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Add skeleton utilities (#76) #306

Add skeleton utilities (#76)

Add skeleton utilities (#76) #306

Workflow file for this run

# Continuous integration
name: CI
on:
pull_request:
types: [opened, reopened, synchronize]
paths:
- "sleap_io/**"
- "tests/**"
- ".github/workflows/ci.yml"
- "environment.yml"
push:
branches:
- main
paths:
- "sleap_io/**"
- "tests/**"
- ".github/workflows/ci.yml"
- "environment.yml"
jobs:
# Lint with black and docstring check with pydocstyle
lint:
# This job runs:
#
# 1. Linting with black
#
# 2. Docstring style checking with pydocstyle
# Note: This uses Google-style docstring convention
# Ref: https://google.github.io/styleguide/pyguide.html
name: Lint
runs-on: "ubuntu-22.04"
steps:
- name: Checkout repo
uses: actions/checkout@v3
- name: Set up Python
uses: actions/setup-python@v4
with:
python-version: 3.9
- name: Install dependencies
run: |
pip install --editable .[dev]
- name: Run Black
run: |
black --check sleap_io tests
- name: Run pydocstyle
run: |
pydocstyle --convention=google sleap_io/
# Tests with pytest
tests:
strategy:
fail-fast: false
matrix:
os: ["ubuntu-latest", "windows-latest", "macos-latest"]
python: [3.7, 3.9]
name: Tests (${{ matrix.os }}, Python ${{ matrix.python }})
runs-on: ${{ matrix.os }}
steps:
- name: Checkout repo
uses: actions/checkout@v3
- name: Setup Micromamba
# https://github.com/mamba-org/setup-micromamba
# Note: Set channel-priority in .condarc if needed
uses: mamba-org/setup-micromamba@v1
with:
environment-file: environment.yml
cache-environment: true
cache-environment-key: environment-${{ hashFiles('environment.yml') }}-${{ hashFiles('pyproject.toml') }}
init-shell: >-
bash
powershell
post-cleanup: all
- name: Print environment info
shell: bash -l {0}
run: |
which python
micromamba info
micromamba list
pip freeze
- name: Install graphics dependencies on Ubuntu
# https://github.com/conda-forge/opencv-feedstock/issues/401
if: ${{ startsWith(matrix.os, 'ubuntu') }}
shell: bash -l {0}
run: |
sudo apt-get update && sudo apt-get install libglapi-mesa libegl-mesa0 libegl1 libopengl0 libgl1-mesa-glx
- name: Test with pytest
if: ${{ !(startsWith(matrix.os, 'ubuntu') && matrix.python == 3.9) }}
shell: bash -l {0}
run: |
pytest
- name: Test with pytest (with coverage)
if: ${{ startsWith(matrix.os, 'ubuntu') && matrix.python == 3.9 }}
shell: bash -l {0}
run: |
pytest --cov=sleap_io --cov-report=xml tests/
- name: Upload coverage
uses: codecov/codecov-action@v3
if: ${{ startsWith(matrix.os, 'ubuntu') && matrix.python == 3.9 }}
with:
fail_ci_if_error: true
verbose: false
token: ${{ secrets.CODECOV_TOKEN }}