Python package #4257
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: Python package | |
| on: | |
| push: | |
| branches: | |
| - master | |
| pull_request: | |
| branches: | |
| - master | |
| - docs | |
| schedule: | |
| - cron: "0 2 * * 1-5" | |
| # to make bash use ~/.bashrc, see https://github.com/marketplace/actions/setup-miniconda#example-5-custom-installer | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| concurrency: | |
| group: ${{ github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| main: | |
| env: | |
| CACHE_NUMBER_COMPILE: 6 | |
| MAMBA_ROOT_PREFIX: /dev/shm/mambaroot | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| max-parallel: 12 | |
| matrix: | |
| os: [ubuntu-latest, windows-latest, macOS-11] | |
| python-version: [3.6, 3.7, 3.8, 3.9] | |
| steps: | |
| - name: disk space | |
| if: ${{ (github.event.pull_request.head.repo.full_name == 'vaexio/vaex') && (matrix.os == 'ubuntu-latest') }} | |
| run: | | |
| df -h | |
| - uses: maxim-lobanov/setup-xcode@v1 | |
| # alternative would be to upgrade tapi to 1100.0.11, we can possibly remove this in the future | |
| if: matrix.os == 'macOS-11' | |
| with: | |
| xcode-version: "11.7.0" | |
| - uses: actions/checkout@v2 | |
| with: | |
| submodules: true | |
| - uses: actions/checkout@v2 | |
| if: ${{ (github.event.pull_request.head.repo.full_name == 'vaexio/vaex') && (matrix.os == 'ubuntu-latest') }} | |
| with: | |
| repository: vaexio/vaex-enterprise | |
| token: ${{ secrets.PAT_PULL_ENTERPRISE }} | |
| path: vaex-enterprise | |
| - name: install micromamba | |
| uses: mamba-org/provision-with-micromamba@main | |
| with: | |
| environment-name: vaex-dev | |
| environment-file: ci/conda-env.yml | |
| extra-specs: | | |
| python=${{ matrix.python-version }} | |
| - name: Extra non-windows installs | |
| if: matrix.os != 'windows-latest' | |
| run: | | |
| echo "not needed for now" | |
| # - name: Extra windows installs | |
| # if: matrix.os == 'windows-latest' | |
| # run: | | |
| # # not sure why, but the conda env is strange (old dask) if we put this constraint in the conda solver | |
| # # also might solve scipy issues | |
| # micromamba update scipy ipython dask | |
| # micromamba install scipy=1.7.1 | |
| # - name: free disk space | |
| # if: matrix.os == 'ubuntu-latest' | |
| # run: | | |
| # sudo swapoff -a | |
| # sudo rm -f /swapfile | |
| # sudo apt clean | |
| # docker rmi $(docker image ls -aq) | |
| # df -h | |
| - name: Install OpenMP runtime (Mac-only) | |
| if: matrix.os == 'macOS-11' | |
| run: | | |
| brew install libomp | |
| - name: Cache compiled binaries | |
| # this fails for this combination, leading to binaries filled with 0's | |
| if: matrix.python-version != '3.6' || matrix.os != 'macOS-11' | |
| id: cache-compiled-binaries | |
| uses: actions/cache@v2 | |
| with: | |
| path: | | |
| packages/vaex-core/build/lib*/vaex/vaexfast* | |
| packages/vaex-core/build/lib*/vaex/super* | |
| key: ${{ runner.OS }}-${{ matrix.python-version }}-${{ hashFiles('packages/vaex-core/src/*') }}-${{ env.CACHE_NUMBER_COMPILE }} | |
| - name: Fix cache timestamp | |
| run: | | |
| touch packages/vaex-core/build/lib*/vaex/vaexfast* || echo "ok to fail" | |
| touch packages/vaex-core/build/lib*/vaex/super* || echo "ok to fail" | |
