main.yaml

name: Continuous integration unit testing and lint

on: [push]

jobs:
  build:
    strategy:
      matrix:
        python-version: ['3.8', '3.10']
        os: [ubuntu-latest]
    runs-on: ${{ matrix.os }}
    defaults:
      run:
        shell: bash -el {0}

    steps:
    - name: Check out repository
      uses: actions/checkout@v3

    - name: Set up Conda
      uses: conda-incubator/setup-miniconda@v2
      with:
        auto-update-conda: true
        #activate-environment: pysyndna
        # environment-file: environment.yml

    - name: Install conda environment
      run: |
        conda env create -n pysyndna -f environment.yml     

    - name: Test with pytest
      run: |
        conda activate pysyndna
        conda install pytest
        which python
        pip install -e . --no-deps
        pytest

    - name: Lint with flake8
      run: |
        conda activate pysyndna
        conda install flake8
        # stop the build if there are Python syntax errors or undefined names
        flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
        # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
        flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics