FIX-#7327: Use sort parameter of DataFrame.stack #16112
Workflow file for this run
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| name: ci | |
| on: | |
| pull_request: | |
| paths: | |
| # NOTE: keep these paths in sync with the paths that trigger the | |
| # fuzzydata Github Actions in .github/workflows/fuzzydata-test.yml | |
| - .github/workflows/** | |
| - .github/actions/** | |
| - '!.github/workflows/push-to-main.yml' | |
| - asv_bench/** | |
| - modin/** | |
| - requirements/** | |
| - scripts/** | |
| - environment-dev.yml | |
| - requirements-dev.txt | |
| - setup.cfg | |
| - setup.py | |
| - versioneer.py | |
| push: | |
| schedule: | |
| - cron: "30 2 * * WED" | |
| - cron: "30 2 * * THU" | |
| concurrency: | |
| # Cancel other jobs in the same branch. We don't care whether CI passes | |
| # on old commits. | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: ${{ startsWith(github.ref, 'refs/pull/') }} | |
| env: | |
| MODIN_GITHUB_CI: true | |
| jobs: | |
| python-filter: | |
| runs-on: ubuntu-latest | |
| outputs: | |
| python-version: ${{ steps.choose.outputs.python-version }} | |
| steps: | |
| - id: choose | |
| run: | | |
| if [[ "${{ github.event.schedule }}" = "30 2 * * WED" ]] | |
| then | |
| echo "python-version=3.10" >> "$GITHUB_OUTPUT" | |
| elif [[ "${{ github.event.schedule }}" = "30 2 * * THU" ]] | |
| then | |
| echo "python-version=3.11" >> "$GITHUB_OUTPUT" | |
| else | |
| echo "python-version=3.9" >> "$GITHUB_OUTPUT" | |
| fi | |
| lint-mypy: | |
| needs: [python-filter] | |
| name: lint (mypy) | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/python-only | |
| with: | |
| python-version: ${{ needs.python-filter.outputs.python-version }} | |
| - run: pip install -r requirements-dev.txt | |
| - run: mypy --config-file mypy.ini | |
| lint-flake8: | |
| needs: [python-filter] | |
| name: lint (flake8) | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/python-only | |
| with: | |
| python-version: ${{ needs.python-filter.outputs.python-version }} | |
| # NOTE: If you are changing the set of packages installed here, make sure that | |
| # the dev requirements match them. | |
| - run: pip install flake8 flake8-print flake8-no-implicit-concat | |
| # NOTE: keep the flake8 command here in sync with the pre-commit hook in | |
| # /contributing/pre-commit | |
| - run: flake8 modin/ asv_bench/benchmarks scripts/doc_checker.py | |
| test-api-and-no-engine: | |
| needs: [python-filter] | |
| name: Test API, headers and no-engine mode | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/mamba-env | |
| with: | |
| environment-file: requirements/requirements-no-engine.yml | |
| python-version: ${{ needs.python-filter.outputs.python-version }} | |
| - run: python -m pytest modin/tests/pandas/test_api.py | |
| - run: python -m pytest modin/tests/test_executions_api.py | |
| - run: python -m pytest modin/tests/test_headers.py | |
| - run: python -m pytest modin/tests/core/test_dispatcher.py::test_add_option | |
| - uses: ./.github/actions/upload-coverage | |
| test-clean-install: | |
| needs: [lint-flake8, python-filter] | |
| strategy: | |
| matrix: | |
| os: | |
| - ubuntu | |
| - windows | |
| runs-on: ${{ matrix.os }}-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| name: test-clean-install-${{ matrix.os }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/python-only | |
| with: | |
| python-version: ${{ needs.python-filter.outputs.python-version }} | |
| - run: python -m pip install -e ".[all]" | |
| - name: Ensure Ray and Dask engines start up | |
| run: | | |
| MODIN_ENGINE=dask python -c "import modin.pandas as pd; print(pd.DataFrame([1,2,3]))" | |
| MODIN_ENGINE=ray python -c "import modin.pandas as pd; print(pd.DataFrame([1,2,3]))" | |
| - name: Ensure MPI engine start up | |
| # Install a working MPI implementation beforehand so mpi4py can link to it | |
| run: | | |
| sudo apt install libmpich-dev | |
| python -m pip install -e ".[mpi]" | |
| MODIN_ENGINE=unidist UNIDIST_BACKEND=mpi mpiexec -n 1 python -c "import modin.pandas as pd; print(pd.DataFrame([1,2,3]))" | |
