simplify messages when testing #16
Workflow file for this run
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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, vcf_windows] | |
| pull_request: | |
| branches: [main] | |
| name: vcf-check | |
| permissions: read-all | |
| jobs: | |
| R-CMD-check: | |
| runs-on: ${{ matrix.config.os }} | |
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| # - {os: macos-latest, r: 'release'} | |
| - {os: windows-latest, r: 'release'} | |
| # - {os: ubuntu-latest, r: 'devel', http-user-agent: 'release'} | |
| # - {os: ubuntu-latest, r: 'release'} | |
| # - {os: ubuntu-latest, r: 'oldrel-1'} | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| R_KEEP_PKG_SOURCE: yes | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| http-user-agent: ${{ matrix.config.http-user-agent }} | |
| use-public-rspm: true | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: any::rcmdcheck | |
| any::devtools | |
| needs: check | |
| # - uses: r-lib/actions/check-r-package@v2 | |
| # with: | |
| # upload-snapshots: true | |
| # build_args: 'c("--no-manual","--compact-vignettes=gs+qpdf")' | |
| - name: Test vcf | |
| run: | | |
| devtools::load_all() | |
| vcf_path <- system.file("extdata/pop_b.vcf", package = "tidypopgen") | |
| pop_b_vcf_gt <- gen_tibble(vcf_path, quiet=TRUE,backingfile = tempfile(), | |
| parser="vcfR") | |
| # reload it in chunks | |
| pop_b_vcf_fast_gt <- gen_tibble(vcf_path, quiet=TRUE,backingfile = tempfile(), | |
| chunk_size = 2, parser = "cpp") | |
| show_genotypes(pop_b_vcf_fast_gt) | |
| show_genotypes(pop_b_vcf_gt) | |
| devtools::test() | |
| shell: Rscript {0} |