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ci-tests.yml
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name: CI Tests
on:
push:
branches:
- main
- dev
- bugfix
- "release/*"
pull_request:
branches:
- main
- dev
- bugfix
- "release/*"
env:
DEFAULT_PYTHON: 3.8
CI: "true"
# Increase this value to reset cache if environment.yml has not changed
CACHE_VERSION: 6
concurrency:
group: '${{ github.workflow }} @ ${{ github.event.pull_request.head.label || github.head_ref || github.ref }}'
cancel-in-progress: true
jobs:
lint:
name: Linters (${{ matrix.python-version }})
runs-on: ubuntu-latest
strategy:
fail-fast: true
matrix:
python-version: ["3.8", "3.9", "3.10", "3.11"]
defaults:
run:
shell: bash -l {0}
steps:
- uses: actions/checkout@v2
- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v2
with:
python-version: ${{ matrix.python-version }}
- uses: actions/cache@v2
with:
path: ~/.cache/pip # ubuntu location
key: ${{ runner.os }}-pip-${{ hashFiles('requirements-dev.txt') }}
restore-keys: |
${{ runner.os }}-pip-
- name: Install dependencies
run: |
python -m pip install nox pre_commit \
mypy==0.982 \
types-click \
types-pyyaml \
types-pkg_resources \
types-requests \
types-pytz
- name: Pip info
run: python -m pip list
- name: Check requirements
run: >
nox
-db virtualenv -r
--non-interactive
--python ${{ matrix.python-version }}
--session requirements-${{ matrix.python-version }}
- name: Sort Imports
run: pre-commit run isort --all-files
- name: Black
if: always()
run: pre-commit run black --all-files
- name: Pylint
if: always()
run: pre-commit run pylint --all-files
- name: Mypy Type Checking
if: always()
run: pre-commit run mypy --all-files
tests:
name: >
CI Tests (${{ matrix.python-version }}, ${{ matrix.os }}, pandas-${{ matrix.pandas-version }})
runs-on: ${{ matrix.os }}
defaults:
run:
shell: pwsh
env:
PYTHONUTF8: 1
NOX_FLAGS: -v --no-install --no-venv --non-interactive
PYTEST_FLAGS: --cov=pandera --cov-report=term-missing --cov-report=xml --cov-append
HYPOTHESIS_FLAGS: -n=auto -q --hypothesis-profile=ci
strategy:
fail-fast: true
matrix:
os: ["ubuntu-latest", "macos-latest", "windows-latest"]
python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"]
pandas-version: ["1.3.0", "1.5.2", "2.0.1"]
exclude:
- python-version: "3.7"
pandas-version: "2.0.1"
- python-version: "3.7"
pandas-version: "1.5.2"
- python-version: "3.10"
pandas-version: "1.3.0"
- python-version: "3.11"
pandas-version: "1.3.0"
include:
- os: ubuntu-latest
pip-cache: ~/.cache/pip
- os: macos-latest
pip-cache: ~/Library/Caches/pip
- os: windows-latest
pip-cache: ~/AppData/Local/pip/Cache
steps:
- uses: actions/checkout@v2
- name: Cache conda
uses: actions/cache@v2
env:
# Increase this value to reset cache if etc/environment.yml has not changed
CACHE_NUMBER: 1
with:
path: ~/conda_pkgs_dir
key: ${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{ hashFiles('environment.yml') }}
id: cache
- name: Cache pip
uses: actions/cache@v2
with:
path: ${{ matrix.pip-cache }}
key: ${{ runner.os }}-pip-${{ hashFiles('requirements-dev.txt') }}
restore-keys: |
${{ runner.os }}-pip-
- uses: conda-incubator/setup-miniconda@v2
with:
auto-update-conda: true
python-version: ${{ matrix.python-version }}
