Change covr configuration in GitHub actions (#178)

* Update covr approach

* Renable other OS tests

.github/workflows/R_CMD_check_Hades.yaml

@@ -67,6 +67,7 @@ jobs:
         if: runner.os == 'Linux'
         run: |
           sudo apt-get install -y libssh-dev
+          Rscript -e 'install.packages("remotes")'
           while read -r cmd
           do
             eval sudo $cmd
@@ -93,13 +94,28 @@ jobs:
       - name: Install covr
         if: runner.os == 'Linux'
         run: |
-          install.packages("covr")
+          remotes::install_cran("covr")
+          remotes::install_cran("xml2")
         shell: Rscript {0}
 
       - name: Test coverage
         if: runner.os == 'Linux'
-        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
+        if: runner.os == 'Linux'
+        with:
+          file: ./cobertura.xml
+          plugin: noop
+          disable_search: true
+          token: ${{ secrets.CODECOV_TOKEN }}        
 
   Release:
     needs: R-CMD-Check