Publish to PyPI #2

	name: Publish to PyPI

	on:
	workflow_dispatch:
	inputs:
	version:
	description: 'Version to publish (e.g., 0.1.0)'
	required: true
	type: string

	jobs:
	publish:
	runs-on: ubuntu-latest
	permissions:
	contents: write

	steps:
	- uses: actions/checkout@v4
	with:
	fetch-depth: 0

	- name: Install uv
	uses: astral-sh/setup-uv@v5

	- name: Set up Python
	run: uv python install 3.8

	- name: Update version in pyproject.toml
	run: \|
	cd python
	sed -i 's/version = ".*"/version = "${{ inputs.version }}"/' pyproject.toml

	- name: Update version in __init__.py
	run: \|
	cd python
	sed -i 's/__version__ = ".*"/__version__ = "${{ inputs.version }}"/' src/bioscript/__init__.py

	- name: Install dependencies
	run: \|
	cd python
	uv sync --all-extras

	- name: Run tests
	run: \|
	cd python
	uv run pytest

	- name: Build package
	run: \|
	cd python
	uv build

	- name: Publish to PyPI
	uses: pypa/gh-action-pypi-publish@release/v1
	with:
	packages-dir: python/dist/
	password: ${{ secrets.PYPI_API_TOKEN }}

	- name: Commit version bump
	run: \|
	git config user.name "github-actions[bot]"
	git config user.email "github-actions[bot]@users.noreply.github.com"
	git add python/pyproject.toml python/src/bioscript/__init__.py
	git commit -m "Bump version to ${{ inputs.version }}"
	git tag "v${{ inputs.version }}"
	git push origin main --tags

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