R-CMD-check.yaml

name: R-CMD-check

on: [push, pull_request]

jobs:
  R-CMD-check:
    runs-on: ubuntu-latest

    steps:
    - name: Checkout repository
      uses: actions/checkout@v2

    - name: Set up R
      uses: r-lib/actions/setup-r@v2

    - name: Install system dependencies
      run: |
        sudo apt-get install -y libmagick++-dev

    - name: Check internet connection
      run: |
        ping -c 3 cran.r-project.org

    - name: Install R package dependencies
      run: |
        install.packages('devtools')
        install.packages('remotes')
        remotes::install_deps(dependencies = TRUE)
      shell: Rscript {0}

    - name: Retry installing devtools if failed
      if: failure()
      run: |
        install.packages('devtools')
      shell: Rscript {0}

    - name: Install DropletQC from GitHub
      run: |
        devtools::install_github("powellgenomicslab/DropletQC")
      shell: Rscript {0}

    - name: Check package
      run: |
        R CMD check --no-manual --as-cran
      shell: Rscript {0}