test_cli.py

import pathlib
import unittest
from tempfile import TemporaryDirectory

from bioflow_insight_cli.main import cli


class TestCall(unittest.TestCase):
    def test_cli_works(self):
        cli("./wf_test/main.nf", render_graphs=False)
        cli("./wf_test/main.nf", render_graphs=True)

    def test_cli_output_considered(self):
        with TemporaryDirectory() as my_temp_dir:
            my_results = pathlib.Path(my_temp_dir) / "my_results"
            self.assertFalse(my_results.exists())
            cli("./wf_test/main.nf", render_graphs=False, output_dir=str(my_results))
            self.assertTrue(my_results.exists(), "Results should be there, output_dir not taken into account")

    def test_with_illegal_path_char_in_name(self):
        with TemporaryDirectory() as my_temp_dir:
            my_results = pathlib.Path(my_temp_dir) / "my_results"
            cli(
                "./wf_test/main.nf",
                render_graphs=False,
                output_dir=str(my_results),
                name="https://github.com/blabla/toto:qsd!qsd%#sqdqsd"
            )

    def test_with_processes_2_remove_empty_str(self):
        with TemporaryDirectory() as my_temp_dir1, TemporaryDirectory() as my_temp_dir2:
            my_results1 = pathlib.Path(my_temp_dir1) / "my_results"
            cli(
                "./wf_test/main.nf",
                render_graphs=True,
                output_dir=str(my_results1),
                processes_2_remove="",
            )
            my_results2 = pathlib.Path(my_temp_dir2) / "my_results"
            cli(
                "./wf_test/main.nf",
                render_graphs=True,
                output_dir=str(my_results2),
                processes_2_remove=None,
            )
            with open(my_results1 / 'graphs'/'specification_graph.png', 'rb') as f_spec1:
                spec1 = f_spec1.read()
            with open(my_results2 / 'graphs'/'specification_graph.png', 'rb') as f_spec2:
                spec2 = f_spec2.read()

            self.assertEqual(spec1, spec2)