Update python-package.yml #435
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| # 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: Unit Test nmma | |
| on: | |
| push: | |
| branches: [ main ] | |
| pull_request: | |
| branches: [ main ] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python-version: ['3.8', '3.9', '3.10', '3.11'] | |
| services: | |
| postgres: | |
| image: postgres | |
| env: | |
| POSTGRES_USER: nmma | |
| POSTGRES_PASSWORD: anything | |
| ports: | |
| - 5432:5432 | |
| # needed because the postgres container does not provide a | |
| # healthcheck | |
| options: >- | |
| --health-cmd pg_isready | |
| --health-interval 10s | |
| --health-timeout 5s | |
| --health-retries 5 | |
| steps: | |
| - name: Checkout branch being tested | |
| uses: actions/checkout@v2 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Get pip cache dir | |
| id: pip-cache | |
| run: | | |
| python -m pip install --upgrade pip setuptools wheel | |
| echo "::set-output name=dir::$(pip cache dir)" | |
| - name: pip cache | |
| uses: actions/cache@v2 | |
| with: | |
| path: ${{ steps.pip-cache.outputs.dir }} | |
| key: ${{ runner.os }}-pip-2-${{ hashFiles('**/setup.py', '**/requirements.txt') }} | |
| restore-keys: | | |
| ${{ runner.os }}-pip-2- | |
| - name: Install dependencies | |
| run: | | |
| sudo apt-get update | |
| # sudo apt-get install gfortran swig libhdf5-serial-dev libmpich-dev | |
| sudo apt-get update | |
| sudo apt install -y openmpi-bin libopenmpi-dev gfortran build-essential libblas3 libblas-dev liblapack3 liblapack-dev libatlas-base-dev texlive texlive-latex-extra texlive-fonts-recommended dvipng cm-super | |
| python -m pip install --upgrade git+https://github.com/bitranox/wrapt_timeout_decorator.git | |
| python -m pip install pytest pytest-cov flake8 pytest-aiohttp sqlparse freezegun PyJWT joblib tensorflow afterglowpy coveralls | |
| python -m pip install . | |
| git clone https://github.com/JohannesBuchner/MultiNest && cd MultiNest/build && cmake .. && make && cd ../.. | |
| pwd | |
| - 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 --exclude docs | |
| # 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 --exclude docs,versioneer.py,nmma/_version.py,nmma/tests,nmma/*/__init__.py | |
| - name: Initialize database | |
| run: | | |
| echo "localhost:5432:*:nmma:anything" > ~/.pgpass | |
| chmod 600 ~/.pgpass | |
| psql -U nmma -h localhost -c "GRANT ALL PRIVILEGES ON DATABASE nmma TO nmma;" nmma | |
| - name: Test with pytest | |
| run: | | |
| pwd | |
| ls | |
| py.test nmma/tests/* | |
| env: | |
| LD_LIBRARY_PATH: .:/home/runner/work/nmma/nmma/MultiNest/lib # for Linux | |
| - name: Combine and upload coverage | |
| run: | | |
| python -m coverage combine | |
| python -m coverage xml -i | |
| python -m coveralls --service=github | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| COVERALLS_PARALLEL: true | |
| coverage: | |
| needs: build | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Setup Python | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: "3.10" | |
| - name: Finish coverage collection | |
| run: | | |
| python -m pip install -U pip | |
| python -m pip install -U coveralls | |
| python -m coveralls --finish | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} |