add unit testsfor api/correlation.py

1 files changed, 83 insertions, 0 deletions

diff --git a/wqflask/tests/unit/wqflask/api/test_correlation.py b/wqflask/tests/unit/wqflask/api/test_correlation.py
new file mode 100644
index 00000000..482dec67
--- /dev/null
+++ b/wqflask/tests/unit/wqflask/api/test_correlation.py
@@ -0,0 +1,83 @@
+import unittest
+from unittest import mock
+from wqflask import app
+from wqflask.api.correlation import init_corr_params
+from wqflask.api.correlation import convert_to_mouse_gene_id
+from wqflask.api.correlation import do_literature_correlation_for_all_traits
+
+
+class AttributeSetter:
+    def __init__(self, obj):
+        for k, v in obj.items():
+            setattr(self, k, v)
+
+
+class TestCorrelations(unittest.TestCase):
+    def setUp(self):
+        self.app_context = app.app_context()
+        self.app_context.push()
+
+    def tearDown(self):
+        self.app_context.pop()
+
+    def test_init_corr_params(self):
+        start_vars = {
+            "return_count": "3",
+            "type": "T1",
+            "method": "spearman"
+        }
+
+        corr_params_results = init_corr_params(start_vars=start_vars)
+        expected_results = {
+            "return_count": 3,
+            "type": "T1",
+            "method": "spearman"
+        }
+
+        self.assertEqual(corr_params_results, expected_results)
+
+    @mock.patch("wqflask.api.correlation.g")
+    def test_convert_to_mouse_gene_id(self, mock_db):
+
+        results = convert_to_mouse_gene_id(species="Other", gene_id="")
+        self.assertEqual(results, None)
+
+        rat_species_results = convert_to_mouse_gene_id(
+            species="rat", gene_id="GH1")
+
+        mock_db.db.execute.return_value.fetchone.side_effect = [AttributeSetter({"mouse": "MG-1"}),AttributeSetter({"mouse":"MG-2"})]
+                                          
+        self.assertEqual(convert_to_mouse_gene_id(
+            species="mouse", gene_id="MG-4"), "MG-4")
+        self.assertEqual(convert_to_mouse_gene_id(
+            species="rat", gene_id="R1"), "MG-1")
+        self.assertEqual(convert_to_mouse_gene_id(
+            species="human", gene_id="H1"), "MG-2")
+
+    
+    
+    @mock.patch("wqflask.api.correlation.g")
+    @mock.patch("wqflask.api.correlation.convert_to_mouse_gene_id")
+    def test_do_literature_correlation_for_all_traits(self,mock_convert_to_mouse_geneid,mock_db):
+    	mock_convert_to_mouse_geneid.side_effect=["MG-1","MG-2;","MG-3","MG-4"]
+   
+
+    	trait_geneid_dict={
+    	 "TT-1":"GH-1",
+    	 "TT-2":"GH-2",
+    	 "TT-3":"GH-3"
+
+    	}
+    	mock_db.db.execute.return_value.fetchone.side_effect=[AttributeSetter({"value":"V1"}),AttributeSetter({"value":"V2"}),AttributeSetter({"value":"V3"})]
+
+
+    	this_trait=AttributeSetter({"geneid":"GH-1"})
+
+    	target_dataset=AttributeSetter({"group":AttributeSetter({"species":"rat"})})
+    	results=do_literature_correlation_for_all_traits(this_trait=this_trait,target_dataset=target_dataset,trait_geneid_dict=trait_geneid_dict,corr_params={})
+
+    	expected_results={'TT-1': ['GH-1', 0], 'TT-2': ['GH-2', 'V1'], 'TT-3': ['GH-3', 'V2']}
+    	self.assertEqual(results,expected_results)
+
+
+