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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/workflows/push-to-master.yml'
- asv_bench/**
- modin/**
- requirements/**
- scripts/**
- environment-dev.yml
- requirements-dev.txt
- setup.cfg
- setup.py
- versioneer.py
push:
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:
lint-black:
name: lint (black)
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 1
- uses: actions/setup-python@v4
with:
python-version: "3.8.x"
architecture: "x64"
- run: pip install black
# NOTE: keep the black command here in sync with the pre-commit hook in
# /contributing/pre-commit
- run: black --check --diff modin/ asv_bench/benchmarks scripts/doc_checker.py
lint-mypy:
name: lint (mypy)
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 1
- uses: actions/setup-python@v4
with:
python-version: "3.8.x"
architecture: "x64"
- run: pip install -r requirements-dev.txt
- run: mypy --config-file mypy.ini
lint-pydocstyle:
if: github.event_name == 'pull_request'
name: lint (pydocstyle)
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 1
- uses: actions/setup-python@v4
with:
python-version: "3.8.x"
architecture: "x64"
# The `numpydoc` version here MUST match the versions in the dev requirements files.
- run: pip install pytest pytest-cov pydocstyle numpydoc==1.1.0 xgboost
- run: python -m pytest scripts/test
- run: pip install -e ".[all]"
- run: |
python scripts/doc_checker.py --add-ignore=D101,D102,D103,D105 --disable-numpydoc \
modin/pandas/dataframe.py modin/pandas/series.py \
modin/pandas/groupby.py \
modin/pandas/series_utils.py modin/pandas/general.py \
modin/pandas/plotting.py modin/pandas/utils.py \
modin/pandas/iterator.py modin/pandas/indexing.py \
- run: python scripts/doc_checker.py modin/core/dataframe
- run: python scripts/doc_checker.py modin/core/execution/dask
- run: |
python scripts/doc_checker.py \
modin/pandas/accessor.py modin/pandas/general.py \
modin/pandas/groupby.py modin/pandas/indexing.py \
modin/pandas/iterator.py modin/pandas/plotting.py \
modin/pandas/series_utils.py modin/pandas/utils.py \
modin/pandas/base.py \
modin/pandas/io.py \
asv_bench/benchmarks/utils \
asv_bench/benchmarks/__init__.py asv_bench/benchmarks/io/__init__.py \
asv_bench/benchmarks/scalability/__init__.py \
modin/core/io \
modin/experimental/core/execution/ray/implementations/pandas_on_ray \
modin/experimental/core/execution/ray/implementations/pyarrow_on_ray \
modin/pandas/series.py \
modin/core/execution/python \
modin/pandas/dataframe.py \
modin/config/__init__.py \
modin/config/__main__.py \
modin/config/envvars.py \
modin/config/pubsub.py
- run: python scripts/doc_checker.py modin/distributed
- run: python scripts/doc_checker.py modin/utils.py
- run: python scripts/doc_checker.py modin/experimental/sklearn
- run: |
python scripts/doc_checker.py modin/experimental/xgboost/__init__.py \
modin/experimental/xgboost/utils.py modin/experimental/xgboost/xgboost.py \
modin/experimental/xgboost/xgboost_ray.py
- run: python scripts/doc_checker.py modin/core/execution/ray
- run: |
python scripts/doc_checker.py modin/core/execution/dispatching/factories/factories.py \
modin/core/execution/dispatching/factories/dispatcher.py \
- run: python scripts/doc_checker.py scripts/doc_checker.py
- run: |
python scripts/doc_checker.py modin/experimental/pandas/io.py \
modin/experimental/pandas/numpy_wrap.py modin/experimental/pandas/__init__.py
- run: python scripts/doc_checker.py modin/core/storage_formats/base
- run: python scripts/doc_checker.py modin/experimental/core/storage_formats/pyarrow
- run: python scripts/doc_checker.py modin/core/storage_formats/pandas
- run: |
python scripts/doc_checker.py \
