Fix tmp path for variant calling #326

	name: testing

	on: [push, pull_request]

	jobs:
	pytest:
	runs-on: ubuntu-latest
	strategy:
	matrix:
	python-version: ["3.10", "3.11", "3.12"]
	os: [ubuntu-22.04, macos-latest]
	steps:
	- uses: actions/checkout@v4
	- uses: ConorMacBride/install-package@v1
	with:
	brew: bowtie2 freebayes
	apt: bowtie2 freebayes
	- name: Install Python
	uses: actions/setup-python@v4
	- name: Install poetry
	uses: abatilo/actions-poetry@v2
	- name: Install the project dependencies
	run: poetry install --only test -C meteor
	- name: Run the automated tests (for example)
	run: poetry run -C meteor pytest --cov=meteor --cov-report xml
	- name: Upload coverage reports to Codecov
	uses: codecov/[email protected]
	with:
	token: ${{ secrets.CODECOV_TOKEN }}
	slug: metagenopolis/meteor

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