blt.yml

# This workflow will install Python dependencies, run tests and lint with a single version of Python
# For more information see: https://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python

name: Python application

on:
  push:
    branches: [ "Refactor_fgi_file_staging_unit_tests" ]
  pull_request:
    branches: [ "Refactor_fgi_file_staging_unit_tests" ]

permissions:
  contents: read

jobs:
  build_lint_test:
    runs-on: ubuntu-latest
    steps:
    - uses: actions/checkout@v3
    - name: setup_mongodb
      uses: supercharge/mongodb-github-action@v1.10.0
    - name: Set up Python 3.9
      uses: actions/setup-python@v3
      with:
        python-version: "3.9"
    - name: Install Poetry
      uses: snok/install-poetry@v1
    - name: Install dependencies
      run: |
        poetry install
    - name: Lint with flake8
      run: |
        poetry run flake8 nmdc_automation --exit-zero --statistics --tee --output-file flake8stats.txt
    - name: Test with pytest
      run: |
        poetry run pytest ./tests --junit-xml=pytest.xml --cov-report=term  \
        --cov-report=xml --cov=nmdc_automation

#    - name: Pytest coverage comment
#      uses: MishaKav/pytest-coverage-comment@main
#      with:
#        pytest-xml-coverage-path: coverage.xml
#        junitxml-path: pytest.xml