diff options
Diffstat (limited to 'tests/test_domagi.py')
| -rw-r--r-- | tests/test_domagi.py | 28 |
1 files changed, 28 insertions, 0 deletions
diff --git a/tests/test_domagi.py b/tests/test_domagi.py index 1134713..3312247 100644 --- a/tests/test_domagi.py +++ b/tests/test_domagi.py @@ -206,6 +206,34 @@ def test_domagi_depth_bed_windows(tmp_path, request, domagi_db_name, bed_windows pd.read_csv(io.StringIO(result.stdout), sep="\t"), check_dtype=False) +@pytest.mark.xfail +@pytest.mark.parametrize("domagi_db_name, context_steps, expected_output", + [("domagi_db_test1", + 1, + Path("test-data/expected-output/test1-extract-node-1.gfa")), + ("domagi_db_test1", + 2, + Path("test-data/expected-output/test1-extract-node-2.gfa")), + ("domagi_db_test1", + 3, + Path("test-data/expected-output/test1-extract-node-3.gfa"))]) +def test_domagi_extract_node(tmp_path, request, domagi_db_name, context_steps, expected_output): + domagi_db = request.getfixturevalue(domagi_db_name) + output_duckdb_path = tmp_path / f"{domagi_db.stem}-output.db" + runner = CliRunner() + result = runner.invoke(main, ["extract", + "--db", domagi_db, + "--node", "9", + "--context-steps", context_steps, + "--out", output_duckdb_path]) + assert result.exit_code == 0 + result = runner.invoke(main, ["view", + "--to-gfa", + "--db", output_duckdb_path]) + assert result.exit_code == 0 + with open(expected_output) as file: + assert_gfa_equal(file, io.StringIO(result.stdout)) + @pytest.mark.parametrize("domagi_db_name, expected_output", [("domagi_db_test1", Path("test-data/expected-output/test1-matrix")), |