diff options
| -rw-r--r-- | gn3/computations/correlations.py | 8 | ||||
| -rw-r--r-- | tests/unit/computations/test_correlation.py | 8 |
2 files changed, 8 insertions, 8 deletions
diff --git a/gn3/computations/correlations.py b/gn3/computations/correlations.py index 3cea69d..21bc82e 100644 --- a/gn3/computations/correlations.py +++ b/gn3/computations/correlations.py @@ -222,7 +222,7 @@ probet return corr_results -def tissue_correlation_for_trait_list( +def tissue_correlation_for_trait( primary_tissue_vals: List, target_tissues_values: List, corr_method: str, @@ -378,7 +378,7 @@ def compute_all_lit_correlation(conn, trait_lists: List, def compute_all_tissue_correlation(primary_tissue_dict: dict, target_tissues_data: dict, corr_method: str): - """Function acts as an abstraction for tissue_correlation_for_trait_list\ + """Function acts as an abstraction for tissue_correlation_for_trait\ required input are target tissue object and primary tissue trait\ target tissues data contains the trait_symbol_dict and symbol_tissue_vals @@ -398,7 +398,7 @@ def compute_all_tissue_correlation(primary_tissue_dict: dict, target_tissue_vals = target_tissue_obj.get("tissue_values") - tissue_result = tissue_correlation_for_trait_list( + tissue_result = tissue_correlation_for_trait( primary_tissue_vals=primary_tissue_vals, target_tissues_values=target_tissue_vals, trait_id=trait_id, @@ -459,7 +459,7 @@ def compute_tissue_correlation(primary_tissue_dict: dict, with multiprocessing.Pool(4) as pool: results = pool.starmap( - tissue_correlation_for_trait_list, processed_values) + tissue_correlation_for_trait, processed_values) for result in results: tissues_results.append(result) diff --git a/tests/unit/computations/test_correlation.py b/tests/unit/computations/test_correlation.py index 42ab796..e6bc280 100644 --- a/tests/unit/computations/test_correlation.py +++ b/tests/unit/computations/test_correlation.py @@ -11,7 +11,7 @@ from gn3.computations.correlations import compute_sample_r_correlation from gn3.computations.correlations import compute_all_sample_correlation from gn3.computations.correlations import filter_shared_sample_keys from gn3.computations.correlations import tissue_lit_corr_for_probe_type -from gn3.computations.correlations import tissue_correlation_for_trait_list +from gn3.computations.correlations import tissue_correlation_for_trait from gn3.computations.correlations import lit_correlation_for_trait_list from gn3.computations.correlations import fetch_lit_correlation_data from gn3.computations.correlations import query_formatter @@ -227,7 +227,7 @@ class TestCorrelation(TestCase): self.assertEqual(results, (None, None)) @mock.patch("gn3.computations.correlations.compute_corr_coeff_p_value") - def test_tissue_correlation_for_trait_list(self, mock_compute_corr_coeff): + def test_tissue_correlation_for_trait(self, mock_compute_corr_coeff): """Test given a primary tissue values for a trait and and a list of\ target tissues for traits do the tissue correlation for them """ @@ -237,7 +237,7 @@ class TestCorrelation(TestCase): mock_compute_corr_coeff.side_effect = [(0.4, 0.9), (-0.2, 0.91)] expected_tissue_results = {"1456_at": {"tissue_corr": 0.4, "tissue_p_val": 0.9, "tissue_number": 3}} - tissue_results = tissue_correlation_for_trait_list( + tissue_results = tissue_correlation_for_trait( primary_tissue_values, target_tissues_values, corr_method="pearson", trait_id="1456_at", compute_corr_p_value=mock_compute_corr_coeff) @@ -395,7 +395,7 @@ class TestCorrelation(TestCase): self.assertEqual(lit_correlation_results, expected_mocked_lit_results) - @mock.patch("gn3.computations.correlations.tissue_correlation_for_trait_list") + @mock.patch("gn3.computations.correlations.tissue_correlation_for_trait") @mock.patch("gn3.computations.correlations.process_trait_symbol_dict") def test_compute_all_tissue_correlation(self, process_trait_symbol, mock_tissue_corr): """Test for compute all tissue corelation which abstracts |