fix: remove poly_ID check when no subset is needed #104
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| # 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: [dev] | |
| pull_request: | |
| branches: [dev] | |
| name: R-CMD-check.yaml | |
| 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: 'release'} | |
| 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 | |
| - name: Install reticulate | |
| run: | | |
| Rscript -e "install.packages('reticulate')" | |
| - name: Create miniconda | |
| run: | | |
| Rscript -e "reticulate::install_miniconda()" | |
| Rscript -e "reticulate::conda_install(packages = 'scipy')" | |
| - name: Install pak | |
| run: | | |
| Rscript -e "install.packages('pak')" | |
| - name: Install remotes | |
| run: | | |
| Rscript -e "install.packages('remotes')" | |
| - name: Install GiottoUtils | |
| run: | | |
| Rscript -e "remotes::install_github('drieslab/GiottoUtils@dev')" | |
| - name: Install GiottoData | |
| run: | | |
| Rscript -e "remotes::install_github('drieslab/GiottoData')" | |
| - name: Install rcmdcheck | |
| run: | | |
| Rscript -e "install.packages('rcmdcheck')" | |
| - name: Install knitr | |
| run: | | |
| Rscript -e "install.packages('knitr')" | |
| - name: Install rmarkdown | |
| run: | | |
| Rscript -e "install.packages('rmarkdown')" | |
| - name: Install testthat | |
| run: | | |
| Rscript -e "install.packages('testthat')" | |
| - name: Install BiocCheck | |
| run: | | |
| Rscript -e "install.packages('BiocManager')" | |
| Rscript -e "BiocManager::install('BiocCheck')" | |
| - name: Install dbscan | |
| run: | | |
| Rscript -e "BiocManager::install('dbscan')" | |
| - name: Install deldir | |
| run: | | |
| Rscript -e "BiocManager::install('deldir')" | |
| - name: Install igraph | |
| run: | | |
| Rscript -e "BiocManager::install('igraph')" | |
| - name: Install magick | |
| run: | | |
| Rscript -e "BiocManager::install('magick')" | |
| - name: Install matrixStats | |
| run: | | |
| Rscript -e "BiocManager::install('matrixStats')" | |
| - name: Install sp | |
| run: | | |
| Rscript -e "BiocManager::install('sp')" | |
| - name: Install terra | |
| run: | | |
| Rscript -e "BiocManager::install('terra')" | |
| - name: Install scattermore | |
| run: | | |
| Rscript -e "install.packages('scattermore')" | |
| - name: Install exactextractr | |
| run: | | |
| Rscript -e "install.packages('exactextractr')" | |
| - name: Install future.apply | |
| run: | | |
| Rscript -e "BiocManager::install('future.apply')" | |
| - name: Install stars | |
| run: | | |
| Rscript -e "BiocManager::install('stars')" | |
| - name: Install qs | |
| run: | | |
| Rscript -e "BiocManager::install('qs')" | |
| - name: Install RTriangle | |
| run: | | |
| Rscript -e "BiocManager::install('RTriangle')" | |
| - name: Install geometry | |
| run: | | |
| Rscript -e "BiocManager::install('geometry')" | |
| - name: Install Seurat | |
| run: | | |
| Rscript -e "BiocManager::install('Seurat')" | |
| - name: Install chihaya | |
| run: | | |
| Rscript -e "BiocManager::install('chihaya')" | |
| - name: Install DelayedArray | |
| run: | | |
| Rscript -e "BiocManager::install('DelayedArray')" | |
| - name: Install DelayedMatrixStats | |
| run: | | |
| Rscript -e "BiocManager::install('DelayedMatrixStats')" | |
| - name: Install HDF5Array | |
| run: | | |
| Rscript -e "BiocManager::install('HDF5Array')" | |
| - name: Install rgl | |
| run: | | |
| Rscript -e "BiocManager::install('rgl')" | |
| - name: Install rhdf5 | |
| run: | | |
| Rscript -e "BiocManager::install('rhdf5')" | |
| - name: Install S4Vectors | |
| run: | | |
| Rscript -e "BiocManager::install('S4Vectors')" | |
| - name: Install ScaledMatrix | |
| run: | | |
| Rscript -e "BiocManager::install('ScaledMatrix')" | |
| - name: Install SingleCellExperiment | |
| run: | | |
| Rscript -e "BiocManager::install('SingleCellExperiment')" | |
| - name: Install SpatialExperiment | |
| run: | | |
| Rscript -e "BiocManager::install('SpatialExperiment')" | |
| - name: Install STexampleData | |
| run: | | |
| Rscript -e "BiocManager::install('STexampleData')" | |
| - name: Install SummarizedExperiment | |
| run: | | |
| Rscript -e "BiocManager::install('SummarizedExperiment')" | |
| - name: Run BiocCheck | |
| run: | | |
| Rscript -e "BiocCheck::BiocCheck()" | |
| - name: Run rcmdcheck | |
| run: | | |
| Rscript -e "rcmdcheck::rcmdcheck()" |