fixed score test and made it the default testing method for GEEs #161
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| # workflow derived from: https://github.com/insightsengineering/bioc-check-action | |
| # but the above action doesn't actually work lol, it always fails, so I changed it | |
| on: | |
| push: | |
| branches: | |
| - dev | |
| - main | |
| name: Bioc-check | |
| jobs: | |
| bioc-check: | |
| runs-on: macos-latest | |
| name: Bioc-check | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: release | |
| http-user-agent: release | |
| use-public-rspm: true | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| - name: Install dependencies | |
| run: | | |
| install.packages("BiocManager") | |
| BiocManager::install("BiocCheck") | |
| shell: Rscript {0} | |
| - name: Run BiocCheck & BiocCheckGitClone | |
| run: | | |
| bc_res <- BiocCheck::BiocCheck() | |
| bc_gc_res <- BiocCheck::BiocCheckGitClone() | |
| n_errors <- length(bc_res$error) + length(bc_gc_res$error) | |
| if (n_errors > 0) { | |
| message("BiocCheck failed ...") | |
| quit(status = 1) | |
| } else { | |
| message("BiocCheck passed !") | |
| } | |
| shell: Rscript {0} |