MNT patch 3.0.3 #100
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
| name: CI | |
| on: | |
| push: | |
| branches: | |
| - master | |
| - dev | |
| pull_request: | |
| branches: | |
| - master | |
| - dev | |
| jobs: | |
| install-and-test: | |
| runs-on: ${{matrix.os}} | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu-latest, macos-latest] | |
| python-version: ["3.7", "3.8", "3.9", "3.10"] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Create rpbp conda environment | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| channels: conda-forge,bioconda,defaults | |
| channel-priority: strict | |
| auto-update-conda: true | |
| auto-activate-base: false | |
| activate-environment: rpbp | |
| environment-file: environment.yml | |
| - name: Display conda env info | |
| run: | | |
| conda info | |
| conda list | |
| conda config --show-sources | |
| conda config --show | |
| printenv | sort | |
| - name: Install test requirements | |
| run: pip install pytest pytest-cov pytest-depends | |
| - name: Install rp-bp with --no-deps option | |
| run: pip install . --no-deps --verbose | |
| - name: Run tests | |
| run: python -m pytest . --cov=rpbp --cov-report=xml -s -v | |
| - name: Compile stan models (should already exist -> no-op) | |
| run: compile-rpbp-models | |
| - name: Compile stan models with --force | |
| run: compile-rpbp-models --force | |
| - name: Upload code coverage to codecov | |
| uses: codecov/codecov-action@v3 | |
| with: | |
| files: ./coverage.xml | |
| name: ${{ matrix.os }} | |
| fail_ci_if_error: true | |
| verbose: true |