| ls -alh packages/vaex-core/build/lib*/vaex/ || echo "ok to fail" | |
| - name: Install vaex | |
| run: | | |
| pip install myst_parser | |
| pip install -e . -v | |
| # ./ci/03-install-vaex.sh micromamba | |
| # - name: Install vaex-enterprise | |
| # if: ${{ (github.event.pull_request.head.repo.full_name == 'vaexio/vaex') && (matrix.os == 'ubuntu-latest') }} | |
| # run: | | |
| # cd vaex-enterprise | |
| # micromamba install -c conda-forge distributed | |
| # pip install ray | |
| # pip install -e . | |
| - name: Copy dll | |
| if: (matrix.os == 'windows-latest') | |
| uses: ./ci/actions/windll | |
| - name: Build Python packages | |
| run: | | |
| mkdir dist | |
| (cd packages/vaex-core && python setup.py bdist_wheel); cp packages/vaex-core/dist/* dist | |
| (cd packages/vaex-graphql && python setup.py bdist_wheel); cp packages/vaex-graphql/dist/* dist | |
| (cd packages/vaex-jupyter && python setup.py bdist_wheel); cp packages/vaex-jupyter/dist/* dist | |
| (cd packages/vaex-ml && python setup.py bdist_wheel); cp packages/vaex-ml/dist/* dist | |
| (cd packages/vaex-viz && python setup.py bdist_wheel); cp packages/vaex-viz/dist/* dist | |
| (cd packages/vaex-astro && python setup.py bdist_wheel); cp packages/vaex-astro/dist/* dist | |
| (cd packages/vaex-hdf5 && python setup.py bdist_wheel); cp packages/vaex-hdf5/dist/* dist | |
| (cd packages/vaex-server && python setup.py bdist_wheel); cp packages/vaex-server/dist/* dist | |
| (cd packages/vaex-meta && python setup.py bdist_wheel); cp packages/vaex-server/dist/* dist | |
| - name: Upload builds | |
| uses: actions/upload-artifact@v2 | |
| with: | |
| name: dist-${{ github.run_number }}-${{ matrix.python-version }}-${{ matrix.os }} | |
| path: ./dist | |
| # - name: Lint with flake8 | |
| # run: | | |
| # echo "soon" | |
| # # pip install flake8 | |
| # # 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: Install fixes for Python 3.6 | |
| if: matrix.python-version == '3.6' | |
| run: | | |
| # by default on 3.6 we get an old version, so manually upgrade | |
| pip install gcsfs==0.8.0 | |
| - name: Install pytest-asyncio correct version | |
| if: matrix.python-version != '3.10' | |
| run: | | |
| # 3.10 doesn't seem to work | |
| pip install "pytest-asyncio<0.14" | |
| - name: Test with pytest | |
| run: | | |
| ./ci/04-run-test-suite.sh | |
| - name: Test with pytest (with cache on) | |
| if: matrix.python-version == '3.9' && matrix.os == 'ubuntu-latest' | |
| run: | | |
| VAEX_CACHE_RESULTS=1 ./ci/04-run-test-suite.sh | |
| - name: Check ml spec | |
| # no catboost for py39 and py37 | |
| if: matrix.python-version != '3.9' && matrix.os != 'windows-latest' && matrix.python-version != '3.7' | |
| run: | | |
| python -m vaex.ml.spec packages/vaex-ml/vaex/ml/spec_new.json | |
| diff packages/vaex-ml/vaex/ml/spec_new.json packages/vaex-ml/vaex/ml/spec.json | |
| # - name: Test with pytest (vaex-enterprise) | |
| # if: ${{ (github.event.pull_request.head.repo.full_name == 'vaexio/vaex') && (matrix.os == 'ubuntu-latest') }} | |
| # run: | | |
| # py.test vaex-enterprise/tests --timeout=1000 | |
| - name: Test notebooks | |
| if: matrix.os != 'windows-latest' && matrix.python-version != '3.6' | |
| run: | | |
| ./ci/05-run-notebooks.sh | |
