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JoshLoeckerdependabot[bot]mumo-devSarahNakamura
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Version 2.0 (#252)
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: mumo-dev <samuelmumo@Samuels-MacBook-Pro.local> Co-authored-by: SarahNakamura <snakamura@unomaha.edu> Co-authored-by: JoshLoecker <JoshLoecker@users.noreply.github.com>
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‎.githooks/post-commit‎

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#!/usr/bin/env bash
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set -e
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# Detect if COMO.ipynb exists in non-pushed git history
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# If it does, clear its cell outputs before committing
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NOTEBOOK="main/COMO.ipynb"
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if git diff-tree --no-commit-id --name-only -r HEAD | grep -q "^$NOTEBOOK$"; then
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jupyter-nbconvert --clear-output --inplace "$NOTEBOOK"
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# re-commit if the notebook was changed
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if ! git diff --quiet "$NOTEBOOK"; then
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git add "$NOTEBOOK"
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git commit -m "Clear outputs from jupyter notebook"
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fi
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fi

‎.githooks/pre-commit‎

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#!/usr/bin/env bash
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set -e
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# Run `ruff check` only on staged files
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files=$(git diff --cached --name-only --diff-filter=ACM | grep '\.py$')
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if [ -z "$files" ]; then
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exit 0
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fi
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ruff check --no-fix "$files"
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status=$?
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if [ $status -ne 0 ]; then
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echo "Ruff found issues. Commit aborted."
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exit 1
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fi
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# If `ruff check` is good, then format all staged files
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ruff check --fix --select I "$files"
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ruff format "$files"
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exit 0

‎.github/dependabot.yml‎

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updates:
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- package-ecosystem: "github-actions"
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directory: "/"
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target-branch: "hotfix"
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schedule:
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# Check for updates to GitHub Actions every weekday
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interval: "daily"

‎.github/workflows/container_build.yml‎

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jobs:
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build-and-push-image:
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# IMPORTANT: Only run the publish job when a tag starting with 'v' is pushed
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if: github.event_name == 'push' && startsWith(github.ref, 'refs/tags/v')
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name: Build and Push Docker Image
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runs-on: ubuntu-20.04
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runs-on: ubuntu-latest
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permissions:
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contents: read
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packages: write

‎.github/workflows/continuous_integration.yml‎

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workflow_dispatch:
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jobs:
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format:
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runs-on: ubuntu-latest
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steps:
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- name: Checkout
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uses: actions/checkout@v4
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- name: Install uv
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uses: astral-sh/setup-uv@v5
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- name: Create Virtual Environment
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run: uv venv
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- name: Install Jupyter
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run: uv pip install jupyter nbconvert
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- name: Strip Notebook Output
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run: uv run jupyter nbconvert --clear-output --inplace "main/COMO.ipynb"
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- name: Format Python Imports
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uses: astral-sh/ruff-action@v3
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with:
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args: "check --fix --select I"
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- name: Format code
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uses: astral-sh/ruff-action@v3
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with:
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args: "format"
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- name: Format Notebook
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uses: astral-sh/ruff-action@v3
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with:
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args: "format main/COMO.ipynb"
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- name: Commit Changes
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uses: stefanzweifel/git-auto-commit-action@v5
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with:
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commit_message: "style: format code, Jupyter Notebook(s), and Python imports with `ruff`"
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file_pattern: "main/como/*.py"
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lint:
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runs-on: ubuntu-latest
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steps:
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- name: Checkout
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uses: actions/checkout@v4
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- name: Check Lint
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uses: astral-sh/ruff-action@v3
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with:
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args: "check --no-fix --verbose"
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test:
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runs-on: ubuntu-latest
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strategy:
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matrix:
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python-version: [ "3.10" ]
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python-version: [ "3.11", "3.12", "3.13" ]
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steps:
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- name: Checkout
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uses: actions/checkout@v4
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run: uv sync --python "${{ matrix.python-version }}" --all-extras --dev
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- name: Run tests
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run: uv run --python "${{ matrix.python-version }}" pytest --cov --junitxml=junit.xml -o junit_family=legacy
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run: uv run --python "${{ matrix.python-version }}" pytest
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- name: Cache Clear
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run: uv cache prune --ci