modin/experimental/core/execution/native/implementations/hdk_on_native/dataframe \
modin/experimental/core/execution/native/implementations/hdk_on_native/io \
modin/experimental/core/execution/native/implementations/hdk_on_native/partitioning \
modin/experimental/core/execution/native/implementations/hdk_on_native/calcite_algebra.py \
modin/experimental/core/execution/native/implementations/hdk_on_native/calcite_builder.py \
modin/experimental/core/execution/native/implementations/hdk_on_native/calcite_serializer.py \
modin/experimental/core/execution/native/implementations/hdk_on_native/df_algebra.py \
modin/experimental/core/execution/native/implementations/hdk_on_native/expr.py \
modin/experimental/core/execution/native/implementations/hdk_on_native/hdk_worker.py \
- run: python scripts/doc_checker.py modin/experimental/core/storage_formats/hdk
- run: python scripts/doc_checker.py modin/experimental/core/execution/native/implementations/hdk_on_native/interchange/dataframe_protocol
- run: python scripts/doc_checker.py modin/experimental/batch/pipeline.py
- run: python scripts/doc_checker.py modin/logging
lint-flake8:
name: lint (flake8)
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 1
- uses: actions/setup-python@v4
with:
python-version: "3.8.x"
architecture: "x64"
# 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:
runs-on: ubuntu-latest
name: test api
defaults:
run:
# `shell: bash -l {0}` - special way to activate modin environment
shell: bash -l {0}
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 1
- name: Cache conda
uses: actions/cache@v3
with:
path: |
~/conda_pkgs_dir
~/.cache/pip
key:
${{ runner.os }}-conda-${{ hashFiles('environment-dev.yml') }}
- uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
activate-environment: modin
environment-file: environment-dev.yml
python-version: 3.8
channel-priority: strict
# we set use-only-tar-bz2 to false in order for conda to properly find new packages to be installed
# for more info see https://github.com/conda-incubator/setup-miniconda/issues/264
use-only-tar-bz2: false
- name: Conda environment
run: |
conda info
conda list
- run: sudo apt update && sudo apt install -y libhdf5-dev
- name: Api tests
run: python -m pytest modin/pandas/test/test_api.py
- name: Executions Api tests
run: python -m pytest modin/test/test_executions_api.py
test-headers:
runs-on: ubuntu-latest
name: test-headers
defaults:
run:
shell: bash -l {0}
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 1
- name: Cache conda
uses: actions/cache@v3
with:
path: |
~/conda_pkgs_dir
~/.cache/pip
key:
${{ runner.os }}-conda-${{ hashFiles('environment-dev.yml') }}
- uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
activate-environment: modin
environment-file: environment-dev.yml
python-version: 3.8
channel-priority: strict
# we set use-only-tar-bz2 to false in order for conda to properly find new packages to be installed
# for more info see https://github.com/conda-incubator/setup-miniconda/issues/264
use-only-tar-bz2: false
- name: Conda environment
run: |
conda info
conda list
- name: Headers tests
run: python -m pytest modin/test/test_headers.py
test-clean-install-ubuntu:
needs: [lint-flake8, lint-black, lint-mypy, test-api, test-headers]
runs-on: ubuntu-latest
defaults:
run:
shell: bash -l {0}
name: test-clean-install-ubuntu
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 1
- uses: actions/setup-python@v4
with:
python-version: "3.8.x"
architecture: "x64"
- name: Clean install and run
run: |
python -m pip install -e ".[all]"
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]))"
MODIN_ENGINE=unidist UNIDIST_BACKEND=mpi mpiexec -n 1 python -c "import modin.pandas as pd; print(pd.DataFrame([1,2,3]))"
test-clean-install-windows:
