Keep the legacy behavior in count_fragments_features #503

	name: Python package

	on:
	push:
	branches: [main]
	pull_request:
	branches: [main]
	schedule:
	- cron: "0 5 1,15 * *"

	jobs:
	build:

	runs-on: ubuntu-latest
	strategy:
	fail-fast: false
	matrix:
	python-version: ["3.10", "3.12"]

	steps:
	- uses: actions/checkout@v4
	- name: Set up Python ${{ matrix.python-version }}
	uses: actions/setup-python@v5
	with:
	python-version: ${{ matrix.python-version }}
	- name: Install tools
	run: python -m pip install --upgrade pip
	- name: Install dependencies
	run: >
	pip install
	".[test]"
	git+https://github.com/bioFAM/mofapy2
	git+https://github.com/scverse/mudata
	- name: List dependencies
	run: \|
	pip list
	- name: Lint with flake8
	run: \|
	# stop the build if there are Python syntax errors or undefined names
	flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
	# exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
	flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
	- name: Test with pytest
	run: \|
	pytest

Provide feedback