install.yml

name: Install Ersilia

on:
  pull_request:
    branches: [ master ]
  push:
    branches: [ master ]
  workflow_dispatch:

jobs:
  base:
    strategy:
      matrix:
        python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"]
    runs-on: ubuntu-latest

    steps:
    - uses: actions/checkout@8ade135a41bc03ea155e62e844d188df1ea18608
    - name: Set up Python ${{ matrix.python-version }}
      uses: actions/setup-python@61a6322f88396a6271a6ee3565807d608ecaddd1
      with:
        python-version: ${{ matrix.python-version }}
    - name: Install Ersilia
      run: |
        python -m pip install git+https://github.com/ersilia-os/bentoml-ersilia.git
        python -m pip install -e .
    - name: Test help command
      run: |
        ersilia --help
        ersilia --version

  test-docker:
    strategy:
      matrix:
        python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"]
    runs-on: ubuntu-latest
    steps:
    - uses: actions/checkout@8ade135a41bc03ea155e62e844d188df1ea18608
    - name: Set up Python ${{ matrix.python-version }}
      uses: actions/setup-python@61a6322f88396a6271a6ee3565807d608ecaddd1
      with:
        python-version: ${{ matrix.python-version }}
    - name: Install Ersilia without pre-installing BentoML
      run: |
        python -m pip install -e .
    - name: Test help command again
      run: |
        ersilia --help
        ersilia --version
    - name: Fetch molecular weight model from DockerHub
      run: |
        ersilia -v fetch molecular-weight --from_dockerhub

  test:
    strategy:
      matrix:
        platform: [ubuntu-latest, macos-latest]
    runs-on: ${{ matrix.platform }}
    steps:
      - uses: actions/checkout@8ade135a41bc03ea155e62e844d188df1ea18608 # pin@v3.5.3

      - name: Add conda to system path
        run: echo $CONDA/bin >> $GITHUB_PATH

      - name: Source conda
        run: source $CONDA/etc/profile.d/conda.sh

      - name: Set Python to 3.10.10
        run: |
          conda install -y python=3.10.10 

      - name: Install dependencies
        run: |
          source activate
          conda init
          conda install git-lfs -c conda-forge
          git-lfs install
          conda install gh -c conda-forge

      - name: Install ersilia from source
        run: |
          source activate
          python --version
          echo "After conda init"
          conda init
          python -m pip install -e .

      - name: Ersilia help
        run: |
          ersilia --help