update compute_cov_flash() to work with latest flashier version #34
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| # For help debugging build failures open an issue on the RStudio community with the 'github-actions' tag. | |
| # https://community.rstudio.com/new-topic?category=Package%20development&tags=github-actions | |
| # Workflow derived from https://github.com/r-lib/actions/tree/v2/examples | |
| on: | |
| push: | |
| branches: | |
| - main | |
| - master | |
| pull_request: | |
| branches: | |
| - main | |
| - master | |
| name: R-CMD-check | |
| jobs: | |
| R-CMD-check: | |
| runs-on: macOS-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| _R_CHECK_FORCE_SUGGESTS_: false | |
| steps: | |
| - name: Install GSL | |
| run: brew install gsl | |
| - uses: actions/checkout@v3 | |
| - uses: r-lib/actions/setup-r@v2 | |
| - name: Install dependencies | |
| run: | | |
| install.packages(c("remotes","rcmdcheck")) | |
| install.packages(c("devtools","Rcpp","RcppArmadillo")) | |
| install.packages(c("RcppParallel","MBSP","mvtnorm","matrixStats")) | |
| install.packages(c("testthat","varbvs")) | |
| remotes::install_github("stephenslab/ebnm",upgrade="never",force=TRUE) | |
| remotes::install_github("stephenslab/mashr",upgrade="never",force=TRUE) | |
| remotes::install_github("willwerscheid/flashier",upgrade="never",force=TRUE) | |
| shell: Rscript {0} | |
| - name: Check | |
| run: | | |
| options(crayon.enabled = TRUE) | |
| rcmdcheck::rcmdcheck(args = c("--no-manual"),error_on = "error") | |
| shell: Rscript {0} |