| if: matrix.os == 'ubuntu' | |
| test-internals: | |
| needs: [lint-flake8, python-filter] | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| name: test-internals | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/mamba-env | |
| with: | |
| environment-file: environment-dev.yml | |
| python-version: ${{ needs.python-filter.outputs.python-version }} | |
| - name: Internals tests | |
| run: python -m pytest modin/tests/core/test_dispatcher.py | |
| - run: python -m pytest modin/tests/config | |
| - run: python -m pytest modin/tests/test_envvar_catcher.py | |
| - run: python -m pytest modin/tests/core/storage_formats/base/test_internals.py | |
| - run: python -m pytest modin/tests/core/storage_formats/pandas/test_internals.py | |
| - run: python -m pytest modin/tests/test_envvar_npartitions.py | |
| - run: python -m pytest modin/tests/test_utils.py | |
| - run: python -m pytest asv_bench/test/test_utils.py | |
| - run: python -m pytest modin/tests/interchange/dataframe_protocol/base | |
| - run: python -m pytest modin/tests/test_dataframe_api_standard.py | |
| - run: python -m pytest modin/tests/test_logging.py | |
| - uses: ./.github/actions/upload-coverage | |
| test-defaults: | |
| needs: [lint-flake8, python-filter] | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| strategy: | |
| matrix: | |
| execution: [BaseOnPython] | |
| env: | |
| MODIN_TEST_DATASET_SIZE: "small" | |
| name: Test ${{ matrix.execution }} execution, Python ${{ needs.python-filter.outputs.python-version }}" | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/mamba-env | |
| with: | |
| environment-file: environment-dev.yml | |
| python-version: ${{ needs.python-filter.outputs.python-version }} | |
| - name: Install HDF5 | |
| run: sudo apt update && sudo apt install -y libhdf5-dev | |
| - name: xgboost tests | |
| run: | | |
| # TODO(https://github.com/modin-project/modin/issues/5194): Uncap xgboost | |
| # when we use collective instead of rabit. | |
| mamba install "xgboost>=1.7.1,<2.0.0" scikit-learn -c conda-forge | |
| python -m pytest modin/tests/experimental/xgboost/test_default.py --execution=${{ matrix.execution }} | |
| - run: python -m pytest -n 2 modin/tests/core/storage_formats/base/test_internals.py --execution=${{ matrix.execution }} | |
| - uses: ./.github/actions/run-core-tests | |
| with: | |
| runner: python -m pytest --execution=${{ matrix.execution }} | |
| - uses: ./.github/actions/upload-coverage | |
| test-asv-benchmarks: | |
| if: github.event_name == 'pull_request' | |
| needs: [lint-flake8] | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| env: | |
| MODIN_ENGINE: ray | |
| MODIN_MEMORY: 1000000000 | |
| MODIN_TEST_DATASET_SIZE: small | |
| name: test-asv-benchmarks | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 1 | |
| - uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| auto-activate-base: true | |
| activate-environment: "" | |
| miniforge-variant: Mambaforge | |
| miniforge-version: latest | |
| use-mamba: true | |
| - name: Running benchmarks | |
| run: | | |
| git remote add upstream https://github.com/modin-project/modin.git | |
| git fetch upstream | |
| if git diff upstream/main --name-only | grep -q "^asv_bench/"; then | |
| cd asv_bench | |
| mamba env create -f ../environment-dev.yml | |
| conda activate modin | |
| pip install .. | |
| asv machine --yes | |
| # check Modin on Ray | |
| asv run --quick --dry-run --python=same --strict --show-stderr --launch-method=spawn \ | |
| -b ^benchmarks -b ^io -b ^scalability | tee benchmarks.log | |
| # check pure pandas | |
| MODIN_ASV_USE_IMPL=pandas asv run --quick --dry-run --python=same --strict --show-stderr --launch-method=spawn \ | |
| -b ^benchmarks -b ^io | tee benchmarks.log | |
| else | |
| echo "Benchmarks did not run, no changes detected" | |
| fi | |
| if: always() | |
| - name: Publish benchmarks artifact | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: Benchmarks log | |
| path: asv_bench/benchmarks.log | |
| include-hidden-files: true | |
| if: failure() | |
| execution-filter: | |
| # see if execution backend-specific changes were made | |
