Improve recombination interval validation in _evolvets (#1155) #2659
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| name: Tests | |
| on: | |
| pull_request: | |
| push: | |
| branches: [main, dev] | |
| jobs: | |
| test: | |
| name: Python | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| python: [ 3.8, 3.9, "3.10", "3.11" ] | |
| os: [ macos-latest, ubuntu-latest ] | |
| rust: [1.62.1] | |
| defaults: | |
| run: | |
| shell: bash | |
| steps: | |
| - name: Cancel Previous Runs | |
| uses: styfle/cancel-workflow-action@0.11.0 | |
| with: | |
| access_token: ${{ secrets.GITHUB_TOKEN }} | |
| - name: Checkout | |
| uses: actions/checkout@v3 | |
| with: | |
| submodules: true | |
| - name: Cache conda and dependancies | |
| id: cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: | | |
| /usr/share/miniconda/envs/anaconda-client-env | |
| ~/osx-conda | |
| ~/.bashrc | |
| key: ${{ runner.os }}-${{ matrix.python }}-conda-v1-${{ hashFiles('requirements/conda_minimal_deps.txt') }} | |
| - name: Install Conda | |
| uses: conda-incubator/setup-miniconda@v2 | |
| if: steps.cache.outputs.cache-hit != 'true' | |
| with: | |
| activate-environment: anaconda-client-env | |
| python-version: ${{ matrix.python }} | |
| channels: conda-forge | |
| channel-priority: strict | |
| auto-update-conda: true | |
| use-only-tar-bz2: true | |
| - name: Install conda deps | |
| if: steps.cache.outputs.cache-hit != 'true' | |
| shell: bash -l {0} #We need a login shell to get conda | |
| run: | | |
| conda install --yes --file=requirements/conda_minimal_deps_${{ runner.os }}.txt | |
| conda install --yes --file=requirements/conda_minimal_deps.txt | |
| - name: Fix OSX Cache Write #OSX Won't let the cache restore due to file perms | |
| if: steps.cache.outputs.cache-hit != 'true' && matrix.os == 'macos-latest' | |
| run: | | |
| cp -r /usr/local/miniconda/envs/anaconda-client-env ~/osx-conda | |
| - name: Fix OSX Cache Restore | |
| if: steps.cache.outputs.cache-hit == 'true' && matrix.os == 'macos-latest' | |
| run: | | |
| mkdir -p /usr/local/miniconda/envs | |
| sudo cp -r ~/osx-conda /usr/local/miniconda/envs/anaconda-client-env | |
| - name: Init conda | |
| shell: bash -l {0} | |
| run: | | |
| conda init bash | |
| - name: Fix OSX profile | |
| if: steps.cache.outputs.cache-hit != 'true' && matrix.os == 'macos-latest' | |
| run: | | |
| cp ~/.bash_profile ~/.bashrc | |
| - name: Set rust version | |
| run: | | |
| source ~/.bashrc | |
| conda activate anaconda-client-env | |
| rustup override set ${{ matrix.rust }} | |
| - name: rustc version | |
| run: | | |
| source ~/.bashrc | |
| conda activate anaconda-client-env | |
| rustc --version | |
| which rustc | |
| - name: Install cbindgen | |
| uses: baptiste0928/cargo-install@v2 | |
| with: | |
| crate: cbindgen | |
| version: "=0.24.3" | |
| - name: cbindgen version | |
| run: | | |
| source ~/.bashrc | |
| conda activate anaconda-client-env | |
| cbindgen --version | |
| which cbindgen | |
| - name: Build | |
| run: | | |
| source ~/.bashrc | |
| conda activate anaconda-client-env | |
| cmake -S. -Bbuild -DCMAKE_BUILD_TYPE=Release -DBUILD_CPP_UNIT_TESTS=ON -DBUILD_PYTHON_UNIT_TESTS=ON -DDISABLE_LTO=ON | |
| cmake --build build -j 4 | |
| - name: Run C++ tests | |
| run: | | |
| source ~/.bashrc | |
| conda activate anaconda-client-env | |
| cmake --build build -t test | |
| - name: Manualy run setuptools_scm | |
| run: | | |
| source ~/.bashrc | |
| conda activate anaconda-client-env | |
| python -m setuptools_scm | |
| - name: Run Python tests | |
| # shell: bash -l {0} | |
| run: | | |
| # conda init bash | |
| source ~/.bashrc | |
| conda activate anaconda-client-env | |
| python -m pytest -n 4 tests | |
| python -m pytest -n 2 tests_with_cpp | |
| - name: Build and run examples/plugin | |
| run: | | |
| source ~/.bashrc | |
| conda activate anaconda-client-env | |
| PYTHONPATH=. cmake examples/plugin | |
| make | |
| PYTHONPATH=. python examples/plugin/test_plugin.py | |