‎.github/workflows/pypackage_build.yml‎

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name: Build and publish python package
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on:
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push:
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tags:
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- "*"
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# Define permissions needed for the workflow GITHUB_TOKEN
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permissions:
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contents: read # Allow checkout
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packages: write # Allow publishing to GitHub Packages
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jobs:
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build:
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strategy:
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matrix:
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operating-system: [macos-latest, ubuntu-latest, windows-latest]
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python-version: [ 3.10, 3.11, 3.12, 3.13 ]
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name: Build Python Package (${{ matrix.operating-system }}, Python ${{ matrix.python-version }})
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runs-on: ${{ matrix.operating-system }}
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steps:
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- name: Checkout Code
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uses: actions/checkout@v4
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with:
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ref: ${{ github.ref }}
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- name: Set up Python ${{ matrix.python-version }}
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uses: actions/setup-python@v5
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with:
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python-version: ${{ matrix.python-version }}
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- name: Install Hatch
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run: pip install hatch
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- name: Build distributions
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run: hatch build # Uses pyproject.toml to build sdist and wheel into dist/
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- name: Upload distributions artifact
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uses: actions/upload-artifact@v4 # Action to save artifacts between jobs
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with:
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name: como-distribution-package-${{ matrix.operating-system }}-${{ matrix.python-version }} # Name for the artifact
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path: dist/ # Path to the directory to upload
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publish:
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strategy:
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matrix:
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python-version: [ 3.10, 3.11, 3.12, 3.13 ]
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operating-system: [macos-latest, windows-latest, ubuntu-latest]
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name: Publish to GitHub Packages
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runs-on: ubuntu-latest
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needs: build # Depends on the build job succeeding
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# IMPORTANT: Only run the publish job when a tag starting with 'v' is pushed
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if: github.event_name == 'push' && startsWith(github.ref, 'refs/tags/v')
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permissions: # Explicit permissions needed for this job
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packages: write # Required to write to GitHub Packages registry
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contents: read # Needed if accessing repo content (e.g., for download artifact)
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steps:
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- name: Download distributions artifact
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uses: actions/download-artifact@v4 # Action to retrieve artifacts from previous job.
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with:
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name: como-distribution-package-${{ matrix.operating-system }}-${{ matrix.python-version }}
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path: dist/
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- name: Set up Python 3.11
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uses: actions/setup-python@v5
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with:
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python-version: ${{ matrix.python-version }}
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- name: Install Twine
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run: pip install twine
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- name: Publish package to GitHub Packages
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env:
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# Use __token__ as username and the automatically generated GITHUB_TOKEN as password
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TWINE_USERNAME: __token__
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TWINE_PASSWORD: ${{ secrets.GITHUB_TOKEN }}
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run: |
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echo "Uploading to GitHub Packages for repository: ${{ github.repository }}"
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# Construct the repository URL dynamically using the repository owner
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TWINE_REPOSITORY_URL="https://pypi.pkg.github.com/${{ github.repository_owner }}"
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python -m twine upload --verbose --repository-url ${TWINE_REPOSITORY_URL} dist/*
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‎.pre-commit-config.yaml‎

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# See https://pre-commit.com for more information
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# See https://pre-commit.com/hooks.html for more hooks
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repos:
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- repo: https://github.com/opensource-nepal/commitlint
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rev: v1.2.0
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- repo: https://github.com/commitizen-tools/commitizen
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rev: master
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hooks:
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- id: commitlint
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name: Commit Lint
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- id: commitizen
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stages: [ commit-msg ]

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