[0] }}
+
+  push-container:
+    if: github.event_name != 'pull_request'
+    needs: build-container
+    runs-on: ubuntu-latest
+    permissions:
+      contents: read
+      packages: write
+    steps:
+    - name: Log into registry ${{ env.REGISTRY }}
+      uses: docker/login-action@v3
+      with:
+        registry: ${{ env.REGISTRY }}
+        username: ${{ github.actor }}
+        password: ${{ secrets.GITHUB_TOKEN }}
+
+    - name: Push Docker image
+      uses: docker/build-push-action@v6
+      with:
+        context: .
+        push: true
+        tags: ${{ steps.meta.outputs.tags }}
+        labels: ${{ steps.meta.outputs.labels }}
+        platforms: linux/amd64