continue on error, fail last

Author: irm-codebase

.github/workflows/template-pr-ci.yml

@@ -14,16 +14,24 @@ jobs:
         python-version: ["3.12"]
     steps:
       - uses: actions/checkout@v4
-      - name: setup-pixi
+      - name: Setup pixi
         uses: prefix-dev/setup-pixi@v0.8.3
-      - name: Run tests
+      - name: Run integration tests
+        id: tests
         run: pixi run test-integration
-      - name: Run linting
+        continue-on-error: true
+      - name: Run snakemake linting
+        id: linting
         run: pixi run snakemake --lint
-      - name: Archive integration test artifacts
+        continue-on-error: true
+      - name: Save integration logs
         if: ${{ always() }}
         uses: actions/upload-artifact@v4
         with:
           name: integration-test-logs-${{ matrix.os }}
           path: tests/integration/results/integration_test/logs
+          if-no-files-found: ignore
           retention-days: 30
+      - name: Fail if integration or linting failed
+        if: ${{ steps.tests.outcome == 'failure' || steps.linting.outcome == 'failure' }}
+        run: exit 1