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authorBonfaceKilz2020-07-27 19:10:36 +0300
committerBonfaceKilz2020-07-27 19:10:36 +0300
commit79b8cf45c1c40b9c20278762b6e8f587a2820b43 (patch)
treeef5c9815d037cbf0358ea585f73c17f7b4795f4f /wqflask/tests/base/test_data_set.py
parent441e2dfa2772794673b69cc72f8561fc026d077b (diff)
downloadgenenetwork2-79b8cf45c1c40b9c20278762b6e8f587a2820b43.tar.gz
Test that non-existent keys in Dataset are set correctly
* wqflask/tests/base/test_data_set.py: Add more tests.
Diffstat (limited to 'wqflask/tests/base/test_data_set.py')
-rw-r--r--wqflask/tests/base/test_data_set.py103
1 files changed, 90 insertions, 13 deletions
diff --git a/wqflask/tests/base/test_data_set.py b/wqflask/tests/base/test_data_set.py
index 3ac1b6d6..94780a5d 100644
--- a/wqflask/tests/base/test_data_set.py
+++ b/wqflask/tests/base/test_data_set.py
@@ -12,6 +12,19 @@ class TestDataSetTypes(unittest.TestCase):
"""Tests for the DataSetType class"""
def setUp(self):
+ self.test_dataset = """
+ {
+ "AD-cases-controls-MyersGeno": "Geno",
+ "AD-cases-controls-MyersPublish": "Publish",
+ "AKXDGeno": "Geno",
+ "AXBXAGeno": "Geno",
+ "AXBXAPublish": "Publish",
+ "Aging-Brain-UCIPublish": "Publish",
+ "All Phenotypes": "Publish",
+ "B139_K_1206_M": "ProbeSet",
+ "B139_K_1206_R": "ProbeSet"
+ }
+ """
self.app_context = app.app_context()
self.app_context.push()
@@ -27,19 +40,7 @@ class TestDataSetTypes(unittest.TestCase):
with app.app_context():
db_mock.get = mock.Mock()
redis_mock = mock.Mock()
- redis_mock.get.return_value = """
- {
- "AD-cases-controls-MyersGeno": "Geno",
- "AD-cases-controls-MyersPublish": "Publish",
- "AKXDGeno": "Geno",
- "AXBXAGeno": "Geno",
- "AXBXAPublish": "Publish",
- "Aging-Brain-UCIPublish": "Publish",
- "All Phenotypes": "Publish",
- "B139_K_1206_M": "ProbeSet",
- "B139_K_1206_R": "ProbeSet"
- }
- """
+ redis_mock.get.return_value = self.test_dataset
self.assertEqual(DatasetType(redis_mock)
("All Phenotypes"), "Publish")
redis_mock.get.assert_called_once_with("dataset_structure")
@@ -61,3 +62,79 @@ class TestDataSetTypes(unittest.TestCase):
redis_mock.set.assert_called_once_with(
"dataset_structure",
'{"BXDGeno": "Geno", "BXDPublish": "Publish", "HLCPublish": "Publish", "HLC_0311": "ProbeSet", "HC_M2_0606_P": "ProbeSet"}')
+
+ @mock.patch('base.data_set.g')
+ def test_set_dataset_key_mrna(self, db_mock):
+ with app.app_context():
+ db_mock.db.execute.return_value = [1, 2, 3]
+ redis_mock = mock.Mock()
+ redis_mock.get.return_value = self.test_dataset
+ data_set = DatasetType(redis_mock)
+ data_set.set_dataset_key("mrna_expr", "Test")
+ self.assertEqual(data_set("Test"), "ProbeSet")
+ redis_mock.set.assert_called_once_with(
+ "dataset_structure",
+ '{"Aging-Brain-UCIPublish": "Publish", "AKXDGeno": "Geno", "B139_K_1206_M": "ProbeSet", "AD-cases-controls-MyersGeno": "Geno", "AD-cases-controls-MyersPublish": "Publish", "All Phenotypes": "Publish", "Test": "ProbeSet", "AXBXAPublish": "Publish", "B139_K_1206_R": "ProbeSet", "AXBXAGeno": "Geno"}')
