vanheeringen-lab/genomepy

name: Build and Deploy
on:
  push:
    branches:
      - master
      - docs # backdoor branch to update docs

jobs:
  build-and-deploy:
    runs-on: ubuntu-latest
    steps:
      - name: Checkout 🛎️
        uses: actions/checkout@v3

      - name: Install & Build 📜
        run: |
          # for spinx autosummary feature, we need to install genomepy
        
          # setup mambaforge
          wget -q -O Mambaforge.sh  "https://github.com/conda-forge/miniforge/releases/latest/download/Mambaforge-$(uname)-$(uname -m).sh"
          bash Mambaforge.sh -b -p "${HOME}/conda" > /dev/null
          source "${HOME}/conda/etc/profile.d/conda.sh"
          source "${HOME}/conda/etc/profile.d/mamba.sh"
          mamba activate
          
          # create a yaml with only docs requirements
          n="$(( $(grep -n '# Plugins' environment.yml | cut -d ':' -f1) - 1 ))"
          head environment.yml -n $n > requirements.yaml
          
          n="$(( $(wc -l docs/requirements.yaml | cut -d ' ' -f1) - $(grep -n 'dependencies:' environment.yml | cut -d ':' -f1) + 1 ))"
          tail docs/requirements.yaml -n $n >> requirements.yaml
          
          # install requirements
          mamba env create --name genomepy --file requirements.yaml
          
          # install genomepy
          mamba activate genomepy
          pip install . --no-deps --ignore-installed

          # build docs
          sphinx-build docs build
          touch build/.nojekyll

      - name: Deploy 🚀
        uses: JamesIves/github-pages-deploy-action@v4
        with:
          branch: gh-pages # The branch the action should deploy to.
          folder: build # The folder the action should deploy.
          clean: true