ci.yml

name: R CI release

on: [push, pull_request]

jobs:
  build:
    runs-on: Ubuntu-latest
    strategy:
      matrix:
        include:
        - name: latest
          cntr: uscbiostats/slurmr:rcmdcheck

    steps:
      - uses: actions/checkout@v2

      - name: Setting up the environment
        run: docker pull ${{ matrix.cntr }}

      - name: Running the check
        env:
          CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
        run: |
          cd docker
          make check

      # # COVERAGE FOR THE FUTURE (RIGHT NOW WE HAVE SSH PROBLEMS)
      # - name: Coverage
      #  env:
      #    CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
      #  run: |
      #    cd docker 
      #    chmod 600 id_rsa 
      #    docker run \
      #      -e GITHUB_ACTION=$GITHUB_ACTION \
      #      -e GITHUB_REPOSITORY=$GITHUB_REPOSITORY \
      #      -e GITHUB_REF=$GITHUB_REF \
      #      -e GITHUB_HEAD_REF=$GITHUB_HEAD_REF \
      #      -e GITHUB_RUN_ID=$GITHUB_RUN_ID \
      #      -e GITHUB_SHA=$GITHUB_SHA \
      #      -e CODECOV_TOKEN=$CODECOV_TOKEN --detach --publish 10022:22 \
      #      -v$(PWD)/..:/home/xenon/slurmR -w/home/xenon uscbiostats/slurmr:interactive
      #    echo "Waiting a few seconds..." & sleep 5 && \
      #      ssh -p 10022 -i id_rsa UserKnownHostsFile=/github/home/.ssh/known_hosts \
      #      xenon@localhost 'cd /home/slurmr-test/ && Rscript -e "covr::codecov(\"/home/xenon/slurmR\", quiet = FALSE)"'