+ expected_db_call = """"""
+ db_mock.db.execute.assert_called_with(
+ ("SELECT ProbeSetFreeze.Id FROM ProbeSetFreeze " +
+ "WHERE ProbeSetFreeze.Name = \"Test\" ")
+ )
+
+ @mock.patch('base.data_set.g')
+ def test_set_dataset_key_pheno(self, db_mock):
+ with app.app_context():
+ db_mock.db.execute.return_value = [1, 2, 3]
+ redis_mock = mock.Mock()
+ redis_mock.get.return_value = self.test_dataset
+ data_set = DatasetType(redis_mock)
+ data_set.set_dataset_key("pheno", "Test")
+ self.assertEqual(data_set("Test"), "Publish")
+ redis_mock.set.assert_called_once_with(
+ "dataset_structure",
+ '{"Aging-Brain-UCIPublish": "Publish", "AKXDGeno": "Geno", "B139_K_1206_M": "ProbeSet", "AD-cases-controls-MyersGeno": "Geno", "AD-cases-controls-MyersPublish": "Publish", "All Phenotypes": "Publish", "Test": "Publish", "AXBXAPublish": "Publish", "B139_K_1206_R": "ProbeSet", "AXBXAGeno": "Geno"}')
+ expected_db_call = """"""
+ db_mock.db.execute.assert_called_with(
+ ("SELECT InfoFiles.GN_AccesionId " +
+ "FROM InfoFiles, PublishFreeze, InbredSet " +
+ "WHERE InbredSet.Name = 'Test' AND "
+ "PublishFreeze.InbredSetId = InbredSet.Id AND " +
+ "InfoFiles.InfoPageName = PublishFreeze.Name")
+ )
+
+ @mock.patch('base.data_set.g')
+ def test_set_dataset_other_pheno(self, db_mock):
+ with app.app_context():
+ db_mock.db.execute.return_value = [1, 2, 3]
+ redis_mock = mock.Mock()
+ redis_mock.get.return_value = self.test_dataset
+ data_set = DatasetType(redis_mock)
+ data_set.set_dataset_key("other_pheno", "Test")
+ self.assertEqual(data_set("Test"), "Publish")
+ redis_mock.set.assert_called_once_with(
+ "dataset_structure",
+ '{"Aging-Brain-UCIPublish": "Publish", "AKXDGeno": "Geno", "B139_K_1206_M": "ProbeSet", "AD-cases-controls-MyersGeno": "Geno", "AD-cases-controls-MyersPublish": "Publish", "All Phenotypes": "Publish", "Test": "Publish", "AXBXAPublish": "Publish", "B139_K_1206_R": "ProbeSet", "AXBXAGeno": "Geno"}')
+ expected_db_call = """"""
+ db_mock.db.execute.assert_called_with(
+ ("SELECT PublishFreeze.Name " +
+ "FROM PublishFreeze, InbredSet " +
+ "WHERE InbredSet.Name = 'Test' AND "
+ "PublishFreeze.InbredSetId = InbredSet.Id")
+ )
+
+ @mock.patch('base.data_set.g')
+ def test_set_dataset_geno(self, db_mock):
+ with app.app_context():
+ db_mock.db.execute.return_value = [1, 2, 3]
+ redis_mock = mock.Mock()
+ redis_mock.get.return_value = self.test_dataset
+ data_set = DatasetType(redis_mock)
+ data_set.set_dataset_key("geno", "Test")
+ self.assertEqual(data_set("Test"), "Geno")
+ redis_mock.set.assert_called_once_with(
+ "dataset_structure",
+ '{"Aging-Brain-UCIPublish": "Publish", "AKXDGeno": "Geno", "B139_K_1206_M": "ProbeSet", "AD-cases-controls-MyersGeno": "Geno", "AD-cases-controls-MyersPublish": "Publish", "All Phenotypes": "Publish", "Test": "Geno", "AXBXAPublish": "Publish", "B139_K_1206_R": "ProbeSet", "AXBXAGeno": "Geno"}')
+ expected_db_call = """"""
+ db_mock.db.execute.assert_called_with(
+ ("SELECT GenoFreeze.Id FROM GenoFreeze WHERE GenoFreeze.Name = \"Test\" ")
+ )