needs: [lint-flake8, lint-black, lint-mypy, test-api, test-headers]
runs-on: windows-latest
defaults:
run:
shell: bash -l {0}
name: test-clean-install-windows
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 1
- uses: actions/setup-python@v4
with:
python-version: "3.8.x"
architecture: "x64"
- name: Clean install and run
run: |
python -m pip install -e ".[all]"
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]))"
MODIN_ENGINE=unidist UNIDIST_BACKEND=mpi mpiexec -n 1 python -c "import modin.pandas as pd; print(pd.DataFrame([1,2,3]))"
test-internals:
needs: [lint-flake8, lint-black, lint-mypy, test-api, test-headers]
runs-on: ubuntu-latest
defaults:
run:
shell: bash -l {0}
name: test-internals
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 1
- name: Cache conda
uses: actions/cache@v3
with:
path: |
~/conda_pkgs_dir
~/.cache/pip
key:
${{ runner.os }}-conda-${{ hashFiles('environment-dev.yml') }}
- uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
activate-environment: modin
environment-file: environment-dev.yml
python-version: 3.8
channel-priority: strict
# we set use-only-tar-bz2 to false in order for conda to properly find new packages to be installed
# for more info see https://github.com/conda-incubator/setup-miniconda/issues/264
use-only-tar-bz2: false
- name: Conda environment
run: |
conda info
conda list
- name: Internals tests
run: python -m pytest modin/core/execution/dispatching/factories/test/test_dispatcher.py modin/experimental/cloud/test/test_cloud.py
- run: python -m pytest modin/config/test
- run: python -m pytest modin/test/test_envvar_catcher.py
- run: python -m pytest modin/test/storage_formats/base/test_internals.py
- run: python -m pytest modin/test/storage_formats/pandas/test_internals.py
- run: python -m pytest modin/test/test_envvar_npartitions.py
- run: python -m pytest modin/test/test_utils.py
- run: python -m pytest asv_bench/test/test_utils.py
- run: python -m pytest modin/test/interchange/dataframe_protocol/base
- run: python -m pytest modin/test/test_logging.py
- uses: ./.github/workflows/upload-coverage
test-no-engine:
runs-on: ubuntu-latest
defaults:
run:
shell: bash -l {0}
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 1
- name: Cache conda
uses: actions/cache@v3
with:
path: |
~/conda_pkgs_dir
~/.cache/pip
key:
${{ runner.os }}-conda-${{ hashFiles('requirements-no-engine.yml') }}
- uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
activate-environment: modin
environment-file: requirements/requirements-no-engine.yml
python-version: 3.8
channel-priority: strict
# we set use-only-tar-bz2 to false in order for conda to properly find new packages to be installed
# for more info see https://github.com/conda-incubator/setup-miniconda/issues/264
use-only-tar-bz2: false
- name: Conda environment
run: |
conda info
conda list
- run: python -m pytest modin/core/execution/dispatching/factories/test/test_dispatcher.py::test_add_option
- uses: ./.github/workflows/upload-coverage
test-defaults:
needs: [lint-flake8, lint-black, lint-mypy, test-api, test-headers]
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 3.8
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 2
- name: Cache conda
uses: actions/cache@v3
with:
path: |
~/conda_pkgs_dir
~/.cache/pip
key:
${{ runner.os }}-conda-${{ hashFiles('environment-dev.yml') }}
- uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
activate-environment: modin
environment-file: environment-dev.yml
python-version: 3.8
channel-priority: strict
# we set use-only-tar-bz2 to false in order for conda to properly find new packages to be installed
# for more info see https://github.com/conda-incubator/setup-miniconda/issues/264
use-only-tar-bz2: false
- name: Conda environment
run: |
conda info
conda list
