Speedup of peptide parsing and annotation #117

	# This workflow will install Python dependencies, run tests, and lint with a
	# single version of Python. For more information see:
	# https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions

	name: tests

	on:
	push:
	branches: [ main ]
	pull_request:
	branches: [ main ]
	schedule:
	- cron: "0 0 1 1/1 *" # Run monthly.

	jobs:
	build:
	runs-on: ${{ matrix.os }}
	strategy:
	matrix:
	os: [ubuntu-latest, windows-latest, macos-latest]
	python-version: ['3.8', '3.9', '3.10', '3.11']

	steps:
	- uses: actions/checkout@v2
	- name: Set up Python ${{ matrix.python-version }}
	uses: actions/setup-python@v2
	with:
	python-version: ${{ matrix.python-version }}
	- name: Install dependencies
	run: \|
	python -m pip install --upgrade pip
	pip install flake8 pytest pytest-cov wheel
	pip install -e .
	- 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: Run unit and system tests
	run: \|
	pytest --cov=spectrum_utils tests/
	- name: Upload coverage reports to Codecov
	uses: codecov/codecov-action@v3
	with:
	token: ${{ secrets.CODECOV_TOKEN }}
	fail_ci_if_error: true

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