| runs-on: ubuntu-latest | |
| outputs: | |
| ray: ${{ steps.filter.outputs.ray }} | |
| dask: ${{ steps.filter.outputs.dask }} | |
| unidist: ${{ steps.filter.outputs.unidist }} | |
| engines: ${{ steps.engines.outputs.engines }} | |
| experimental: ${{ steps.experimental.outputs.experimental }} | |
| test-native-dataframe-mode: ${{ steps.filter.outputs.test-native-dataframe-mode }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: dorny/paths-filter@v3 | |
| id: filter | |
| with: | |
| filters: | | |
| test-native-dataframe-mode: | |
| - 'modin/core/storage_formats/pandas/native_query_compiler.py' | |
| - 'modin/core/storage_formats/base/query_compiler.py' | |
| shared: &shared | |
| - 'modin/core/execution/dispatching/**' | |
| ray: | |
| - *shared | |
| - 'modin/core/execution/ray/**' | |
| dask: | |
| - *shared | |
| - 'modin/core/execution/dask/**' | |
| unidist: | |
| - *shared | |
| - 'modin/core/execution/unidist/**' | |
| experimental: | |
| - 'modin/experimental/**' | |
| - uses: actions/setup-python@v5 | |
| - id: engines | |
| run: | | |
| python -c "import sys, json; print('engines=' + json.dumps(['python'] + (sys.argv[1] == 'true' and ['ray'] or []) + (sys.argv[2] == 'true' and ['dask'] or []) ))" \ | |
| "${{ steps.filter.outputs.ray }}" "${{ steps.filter.outputs.dask }}" >> $GITHUB_OUTPUT | |
| test-all-unidist: | |
| needs: [lint-flake8, execution-filter, python-filter] | |
| if: github.event_name == 'push' || needs.execution-filter.outputs.unidist == 'true' | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| strategy: | |
| matrix: | |
| python-version: [ "${{ needs.python-filter.outputs.python-version }}" ] | |
| unidist-backend: ["mpi"] | |
| env: | |
| MODIN_ENGINE: "Unidist" | |
| UNIDIST_BACKEND: ${{matrix.unidist-backend}} | |
| # Only test reading from SQL server and postgres on ubuntu for now. | |
| # Eventually, we should test on Windows, too, but we will have to set up | |
| # the servers differently. | |
| MODIN_TEST_READ_FROM_SQL_SERVER: true | |
| MODIN_TEST_READ_FROM_POSTGRES: true | |
| name: test-ubuntu (engine unidist ${{matrix.unidist-backend}}, python ${{matrix.python-version}}) | |
| services: | |
| moto: | |
| image: motoserver/moto:5.0.13 | |
| ports: | |
| - 5000:5000 | |
| env: | |
| AWS_ACCESS_KEY_ID: foobar_key | |
| AWS_SECRET_ACCESS_KEY: foobar_secret | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/mamba-env | |
| with: | |
| environment-file: requirements/env_unidist_linux.yml | |
| activate-environment: modin_on_unidist | |
| python-version: ${{matrix.python-version}} | |
| - name: Install HDF5 | |
| run: sudo apt update && sudo apt install -y libhdf5-dev | |
| - name: Set up postgres | |
| # Locally, specifying port 2345:5432 works, but 2345:2345 and 5432:5432 do not. This solution is from | |
| # https://stackoverflow.com/questions/36415654/cant-connect-docker-postgresql-9-3 | |
| run: | | |
| sudo docker pull postgres | |
| sudo docker run --name some-postgres -e POSTGRES_USER=sa -e POSTGRES_PASSWORD=Strong.Pwd-123 -e POSTGRES_DB=postgres -d -p 2345:5432 postgres | |
| - run: mpiexec -n 1 python -m pytest modin/tests/pandas/internals/test_benchmark_mode.py | |
| - run: mpiexec -n 1 python -m pytest modin/tests/pandas/internals/test_repartition.py | |
| - run: mpiexec -n 1 python -m pytest modin/tests/test_partition_api.py | |
| - uses: ./.github/actions/run-core-tests | |
| with: | |
| runner: mpiexec -n 1 python -m pytest | |
| parallel: "" | |
| - run: mpiexec -n 1 python -m pytest modin/tests/numpy | |
| - run: chmod +x ./.github/workflows/sql_server/set_up_sql_server.sh | |
| - run: ./.github/workflows/sql_server/set_up_sql_server.sh | |
| # need an extra argument "genv" to set environment variables for mpiexec. We need | |
| # these variables to test writing to the mock s3 filesystem. | |
| - uses: nick-fields/retry@v3 | |
| # to avoid issues with non-stable `to_csv` tests for unidist on MPI backend. | |
| # for details see: https://github.com/modin-project/modin/pull/6776 | |
| with: | |
| timeout_minutes: 15 | |
| max_attempts: 3 | |
