tests/arboreto/test_scripts.py

• InferenceWrapperTests · class · L46-L109 — class InferenceWrapperTests(unittest.TestCase)
• setUp · method · L47-L60 — def setUp(self) -> None
• run_inference · method · L62-L69 — def run_inference(self, **kwargs)
• test_the_expression_matrix_is_read_with_genes_as_columns · method · L71-L75 — def test_the_expression_matrix_is_read_with_genes_as_columns(self) -> None
• test_without_a_tf_file_every_gene_is_a_candidate_regulator · method · L77-L81 — def test_without_a_tf_file_every_gene_is_a_candidate_regulator(self) -> None: # The sentinel is the string 'all'; an empty list would silently return # an empty network.
• test_a_tf_file_restricts_the_candidate_regulators · method · L83-L87 — def test_a_tf_file_restricts_the_candidate_regulators(self) -> None
• test_the_seed_is_forwarded_so_runs_are_reproducible · method · L89-L91 — def test_the_seed_is_forwarded_so_runs_are_reproducible(self) -> None
• test_the_link_limit_is_forwarded_and_defaults_to_unlimited · method · L93-L95 — def test_the_link_limit_is_forwarded_and_defaults_to_unlimited(self) -> None
• test_the_network_is_written_headerless_and_tab_separated · method · L97-L103 — def test_the_network_is_written_headerless_and_tab_separated(self) -> None: # Arboreto's own consumers expect three unlabelled columns.
• test_no_index_column_is_written · method · L105-L109 — def test_no_index_column_is_written(self) -> None
• ParserTests · class · L112-L123 — class ParserTests(unittest.TestCase)
• test_the_documented_flags_are_all_accepted · method · L113-L117 — def test_the_documented_flags_are_all_accepted(self) -> None
• test_the_positional_arguments_are_required · method · L119-L123 — def test_the_positional_arguments_are_required(self) -> None