read input BAM/CRAM #245
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| # Run installation checks | |
| name: install | |
| on: | |
| push: | |
| branches: [ main ] | |
| pull_request: | |
| branches: [ main ] | |
| jobs: | |
| install: | |
| runs-on: ubuntu-20.04 | |
| strategy: | |
| matrix: | |
| python-version: [3.9] | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install flake8 pytest pypandoc | |
| if [ -f requirements.txt ]; then pip install -r requirements.txt; fi | |
| - name: Install GWASpy | |
| run: | | |
| python setup.py sdist | |
| pip3 install dist/gwaspy* | |
| - name: Check modules | |
| run: | | |
| preimp_qc --help | |
| pca --help | |
| imputation --help | |
| phasing --help |