Merge pull request #472 from Alexanderlacuna/test-branch

Adding more Test for show_trait module

1 files changed, 118 insertions, 0 deletions

diff --git a/wqflask/tests/wqflask/show_trait/test_export_trait_data.py b/wqflask/tests/wqflask/show_trait/test_export_trait_data.py
index 98d599b1..41761944 100644
--- a/wqflask/tests/wqflask/show_trait/test_export_trait_data.py
+++ b/wqflask/tests/wqflask/show_trait/test_export_trait_data.py
@@ -1,10 +1,128 @@
 import unittest
+from unittest import mock
 from wqflask.show_trait.export_trait_data import dict_to_sorted_list
 from wqflask.show_trait.export_trait_data import cmp_samples
+from wqflask.show_trait.export_trait_data import export_sample_table
+from wqflask.show_trait.export_trait_data import get_export_metadata
+
+
+class AttributesSetter:
+    def __init__(self, obj):
+        for key, value in obj.items():
+            setattr(self, key, value)
 
 
 class TestExportTraits(unittest.TestCase):
     """Test methods related to converting dict to sortedlist"""
+    @mock.patch("wqflask.show_trait.export_trait_data.create_trait")
+    @mock.patch("wqflask.show_trait.export_trait_data.data_set")
+    def test_get_export_metadata_no_publish(self, mock_dataset, mock_trait):
+        """test for exporting metadata with no publish"""
+        mock_dataset_attributes = AttributesSetter(
+            {"type": "no_publish", "dataset_name": "Temp", "name": "Temp"})
+
+        mock_nested_attributes = AttributesSetter({"name": "name"})
+        mock_dataset_attributes.group = mock_nested_attributes
+        mock_dataset.create_dataset.return_value = mock_dataset_attributes
+        mock_trait.return_value = AttributesSetter({"symbol": "", "description_display": "Description",
+                                                    "title": "research1", "journal": "", "authors": ""})
+
+        results = get_export_metadata("random_id", "Temp")
+        expected = [["Record ID: random_id"],
+                    ["Trait URL: http://genenetwork.org/show_trait?trait_id=random_id&dataset=Temp"],
+                    ["Dataset: Temp"],
+                    ["Group: name"], []]
+
+        mock_dataset.create_dataset.assert_called_with("Temp")
+        mock_trait.assert_called_with(
+            dataset=mock_dataset_attributes, name="random_id", cellid=None, get_qtl_info=False)
+        self.assertEqual(results, expected)
+
+    @mock.patch("wqflask.show_trait.export_trait_data.create_trait")
+    @mock.patch("wqflask.show_trait.export_trait_data.data_set")
+    def test_get_export_metadata_with_publish(self, data_mock, trait_mock):
+        """test for exporting metadata with dataset.type=Publish"""
+        mock_dataset_attributes = AttributesSetter({"type": "Publish", "dataset_name": "Temp",
+                                                    "name": "Temp", "description_display": "Description goes here"})
+
+        mock_nested_attributes = AttributesSetter({"name": "name"})
+        mock_dataset_attributes.group = mock_nested_attributes
+        data_mock.create_dataset.return_value = mock_dataset_attributes
+        trait_instance = AttributesSetter({"symbol": "", "description_display": "Description",
+                                           "title": "research1", "journal": "", "authors": ""})
+        trait_mock.return_value = trait_instance
+
+        results = get_export_metadata(
+            "29ae0615-0d77-4814-97c7-c9e91f6bfd7b", "Temp")
+
+        expected = [['Phenotype ID: 29ae0615-0d77-4814-97c7-c9e91f6bfd7b'],
+                    ['Phenotype URL: http://genenetwork.org/show_trait?trait_id=29ae0615-0d77-4814-97c7-c9e91f6bfd7b&dataset=Temp'], [
+                        'Group: name'], ['Phenotype: Description'],
+                    ['Authors: N/A'], ['Title: research1'],
+                    ['Journal: N/A'], ['Dataset Link: http://gn1.genenetwork.org/webqtl/main.py?FormID=sharinginfo&InfoPageName=Temp'], []]
+
+        self.assertEqual(results, expected)
+
+    @mock.patch("wqflask.show_trait.export_trait_data.dict_to_sorted_list")
+    @mock.patch("wqflask.show_trait.export_trait_data.get_export_metadata")
+    def test_export_sample_table(self, exp_metadata, dict_list):
+        """test for  exporting sample table"""
+        targs_obj = {
+            "export_data": """{
+                "primary_samples": [
+                    {
+                        "other": "germanotta",
+                        "name": "Sauroniops",
+                        "se":{
+                        "name":"S2"
+                        },
+                        "num_cases":{
+                        "k1":"value"
+
+                        }
+                    }
+                ],
+                "other_samples": [
+                    {
+                        "se": 1,
+                        "num_cases": 4,
+                        "value": 6,
+                        "name": 3
+                    }
+                ]
+            }""",
+            "trait_display_name": "Hair_color",
+            "trait_id": "23177fdc-312e-4084-ad0c-f3eae785fff5",
+            "dataset": {
+            }
+        }
+        exp_metadata.return_value = [
+            ["Phenotype ID:0a2be192-57f5-400b-bbbd-0cf50135995f"], ['Group:gp1'],
+            ["Phenotype:p1"], [
+                "Authors:N/A"],
+            ["Title:research1"],
+            ["Journal:N/A"],
+            ["Dataset Link: http://gn1.genenetwork.org/webqtl/main.py?FormID=sharinginfo&InfoPageName=name1"], []]
+        expected = ('Hair_color',
+                    [['Phenotype ID:0a2be192-57f5-400b-bbbd-0cf50135995f'],
+                     ['Group:gp1'],
+                     ['Phenotype:p1'],
+                     ['Authors:N/A'],
+                     ['Title:research1'],
+                     ['Journal:N/A'],
+                     ['Dataset Link: '
+                      'http://gn1.genenetwork.org/webqtl/main.py?FormID=sharinginfo&InfoPageName=name1'],
+                     [],
+                     ['Name', 'Value', 'SE', 'N'],
+                     ['Sauroniops', 'germanotta'],
+                     [3, 6, 1, 4]])
+
+        dict_list.side_effect = [['Sauroniops', 'germanotta'], [3, 6, 1, 4]]
+
+        self.assertEqual(export_sample_table(targs_obj), expected)
+        exp_metadata.assert_called_with(
+            "23177fdc-312e-4084-ad0c-f3eae785fff5", {})
+        self.assertEqual(dict_list.call_count, 2)
 
     def test_dict_to_sortedlist(self):
         """test for conversion of dict to sorted list"""