diff options
Diffstat (limited to 'tests')
| -rw-r--r-- | tests/test_domagi.py | 32 |
1 files changed, 32 insertions, 0 deletions
diff --git a/tests/test_domagi.py b/tests/test_domagi.py index d7190a0..621c8c9 100644 --- a/tests/test_domagi.py +++ b/tests/test_domagi.py @@ -233,6 +233,38 @@ def test_domagi_extract_node(tmp_path, request, domagi_db_name, context_steps, e with open(expected_output) as file: assert_gfa_equal(file, io.StringIO(result.stdout)) +@pytest.mark.parametrize("domagi_db_name, path_range, expected_output", + [("domagi_db_test1", + "x:7-8", + Path("test-data/expected-output/test1-extract-path-7-8.gfa")), + ("domagi_db_test1", + "x:7-9", + Path("test-data/expected-output/test1-extract-path-7-9.gfa")), + ("domagi_db_test1", + "x:7-10", + Path("test-data/expected-output/test1-extract-path-7-10.gfa")), + ("domagi_db_test1", + "x:8-9", + Path("test-data/expected-output/test1-extract-path-8-9.gfa")), + ("domagi_db_test1", + "x:8-10", + Path("test-data/expected-output/test1-extract-path-8-10.gfa"))]) +def test_domagi_extract_path(tmp_path, request, domagi_db_name, path_range, 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, + "--path-range", path_range, + "--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")), |