install_by_pak.yaml

# 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
# This workflow tests if the package can be installed from github from within
# a github action.
on:
  push:
    branches: [devel, master]

name: R-CMD-check

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: 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

      - name: Install libglpk40
        if: ${{ matrix.config.os == 'ubuntu-latest' }}
        run: sudo apt-get install -y libglpk40

      - 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 pak
        run: Rscript -e 'install.packages("pak")'

      - name: Install OmnipathR from git by pak
        run: Rscript -e 'pak::pkg_install("saezlab/OmnipathR")'