FIX STAR output, indices, annotation #94

	name: CI

	on:
	push:
	branches:
	- master
	- dev
	pull_request:
	branches:
	- master
	- dev

	jobs:
	install-and-test:
	runs-on: ${{matrix.os}}
	defaults:
	run:
	shell: bash -l {0}
	strategy:
	fail-fast: false
	matrix:
	os: [ubuntu-latest, macos-latest]
	python-version: ["3.7", "3.8", "3.9", "3.10"]
	steps:
	- uses: actions/checkout@v3
	- name: Create rpbp conda environment
	uses: conda-incubator/setup-miniconda@v2
	with:
	python-version: ${{ matrix.python-version }}
	channels: conda-forge,bioconda,defaults
	channel-priority: strict
	auto-update-conda: true
	auto-activate-base: false
	activate-environment: rpbp
	environment-file: environment.yml
	- name: Display conda env info
	run: \|
	conda info
	conda list
	conda config --show-sources
	conda config --show
	printenv \| sort
	- name: Install test requirements
	run: pip install pytest pytest-cov pytest-depends
	- name: Install rp-bp with --no-deps option
	run: pip install . --no-deps --verbose
	- name: Run tests
	run: python -m pytest . --cov=rpbp --cov-report=xml -s -v
	- name: Compile stan models (should already exist -> no-op)
	run: compile-rpbp-models
	- name: Compile stan models with --force
	run: compile-rpbp-models --force
	- name: Upload code coverage to codecov
	uses: codecov/codecov-action@v3
	with:
	files: ./coverage.xml
	name: ${{ matrix.os }}
	fail_ci_if_error: true
	verbose: true

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