| command: | | |
| conda run --no-capture-output -n modin_on_unidist mpiexec -n 1 -genv AWS_ACCESS_KEY_ID foobar_key \ | |
| -genv AWS_SECRET_ACCESS_KEY foobar_secret python -m pytest modin/tests/pandas/test_io.py --verbose | |
| - run: | | |
| mpiexec -n 1 -genv AWS_ACCESS_KEY_ID foobar_key -genv AWS_SECRET_ACCESS_KEY foobar_secret \ | |
| python -m pytest modin/tests/experimental/test_io_exp.py | |
| - run: mpiexec -n 1 python -m pytest modin/tests/interchange/dataframe_protocol/test_general.py | |
| - run: mpiexec -n 1 python -m pytest modin/tests/interchange/dataframe_protocol/pandas/test_protocol.py | |
| - run: | | |
| python -m pip install lazy_import | |
| mpiexec -n 1 python -m pytest modin/tests/pandas/integrations/ | |
| - uses: ./.github/actions/upload-coverage | |
| test-all: | |
| needs: [lint-flake8, execution-filter, python-filter] | |
| strategy: | |
| matrix: | |
| os: | |
| - ubuntu | |
| - windows | |
| python-version: [ "${{ needs.python-filter.outputs.python-version }}" ] | |
| engine: ${{ fromJSON( github.event_name == 'push' && '["python", "ray", "dask"]' || needs.execution-filter.outputs.engines ) }} | |
| test_task: | |
| - group_1 | |
| - group_2 | |
| - group_3 | |
| - group_4 | |
| exclude: # python engine only have one task group that contains all the tests | |
| - engine: "python" | |
| test_task: "group_2" | |
| - engine: "python" | |
| test_task: "group_3" | |
| - engine: "python" | |
| test_task: "group_4" | |
| runs-on: ${{ matrix.os }}-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| env: | |
| MODIN_ENGINE: ${{matrix.engine}} | |
| # Only test reading from SQL server and postgres on ubuntu for now. | |
| # Eventually, we should test on Windows, too, but we will have to set up | |
| # the servers differently. | |
| MODIN_TEST_READ_FROM_SQL_SERVER: ${{ matrix.os == 'ubuntu' }} | |
| MODIN_TEST_READ_FROM_POSTGRES: ${{ matrix.os == 'ubuntu' }} | |
| name: test-${{ matrix.os }} (engine ${{matrix.engine}}, python ${{matrix.python-version}}, ${{matrix.test_task}}) | |
| services: | |
| # Using workaround https://github.com/actions/runner/issues/822#issuecomment-1524826092 | |
| moto: | |
| # we only need moto service on Ubuntu and for group_4 task or python engine | |
| image: ${{ (matrix.os == 'ubuntu' && (matrix.engine == 'python' || matrix.test_task == 'group_4')) && 'motoserver/moto:5.0.13' || '' }} | |
| ports: | |
| - 5000:5000 | |
| env: | |
| AWS_ACCESS_KEY_ID: foobar_key | |
| AWS_SECRET_ACCESS_KEY: foobar_secret | |
| steps: | |
| - name: Limit ray memory | |
| run: echo "MODIN_MEMORY=1000000000" >> $GITHUB_ENV | |
| if: matrix.os == 'ubuntu' && matrix.engine == 'ray' | |
| - name: Tell Modin to use existing ray cluster | |
| run: echo "MODIN_RAY_CLUSTER=True" >> $GITHUB_ENV | |
| if: matrix.os == 'windows' && matrix.engine == 'ray' | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/mamba-env | |
| with: | |
| environment-file: environment-dev.yml | |
| python-version: ${{matrix.python-version}} | |
| - name: Start local ray cluster | |
| # Try a few times to start ray to work around | |
| # https://github.com/modin-project/modin/issues/4562 | |
| uses: nick-fields/retry@v3 | |
| with: | |
| timeout_minutes: 5 | |
| max_attempts: 5 | |
| command: ray start --head --port=6379 --object-store-memory=1000000000 | |
| if: matrix.os == 'windows' && matrix.engine == 'ray' | |
| - name: Install HDF5 | |
| run: sudo apt update && sudo apt install -y libhdf5-dev | |
| if: matrix.os == 'ubuntu' | |
| - name: Set up postgres | |
| # Locally, specifying port 2345:5432 works, but 2345:2345 and 5432:5432 do not. This solution is from | |
| # https://stackoverflow.com/questions/36415654/cant-connect-docker-postgresql-9-3 | |
| run: | | |
| sudo docker pull postgres | |
| sudo docker run --name some-postgres -e POSTGRES_USER=sa -e POSTGRES_PASSWORD=Strong.Pwd-123 -e POSTGRES_DB=postgres -d -p 2345:5432 postgres | |
| if: matrix.os == 'ubuntu' | |
| - run: python -m pytest modin/tests/pandas/internals/test_benchmark_mode.py | |
| if: matrix.engine == 'python' || matrix.test_task == 'group_1' | |
