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authorBonfaceKilz2020-07-30 16:13:39 +0300
committerBonfaceKilz2020-07-30 16:13:39 +0300
commit99fae55d98e7042e0caf29c34fb77ee17efaafa2 (patch)
tree4c6c9ce3d098ce58a8f7187a19fb29cbbd348574
parent81dc6616d3cb52be43e8a9c8341f97ab131fc8e7 (diff)
downloadgenenetwork2-99fae55d98e7042e0caf29c34fb77ee17efaafa2.tar.gz
Add tests for "build_datasets"
* wqflask/tests/api/test_gen_menu.py: Add new tests for "build_datasets" function
-rw-r--r--wqflask/tests/api/test_gen_menu.py66
1 files changed, 66 insertions, 0 deletions
diff --git a/wqflask/tests/api/test_gen_menu.py b/wqflask/tests/api/test_gen_menu.py
index be66a4c6..ec380b6f 100644
--- a/wqflask/tests/api/test_gen_menu.py
+++ b/wqflask/tests/api/test_gen_menu.py
@@ -6,6 +6,7 @@ from wqflask.api.gen_menu import get_species
from wqflask.api.gen_menu import get_groups
from wqflask.api.gen_menu import phenotypes_exist
from wqflask.api.gen_menu import genotypes_exist
+from wqflask.api.gen_menu import build_datasets
class TestGenMenu(unittest.TestCase):
@@ -111,3 +112,68 @@ class TestGenMenu(unittest.TestCase):
db_mock.db.execute.return_value.fetchone.return_value = (x)
self.assertTrue(phenotypes_exist("test"))
+
+ @mock.patch('wqflask.api.gen_menu.g')
+ def test_build_datasets_with_type_phenotypes(self, db_mock):
+ """Test that correct dataset is returned for a phenotype type"""
+ db_mock.db.execute.return_value.fetchall.return_value = (
+ (602, "BXDPublish", "BXD Published Phenotypes"),
+ )
+ self.assertEqual(build_datasets("Mouse", "BXD", "Phenotypes"),
+ [['602', "BXDPublish", "BXD Published Phenotypes"]])
+ db_mock.db.execute.assert_called_with(
+ "SELECT InfoFiles.GN_AccesionId, PublishFreeze.Name, " +
+ "PublishFreeze.FullName FROM InfoFiles, PublishFreeze, " +
+ "InbredSet WHERE InbredSet.Name = 'BXD' AND " +
+ "PublishFreeze.InbredSetId = InbredSet.Id AND " +
+ "InfoFiles.InfoPageName = PublishFreeze.Name " +
+ "ORDER BY PublishFreeze.CreateTime ASC"
+ )
+ self.assertEqual(build_datasets("Mouse", "MDP", "Phenotypes"),
+ [['602', "BXDPublish", "Mouse Phenome Database"]])
+
+ db_mock.db.execute.return_value.fetchall.return_value = ()
+ db_mock.db.execute.return_value.fetchone.return_value = (
+ "BXDPublish", "Mouse Phenome Database"
+ )
+ self.assertEqual(build_datasets("Mouse", "MDP", "Phenotypes"),
+ [["None", "BXDPublish", "Mouse Phenome Database"]])
+
+ @mock.patch('wqflask.api.gen_menu.g')
+ def test_build_datasets_with_type_genotypes(self, db_mock):
+ """Test that correct dataset is returned for a phenotype type"""
+ db_mock.db.execute.return_value.fetchone.return_value = (
+ 635, "HLCPublish", "HLC Published Genotypes"
+ )
+
+ self.assertEqual(build_datasets("Mouse", "HLC", "Genotypes"),
+ [["635", "HLCGeno", "HLC Genotypes"]])
+ db_mock.db.execute.assert_called_with(
+ "SELECT InfoFiles.GN_AccesionId FROM InfoFiles, GenoFreeze, InbredSet " +
+ "WHERE InbredSet.Name = 'HLC' AND GenoFreeze.InbredSetId = InbredSet.Id AND " +
+ "InfoFiles.InfoPageName = GenoFreeze.ShortName " +
+ "ORDER BY GenoFreeze.CreateTime DESC"
+ )
+ db_mock.db.execute.return_value.fetchone.return_value = ()
+ self.assertEqual(build_datasets("Mouse", "HLC", "Genotypes"),
+ [["None", "HLCGeno", "HLC Genotypes"]])
+
+ @mock.patch('wqflask.api.gen_menu.g')
+ def test_build_datasets_with_type_mrna(self, db_mock):
+ """Test that correct dataset is returned for a mRNA expression/ Probeset"""
+ db_mock.db.execute.return_value.fetchall.return_value = (
+ (112, "HC_M2_0606_P",
+ "Hippocampus Consortium M430v2 (Jun06) PDNN"), )
+ self.assertEqual(build_datasets("Mouse", "HLC", "mRNA"), [[
+ "112", 'HC_M2_0606_P', "Hippocampus Consortium M430v2 (Jun06) PDNN"
+ ]])
+ db_mock.db.execute.assert_called_once_with(
+ "SELECT ProbeSetFreeze.Id, ProbeSetFreeze.Name, " +
+ "ProbeSetFreeze.FullName FROM ProbeSetFreeze, " +
+ "ProbeFreeze, InbredSet, Tissue, Species WHERE " +
+ "Species.Name = 'Mouse' AND Species.Id = " +
+ "InbredSet.SpeciesId AND InbredSet.Name = 'HLC' AND " +
+ "ProbeSetFreeze.ProbeFreezeId = ProbeFreeze.Id and " +
+ "Tissue.Name = 'mRNA' AND ProbeFreeze.TissueId = " +
+ "Tissue.Id and ProbeFreeze.InbredSetId = InbredSet.Id " +
+ "ORDER BY ProbeSetFreeze.CreateTime DESC")