unit_tests.yml

name: Unit tests

on:
  push:
    branches: ['**']
  pull_request:
    branches: ['**']

jobs:
  build:

    runs-on: ${{ matrix.os }}
    strategy:
      matrix:
        os: [ubuntu-latest]
        python-version: [3.8]

    steps:
      - uses: actions/checkout@v4
      - name: Install ubuntu dependencies
        shell: bash -el {0}
        run: |
          sudo DEBIAN_FRONTEND=noninteractive apt-get update
          sudo DEBIAN_FRONTEND=noninteractive apt-get install -y build-essential wget
          sudo DEBIAN_FRONTEND=noninteractive apt-get install libopenmpi-dev openmpi-bin
      - name: Download and install Open MPI 4.1.1
        run: |
          wget https://download.open-mpi.org/release/open-mpi/v4.1/openmpi-4.1.1.tar.gz
          tar -xzf openmpi-4.1.1.tar.gz
          cd openmpi-4.1.1
          ./configure --prefix=/usr/local
          make -j$(nproc)
          sudo make install
          sudo ldconfig 
      - name: Check MPI version
        shell: bash -el {0}
        run: |
          mpiexec --version
      - uses: conda-incubator/setup-miniconda@v3
        with:
          activate-environment: test
          python-version: ${{ matrix.python-version }}
          fetch-depth: 2
      - name: Install dependencies
        shell: bash -el {0}
        run: |
          python -m pip install --upgrade pip
          conda install --yes -c conda-forge mpi4py openmpi
      - name: Install HNN-core
        shell: bash -el {0}
        run: |
          pip install --verbose '.[opt, parallel, test, gui]'
      #- name: Lint with flake8
      #  shell: bash -el {0}
      #  run: |
      #    flake8 --count hnn_core
      - name: Test with pytest
        shell: bash -el {0}
        run: |
          python -m pytest ./hnn_core/tests/test_dipole.py  --cov=hnn_core --cov-report=xml -s
      # - name:  Upload coverage to Codecov
      #   shell: bash -el {0}
      #   run: |
      #     bash <(curl -s https://codecov.io/bash) -f ./coverage.xml