| - run: python -m pytest modin/tests/pandas/internals/test_repartition.py | |
| if: matrix.engine == 'python' || matrix.test_task == 'group_1' | |
| - run: python -m pytest modin/tests/test_partition_api.py | |
| if: matrix.engine != 'python' && matrix.test_task == 'group_1' | |
| - name: xgboost tests | |
| run: | | |
| # TODO(https://github.com/modin-project/modin/issues/5194): Uncap xgboost | |
| # when we use collective instead of rabit. | |
| mamba install "xgboost>=1.7.1,<2.0.0" scikit-learn -c conda-forge | |
| python -m pytest -n 2 \ | |
| modin/tests/experimental/xgboost/test_default.py \ | |
| modin/tests/experimental/xgboost/test_xgboost.py \ | |
| modin/tests/experimental/xgboost/test_dmatrix.py | |
| if: matrix.os != 'windows' && matrix.test_task == 'group_1' | |
| - run: python -m pytest -n 2 modin/tests/experimental/test_pipeline.py | |
| if: matrix.engine == 'python' || matrix.test_task == 'group_1' | |
| - uses: ./.github/actions/run-core-tests/group_1 | |
| with: | |
| # When running with Ray engine on Windows using 2 pytest workers tests are failing in CI. | |
| # See https://github.com/modin-project/modin/issues/7387. | |
| parallel: ${{ matrix.engine == 'ray' && matrix.os == 'windows' && '-n 1' || '-n 2' }} | |
| if: matrix.engine == 'python' || matrix.test_task == 'group_1' | |
| - uses: ./.github/actions/run-core-tests/group_2 | |
| with: | |
| # When running with Ray engine on Windows using 2 pytest workers tests are failing in CI. | |
| # See https://github.com/modin-project/modin/issues/7387. | |
| parallel: ${{ matrix.engine == 'ray' && matrix.os == 'windows' && '-n 1' || '-n 2' }} | |
| if: matrix.engine == 'python' || matrix.test_task == 'group_2' | |
| - uses: ./.github/actions/run-core-tests/group_3 | |
| with: | |
| # When running with Ray engine on Windows using 2 pytest workers tests are failing in CI. | |
| # See https://github.com/modin-project/modin/issues/7387. | |
| parallel: ${{ matrix.engine == 'ray' && matrix.os == 'windows' && '-n 1' || '-n 2' }} | |
| if: matrix.engine == 'python' || matrix.test_task == 'group_3' | |
| - uses: ./.github/actions/run-core-tests/group_4 | |
| with: | |
| # When running with Ray engine on Windows using 2 pytest workers tests are failing in CI. | |
| # See https://github.com/modin-project/modin/issues/7387. | |
| parallel: ${{ matrix.engine == 'ray' && matrix.os == 'windows' && '-n 1' || '-n 2' }} | |
| if: matrix.engine == 'python' || matrix.test_task == 'group_4' | |
| - run: python -m pytest -n 2 modin/tests/numpy | |
| if: matrix.engine == 'python' || matrix.test_task == 'group_4' | |
| - run: chmod +x ./.github/workflows/sql_server/set_up_sql_server.sh | |
| if: matrix.os == 'ubuntu' && (matrix.engine == 'python' || matrix.test_task == 'group_4') | |
| - run: ./.github/workflows/sql_server/set_up_sql_server.sh | |
| if: matrix.os == 'ubuntu' && (matrix.engine == 'python' || matrix.test_task == 'group_4') | |
| # Do not add parallelism (`-n` argument) here - it will cause mock S3 service to fail. | |
| - run: python -m pytest modin/tests/pandas/test_io.py --verbose | |
| timeout-minutes: 60 | |
| if: matrix.engine == 'python' || matrix.test_task == 'group_4' | |
| - run: python -m pytest modin/tests/experimental/test_io_exp.py | |
| if: matrix.engine == 'python' || matrix.test_task == 'group_4' | |
| - run: python -m pytest modin/tests/interchange/dataframe_protocol/test_general.py | |
| if: matrix.engine == 'python' || matrix.test_task == 'group_4' | |
| - run: python -m pytest modin/tests/interchange/dataframe_protocol/pandas/test_protocol.py | |
| if: matrix.engine == 'python' || matrix.test_task == 'group_4' | |
| - run: python -m pytest modin/tests/polars/test_dataframe.py | |
| - run: | | |
| python -m pip install lazy_import | |
| python -m pytest modin/tests/pandas/integrations/ | |
| if: matrix.engine == 'python' || matrix.test_task == 'group_4' | |
| - uses: ./.github/actions/upload-coverage | |
| - name: Stop local ray cluster | |
| run: ray stop | |
| if: matrix.os == 'windows' && matrix.engine == 'ray' | |
