export abn output to other format(s) #446
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| # Workflow triggered when we have a new release candidate | |
| # This action is adapted from https://github.com/t4d-gmbh/stubbed_versioning | |
| name: On Label memory checking | |
| on: | |
| pull_request: | |
| types: [ labeled ] | |
| env: | |
| LABEL_CHECK: 'memory::check' | |
| LABEL_SUCCESS: 'memory::passed' | |
| LABEL_FAILURE: 'memory::failed' | |
| jobs: | |
| set_target: | |
| if: ${{ github.event.label.name == 'memory::check' }} | |
| runs-on: ubuntu-latest | |
| outputs: | |
| label: ${{ steps.set_label.outputs.label }} | |
| steps: | |
| - id: set_label | |
| run: | | |
| echo "label=${{ env.LABEL_CHECK }}" >> "$GITHUB_OUTPUT" | |
| check_label_exist: | |
| needs: | |
| - set_target | |
| runs-on: ubuntu-latest | |
| env: | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| OWNER: ${{ github.repository_owner }} | |
| REPO: ${{ github.event.repository.name }} | |
| permissions: | |
| pull-requests: write | |
| contents: write | |
| steps: | |
| - name: Assert labels ${{ env.LABEL_CHECK }} is defined | |
| run: | | |
| gh label create ${{ env.LABEL_CHECK }} --repo ${{ env.OWNER }}/${{ env.REPO }} | |
| continue-on-error: true # make sure the next steps run also on failure | |
| - name: Assert labels ${{ env.LABEL_SUCCESS }} is defined | |
| run: | | |
| gh label create ${{ env.LABEL_SUCCESS }} --repo ${{ env.OWNER }}/${{ env.REPO }} | |
| continue-on-error: true # make sure the next steps run also on failure | |
| - name: Assert labels ${{ env.LABEL_FAILURE }} is defined | |
| run: | | |
| gh label create ${{ env.LABEL_FAILURE }} --repo ${{ env.OWNER }}/${{ env.REPO }} | |
| continue-on-error: true # make sure the next steps run also on failure | |
| gather_tests: | |
| needs: | |
| - set_target | |
| runs-on: ubuntu-latest | |
| outputs: | |
| testfiles: ${{ steps.get_testfiles.outputs.testfiles }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - id: get_testfiles | |
| run: | | |
| echo "TESTFILES=$(ls tests/testthat/test-*.R | jq -R -s -c 'split("\n")[:-1]'))" >> $GITHUB_OUTPUT | |
| run_memory_check: | |
| needs: | |
| - gather_tests | |
| runs-on: ubuntu-latest | |
| env: | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| OWNER: ${{ github.repository_owner }} | |
| REPO: ${{ github.event.repository.name }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| testfile: ${{ fromJson(needs.gather_tests.outputs.testfiles) }} | |
| container: | |
| image: ${{ vars.CONTAINER_SOURCE || 'ghcr.io/furrer-lab/r-containers' }}/${{ vars.CONTAINER_RELEASE || 'debian/gcc/release' }}/abn:${{ vars.CONTAINER_VERSION || 'latest' }} | |
| credentials: | |
| username: ${{ github.actor }} | |
| password: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - name: Installing valgrind | |
| run: | | |
| apt-get install valgrind -y | |
| shell: bash | |
| - uses: actions/checkout@v4 | |
| with: | |
| ref: ${{ github.head_ref }} | |
| - name: Disable renv | |
| run: | | |
| renv::deactivate() | |
| shell: Rscript {0} | |
| - name: Change permissions of configure | |
| run: | | |
| chmod +x configure | |
| shell: bash | |
| - name: Install package dependencies | |
| run: | | |
| devtools::install_deps(pkg = '.', dependencies = TRUE, upgrade='never') | |
| shell: Rscript {0} | |
| - name: Configuration for valgrind (and ASan) | |
| run: | | |
| echo "PKG_CFLAGS = -g -fsanitize=address -fno-omit-frame-pointer" >> src/Makevars | |
| echo "PKG_CXXFLAGS = -g -fsanitize=address -fno-omit-frame-pointer" >> src/Makevars | |
| shell: bash | |
| - name: Install package | |
| run: | | |
| devtools::install(upgrade='never') | |
| shell: Rscript {0} | |
| - name: valgrind - memcheck for ${{ matrix.testfile }} | |
| run: | | |
| R -d "valgrind --tool=memcheck \ | |
| --leak-check=full \ | |
| --errors-for-leak-kinds=definite \ | |
| --track-origins=yes \ | |
| --error-exitcode=1" \ | |
| --vanilla \ | |
| -e "devtools::test_active_file('${{ matrix.testfile }}')" | |
| shell: bash | |
| report_memory_checks: | |
| if: ${{ (success() || failure()) }} | |
| needs: | |
| - run_memory_check | |
| - check_label_exist | |
| runs-on: ubuntu-latest | |
| permissions: | |
| contents: write | |