- name: Install HDF5
run: sudo apt update && sudo apt install -y libhdf5-dev
- run: python -m pytest modin/experimental/xgboost/test/test_default.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/test/storage_formats/base/test_internals.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_binary.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_default.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_indexing.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_iter.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_join_sort.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_map_metadata.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_reduce.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_udf.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_window.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_pickle.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/test_series.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/test_rolling.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/test_expanding.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/test_concat.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/test_groupby.py --execution=${{ matrix.execution }}
- run: MODIN_EXPERIMENTAL_GROUPBY=1 python -m pytest -n 2 modin/pandas/test/test_groupby.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/test_reshape.py --execution=${{ matrix.execution }}
- run: python -m pytest -n 2 modin/pandas/test/test_general.py --execution=${{ matrix.execution }}
- uses: ./.github/workflows/upload-coverage
test-hdk:
needs: [lint-flake8, lint-black, lint-mypy, test-api, test-headers]
runs-on: ubuntu-latest
defaults:
run:
shell: bash -l {0}
env:
MODIN_EXPERIMENTAL: "True"
MODIN_ENGINE: "native"
MODIN_STORAGE_FORMAT: "hdk"
name: Test HDK storage format, Python 3.8
services:
moto:
image: motoserver/moto
ports:
- 5000:5000
env:
AWS_ACCESS_KEY_ID: foobar_key
AWS_SECRET_ACCESS_KEY: foobar_secret
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 2
- name: Cache conda
uses: actions/cache@v3
with:
path: |
~/conda_pkgs_dir
~/.cache/pip
key:
${{ runner.os }}-conda-${{ hashFiles('requirements/env_hdk.yml') }}
- name: Setting up Modin environment
uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
activate-environment: modin_on_hdk
environment-file: requirements/env_hdk.yml
python-version: 3.8
# we set use-only-tar-bz2 to false in order for conda to properly find new packages to be installed
# for more info see https://github.com/conda-incubator/setup-miniconda/issues/264
use-only-tar-bz2: false
- name: Conda environment
run: |
conda info
conda list
- name: Install HDF5
run: sudo apt update && sudo apt install -y libhdf5-dev
- run: python -m pytest modin/test/storage_formats/hdk/test_internals.py
- run: python -m pytest modin/experimental/core/execution/native/implementations/hdk_on_native/test/test_init.py
- run: python -m pytest modin/experimental/core/execution/native/implementations/hdk_on_native/test/test_dataframe.py
- run: python -m pytest modin/experimental/core/execution/native/implementations/hdk_on_native/test/test_utils.py
- run: python -m pytest modin/pandas/test/test_io.py --verbose
- run: python -m pytest modin/test/interchange/dataframe_protocol/test_general.py
- run: python -m pytest modin/test/interchange/dataframe_protocol/hdk
- run: python -m pytest modin/experimental/sql/test/test_sql.py
- run: python -m pytest modin/pandas/test/test_concat.py
- run: python -m pytest modin/pandas/test/dataframe/test_binary.py
- run: python -m pytest modin/pandas/test/dataframe/test_reduce.py
- run: python -m pytest modin/pandas/test/dataframe/test_join_sort.py
- run: python -m pytest modin/pandas/test/test_general.py