| - name: Rename the dirs with conda packages so it won't be deleted, it's too slow on Windows. | |
| run: | | |
| mkdir -p "${CONDA_PKGS_DIR}_do_not_cache" && \ | |
| find "${CONDA_PKGS_DIR}" -mindepth 1 -maxdepth 1 -type d -exec mv {} "${CONDA_PKGS_DIR}_do_not_cache" \; | |
| if: matrix.os == 'windows' | |
| test-sanity: | |
| needs: [lint-flake8, execution-filter, python-filter] | |
| if: github.event_name == 'pull_request' | |
| strategy: | |
| matrix: | |
| os: | |
| - ubuntu | |
| - windows | |
| python-version: [ "${{ needs.python-filter.outputs.python-version }}" ] | |
| execution: | |
| - name: ray | |
| shell-ex: "python -m pytest" | |
| if: needs.execution-filter.ray != 'true' | |
| - name: dask | |
| shell-ex: "python -m pytest" | |
| if: needs.execution-filter.dask != 'true' | |
| - name: unidist | |
| shell-ex: "mpiexec -n 1 -genv AWS_ACCESS_KEY_ID foobar_key -genv AWS_SECRET_ACCESS_KEY foobar_secret python -m pytest" | |
| if: needs.execution-filter.unidist != 'true' | |
| runs-on: ${{ matrix.os }}-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| env: | |
| MODIN_ENGINE: ${{ matrix.execution.name }} | |
| UNIDIST_BACKEND: "mpi" | |
| PARALLEL: ${{ matrix.execution.name != 'unidist' && matrix.os != 'windows' && '-n 2' || '' }} | |
| name: test-${{ matrix.os }}-sanity (engine ${{ matrix.execution.name }}, python ${{matrix.python-version}}) | |
| services: | |
| moto: | |
| image: ${{ matrix.os != 'windows' && 'motoserver/moto:5.0.13' || '' }} | |
| ports: | |
| - 5000:5000 | |
| env: | |
| AWS_ACCESS_KEY_ID: foobar_key | |
| AWS_SECRET_ACCESS_KEY: foobar_secret | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/mamba-env | |
| with: | |
| environment-file: ${{ matrix.os == 'ubuntu' && matrix.execution.name == 'unidist' && 'requirements/env_unidist_linux.yml' || matrix.os == 'windows' && matrix.execution.name == 'unidist' && 'requirements/env_unidist_win.yml' || 'environment-dev.yml' }} | |
| activate-environment: ${{ matrix.execution.name == 'unidist' && 'modin_on_unidist' || 'modin' }} | |
| python-version: ${{matrix.python-version}} | |
| - name: Install HDF5 | |
| run: sudo apt update && sudo apt install -y libhdf5-dev | |
| if: matrix.os != 'windows' | |
| - name: Limit ray memory | |
| run: echo "MODIN_MEMORY=1000000000" >> $GITHUB_ENV | |
| if: matrix.os != 'windows' && matrix.execution.name == 'ray' | |
| - name: Tell Modin to use existing ray cluster | |
| run: echo "MODIN_RAY_CLUSTER=True" >> $GITHUB_ENV | |
| if: matrix.os == 'windows' && matrix.execution.name == 'ray' | |
| - name: Start local ray cluster | |
| # Try a few times to start ray to work around | |
| # https://github.com/modin-project/modin/issues/4562 | |
| uses: nick-fields/retry@v3 | |
| with: | |
| timeout_minutes: 5 | |
| max_attempts: 5 | |
| command: ray start --head --port=6379 --object-store-memory=1000000000 | |
| if: matrix.os == 'windows' && matrix.execution.name == 'ray' | |
| - run: MODIN_BENCHMARK_MODE=True ${{ matrix.execution.shell-ex }} modin/tests/pandas/internals/test_benchmark_mode.py | |
| - run: ${{ matrix.execution.shell-ex }} $PARALLEL modin/tests/pandas/internals/test_repartition.py | |
| - run: ${{ matrix.execution.shell-ex }} $PARALLEL modin/tests/test_partition_api.py | |
| - run: ${{ matrix.execution.shell-ex }} modin/tests/pandas/extensions | |
| - name: xgboost tests | |
| run: | | |
| # TODO(https://github.com/modin-project/modin/issues/5194): Uncap xgboost | |
| # when we use collective instead of rabit. | |
| mamba install "xgboost>=1.7.1,<2.0.0" scikit-learn -c conda-forge | |
| ${{ matrix.execution.shell-ex }} $PARALLEL \ | |
| modin/tests/experimental/xgboost/test_default.py \ | |
| modin/tests/experimental/xgboost/test_xgboost.py \ | |
| modin/tests/experimental/xgboost/test_dmatrix.py | |
| if: matrix.os != 'windows' && needs.execution-filter.experimental == 'true' | |
| - run: ${{ matrix.execution.shell-ex }} $PARALLEL modin/tests/experimental/test_pipeline.py | |
| if: matrix.os != 'windows' && matrix.execution.name != 'unidist' && needs.execution-filter.experimental == 'true' | |
| - name: "test DF: binary, default, iter" | |
