Merge pull request #218 from CSAFE-ISU/217-test-templates-on-ci #133
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| # Workflow derived from https://github.com/r-lib/actions/tree/v2/examples | |
| # Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help | |
| on: | |
| push: | |
| branches: [main, master] | |
| pull_request: | |
| name: test-coverage.yaml | |
| permissions: read-all | |
| jobs: | |
| test-coverage: | |
| runs-on: macOS-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| use-public-rspm: true | |
| - name: Install JAGS (macOS) | |
| run: | | |
| brew install jags | |
| echo "JAGS_HOME=$(brew --prefix jags)" >> $GITHUB_ENV | |
| - name: Set up JAGS environment | |
| run: | | |
| echo "JAGS_LIB=$JAGS_HOME/lib" >> $GITHUB_ENV | |
| echo "PKG_CONFIG_PATH=$JAGS_HOME/lib/pkgconfig:$PKG_CONFIG_PATH" >> $GITHUB_ENV | |
| echo "LDFLAGS=-L$JAGS_HOME/lib" >> $GITHUB_ENV | |
| echo "CPPFLAGS=-I$JAGS_HOME/include" >> $GITHUB_ENV | |
| echo "LD_LIBRARY_PATH=$JAGS_HOME/lib:$LD_LIBRARY_PATH" >> $GITHUB_ENV | |
| echo "DYLD_LIBRARY_PATH=$JAGS_HOME/lib:$DYLD_LIBRARY_PATH" >> $GITHUB_ENV | |
| # Create symbolic links for JAGS modules | |
| sudo mkdir -p /usr/local/lib/JAGS/modules-4 | |
| for module in basemod bugs terminal; do | |
| sudo ln -sf "$JAGS_HOME/lib/JAGS/modules-4/${module}.so" "/usr/local/lib/JAGS/modules-4/${module}.so" | |
| done | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: any::covr, any::xml2 | |
| needs: coverage | |
| - name: Test coverage | |
| run: | | |
| cov <- covr::package_coverage( | |
| quiet = FALSE, | |
| clean = FALSE, | |
| install_path = file.path(normalizePath(Sys.getenv("RUNNER_TEMP"), winslash = "/"), "package") | |
| ) | |
| covr::to_cobertura(cov) | |
| shell: Rscript {0} | |
| - uses: codecov/codecov-action@v4 | |
| with: | |
| # Fail if error if not on PR, or if on PR and token is given | |
| fail_ci_if_error: ${{ github.event_name != 'pull_request' || secrets.CODECOV_TOKEN }} | |
| file: ./cobertura.xml | |
| plugin: noop | |
| disable_search: true | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| - name: Show testthat output | |
| if: always() | |
| run: | | |
| ## -------------------------------------------------------------------- | |
| find "${{ runner.temp }}/package" -name 'testthat.Rout*' -exec cat '{}' \; || true | |
| shell: bash | |
| - name: Upload test results | |
| if: failure() | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: coverage-test-failures | |
| path: ${{ runner.temp }}/package |