| pull-requests: write | |
| repository-projects: write | |
| env: | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| OWNER: ${{ github.repository_owner }} | |
| REPO: ${{ github.event.repository.name }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Check if on demand tasks succeeded | |
| run: | | |
| gh pr edit ${{ env.EVENT }} --remove-label ${{ env.LABEL_CHECK }} --repo ${{ env.OWNER }}/${{ env.REPO }} | |
| if [ ${{ needs.run_memory_check.result }} == "success" ]; then | |
| gh pr edit ${{ env.EVENT }} --remove-label ${{ env.LABEL_FAILURE }} --repo ${{ env.OWNER }}/${{ env.REPO }} | |
| gh pr edit ${{ env.EVENT }} --add-label ${{ env.LABEL_SUCCESS }} --repo ${{ env.OWNER }}/${{ env.REPO }} | |
| echo "### ${{ github.event.label.url }} passed! :rocket:" >> $GITHUB_STEP_SUMMARY | |
| exit 0; | |
| elif [ ${{ needs.run_memory_check.result }} == "failure" ]; then | |
| gh pr edit ${{ env.EVENT }} --remove-label ${{ env.LABEL_SUCCESS }} --repo ${{ env.OWNER }}/${{ env.REPO }} | |
| gh pr edit ${{ env.EVENT }} --add-label ${{ env.LABEL_FAILURE }} --repo ${{ env.OWNER }}/${{ env.REPO }} | |
| echo "### ${{ github.event.label.url }} failed!" >> $GITHUB_STEP_SUMMARY | |
| exit 1; | |
| else | |
| gh pr edit ${{ env.EVENT }} --add-label ${{ env.LABEL_CHECK }} --repo ${{ env.OWNER }}/${{ env.REPO }} | |
| echo "On demand task outcome was ${{ steps.some_task.outcome }}"; | |
| fi | |
| shell: bash | |
| env: | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| EVENT: ${{ github.event.number }} # This is either the issue or pr | |
| record_passed_label: | |
| runs-on: ubuntu-latest | |
| env: | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| OWNER: ${{ github.repository_owner }} | |
| REPO: ${{ github.event.repository.name }} | |
| permissions: | |
| contents: write | |
| pull-requests: write | |
| repository-projects: write | |
| outputs: | |
| passed: ${{ steps.passed.outputs.PASSED}} | |
| steps: | |
| - name: Check if the pull request is labeled with ${{ env.LABEL_SUCCESS }} # 2 | |
| id: passed | |
| run: | | |
| if $( gh pr view ${{ env.EVENT }} --repo ${{ env.OWNER }}/${{ env.REPO }} --json "labels" --jq ".[].[].name" | grep --quiet ${{ env.LABEL_SUCCESS }}); then | |
| echo "PASSED=true" >> $GITHUB_OUTPUT; | |
| else | |
| echo "PASSED=false" >> $GITHUB_OUTPUT; | |
| fi | |
| env: | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| EVENT: ${{ github.event.number }} # This is either the issue or pr | |
| memory_check_passed: | |
| if: ${{ always() }} | |
| needs: | |
| - run_memory_check | |
| - record_passed_label | |
| runs-on: ubuntu-latest | |
| env: | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| OWNER: ${{ github.repository_owner }} | |
| REPO: ${{ github.event.repository.name }} | |
| steps: | |
| - name: Assert that either checks passed on the label is present | |
| run: | | |
| # First, check if the workflow was triggered by the correct label. | |
| # If not, the relevant jobs were likely skipped, and we should not fail the workflow. | |
| if [[ "${{ github.event.label.name }}" != "${{ env.LABEL_CHECK }}" ]]; then | |
| echo "Workflow not triggered by '${{ env.LABEL_CHECK }}' label (actual label: '${{ github.event.label.name }}')." | |
| echo "Skipping status assertion and exiting gracefully." | |
| exit 0 | |
| fi | |
| # If triggered by the correct label, proceed with the status check. | |
| run_memory_check_RESULT="${{ needs.run_memory_check.result }}" | |
| PASSED_LABEL_EXISTS="${{ needs.record_passed_label.outputs.passed }}" | |
| echo "Verifying R CMD check status..." | |
| echo " - run_memory_check job result: ${run_memory_check_RESULT}" | |
| echo " - '${{ env.LABEL_SUCCESS }}' label found on PR: ${PASSED_LABEL_EXISTS}" | |
| if [[ "${run_memory_check_RESULT}" == 'success' ]]; then | |
| echo "=> Success: run_memory_check job passed." | |
| exit 0 | |
| elif [[ "${PASSED_LABEL_EXISTS}" == 'true' ]]; then | |
| echo "=> Success: Although run_memory_check job result was '${run_memory_check_RESULT}', the '${{ env.LABEL_SUCCESS }}' label already exists on the PR." | |
| exit 0 | |
| else | |
| echo "=> Failure: run_memory_check job result was '${run_memory_check_RESULT}' and the '${{ env.LABEL_SUCCESS }}' label was not found." | |
| exit 1 | |
| fi |