continuous-integration-pip.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: CI

on:
  push:
    branches: [master]
  pull_request:
    branches: [master, 'v?.?*']

concurrency:
  group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
  cancel-in-progress: true

jobs:
  code_lint:
    runs-on: ubuntu-latest
    strategy:
      matrix:
        python-version: ["3.11"]

    steps:
      - name: Checkout
        uses: actions/checkout@v4
      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v5
        with:
          python-version: ${{ matrix.python-version }}
      - name: Install dependencies
        run: |
          python -m pip install --upgrade pip
          pip install flake8
      - name: Lint with flake8
        run: |
          # stop the build if there are Python syntax errors or undefined names
          flake8 . --count --select=B,C,E,F,W,T,N8 --ignore=E402 --max-line-length=88 --show-source --statistics --exclude="examples/* *.npy docs/* *.pyx *.pxd"
          # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
          flake8 . --count --exit-zero --max-complexity=8 --max-line-length=88 --statistics --exclude="examples/* *.npy docs/* *.pyx *.pxd"

  testing_unix:
    needs: [code_lint]
    runs-on: "ubuntu-latest"
    strategy:
      matrix:
        python-version: ["3.10", "3.11", "3.12", "3.13.0-rc.1"]

    steps:
      - name: Checkout
        uses: actions/checkout@v4

      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v5
        with:
          python-version: ${{ matrix.python-version }}

      - name: Install linux system dependencies
        run: |
          sudo apt-get install --yes libopenblas-dev libfftw3-dev
          gcc -v

      - name: Install dependencies
        run: |
          python -m pip install --upgrade pip
          pip install setuptools
          pip install -r requirements-dev.txt

      - name: Build and install package from source
        run: python setup.py develop

      - name: Test with pytest
        run: |
          python -m pip install pytest -U
          pytest --cov=./ --cov-report=xml

      - name: Upload coverage
        uses: codecov/codecov-action@v4.6.0

  testing_mac_arm:
    needs: [code_lint]
    runs-on: "macos-latest"
    strategy:
      matrix:
        python-version: ["3.10", "3.11", "3.12", "3.13.0-rc.1"]

    steps:
      - name: Checkout
        uses: actions/checkout@v4

      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v5
        with:
          python-version: ${{ matrix.python-version }}

      - name: Install macos system dependencies
        run: brew install openblas fftw

      - name: Install dependencies
        run: |
          python -m pip install --upgrade pip
          pip install setuptools
          pip install -r requirements-dev.txt

      - name: Build and install package from source
        run: python setup.py develop

      - name: Test with pytest
        run: |
          python -m pip install pytest -U
          pytest --cov=./ --cov-report=xml

      - name: Upload coverage
        uses: codecov/codecov-action@v4.6.0

  testing_mac_intel:
    needs: [code_lint]
    runs-on: "macos-13"
    strategy:
      matrix:
        python-version: ["3.12", "3.13.0-rc.1"]

    steps:
      - name: Checkout
        uses: actions/checkout@v4

      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v5
        with:
          python-version: ${{ matrix.python-version }}

      - name: Install macos system dependencies
        run: brew install openblas fftw

      - name: Install dependencies
        run: |
          python -m pip install --upgrade pip
          pip install setuptools
          pip install -r requirements-dev.txt

      - name: Build and install package from source
        run: python setup.py develop

      - name: Test with pytest
        run: |
          python -m pip install pytest -U
          pytest --cov=./ --cov-report=xml

      - name: Upload coverage
        uses: codecov/codecov-action@v4.6.0

  testing_windows:
    needs: [code_lint]
    runs-on: "windows-latest"
    strategy:
      matrix:
        python-version: ["3.10", "3.11", "3.12"]

    steps:
      - name: Checkout
        uses: actions/checkout@v4

      - name: Setup Miniconda
        uses: conda-incubator/setup-miniconda@v3
        env:
          ACTIONS_ALLOW_UNSECURE_COMMANDS: "true"
        with:
          auto-update-conda: true
          auto-activate-base: false
          miniconda-version: "latest"
          python-version: ${{ matrix.python-version }}
          environment-file: environment-dev.yml
          activate-environment: mrsimulator-dev
      - run: |
          conda --version
          which python

      - name: Build and install package from source
        shell: pwsh
        run: |
          conda --version
          which python
          python setup.py develop

      - name: Test with pytest
        shell: pwsh
        run: |
          python -m pip install pytest -U
          pytest --cov=./ --cov-report=xml

      - name: Upload coverage
        uses: codecov/codecov-action@v4.6.0