Merge pull request #5 from FOI-Bioinformatics/add_blast #28

	name: Test Preprimer

	on:
	push:
	branches:
	- main
	pull_request:

	jobs:
	test:
	runs-on: ubuntu-latest

	steps:
	- name: Checkout code
	uses: actions/checkout@v2

	- name: Set up Python
	uses: actions/setup-python@v2
	with:
	python-version: '3.x'

	- name: Install dependencies
	run: \|
	pip install -e . # install the preprimer package
	pip install -r requirements.txt # Ensure pytest is listed here

	- name: Set up conda
	uses: conda-incubator/setup-miniconda@v2
	with:
	auto-update-conda: true
	python-version: '3.12' # Replace with your Python version

	- name: Install mamba and environment dependencies
	shell: bash -l {0}
	run: \|
	conda init bash
	source ~/.bashrc
	conda config --add channels bioconda
	conda config --add channels conda-forge
	conda install mamba -n base -c conda-forge
	mamba create -n preprimer me-pcr exonerate pytest
	source activate preprimer # Activate the environment
	python -m pytest tests/test.py # Run the tests within the environment

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