- run: python -m pytest modin/pandas/test/dataframe/test_indexing.py
- run: python -m pytest modin/pandas/test/test_series.py
- run: python -m pytest modin/pandas/test/dataframe/test_map_metadata.py
- run: python -m pytest modin/pandas/test/dataframe/test_window.py
- run: python -m pytest modin/pandas/test/dataframe/test_default.py
- run: python examples/docker/modin-hdk/census-hdk.py examples/data/census_1k.csv -no-ml
- run: python examples/docker/modin-hdk/nyc-taxi-hdk.py examples/data/nyc-taxi_1k.csv
- run: |
python examples/docker/modin-hdk/plasticc-hdk.py \
examples/data/plasticc_training_set_1k.csv \
examples/data/plasticc_test_set_1k.csv \
examples/data/plasticc_training_set_metadata_1k.csv \
examples/data/plasticc_test_set_metadata_1k.csv \
-no-ml
- uses: ./.github/workflows/upload-coverage
test-asv-benchmarks:
if: github.event_name == 'pull_request'
needs: [lint-flake8, lint-black, lint-mypy, test-api, test-headers]
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@v3
with:
fetch-depth: 1
- uses: conda-incubator/setup-miniconda@v2
with:
auto-activate-base: true
activate-environment: ""
- name: ASV installation
run: |
# FIXME: use the tag or release version of ASV as soon as it appears;
# The ability to build a conda environment by specifying yml file has not
# yet appeared in the release versions;
pip install git+https://github.com/airspeed-velocity/asv.git@ef016e233cb9a0b19d517135104f49e0a3c380e9
- name: Running benchmarks
run: |
# ASV correctly creates environments for testing only from the branch
# with `master` name
git checkout -b master
cd asv_bench
asv check -v
git remote add upstream https://github.com/modin-project/modin.git
git fetch upstream
if git diff upstream/master --name-only | grep -q "^asv_bench/"; then
asv machine --yes
# check Modin on Ray
asv run --quick --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 --strict --show-stderr --launch-method=spawn \
-b ^benchmarks -b ^io | tee benchmarks.log
# HDK: ERR_OUT_OF_CPU_MEM: Not enough host memory to execute the query (MODIN#4270)
# just disable test for testing - it works well in a machine with more memory
sed -i 's/def time_groupby_agg_nunique(self, \*args, \*\*kwargs):/# def time_groupby_agg_nunique(self, *args, **kwargs):/g' benchmarks/hdk/benchmarks.py
sed -i 's/execute(self.df.groupby(by=self.groupby_columns).agg("nunique"))/# execute(self.df.groupby(by=self.groupby_columns).agg("nunique"))/g' benchmarks/hdk/benchmarks.py
# check Modin on HDK
MODIN_ENGINE=native MODIN_STORAGE_FORMAT=hdk MODIN_EXPERIMENTAL=true asv run --quick --strict --show-stderr \
--launch-method=forkserver --config asv.conf.hdk.json \
-b ^hdk | tee benchmarks.log
else
echo "Benchmarks did not run, no changes detected"
fi
if: always()
- name: Publish benchmarks artifact
uses: actions/upload-artifact@master
with:
name: Benchmarks log
path: asv_bench/benchmarks.log
if: failure()
test-all-unidist:
needs: [lint-flake8, lint-black, lint-mypy, test-api, test-headers]
runs-on: ubuntu-latest
defaults:
run:
shell: bash -l {0}
strategy:
matrix:
python-version: ["3.8"]
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
ports:
- 5000:5000
env:
AWS_ACCESS_KEY_ID: foobar_key
AWS_SECRET_ACCESS_KEY: foobar_secret
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 2
- name: Cache conda
uses: actions/cache@v3
with:
path: |
~/conda_pkgs_dir
~/.cache/pip
key:
${{ runner.os }}-conda-${{ hashFiles('requirements/env_unidist.yml') }}
- uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
activate-environment: modin_on_unidist
environment-file: requirements/env_unidist.yml
python-version: ${{matrix.python-version}}
channel-priority: strict
# we set use-only-tar-bz2 to false in order for conda to properly find new packages to be installed
# for more info see https://github.com/conda-incubator/setup-miniconda/issues/264
use-only-tar-bz2: false