miniforge-version: latest
miniforge-variant: Mambaforge
use-mamba: true
activate-environment: pandera-dev
channels: conda-forge
channel-priority: true
use-only-tar-bz2: true
# ray currently cannot be installed on python 3.11
- name: Remove Ray from Deps
if: ${{ matrix.python-version == '3.11' && matrix.os != 'macos-latest' }}
run: sed -i '/ray/d' environment.yml
- name: Remove Ray from Deps
if: ${{ matrix.python-version == '3.11' && matrix.os == 'macos-latest' }}
run: sed -i .bak '/ray/d' environment.yml
# need to install pandas via pip: conda installation is on the fritz
- name: Install Conda Deps [pandas 2]
if: ${{ matrix.pandas-version == '2.0.1' }}
run: |
mamba install -c conda-forge asv pandas geopandas bokeh
mamba env update -n pandera-dev -f environment.yml
pip install pandas==${{ matrix.pandas-version }}
pip install --user dask>=2023.3.2
- name: Install Conda Deps
if: ${{ matrix.pandas-version != '2.0.1' }}
run: |
mamba install -c conda-forge asv pandas==${{ matrix.pandas-version }} geopandas bokeh
mamba env update -n pandera-dev -f environment.yml
- run: |
conda info
conda list
conda config --show-sources
conda config --show
printenv | sort
- name: Unit Tests - Core
run: pytest tests/core ${{ env.PYTEST_FLAGS }}
- name: Unit Tests - Hypotheses
run: pytest tests/hypotheses ${{ env.PYTEST_FLAGS }}
- name: Unit Tests - IO
run: pytest tests/io ${{ env.PYTEST_FLAGS }}
- name: Unit Tests - Mypy
if: ${{ matrix.python-version != '3.7' }}
run: pytest -v tests/mypy ${{ env.PYTEST_FLAGS }}
- name: Unit Tests - Strategies
run: pytest tests/strategies ${{ env.PYTEST_FLAGS }} ${{ env.HYPOTHESIS_FLAGS }}
- name: Unit Tests - FastAPI
run: pytest tests/fastapi ${{ env.PYTEST_FLAGS }}
- name: Unit Tests - GeoPandas
run: pytest tests/geopandas ${{ env.PYTEST_FLAGS }}
- name: Unit Tests - Dask
if: ${{ matrix.pandas-version != '2.0.1' }}
run: pytest tests/dask ${{ env.PYTEST_FLAGS }}
- name: Unit Tests - Pyspark
if: ${{ matrix.os != 'windows-latest' && !contains(fromJson('["3.7", "3.10", "3.11"]'), matrix.python-version) && matrix.pandas-version != '2.0.1' }}
run: pytest tests/pyspark ${{ env.PYTEST_FLAGS }}
- name: Unit Tests - Modin-Dask
if: ${{ !contains(fromJson('["3.11"]'), matrix.python-version) && matrix.pandas-version != '2.0.1' }}
run: pytest tests/modin ${{ env.PYTEST_FLAGS }}
env:
CI_MODIN_ENGINES: dask
- name: Unit Tests - Modin-Ray
# ray CI issues with the following:
# - windows, python 3.10
# - mac, python 3.7
# Tracking issue: https://github.com/modin-project/modin/issues/5466
if: ${{ matrix.os != 'windows-latest' && !contains(fromJson('["3.7", "3.10", "3.11"]'), matrix.python-version) && matrix.pandas-version != '2.0.1' }}
run: pytest tests/modin ${{ env.PYTEST_FLAGS }}
env:
CI_MODIN_ENGINES: ray
- name: Upload coverage to Codecov
uses: codecov/codecov-action@v3
- name: Check Docstrings
if: ${{ matrix.os != 'windows-latest' && !contains(fromJson('["3.7", "3.10", "3.11"]'), matrix.python-version) }}
run: nox ${{ env.NOX_FLAGS }} --session doctests
- name: Check Docs
if: ${{ matrix.os != 'windows-latest' && !contains(fromJson('["3.7", "3.10", "3.11"]'), matrix.python-version) }}
run: nox ${{ env.NOX_FLAGS }} --session docs