feat: add exclusion of samples in clustering #10

	# Testing for pipeline python wrapper and scripts used inside rules

	name: Clustering script tests

	on: [push, pull_request]

	jobs:
	build:
	runs-on: ${{ matrix.config.os }}
	strategy:
	fail-fast: false
	matrix:
	config:
	- {os: ubuntu-latest}
	name: Testing on ${{ matrix.config.os }}

	steps:
	- uses: actions/checkout@v4
	- name: Install Conda environment with Micromamba
	uses: mamba-org/setup-micromamba@v1
	with:
	generate-run-shell: false # see https://github.com/mamba-org/setup-micromamba/issues/130
	cache-downloads: true
	environment-file: tests/env.yaml
	- name: Conda list
	shell: bash -l {0}
	run: conda list
	- name: Unit tests
	shell: bash -l {0}
	run: pytest .
	- name: Integration test, normal flow
	shell: bash -l {0}
	run: bash tests/normal_flow/run_test.sh
	- name: Integration test, no previous clustering
	shell: bash -l {0}
	run: bash tests/no_previous_clustering/run_test.sh
	- name: Integration test, merged clusters
	shell: bash -l {0}
	run: bash tests/merge/run_test.sh
	- name: Integration test, curation
	shell: bash -l {0}
	run: bash tests/curation/run_test.sh

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