update code coverage workflow (organisation level token)

.github/workflows/test-coverage.yaml

@@ -4,10 +4,11 @@ on:
   push:
     branches: [main, master]
   pull_request:
-    branches: [main, master]
 
 name: test-coverage
 
+permissions: read-all
+
 jobs:
   test-coverage:
     runs-on: ubuntu-latest
@@ -23,23 +24,33 @@ jobs:
 
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:
-          extra-packages: any::covr
+          extra-packages: any::covr, any::xml2
           needs: coverage
 
       - 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}
 
+      - 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 ${{ runner.temp }}/package -name 'testthat.Rout*' -exec cat '{}' \; || true
+          find '${{ runner.temp }}/package' -name 'testthat.Rout*' -exec cat '{}' \; || true
         shell: bash
 
       - name: Upload test results

README.Rmd

@@ -18,8 +18,8 @@ knitr::opts_chunk$set(
 <!-- badges: start -->
 [![R-CMD-check](https://github.com/dfe-analytical-services/dfeR/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/dfe-analytical-services/dfeR/actions/workflows/R-CMD-check.yaml)
 [![pkgdown](https://github.com/dfe-analytical-services/dfeR/actions/workflows/pkgdown.yaml/badge.svg)](https://github.com/dfe-analytical-services/dfeR/actions/workflows/pkgdown.yaml)
-[![Codecov test coverage](https://codecov.io/gh/dfe-analytical-services/dfeR/branch/main/graph/badge.svg)](https://app.codecov.io/gh/dfe-analytical-services/dfeR?branch=main)
 [![Lifecycle: stable](https://img.shields.io/badge/lifecycle-stable-green.svg)](https://lifecycle.r-lib.org/articles/stages.html#stable)
+[![Codecov test coverage](https://codecov.io/gh/dfe-analytical-services/dfeR/graph/badge.svg)](https://app.codecov.io/gh/dfe-analytical-services/dfeR)
 <!-- badges: end -->
 
 The goal of dfeR is to help standardise R programming across the Department for Education (DfE), and facilitate sharing of business specific functions, making our code easier to read and write.

README.md

@@ -7,10 +7,10 @@
 
 [![R-CMD-check](https://github.com/dfe-analytical-services/dfeR/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/dfe-analytical-services/dfeR/actions/workflows/R-CMD-check.yaml)
 [![pkgdown](https://github.com/dfe-analytical-services/dfeR/actions/workflows/pkgdown.yaml/badge.svg)](https://github.com/dfe-analytical-services/dfeR/actions/workflows/pkgdown.yaml)
-[![Codecov test
-coverage](https://codecov.io/gh/dfe-analytical-services/dfeR/branch/main/graph/badge.svg)](https://app.codecov.io/gh/dfe-analytical-services/dfeR?branch=main)
 [![Lifecycle:
 stable](https://img.shields.io/badge/lifecycle-stable-green.svg)](https://lifecycle.r-lib.org/articles/stages.html#stable)
+[![Codecov test
+coverage](https://codecov.io/gh/dfe-analytical-services/dfeR/graph/badge.svg)](https://app.codecov.io/gh/dfe-analytical-services/dfeR)
 <!-- badges: end -->
 
 The goal of dfeR is to help standardise R programming across the