- name: Conda environment
run: |
conda info
conda list
- 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: MODIN_BENCHMARK_MODE=True mpiexec -n 1 python -m pytest modin/pandas/test/internals/test_benchmark_mode.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/internals/test_repartition.py
- run: mpiexec -n 1 python -m pytest modin/test/test_partition_api.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/dataframe/test_binary.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/dataframe/test_default.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/dataframe/test_indexing.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/dataframe/test_iter.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/dataframe/test_join_sort.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/dataframe/test_map_metadata.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/dataframe/test_reduce.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/dataframe/test_udf.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/dataframe/test_window.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/dataframe/test_pickle.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/test_series.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/test_rolling.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/test_expanding.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/test_concat.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/test_groupby.py
- run: MODIN_EXPERIMENTAL_GROUPBY=1 mpiexec -n 1 python -m pytest modin/pandas/test/test_groupby.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/test_reshape.py
- run: mpiexec -n 1 python -m pytest modin/pandas/test/test_general.py
- run: mpiexec -n 1 python -m pytest modin/numpy/test/test_array.py
- run: mpiexec -n 1 python -m pytest modin/numpy/test/test_array_creation.py
- run: mpiexec -n 1 python -m pytest modin/numpy/test/test_array_arithmetic.py
- run: mpiexec -n 1 python -m pytest modin/numpy/test/test_array_axis_functions.py
- run: mpiexec -n 1 python -m pytest modin/numpy/test/test_array_logic.py
- run: mpiexec -n 1 python -m pytest modin/numpy/test/test_array_linalg.py
- run: mpiexec -n 1 python -m pytest modin/numpy/test/test_array_indexing.py
- run: mpiexec -n 1 python -m pytest modin/numpy/test/test_array_math.py
- run: mpiexec -n 1 python -m pytest modin/numpy/test/test_array_shaping.py
- 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.
- run: mpiexec -n 1 -genv AWS_ACCESS_KEY_ID foobar_key -genv AWS_SECRET_ACCESS_KEY foobar_secret python -m pytest modin/pandas/test/test_io.py --verbose
- run: mpiexec -n 1 python -m pytest modin/experimental/pandas/test/test_io_exp.py
- run: pip install "dfsql>=0.4.2" "pyparsing<=2.4.7" && mpiexec -n 1 python -m pytest modin/experimental/sql/test/test_sql.py
- run: mpiexec -n 1 python -m pytest modin/test/interchange/dataframe_protocol/test_general.py
- run: mpiexec -n 1 python -m pytest modin/test/interchange/dataframe_protocol/pandas/test_protocol.py
- run: |
python -m pip install lazy_import
mpiexec -n 1 python -m pytest modin/pandas/test/integrations/
- uses: ./.github/workflows/upload-coverage
test-all:
needs: [lint-flake8, lint-black, lint-mypy, test-api, test-headers]
runs-on: ubuntu-latest
defaults:
run:
shell: bash -l {0}
strategy:
matrix:
python-version: ["3.8"]
engine: ["python", "ray", "dask"]
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"
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: true
MODIN_TEST_READ_FROM_POSTGRES: true
name: test-ubuntu (engine ${{matrix.engine}}, python ${{matrix.python-version}}, ${{matrix.test_task}})
services:
