ci.yml

name: EndoR

on:
  push:
    branches: [ main ]
  pull_request:
    branches: [ main ]

jobs:
  build:
    name: build (${{ matrix.r-version }}, ${{ matrix.os }})
    runs-on: ubuntu-latest
    strategy:
      matrix:
        r-version: [4.1]
    steps:
    - uses: conda-incubator/setup-miniconda@v2
      with:
        miniconda-version: 'latest'
        auto-update-conda: true
        python-version: '3.10'
        channels: conda-forge,bioconda,defaults
        activate-environment: endor_env
    - name: conda env setup
      shell: bash -l {0}
      run: |
        conda install -y mamba
        mamba install -y r-base=${{ matrix.r-version }} r-renv r-nloptr r-data.table r-dplyr r-ggplot2 r-ggraph r-igraph r-stringr
    - uses: actions/checkout@v2	
    - name: renv install
      shell: bash -l {0}
      run: |
        R -e 'renv::install("rstudio/renv")'
        R -e 'renv::install("softwaredeng/inTrees/inTrees.Rcheck/inTrees")'
        R -e 'renv::install("nick-youngblut/endoR")'
    - name: Package unit tests
      shell: bash -l {0}
      run: |
        R -e 'library(endoR)'