| run: | | |
| ${{ matrix.execution.shell-ex }} $PARALLEL \ | |
| modin/tests/pandas/dataframe/test_binary.py \ | |
| modin/tests/pandas/dataframe/test_default.py \ | |
| modin/tests/pandas/dataframe/test_iter.py | |
| if: matrix.os != 'windows' | |
| - name: "test DF: reduce, udf, window, pickle" | |
| run: | | |
| ${{ matrix.execution.shell-ex }} $PARALLEL \ | |
| modin/tests/pandas/dataframe/test_reduce.py \ | |
| modin/tests/pandas/dataframe/test_udf.py \ | |
| modin/tests/pandas/dataframe/test_window.py \ | |
| modin/tests/pandas/dataframe/test_pickle.py | |
| if: matrix.os != 'windows' | |
| - run: ${{ matrix.execution.shell-ex }} modin/tests/pandas/test_series.py | |
| if: matrix.execution.name == 'ray' | |
| - run: ${{ matrix.execution.shell-ex }} -m "not exclude_in_sanity" modin/tests/pandas/test_series.py | |
| if: matrix.execution.name != 'ray' | |
| - run: ${{ matrix.execution.shell-ex }} modin/tests/pandas/dataframe/test_map_metadata.py | |
| if: matrix.execution.name == 'ray' | |
| - run: ${{ matrix.execution.shell-ex }} -m "not exclude_in_sanity" modin/tests/pandas/dataframe/test_map_metadata.py | |
| if: matrix.execution.name != 'ray' | |
| - name: "test rolling, expanding, reshape, general, concat" | |
| run: | | |
| ${{ matrix.execution.shell-ex }} $PARALLEL \ | |
| modin/tests/pandas/test_rolling.py \ | |
| modin/tests/pandas/test_expanding.py \ | |
| modin/tests/pandas/test_reshape.py \ | |
| modin/tests/pandas/test_general.py \ | |
| modin/tests/pandas/test_concat.py | |
| if: matrix.os != 'windows' | |
| - run: ${{ matrix.execution.shell-ex }} $PARALLEL modin/tests/numpy | |
| - run: ${{ matrix.execution.shell-ex }} -m "not exclude_in_sanity" modin/tests/pandas/test_io.py --verbose | |
| if: matrix.execution.name != 'unidist' | |
| - uses: nick-fields/retry@v3 | |
| # to avoid issues with non-stable `to_csv` tests for unidist on MPI backend. | |
| # for details see: https://github.com/modin-project/modin/pull/6776 | |
| with: | |
| timeout_minutes: 15 | |
| max_attempts: 3 | |
| command: conda run --no-capture-output -n modin_on_unidist ${{ matrix.execution.shell-ex }} -m "not exclude_in_sanity" modin/tests/pandas/test_io.py --verbose | |
| if: matrix.execution.name == 'unidist' | |
| - run: ${{ matrix.execution.shell-ex }} modin/tests/experimental/test_io_exp.py | |
| - run: ${{ matrix.execution.shell-ex }} $PARALLEL modin/tests/interchange/dataframe_protocol/test_general.py | |
| - run: ${{ matrix.execution.shell-ex }} $PARALLEL modin/tests/interchange/dataframe_protocol/pandas/test_protocol.py | |
| - name: Stop local ray cluster | |
| run: ray stop | |
| if: matrix.os == 'windows' && matrix.execution.name == 'ray' | |
| - name: Rename the dirs with conda packages so it won't be deleted, it's too slow on Windows. | |
| run: | | |
| mkdir -p "${CONDA_PKGS_DIR}_do_not_cache" && \ | |
| find "${CONDA_PKGS_DIR}" -mindepth 1 -maxdepth 1 -type d -exec mv {} "${CONDA_PKGS_DIR}_do_not_cache" \; | |
| if: matrix.os == 'windows' | |
| - uses: ./.github/actions/upload-coverage | |
| test-experimental: | |
| needs: [lint-flake8, python-filter] | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| env: | |
| MODIN_ENGINE: "python" | |
| MODIN_EXPERIMENTAL: "True" | |
| name: test experimental | |
| services: | |
| moto: | |
| image: motoserver/moto:5.0.13 | |
| ports: | |
| - 5000:5000 | |
| env: | |
| AWS_ACCESS_KEY_ID: foobar_key | |
| AWS_SECRET_ACCESS_KEY: foobar_secret | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/mamba-env | |
| with: | |
| environment-file: environment-dev.yml | |
| python-version: ${{ needs.python-filter.outputs.python-version }} | |
| - name: Install HDF5 | |
| run: sudo apt update && sudo apt install -y libhdf5-dev | |
| - run: python -m pytest -n 2 modin/tests/pandas/dataframe/test_map_metadata.py | |
| - run: python -m pytest -n 2 modin/tests/pandas/test_series.py | |
| # Do not add parallelism (`-n` argument) here - it will cause mock S3 service to fail. | |
| - run: python -m pytest modin/tests/pandas/test_io.py --verbose | |
| - uses: ./.github/actions/upload-coverage | |
