python-linter.yaml

name: Linter

on: [push, pull_request]

jobs:
  flake8:

    runs-on: ubuntu-latest

    steps:
    - uses: actions/checkout@v3
    - name: Set up Python 3.7
      uses: actions/setup-python@v2
      with:
        python-version: 3.7
    - name: Install dependencies
      run: |
        python -m pip install --upgrade pip
        pip install flake8
    - name: Run flake8 for critical errors
      run: |
        # Fail the build for the following critical errors:
        # E9** syntax, io, or indentation error
        # F63* syntax error in assertion, comparison, or print
        # F7** syntax error in loops or functions
        # F82* undefined variables
        # Currently still excluding some files in Informatics that import from rdkit!
        flake8 molSimplify --count --select=E9,F63,F7,F82 --show-source --statistics --exclude=fragment_classes.py,frag_functionalizer.py,bridge_functionalizer.py
    - name: Run full flake8 linter
      run: |
        # Will never fail the build because of the --exit-zero flag but gives a report of the "code quality"
        flake8 molSimplify --count --statistics --max-complexity 15 --max-line-length=127 --exit-zero

    - name: Report Status
      # Slack notifications only on the main repo
      if: ${{ github.event_name != 'pull_request' && github.repository == 'hjkgrp/molSimplify' && job.status == 'failure'}}
      #uses: ravsamhq/notify-slack-action@v1
      uses: 8398a7/action-slack@v3
      with:
        fields: message,commit,author,workflow,job,took
        status: ${{ job.status }}
      env:
        SLACK_WEBHOOK_URL: ${{secrets.SLACK_WEBHOOK}}
        MATRIX_CONTEXT: ${{ toJson(matrix) }} # required

  mypy:

    runs-on: ubuntu-latest

    steps:
    - uses: actions/checkout@v3
    - name: Set up Python 3.7
      uses: actions/setup-python@v2
      with:
        python-version: 3.7
    - name: Install dependencies
      run: |
        python -m pip install --upgrade pip
        pip install mypy types-setuptools types-PyYAML types-requests
    - name: Typecheck with mypy
      run: |
        # Exclude parts of Informatics for now
        mypy --ignore-missing-imports --exclude '(frag_functionalizer.py|bridge_functionalizer.py|macrocycle_synthesis.py)' molSimplify

    - name: Report Status
      # Slack notifications only on the main repo
      if: ${{ github.event_name != 'pull_request' && github.repository == 'hjkgrp/molSimplify' && job.status == 'failure'}}
      #uses: ravsamhq/notify-slack-action@v1
      uses: 8398a7/action-slack@v3
      with:
        fields: message,commit,author,workflow,job,took
        status: ${{ job.status }}
      env:
        SLACK_WEBHOOK_URL: ${{secrets.SLACK_WEBHOOK}}
        MATRIX_CONTEXT: ${{ toJson(matrix) }} # required