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Tests

perf: autobump bio/vep/plugins/environment.yaml #18858

	name: Tests

	on:
	push:
	branches:
	- master
	pull_request:
	branches:
	- "*"

	jobs:
	docs:
	runs-on: ubuntu-latest
	steps:
	- uses: actions/checkout@v4
	with:
	fetch-depth: 0

	- name: Setup Sphinx environment
	run: \|
	export PATH="/usr/share/miniconda/bin:$PATH"
	pip install -r docs/requirements.txt

	- name: Test doc generation
	run: \|
	export PATH="/usr/share/miniconda/bin:$PATH"

	cd docs
	make html

	testing:
	runs-on: ubuntu-latest
	steps:
	- uses: actions/checkout@v4
	with:
	submodules: recursive
	fetch-depth: 0

	- name: Setup mamba
	uses: conda-incubator/setup-miniconda@v2
	with:
	activate-environment: snakemake
	channels: "conda-forge, bioconda"
	miniforge-version: latest

	- name: Setup Snakemake environment
	shell: bash -el {0}
	run: \|
	conda config --set channel_priority strict
	conda install -n snakemake -y snakemake-minimal snakemake-storage-plugin-http pytest pandas

	- name: Fetch master
	if: github.ref != 'refs/heads/master'
	run: \|
	git fetch origin master

	- name: Run tests
	shell: bash -el {0}
	env:
	DIFF_MASTER: ${{ github.event_name == 'pull_request' }}
	DIFF_LAST_COMMIT: ${{ github.ref == 'refs/heads/master' }}
	run: \|
	# run tests
	pytest -v test_wrappers.py