# This service only needs to run for test_task group_4; however, GitHub does not
# currently support conditionally running services. This issue:
# is open https://github.com/actions/runner/issues/822 - until GitHub implements this feature,
# we will just have to run `moto` for all groups.
moto:
image: motoserver/moto
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.engine == 'ray'
- uses: actions/checkout@v3
with:
fetch-depth: 2
- name: Cache conda
uses: actions/cache@v3
with:
path: |
~/conda_pkgs_dir
~/.cache/pip
key:
${{ runner.os }}-conda-${{ hashFiles('environment-dev.yml') }}
- uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
activate-environment: modin
environment-file: environment-dev.yml
python-version: ${{matrix.python-version}}
channel-priority: strict
# we set use-only-tar-bz2 to false in order for conda to properly find new packages to be installed
# for more info see https://github.com/conda-incubator/setup-miniconda/issues/264
use-only-tar-bz2: false
- name: Conda environment
run: |
conda info
conda list
- 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: MODIN_BENCHMARK_MODE=True python -m pytest modin/pandas/test/internals/test_benchmark_mode.py
if: matrix.engine == 'python' || matrix.test_task == 'group_1'
- run: python -m pytest modin/pandas/test/internals/test_repartition.py
if: matrix.engine == 'python' || matrix.test_task == 'group_1'
- run: python -m pytest modin/test/test_partition_api.py
if: matrix.engine != 'python' && matrix.test_task == 'group_1'
- run: python -m pytest -n 2 modin/experimental/xgboost/test/test_default.py
if: matrix.engine == 'python' || matrix.test_task == 'group_1'
- run: python -m pytest -n 2 modin/experimental/xgboost/test/test_xgboost.py
if: matrix.engine == 'ray' && matrix.test_task == 'group_1'
- run: python -m pytest -n 2 modin/experimental/xgboost/test/test_dmatrix.py
if: matrix.engine == 'ray' && matrix.test_task == 'group_1'
- run: python -m pytest -n 2 modin/experimental/batch/test/test_pipeline.py
if: matrix.engine == 'python' || matrix.test_task == 'group_1'
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_binary.py
if: matrix.engine == 'python' || matrix.test_task == 'group_1'
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_default.py
if: matrix.engine == 'python' || matrix.test_task == 'group_1'
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_indexing.py
if: matrix.engine == 'python' || matrix.test_task == 'group_1'
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_iter.py
if: matrix.engine == 'python' || matrix.test_task == 'group_2'
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_join_sort.py
if: matrix.engine == 'python' || matrix.test_task == 'group_2'
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_reduce.py
if: matrix.engine == 'python' || matrix.test_task == 'group_2'
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_udf.py
if: matrix.engine == 'python' || matrix.test_task == 'group_2'
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_window.py
if: matrix.engine == 'python' || matrix.test_task == 'group_2'
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_pickle.py
if: matrix.engine == 'python' || matrix.test_task == 'group_2'
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_map_metadata.py
if: matrix.engine == 'python' || matrix.test_task == 'group_3'
- run: python -m pytest -n 2 modin/pandas/test/test_series.py
if: matrix.engine == 'python' || matrix.test_task == 'group_3'
- run: MODIN_EXPERIMENTAL_GROUPBY=1 python -m pytest -n 2 modin/pandas/test/test_groupby.py
if: matrix.engine == 'python' || matrix.test_task == 'group_3'
- run: python -m pytest -n 2 modin/pandas/test/test_rolling.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest -n 2 modin/pandas/test/test_expanding.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest modin/pandas/test/test_concat.py # Ray and Dask versions fails with -n 2
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest -n 2 modin/numpy/test/test_array.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest -n 2 modin/numpy/test/test_array_creation.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest -n 2 modin/numpy/test/test_array_arithmetic.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest -n 2 modin/numpy/test/test_array_axis_functions.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest -n 2 modin/numpy/test/test_array_logic.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest -n 2 modin/numpy/test/test_array_linalg.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest -n 2 modin/numpy/test/test_array_indexing.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest -n 2 modin/numpy/test/test_array_math.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest -n 2 modin/numpy/test/test_array_shaping.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest -n 2 modin/pandas/test/test_groupby.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest -n 2 modin/pandas/test/test_reshape.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest -n 2 modin/pandas/test/test_general.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: chmod +x ./.github/workflows/sql_server/set_up_sql_server.sh
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: ./.github/workflows/sql_server/set_up_sql_server.sh
if: 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/pandas/test/test_io.py --verbose
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest modin/experimental/pandas/test/test_io_exp.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: pip install "dfsql>=0.4.2" "pyparsing<=2.4.7" && python -m pytest modin/experimental/sql/test/test_sql.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest modin/test/interchange/dataframe_protocol/test_general.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: python -m pytest modin/test/interchange/dataframe_protocol/pandas/test_protocol.py
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- run: |
python -m pip install lazy_import
python -m pytest modin/pandas/test/integrations/
if: matrix.engine == 'python' || matrix.test_task == 'group_4'
- uses: ./.github/workflows/upload-coverage
test-experimental:
needs: [lint-flake8, lint-black, lint-mypy, test-api, test-headers]
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
ports:
- 5000:5000
env:
AWS_ACCESS_KEY_ID: foobar_key
AWS_SECRET_ACCESS_KEY: foobar_secret
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 2
- name: Cache conda
uses: actions/cache@v3
with:
path: |
~/conda_pkgs_dir
~/.cache/pip
key:
