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view test/test_runner.py @ 4:eaf51f9aff10 draft

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planemo upload for repository https://github.com/COMBAT-TB/confil commit 9e5284a2616de5d869319f9c4436716a3f6656f8-dirty
author sanbi-uwc
date Mon, 04 Mar 2019 03:28:57 -0500
parents 53a61865e86e
children 2b90d0574ea5
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import os

import pytest
from click.testing import CliRunner

from confil.confil import confil

CURR_DIR = os.path.dirname(os.path.abspath(__file__))
TEST_DATA_DIR = os.path.join(CURR_DIR, "test_data/")

FILE_1 = os.path.join(TEST_DATA_DIR, "test_file_1.fastq")
FILE_2 = os.path.join(TEST_DATA_DIR, "test_file_2.fastq")


@pytest.fixture(scope="module")
def cli_runner():
    runner = CliRunner()
    return runner


def test_runner(cli_runner):
    result = cli_runner.invoke(confil, ["--paired", FILE_1, FILE_2])
    assert result.exit_code == 0