use usethis

.github/workflows/test-coverage.yml

@@ -17,11 +17,11 @@ jobs:
 
     steps:
       - name: Checkout Repository
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
 
       - name: Query dependencies
         run: |
-          BiocManager::install(c("remotes", "covr"))
+          BiocManager::install(c("remotes", "covr", "xml2"))
           saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2)
         shell: Rscript {0}
 
@@ -42,34 +42,32 @@ jobs:
       - name: Check Package
         env:
           _R_CHECK_CRAN_INCOMING_REMOTE_: false
-        run: rcmdcheck::rcmdcheck(args = c("--no-manual"), error_on = "error", check_dir = "check")
+        run: rcmdcheck::rcmdcheck(args = "--no-manual", error_on = "error", check_dir = "check")
         shell: Rscript {0}
 
       - name: Test coverage
         run: |
-          covr::codecov(
+          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}
 
-      - name: Show testthat output
-        if: always()
-        run: |
-          ## --------------------------------------------------------------------
-          find ${{ runner.temp }} -name 'testthat.Rout*' -exec cat '{}' \; || true
-        shell: bash
-
       - name: Upload test results to Codecov
         if: ${{ !cancelled() }}
-        uses: codecov/test-results-action@v1
+        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: Upload artifact on failure
         if: failure()
-        uses: actions/upload-artifact@v3
+        uses: actions/upload-artifact@v4
         with:
           name: coverage-test-failures
           path: ${{ runner.temp }}/package