update eval #102

	name: CI

	on:
	push:
	pull_request:

	jobs:
	tests:
	runs-on: ubuntu-latest
	steps:
	- name: Checkout
	uses: actions/checkout@v4
	with:
	persist-credentials: true
	fetch-depth: 0

	- name: Setup Python
	uses: actions/setup-python@v4
	with:
	python-version: '3.13'

	- name: Install build / test dependencies
	run: \|
	sudo apt-get install bedtools
	python -m pip install --upgrade pip setuptools wheel
	pip install -e .
	pip install pytest pdoc

	- name: Run tests
	run: pytest -q

	- name: Run CLI doc generator
	env:
	PYTHONPATH: ${{ github.workspace }}/src
	run: \|
	python scripts/update_cli_docs.py

	- name: Generate API docs (pdoc)
	env:
	PYTHONPATH: ${{ github.workspace }}/src
	PDOC_ALLOW_EXEC: 1
	run: \|
	# output HTML into docs/api (overwrite)
	python -m pdoc --output-dir docs/api simba_plus

	- name: Commit and push docs if changed
	env:
	GIT_AUTHOR_NAME: "github-actions[bot]"
	GIT_AUTHOR_EMAIL: "github-actions[bot]@users.noreply.github.com"
	run: \|
	git config user.name "${GIT_AUTHOR_NAME}"
	git config user.email "${GIT_AUTHOR_EMAIL}"
	git add docs/CLI.md \|\| true
	if ! git diff --cached --quiet; then
	git commit -m "chore(docs): update CLI help output"
	git push
	else
	echo "No CLI doc changes"
	fi

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