testing only macos python 3.9 #178
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: Unit tests | |
| on: | |
| push: | |
| branches: ['**'] | |
| pull_request: | |
| branches: ['**'] | |
| jobs: | |
| build: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| os: [macos-latest] | |
| python-version: [3.8,3.9] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install ubuntu dependencies | |
| shell: bash -el {0} | |
| run: | | |
| if [ "${{ matrix.os }}" == "ubuntu-latest" ]; then | |
| sudo add-apt-repository ppa:ubuntu-toolchain-r/test | |
| sudo apt-get update | |
| sudo apt-get install libopenmpi-dev openmpi-bin | |
| fi; | |
| - name: Install MacOs dependencies | |
| shell: bash -el {0} | |
| run: | | |
| if [ "${{ matrix.os }}" == "macos-latest" ]; then | |
| brew install open-mpi | |
| fi; | |
| - name: Install dependencies | |
| shell: bash -el {0} | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install mpi4py openmpi | |
| - name: Check MPI version | |
| shell: bash -el {0} | |
| run: | | |
| mpiexec --version | |
| - name: Check Python version | |
| shell: bash -el {0} | |
| run: | | |
| python --version | |
| python3 --version | |
| - name: Install HNN-core | |
| shell: bash -el {0} | |
| run: | | |
| pip install --verbose '.[opt, parallel, test, gui]' | |
| - name: Set Env Variables | |
| shell: bash -el {0} | |
| run: | | |
| if [ "${{ matrix.os }}" == "macos-latest" ]; then | |
| echo "List /opt/homebrew/lib" | |
| ls /opt/homebrew/lib | |
| echo "MPI_LIB_NRN_PATH=/opt/homebrew/lib/libmpi.dylib" >> $GITHUB_ENV | |
| fi; | |
| - name: Run MPI application | |
| shell: bash -el {0} | |
| run: | | |
| mpiexec -np 2 python ./hnn_core/mpi_test.py | |
| - name: Verify NEURON installation | |
| shell: bash -el {0} | |
| run: | | |
| nrniv -python -nobanner -mpi -c "from neuron import h; print(h)" | |
| - name: Run MPI application with NEURON | |
| shell: bash -el {0} | |
| run: | | |
| mpiexec -np 2 -verbose nrniv -python -mpi -nobanner python ./hnn_core/mpi_test.py | |
| # - 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/ --cov=hnn_core --cov-report=xml | |
| # - name: Upload coverage to Codecov | |
| # shell: bash -el {0} | |
| # run: | | |
| # bash <(curl -s https://codecov.io/bash) -f ./coverage.xml |