reverse sequence logic, kras testing data #58

	name: Python Package using Conda

	on: [push]

	jobs:
	build-linux:
	runs-on: ubuntu-latest
	strategy:
	max-parallel: 5

	steps:
	- uses: actions/checkout@v4
	- name: Set up Python 3.10
	uses: actions/setup-python@v3
	with:
	python-version: '3.10'
	- name: Add conda to system path
	run: \|
	# $CONDA is an environment variable pointing to the root of the miniconda directory
	echo $CONDA/bin >> $GITHUB_PATH
	- name: Install dependencies
	run: \|
	conda env create --file environment.yml --name gf
	sudo apt-get install libcurl4-openssl-dev
	wget https://github.com/samtools/samtools/releases/download/1.20/samtools-1.20.tar.bz2
	tar -vxjf samtools-1.20.tar.bz2
	cd samtools-1.20
	make
	cd ..
	- name: Lint with flake8
	run: \|
	conda install flake8
	# stop the build if there are Python syntax errors or undefined names
	flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
	# exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
	flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
	- name: Test with pytest
	run: \|
	source /usr/share/miniconda/etc/profile.d/conda.sh
	conda activate gf
	sampath=$(pwd)/samtools-1.20
	export PATH="$PATH:${sampath}"
	pytest

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