Apply .npy files patch again when running tests
#16
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| # Attributed to NumPy https://github.com/numpy/numpy/pull/25894 | |
| # https://github.com/numpy/numpy/blob/d2d2c25fa81b47810f5cbd85ea6485eb3a3ffec3/.github/workflows/emscripten.yml | |
| # | |
| name: Pyodide CI | |
| on: | |
| # TODO: refine after this is ready to merge | |
| [push, pull_request, workflow_dispatch] | |
| env: | |
| FORCE_COLOR: 3 | |
| # Disable instructions: AVX2 and SSE2 because Emscripten-specific SIMD | |
| # support has not been implemented yet | |
| DISABLE_NUMCODECS_AVX2: 1 | |
| DISABLE_NUMCODECS_SSE2: 1 | |
| # Common environment variables for both build and test jobs | |
| PYODIDE_VERSION: 0.25.1 | |
| # PYTHON_VERSION and EMSCRIPTEN_VERSION are determined by PYODIDE_VERSION. | |
| # The appropriate versions can be found in the Pyodide repodata.json | |
| # "info" field, or in Makefile.envs: | |
| # https://github.com/pyodide/pyodide/blob/main/Makefile.envs#L2 | |
| PYTHON_VERSION: 3.11.3 | |
| EMSCRIPTEN_VERSION: 3.1.46 | |
| NODE_VERSION: 18 | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.head_ref || github.run_id }} | |
| cancel-in-progress: true | |
| permissions: | |
| contents: read # to fetch code (actions/checkout) | |
| jobs: | |
| build-wasm-emscripten: | |
| name: Build numcodecs Pyodide distribution | |
| runs-on: ubuntu-22.04 | |
| # To enable this workflow on a fork, comment out: | |
| # FIXME: uncomment after this is ready to merge | |
| # if: github.repository == 'zarr-developers/numcodecs' | |
| steps: | |
| - name: Checkout source | |
| uses: actions/checkout@v4 | |
| with: | |
| submodules: recursive | |
| - name: Set up Python ${{ env.PYTHON_VERSION }} | |
| id: setup-python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ env.PYTHON_VERSION }} | |
| - name: Set up Emscripten toolchain | |
| uses: mymindstorm/setup-emsdk@v14 | |
| with: | |
| version: ${{ env.EMSCRIPTEN_VERSION }} | |
| actions-cache-folder: emsdk-cache | |
| - name: Apply necessary patch(es) | |
| run: | | |
| patch -p1 < tools/ci/patches/0001-disable-multiprocessing-and-pthreads.patch | |
| patch -p1 < tools/ci/patches/0002-add-missing-unistd-headers.patch | |
| patch -d $EMSDK/upstream/emscripten/ -p1 < tools/ci/patches/0003-fix-npy-file-access.patch | |
| - name: Install pyodide-build | |
| run: python -m pip install "pydantic<2" "pyodide-build==${{ env.PYODIDE_VERSION }}" | |
| - name: Build numcodecs for Pyodide | |
| run: | | |
| pyodide build | |
| - name: Set up Node.js | |
| uses: actions/setup-node@v4 | |
| with: | |
| node-version: ${{ env.NODE_VERSION }} | |
| - name: Upload Pyodide wheel artifact | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: numcodecs-pyodide-wheel | |
| path: dist/*.whl | |
| test-wasm-emscripten: | |
| name: Test numcodecs Pyodide distribution | |
| runs-on: ubuntu-22.04 | |
| needs: [build-wasm-emscripten] | |
| steps: | |
| - name: Set up Python ${{ env.PYTHON_VERSION }} | |
| id: setup-python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ env.PYTHON_VERSION }} | |
| - name: Checkout necessary patch(es) | |
| uses: actions/checkout@v4 | |
| with: | |
| # Check out a single file | |
| sparse-checkout: tools/ci/patches/0003-fix-npy-file-access.patch | |
| sparse-checkout-cone-mode: false | |
| - name: Set up Emscripten toolchain | |
| uses: mymindstorm/setup-emsdk@v14 | |
| with: | |
| version: ${{ env.EMSCRIPTEN_VERSION }} | |
| actions-cache-folder: emsdk-cache | |
| - name: Apply necessary patch(es) | |
| # We just need the third patch to fix the npy file access this time | |
| run: patch -d $EMSDK/upstream/emscripten/ -p1 < tools/ci/patches/0003-fix-npy-file-access.patch | |
| - name: Install pyodide-build | |
| run: python -m pip install "pydantic<2" "pyodide-build==${{ env.PYODIDE_VERSION }}" | |
| - name: Set up Node.js | |
| uses: actions/setup-node@v4 | |
| with: | |
| node-version: ${{ env.NODE_VERSION }} | |
| - name: Download Pyodide wheel artifact | |
| uses: actions/download-artifact@v4 | |
| with: | |
| path: dist | |
| merge-multiple: true | |
| - name: Set up Pyodide virtual environment and test numcodecs for Pyodide | |
| run: | | |
| pyodide venv .venv-pyodide | |
| source .venv-pyodide/bin/activate | |
| python -m pip install dist/*.whl | |
| python -m pip install pytest pytest-cov coverage | |
| python -m pytest --pyargs numcodecs |