| - name: Authenticate Google Cloud Platform | |
| if: ${{ (github.event.pull_request.head.repo.full_name == 'vaexio/vaex') && !((matrix.os == 'windows-latest') || (matrix.os == 'macOS-11' && matrix.python-version == '3.6')) }} | |
| uses: google-github-actions/setup-gcloud@v0 | |
| with: | |
| project_id: ${{ secrets.GCP_PROJECT_ID_VAEX }} | |
| service_account_key: ${{ secrets.GCP_SA_KEY_VAEX }} | |
| export_default_credentials: true | |
| - name: Test vaex-contrib | |
| # do not run in a PR from someone else, skip windows, and osx+py36 | |
| if: ${{ (github.event.pull_request.head.repo.full_name == 'vaexio/vaex') && !((matrix.os == 'windows-latest') || (matrix.os == 'macOS-11' && matrix.python-version == '3.6')) }} | |
| env: | |
| PROJECT_ID: ${{ secrets.GCP_PROJECT_ID_VAEX }} | |
| run: | | |
| pip install -e 'packages/vaex-contrib[gcp]' | |
| ./ci/06-run-contrib-tests.sh | |
| install: | |
| runs-on: ${{ matrix.os }} | |
| needs: [main] | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu-latest, windows-latest, macOS-11] | |
| python-version: [3.7, 3.8, 3.9] | |
| # ssl/certifi issues with this combination | |
| exclude: | |
| - os: windows-latest | |
| python-version: 3.7 | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: actions/download-artifact@v2 | |
| with: | |
| name: dist-${{ github.run_number }}-${{ matrix.python-version }}-${{ matrix.os }} | |
| path: ./dist | |
| - name: Install micromamba | |
| uses: mamba-org/provision-with-micromamba@main | |
| with: | |
| environment-name: vaex-test | |
| environment-file: ci/conda-base-minimal.yml | |
| extra-specs: | | |
| python=${{ matrix.python-version }} | |
| pcre | |
| rich | |
| # it shouldn't be needed to use pcre, maybe we should make the wheels similar to how we make distributions | |
| - name: Cache pip | |
| uses: actions/cache@v2 | |
| env: | |
| # Increase this value to reset cache | |
| CACHE_NUMBER: 0 | |
| with: | |
| path: | | |
| ~/.cache/pip | |
| key: | |
| pip-${{ runner.os }}-${{ matrix.python-version }}-${{ env.CACHE_NUMBER }} | |
| - name: Install core packages | |
| run: | | |
| pip install -vv dist/vaex*core* dist/vaex*hdf5* | |
| - name: Test core import | |
| run: | | |
| python -c "import vaex; df = vaex.example()" | |
| - name: Install all packages | |
| run: | | |
| pip install -vv dist/* | |
| - name: Test import | |
| run: | | |
| python -c "import vaex; df = vaex.example()" | |
| - name: Test comand line | |
| run: | | |
| vaex convert ~/.vaex/data/helmi-dezeeuw-2000-FeH-v2-10percent.hdf5 test.parquet | |
| pip install rich | |
| VAEX_PROGRESS_TYPE=rich vaex convert ~/.vaex/data/helmi-dezeeuw-2000-FeH-v2-10percent.hdf5 test.parquet | |
| vaex settings yaml | |
| vaex settings md | |
| - name: Test server | |
| if: matrix.os != 'windows-latest' | |
| run: | | |
| vaex server --add-example --port 9999& | |
| - name: Wait for Vaex server | |
| if: matrix.os != 'windows-latest' | |
| uses: ifaxity/wait-on-action@v1 | |
| with: | |
| resource: http-get://localhost:9999/hello | |
| timeout: 5000 | |
| - name: Use the Vaex server | |
| if: matrix.os != 'windows-latest' | |
| run: | | |
| python -c "import vaex; df = vaex.open('ws://localhost:9999/example'); df.x.sum()" | |
| curl -i http://localhost:9999/histogram/example/x |