python-package.macos.yml

# This workflow will install Python dependencies, run tests and lint with a variety of Python versions
# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions

name: Python [3.7,3.8,3.9] MacOs

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

env:
  BEZIER_NO_EXTENSION: true
  OPENBLAS_NUM_THREADS: 1 
  MKL_NUM_THREADS : 1

jobs:
  build:

    runs-on: ${{ matrix.os }}
    strategy:
      fail-fast: false
      matrix:
        os: [macos-latest]
        python-version: [3.7, 3.8, 3.9]

    steps:
    - uses: actions/checkout@v2
    - name: Set up Python ${{ matrix.python-version }}
      uses: actions/setup-python@v2
      with:
        python-version: ${{ matrix.python-version }}
    - name: Install dependencies
      run: |
        python -m pip install --upgrade pip
        pip install flake8 pytest pytest-cov pytest-xdist
   #    if [ -f requirements.txt ]; then pip install -r requirements.txt; fi
    - name: Install package
      run: |
        pip install --upgrade pip
        pip install --upgrade setuptools
        pip install -e .
        pip freeze
    #- name: Lint with flake8
    #  run: |
    #    # 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
    #- name: Test with pytest and coverage MacOs one single thread and ignoring calls to scripts (WIP)
    #  if: runner.os == 'macOs'
    #  run: |
    #    pytest -vs --cov=./ --cov-report=xml --disable-warnings --ignore-glob="test_scripts.py"
    # if: runner.os == 'macOs'
    - name: Test with pytest and coverage macos
      continue-on-error: true
      run: |
        echo -e '[run]\nomit = *dihedrals.py,*contact_matrix.py' > .coveragerc
        pytest -vs --cov=./ --cov-report=xml --disable-warnings --cov-config=.coveragerc
    - name: Upload coverage to Codecov
      uses: codecov/codecov-action@v1
      with:
        token: ${{ secrets.CODECOV_TOKEN }}
        #directory: ./coverage/reports/
        flags: unittests
        env_vars: OS,PYTHON
        name: codecov-umbrella
        fail_ci_if_error: true
        #path_to_write_report: ./coverage/codecov_report.gz