Add pytest to deps and CI #15

	name: Python application
	# this is a standard setup copied from
	# https://docs.github.com/en/[email protected]/actions/automating-builds-and-tests/building-and-testing-python
	on:
	push:
	branches: [ "master" ]
	pull_request:
	branches: [ "master", "develop", "develop-specact" ]

	permissions:
	contents: read

	jobs:
	build:
	runs-on: ubuntu-latest

	steps:
	- uses: actions/checkout@v4
	- name: Set up Python 3.10
	uses: actions/setup-python@v4
	with:
	python-version: "3.10"
	- name: Install dependencies
	run: \|
	python -m pip install --upgrade pip
	pip install flake8 pytest
	- name: Install hsp2
	run: \|
	# install the hsp2 executable
	pip install .[dev]
	- name: Lint with flake8
	run: \|
	# stop the build if there are Python syntax errors or undefined names
	flake8 . --count --select=E9,F63,F7,F82 --ignore=F821 --show-source --statistics --exclude=build/*
	# 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: \|
	# python coverage
	NUMBA_DISABLE_JIT=1 pytest --cov --cov-branch --cov-report term-missing
	- name: Run hsp2 test10
	run: \|
	cd tests/test10/HSP2results
	hsp2 import_uci test10.uci test10.h5
	hsp2 run test10.h5

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