Added support for NetMHCstabpan (GH Issue #64) #13
Workflow file for this run
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
| # 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 | |
| # TODO: | |
| # - cache this directory $HOME/.cache/pyensembl/ | |
| # - update coveralls | |
| # - get a badge for tests passing | |
| # - download binary dependencies from conda | |
| name: Tests | |
| on: [push, pull_request] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| fail-fast: true | |
| matrix: | |
| python-version: ["3.9", "3.10", "3.11"] | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v3 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| cache: "pip" | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install flake8 pytest pytest-cov coveralls | |
| pip install -r requirements.txt | |
| pip install . | |
| - 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: Run default linting script | |
| run: | | |
| ./lint.sh | |
| - name: Checkout private netmhc-bundle repo | |
| uses: actions/checkout@v4 | |
| with: | |
| repository: openvax/netmhc-bundle | |
| - name: Install MHCflurry data | |
| run: | | |
| mhcflurry-downloads fetch | |
| - name: Run unit tests | |
| run: | | |
| ./test.sh | |
| - name: Publish coverage to Coveralls | |
| uses: coverallsapp/[email protected] |