Merge pull request #19 from ugSUBMARINE/dependabot/pip/numpy-1.26.1 #43
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| # This workflow will install Python dependencies, run tests and lint with a single version of Python | |
| # For more information see: https://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python | |
| name: Test motif search algorithms | |
| on: | |
| push: | |
| branches: [ "master" ] | |
| pull_request: | |
| branches: [ "master" ] | |
| permissions: | |
| contents: read | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python 3.10 | |
| uses: actions/setup-python@v3 | |
| with: | |
| python-version: "3.10" | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install flake8 pytest | |
| if [ -f requirements.txt ]; then pip install -r requirements.txt; fi | |
| - 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: Test brute force motif not present | |
| shell: bash | |
| run: python3 run_search.py -f test_data/gb1.pdb -m SER-HIS-ASP -d 4.0-3.2-5.9 | |
| - name: Test brute force motif present | |
| shell: bash | |
| run: python3 run_search.py -f test_data/gb1.pdb -m VAL-LEU-LEU -d 8.6-6.8-4.2 | |
| - name: Test triangle motif not present | |
| shell: bash | |
| run: python3 run_search.py -f test_data/gb1.pdb -m SER-HIS-ASP -d 4.0-3.2-5.9 -a | |
| - name: Test triangle motif present | |
| shell: bash | |
| run: python3 run_search.py -f test_data/gb1.pdb -m VAL-LEU-LEU -d 8.6-6.8-4.2 -a | |