restore data.table env, markov blanket wip, run-extended #550
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| # Workflow derived from https://github.com/r-lib/actions/tree/master/examples | |
| # Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help | |
| on: | |
| push: | |
| branches: [main] | |
| pull_request: | |
| branches: [main] | |
| name: test-coverage | |
| jobs: | |
| test-coverage: | |
| if: "contains(github.event.head_commit.message, 'run-extended')" | |
| runs-on: ubuntu-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| # this sets the env variable to true or false depending on whether the | |
| # commit message contains texts 'run-extended' and 'run-scaling' | |
| DYNAMITE_EXTENDED_TESTS: ${{contains(github.event.head_commit.message, 'run-extended')}} | |
| DYNAMITE_SCALING_TESTS: ${{contains(github.event.head_commit.message, 'run-scaling')}} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| extra-repositories: | | |
| https://mc-stan.org/r-packages/ | |
| use-public-rspm: true | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| cache-version: 1 | |
| extra-packages: | | |
| covr | |
| BH | |
| RcppParallel | |
| RcppEigen | |
| Rcpp | |
| rstan | |
| StanHeaders | |
| stan-dev/cmdstanr | |
| - name: Build CmdStan | |
| run: | | |
| cmdstanr::check_cmdstan_toolchain(fix = TRUE) | |
| cmdstanr::install_cmdstan() | |
| 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@v3 | |
| with: | |
| name: coverage-test-failures | |
| path: ${{ runner.temp }}/package |