Fix return type for get_medoids_final() and expose get_labels()
#138
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| name: Windows - build package and run tests | |
| on: | |
| push: | |
| branches: # prevents running on tag push | |
| - '**' | |
| pull_request: | |
| jobs: | |
| build: | |
| runs-on: windows-latest | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python-version: ["3.7", "3.8", "3.9", "3.10"] | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Clone for PR | |
| if: ${{ github.event_name == 'pull_request' }} | |
| run: git clone -b $env:GITHUB_HEAD_REF https://github.com/motiwari/BanditPAM | |
| - name: Clone for Push | |
| if: ${{ github.event_name != 'pull_request' }} | |
| run: git clone -b ($env:GITHUB_REF -replace '^refs/heads/', '') https://github.com/motiwari/BanditPAM | |
| - name: Downloading data files for tests | |
| shell: bash | |
| run: | | |
| cd BanditPAM | |
| mkdir -p data | |
| curl -XGET https://motiwari.com/banditpam_data/scRNA_1k.csv > data/scRNA_1k.csv | |
| curl -XGET https://motiwari.com/banditpam_data/scrna_reformat.csv.gz > data/scrna_reformat.csv.gz | |
| curl -XGET https://motiwari.com/banditpam_data/MNIST_100.csv > data/MNIST_100.csv | |
| curl -XGET https://motiwari.com/banditpam_data/MNIST_1k.csv > data/MNIST_1k.csv | |
| curl -XGET https://motiwari.com/banditpam_data/MNIST_10k.tar.gz > data/MNIST_10k.tar.gz | |
| tar -xzvf data/MNIST_10k.tar.gz -C data | |
| curl -XGET https://motiwari.com/banditpam_data/MNIST_70k.tar.gz > data/MNIST_70k.tar.gz | |
| tar -xzvf data/MNIST_70k.tar.gz -C data | |
| - name: Install Armadillo 10.7.5+ | |
| run: | | |
| cd BanditPAM/headers | |
| git clone https://gitlab.com/conradsnicta/armadillo-code.git armadillo | |
| cd armadillo | |
| cmake . | |
| C:/"Program Files"/"Microsoft Visual Studio"/2022/Enterprise/Common7/IDE/devenv armadillo.sln /Build "Release|x64" | |
| - name: Add environment variables | |
| run: | | |
| Add-Content $env:GITHUB_PATH "C:\Program Files\Microsoft Visual Studio\2022\Enterprise\VC\Tools\MSVC\14.36.32532\bin\HostX86\x86" | |
| - name: Install carma | |
| run: | | |
| cd BanditPAM/headers | |
| git clone https://github.com/RUrlus/carma.git | |
| cd carma | |
| mkdir build | |
| cd build | |
| cmake -DCARMA_INSTALL_LIB=ON .. | |
| cmake --build . --config Release --target install | |
| cd ../../.. | |
| - name: Verify that the C++ executable compiles and runs # Building C++ first to avoid armadillo include issues | |
| run: | | |
| cd BanditPAM/scripts | |
| sh retrieve_windows_cmake_files.sh | |
| cd .. | |
| mkdir build | |
| cd build | |
| cmake .. | |
| C:/"Program Files"/"Microsoft Visual Studio"/2022/Enterprise/Common7/IDE/devenv BanditPAM.sln /Build "Release|x64" | |
| cd src/Release | |
| .\BanditPAM.exe -f ../../../data/MNIST_1k.csv -k 5 | |
| - name: Install Python dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install -r requirements.txt | |
| python -m pip install --upgrade pip setuptools wheel | |
| - name: Install BanditPAM package | |
| run: | | |
| cd BanditPAM | |
| # The flags are necessary to ignore the pyproject.toml | |
| # See https://github.com/pypa/pip/issues/9738 | |
| python -m pip install -vvvv --no-use-pep517 . | |
| cd scripts | |
| sh retrieve_windows_python_files.sh | |
| cd .. | |
| python -m pip install -vvvv --no-use-pep517 . | |
| - name: Run smaller suite of test cases | |
| run: | | |
| cd BanditPAM | |
| python tests/test_smaller.py | |
| - name: Run tests cases for initialization | |
| run: | | |
| cd BanditPAM | |
| python tests/test_initialization.py |