diff options
Diffstat (limited to 'wqflask/tests')
| -rw-r--r-- | wqflask/tests/unit/wqflask/api/test_mapping.py | 13 | ||||
| -rw-r--r-- | wqflask/tests/unit/wqflask/marker_regression/test_gemma_mapping.py | 8 |
2 files changed, 13 insertions, 8 deletions
diff --git a/wqflask/tests/unit/wqflask/api/test_mapping.py b/wqflask/tests/unit/wqflask/api/test_mapping.py index 159c982b..006e9826 100644 --- a/wqflask/tests/unit/wqflask/api/test_mapping.py +++ b/wqflask/tests/unit/wqflask/api/test_mapping.py @@ -25,7 +25,9 @@ class TestMapping(unittest.TestCase): "maf": 0.01, "use_loco": True, "num_perm": 0, - "perm_check": False + "perm_check": False, + "transform": False, + "genofile": False } results = initialize_parameters( @@ -40,8 +42,9 @@ class TestMapping(unittest.TestCase): "pair_scan": "true", "interval_mapping": "true", "use_loco": "true", - "num_perm": "14" - + "num_perm": "14", + "transform": "qnorm", + "genofile": "BXD.8.geno" } results_2 = initialize_parameters( @@ -53,7 +56,9 @@ class TestMapping(unittest.TestCase): "maf": 0.01, "use_loco": True, "num_perm": 14, - "perm_check": "ON" + "perm_check": "ON", + "transform": "qnorm", + "genofile": "BXD.8.geno" } self.assertEqual(results_2, expected_results) diff --git a/wqflask/tests/unit/wqflask/marker_regression/test_gemma_mapping.py b/wqflask/tests/unit/wqflask/marker_regression/test_gemma_mapping.py index 611c0d70..53d96d7f 100644 --- a/wqflask/tests/unit/wqflask/marker_regression/test_gemma_mapping.py +++ b/wqflask/tests/unit/wqflask/marker_regression/test_gemma_mapping.py @@ -165,12 +165,12 @@ X\tM5\t12\tQ\tE\tMMB\tR\t21.1\tW\t0.65\t0.6""" this_dataset={}, gwa_output_filename=".xw/") expected_results = [ {'name': 'M1', 'chr': 'X/Y', 'Mb': 2.8457155e-05, 'p_value': 0.85, - 'additive': -23.3, 'lod_score': 0.07058107428570727}, + 'additive': -11.65, 'lod_score': 0.07058107428570727}, {'name': 'M2', 'chr': 4, 'Mb': 1.2e-05, 'p_value': 0.5, - 'additive': -24.0, 'lod_score': 0.3010299956639812}, + 'additive': -12.0, 'lod_score': 0.3010299956639812}, {'name': 'M4', 'chr': 'Y', 'Mb': 1.2e-05, 'p_value': 0.7, - 'additive': -11.6, 'lod_score': 0.1549019599857432}, - {'name': 'M5', 'chr': 'X', 'Mb': 1.2e-05, 'p_value': 0.6, 'additive': -21.1, 'lod_score': 0.22184874961635637}] + 'additive': -5.8, 'lod_score': 0.1549019599857432}, + {'name': 'M5', 'chr': 'X', 'Mb': 1.2e-05, 'p_value': 0.6, 'additive': -10.55, 'lod_score': 0.22184874961635637}] self.assertEqual(expected_results, results) @mock.patch("wqflask.marker_regression.gemma_mapping.TEMPDIR", "/home/tmp") |