Trying to get test coverage working

biometryhub · May 23, 2024 · ab8debe · ab8debe
1 parent c9c5e98
commit ab8debe
Showing 1 changed file with 32 additions and 3 deletions.
diff --git a/.github/workflows/test-coverage.yaml b/.github/workflows/test-coverage.yaml
@@ -19,6 +19,7 @@ jobs:
     runs-on: ubuntu-22.04
     env:
       RSPM: "https://packagemanager.rstudio.com/cran/__linux__/jammy/latest"
+      CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
       # vsni_LICENSE: ${{ secrets.vsni_LICENSE }}
 
     steps:
@@ -32,8 +33,8 @@ jobs:
 
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:
-          extra-packages: any::rcmdcheck, any::covr, asreml=?ignore-before-r=5.0.0
-          needs: check
+          extra-packages: any::covr, any::xml2, asreml=?ignore-before-r=5.0.0
+          needs: coverage
 
       # - name: Create and populate .Renviron file
       #   run: echo vsni_LICENSE="vsni_LICENSE" >> ~/.Renviron
@@ -45,5 +46,33 @@ jobs:
       #   shell: Rscript {0}
 
       - name: Test coverage
-        run: covr::codecov()
+        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_ci_if_error: ${{ github.event_name != 'pull_request' && true || false }}
+          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