Merge branch 'multigroup_test' of github.com:xinhe-lab/ctwas into mul… #31
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| # Workflow derived from https://github.com/r-lib/actions/tree/v2/examples | |
| on: | |
| push: | |
| branches: [main, master, multigroup_test] | |
| pull_request: | |
| branches: [main, master, multigroup_test] | |
| name: R-CMD-check | |
| jobs: | |
| R-CMD-check: | |
| runs-on: macos-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| R_KEEP_PKG_SOURCE: yes | |
| _R_CHECK_FORCE_SUGGESTS_: false | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| use-public-rspm: true | |
| - name: Install dependencies | |
| run: | | |
| install.packages(c("logging","mixsqp","rlang")) | |
| install.packages(c("magrittr","dplyr","ggplot2","cowplot")) | |
| install.packages(c("ggrepel","readr","data.table")) | |
| install.packages(c("RSQLite","locuszoomr","pgenlibr","Rfast")) | |
| install.packages(c("knitr","rmarkdown","testthat","BiocManager")) | |
| install.packages(c("crayon","rcmdcheck")) | |
| BiocManager::install("GenomeInfoDb",ask = FALSE) | |
| BiocManager::install("ensembldb",ask = FALSE) | |
| BiocManager::install("AnnotationFilter",ask = FALSE) | |
| BiocManager::install("EnsDb.Hsapiens.v86",ask = FALSE) | |
| shell: Rscript {0} | |
| - name: Check | |
| run: | | |
| options(crayon.enabled = TRUE) | |
| rcmdcheck::rcmdcheck(args = c("--no-manual","--ignore-vignettes"), | |
| error_on = "error", | |
| build_args = "--no-build-vignettes") | |
| shell: Rscript {0} | |