${{ runner.os }}-conda-${{ hashFiles('environment-dev.yml') }}
- uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
activate-environment: modin
environment-file: environment-dev.yml
python-version: 3.8
channel-priority: strict
# we set use-only-tar-bz2 to false in order for conda to properly find new packages to be installed
# for more info see https://github.com/conda-incubator/setup-miniconda/issues/264
use-only-tar-bz2: false
- name: Conda environment
run: |
conda info
conda list
- run: python -m pytest -n 2 modin/pandas/test/dataframe/test_map_metadata.py
- run: python -m pytest -n 2 modin/pandas/test/test_series.py
# Do not add parallelism (`-n` argument) here - it will cause mock S3 service to fail.
- run: python -m pytest modin/pandas/test/test_io.py --verbose
- uses: ./.github/workflows/upload-coverage
test-cloud:
needs: [lint-flake8, lint-black, lint-mypy, test-api, test-headers]
runs-on: ubuntu-latest
defaults:
run:
shell: bash -l {0}
env:
MODIN_ENGINE: "python"
MODIN_EXPERIMENTAL: "True"
name: test cloud
services:
moto:
image: motoserver/moto
ports:
- 5000:5000
env:
AWS_ACCESS_KEY_ID: foobar_key
AWS_SECRET_ACCESS_KEY: foobar_secret
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 2
- name: Cache conda
uses: actions/cache@v3
with:
path: |
~/conda_pkgs_dir
~/.cache/pip
key:
${{ runner.os }}-conda-${{ hashFiles('environment-dev.yml') }}
- uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
activate-environment: modin
environment-file: environment-dev.yml
python-version: 3.8
channel-priority: strict
# we set use-only-tar-bz2 to false in order for conda to properly find new packages to be installed
# for more info see https://github.com/conda-incubator/setup-miniconda/issues/264
use-only-tar-bz2: false
- name: Conda environment
run: |
conda info
conda list
# TODO(https://github.com/modin-project/modin/issues/4004): Re-add
# "python -m pytest --simulate-cloud=normal modin/pandas/test/test_io.py --verbose"
# once that test stops crashing.
- run: python -m pytest --simulate-cloud=normal modin/pandas/test/dataframe/test_default.py::test_kurt_kurtosis --verbose
- # When running without parameters, some of the tests fail
run: python -m pytest --simulate-cloud=normal modin/pandas/test/dataframe/test_binary.py::test_math_functions[add-rows-scalar]
- uses: ./.github/workflows/upload-coverage
test-windows:
needs: [lint-flake8, lint-black, lint-mypy, test-api, test-headers]
runs-on: windows-latest
defaults:
run:
shell: bash -l {0}
strategy:
matrix:
python-version: ["3.8"]
engine: ["ray", "dask"]
test_task:
- group_1
- group_2
- group_3
- group_4
env:
MODIN_ENGINE: ${{matrix.engine}}
name: test-windows (engine ${{matrix.engine}}, python ${{matrix.python-version}}, ${{matrix.test_task}})
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 2
- uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
use-mamba: true
activate-environment: modin
environment-file: environment-dev.yml
python-version: ${{matrix.python-version}}
channel-priority: strict
# we set use-only-tar-bz2 to false in order for conda to properly find new packages to be installed
# for more info see https://github.com/conda-incubator/setup-miniconda/issues/264
use-only-tar-bz2: false
- name: Conda environment
run: |
conda info
conda list
- 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@v2
with:
timeout_minutes: 5
max_attempts: 5
command: |
ray start --head --port=6379 --object-store-memory=1000000000
if: matrix.engine == 'ray'