use close instead of save for XLSX #14
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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://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python | |
| name: Tests | |
| on: | |
| push: | |
| branches: ["main"] | |
| pull_request: | |
| branches: ["main"] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| fail-fast: true | |
| matrix: | |
| python-version: ["3.9", "3.10", "3.11"] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v3 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install flake8 pytest pytest-cov pylint | |
| if [ -f requirements.txt ]; then pip install -r requirements.txt; fi | |
| - name: Install wkthtmltopdf | |
| run: | | |
| sudo apt-get install -y xfonts-base xfonts-75dpi | |
| wget https://github.com/wkhtmltopdf/packaging/releases/download/0.12.6-1/wkhtmltox_0.12.6-1.bionic_amd64.deb | |
| sudo dpkg -i wkhtmltox_0.12.6-1.bionic_amd64.deb | |
| - 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 | |
| # 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 | |
| - name: Lint with PyLint | |
| run: | | |
| ./lint.sh | |
| - name: Download Ensembl data | |
| run: | | |
| echo "Before installing Ensembl releases" && df -h | |
| pyensembl install --release 75 --species human --custom-mirror https://github.com/openvax/ensembl-data/releases/download/GRCh37.75/ | |
| pyensembl install --release 102 --species mouse --custom-mirror https://github.com/openvax/ensembl-data/releases/download/GRCm38.102/ | |
| echo "After installing Ensembl releases" && df -h | |
| - name: Test with pytest | |
| run: | | |
| ./test.sh |