Tests #128

	name: Tests

	on:
	pull_request:
	branches: [ master, main ]
	push:
	branches: [ master, main ]
	workflow_call:
	workflow_dispatch:
	schedule:
	- cron: "0 13 * * 1"

	jobs:
	lint:
	name: Lint Code
	runs-on: ubuntu-latest

	steps:
	- name: Checkout Code
	uses: actions/checkout@v4

	- uses: actions/setup-python@v5
	with:
	python-version: 3.12

	- name: Install Dependencies
	run: pip install black snakefmt

	- name: Run Linter
	run: \|
	black --check .
	snakefmt --check *.smk

	test-unit:
	name: Run Extension Unit Tests
	runs-on: ubuntu-latest

	steps:
	- name: Checkout Code
	uses: actions/checkout@v4

	- uses: actions/setup-python@v5
	with:
	python-version: 3.12

	- name: Install Dependencies
	run: pip install pytest pysam

	- name: Run Unit Tests
	run: true #pytest .tests/unit/
	# This'll require having a lib within scripts with internal tests

	test-e2e:
	name: Test Extension with Sunbeam
	runs-on: ubuntu-latest
	needs:
	- test-unit
	- lint

	steps:
	- name: Checkout Code
	uses: actions/checkout@v4

	- name: Test with Sunbeam
	uses: sunbeam-labs/sbx_test_action@v1

	- name: Dump Logs
	shell: bash
	if: always()
	run: tail -n +1 logs/*

	- name: Dump Stats
	shell: bash
	if: always()
	run: cat stats/*

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