create environment in current working directory #3
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| on: | |
| workflow_dispatch: | |
| push: | |
| name: test-basiliskStart-fallback | |
| jobs: | |
| R-CMD-check: | |
| runs-on: ${{ matrix.config.os }} | |
| name: ${{ matrix.config.os }} (${{ matrix.config.bioc }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| # - { os: macOS-latest, bioc: 'devel'} | |
| # - { os: ubuntu-latest, bioc: 'devel'} | |
| - { os: macOS-latest, bioc: 'release'} | |
| - { os: ubuntu-latest, bioc: 'release'} | |
| env: | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| CRAN: ${{ matrix.config.cran }} | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - name: Check out repo | |
| uses: actions/checkout@v3 | |
| - name: Set up R and install BiocManager | |
| uses: grimbough/bioc-actions/setup-bioc@v1 | |
| with: | |
| bioc-version: ${{ matrix.config.bioc }} | |
| - name: Install basilisk | |
| run: | | |
| BiocManager::install(c('basilisk')) | |
| shell: Rscript {0} | |
| - name: Test basiliskStart | |
| run: | | |
| library(basilisk) | |
| library(basilisk.utils) | |
| basilisk.utils::installConda() | |
| basilisk::setBasiliskForceFallback(TRUE) | |
| tmploc <- file.path(".", "my_package_A") | |
| if (!file.exists(tmploc)) { | |
| setupBasiliskEnv(tmploc, c('pandas=1.4.3')) | |
| } | |
| cl <- basiliskStart(tmploc, testload="pandas") | |
| cl | |
| .libPaths() | |
| sessionInfo() | |
| shell: Rscript {0} |