Add jupyter notebooks for qPCR figures, culturing figures, qPCR limit… #35

	name: Test and lint

	on:
	pull_request:
	branches: ["main"]
	push:
	branches: ["main"]

	jobs:
	build-and-test-qiime2-tiny-2024-5:
	runs-on: ${{ matrix.os }}
	strategy:
	matrix:
	os: [ubuntu-latest, macos-13]

	steps:
	- uses: actions/checkout@v2

	- name: Set up Conda
	uses: conda-incubator/setup-miniconda@v3
	with:
	activate-environment: gut-to-soil-manuscript-figures-qiime2-tiny-2024.5
	environment-file: environments/gut-to-soil-manuscript-figures-qiime2-tiny-2024.5.yml
	auto-activate-base: false

	- name: Install plugin
	shell: bash -l {0}
	run: make install

	- name: Run tests
	shell: bash -l {0}
	run: make test

	lint:
	runs-on: ubuntu-latest
	steps:
	- name: checkout source
	uses: actions/checkout@v3

	- name: set up python 3.11
	uses: actions/setup-python@v4
	with:
	python-version: 3.11

	- name: install dependencies
	run: \|
	python -m pip install --upgrade pip
	pip install -q https://github.com/qiime2/q2lint/archive/master.zip
	pip install -q flake8

	- name: run flake8
	run: flake8

	- name: run q2lint
	run: q2lint

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