| test-spreadsheet: | |
| needs: [lint-flake8, python-filter] | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| strategy: | |
| matrix: | |
| python-version: [ "${{ needs.python-filter.outputs.python-version }}" ] | |
| engine: ["ray", "dask"] | |
| env: | |
| MODIN_EXPERIMENTAL: "True" | |
| MODIN_ENGINE: ${{matrix.engine}} | |
| name: test-spreadsheet (engine ${{matrix.engine}}, python ${{matrix.python-version}}) | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/mamba-env | |
| with: | |
| environment-file: environment-dev.yml | |
| python-version: ${{matrix.python-version}} | |
| - run: python -m pytest modin/tests/experimental/spreadsheet/test_general.py | |
| test-native-dataframe-mode: | |
| needs: [ lint-flake8, execution-filter] | |
| if: ${{ needs.execution-filter.outputs.test-native-dataframe-mode == 'true' }} | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| strategy: | |
| matrix: | |
| python-version: ["3.9"] | |
| env: | |
| MODIN_NATIVE_DATAFRAME_MODE: "Pandas" | |
| name: test-native-dataframe-mode python ${{matrix.python-version}}) | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/mamba-env | |
| with: | |
| environment-file: environment-dev.yml | |
| python-version: ${{matrix.python-version}} | |
| - run: python -m pytest modin/tests/pandas/dataframe/test_binary.py | |
| - run: python -m pytest modin/tests/pandas/dataframe/test_default.py | |
| - run: python -m pytest modin/tests/pandas/dataframe/test_indexing.py | |
| - run: python -m pytest modin/tests/pandas/dataframe/test_iter.py | |
| - run: python -m pytest modin/tests/pandas/dataframe/test_join_sort.py | |
| - run: python -m pytest modin/tests/pandas/dataframe/test_map_metadata.py | |
| - run: python -m pytest modin/tests/pandas/dataframe/test_pickle.py | |
| - run: python -m pytest modin/tests/pandas/dataframe/test_reduce.py | |
| - run: python -m pytest modin/tests/pandas/dataframe/test_udf.py | |
| - run: python -m pytest modin/tests/pandas/dataframe/test_window.py | |
| - run: python -m pytest modin/tests/pandas/native_df_mode/test_binary.py | |
| - run: python -m pytest modin/tests/pandas/native_df_mode/test_default.py | |
| - run: python -m pytest modin/tests/pandas/native_df_mode/test_indexing.py | |
| - run: python -m pytest modin/tests/pandas/native_df_mode/test_iter.py | |
| - run: python -m pytest modin/tests/pandas/native_df_mode/test_join_sort.py | |
| - run: python -m pytest modin/tests/pandas/native_df_mode/test_map_metadata.py | |
| - run: python -m pytest modin/tests/pandas/native_df_mode/test_pickle.py | |
| - run: python -m pytest modin/tests/pandas/native_df_mode/test_window.py | |
| - uses: ./.github/actions/upload-coverage | |
| merge-coverage-artifacts: | |
| needs: [test-internals, test-api-and-no-engine, test-defaults, test-all-unidist, test-all, test-experimental, test-sanity] | |
| if: always() # we need to run it regardless of some job being skipped, like in PR | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| steps: | |
| - name: Merge Artifacts | |
| uses: actions/upload-artifact/merge@v4 | |
| with: | |
| name: coverage-data | |
| pattern: coverage-data-* | |
| include-hidden-files: true | |
| delete-merged: true | |
| upload-coverage: | |
| needs: [merge-coverage-artifacts, python-filter] | |
| if: always() # we need to run it regardless of some job being skipped, like in PR | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/python-only | |
| with: | |
| python-version: ${{ needs.python-filter.outputs.python-version }} | |
| - name: Download coverage data | |
| uses: actions/download-artifact@v4 | |
| with: | |
| name: coverage-data | |
| - run: pip install coverage | |
| - name: Combine coverage | |
| run: python -m coverage combine | |
| - name: Generate coverage report in xml format | |
| run: python -m coverage xml | |
| - uses: codecov/codecov-action@v4 | |
| with: | |
| fail_ci_if_error: ${{ github.event_name == 'push' }} # do not care about uploads in PR | |
| token: ${{ secrets.CODECOV_TOKEN }} # this token is available at https://app.codecov.io/account/github/modin-project/ |