fix error in non-hierarchical model #104
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| # Workflow derived from https://github.com/r-lib/actions/tree/v2/examples | |
| # Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help | |
| on: | |
| push: | |
| branches: [main, master] | |
| pull_request: | |
| branches: [main, master] | |
| name: test-coverage | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| test-coverage: | |
| runs-on: ubuntu-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| use-public-rspm: true | |
| extra-repositories: 'https://mc-stan.org/r-packages/ https://ropensci.r-universe.dev' | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: | | |
| any::covr | |
| local::. | |
| any::rnaturalearthhires | |
| needs: coverage | |
| - name: Install cmdstan | |
| run: | | |
| cmdstanr::check_cmdstan_toolchain(fix = TRUE) | |
| cmdstanr::install_cmdstan(cores = 2) | |
| shell: Rscript {0} | |
| - name: Get cache dir | |
| id: cache-dir | |
| run: | | |
| echo "CACHE_DIR=$(Rscript -e 'bbsBayes2:::bbs_dir()' | sed -E 's/.*"(.+)"/\1/')" >> $GITHUB_OUTPUT | |
| shell: bash | |
| - name: Cache BBS data | |
| id: cache-data | |
| uses: actions/cache@v4 | |
| with: | |
| path: ${{ steps.cache-dir.outputs.CACHE_DIR }} | |
| key: bbs-data-${{ secrets.BBS_DATA_VERSION }} | |
| - name: Fetch BBS data | |
| if: steps.cache-data.outputs.cache-hit != 'true' | |
| run: bbsBayes2:::fetch_bbs_data_internal(quiet = FALSE) | |
| shell: Rscript {0} | |
| - name: Test coverage | |
| run: | | |
| covr::codecov( | |
| quiet = FALSE, | |
| clean = FALSE, | |
| 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@v4 | |
| with: | |
| name: coverage-test-failures | |
| path: ${{ runner.temp }}/package |