test-coverage.yaml

on:
  push:
    branches: [main, master]
  pull_request:
    branches: [main, master]

name: test-coverage

jobs:
  test-coverage:
    runs-on: ubuntu-latest
    env:
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}

    steps:
      - uses: actions/checkout@v3

      - uses: r-lib/actions/setup-r@v2
        with:
          use-public-rspm: true
          extra-repositories: https://mc-stan.org/r-packages/

      - uses: r-lib/actions/setup-r-dependencies@v2
        with:
          cache-version: 3
          extra-packages: |
            any::covr
            github::stan-dev/cmdstanr
          upgrade: 'TRUE'
          needs: coverage

      - name: Install cmdstan
        run: |
          cmdstanr::check_cmdstan_toolchain(fix = TRUE)
          cmdstanr::install_cmdstan(cores = 2)
        shell: Rscript {0}

      - name: Test coverage
        run: |
          covr::codecov(
            quiet = FALSE,
            clean = FALSE,
            line_exclusions = list("src/stanExports_gqs_loglik.h",
                                   "src/stanExports_gqs_probs.h",
                                   "src/stanExports_gqs_ppmc.h",
                                   "src/stanExports_test_lcdm.h",
                                   "src/stanExports_test_dina.h",
                                   "src/stanExports_test_dino.h"),
            install_path = file.path(Sys.getenv("RUNNER_TEMP"), "package")
          )
        shell: Rscript {0}

      - 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@v3
        with:
          name: coverage-test-failures
          path: ${{ runner.temp }}/package