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authorMuriithi Frederick Muriuki2021-08-04 09:43:20 +0300
committerMuriithi Frederick Muriuki2021-08-04 09:43:20 +0300
commit7ab35adb5afb242092e25763474c747e267ded81 (patch)
treee85fd8ed4e8ad78d33b142e231689abe4ccdb6ed /tests/unit/db
parent630488edfd75c428dc18e09d9336c6f16531130d (diff)
downloadgenenetwork3-7ab35adb5afb242092e25763474c747e267ded81.tar.gz
Update tests
Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * Update the tests to deal with changes in the code.
Diffstat (limited to 'tests/unit/db')
-rw-r--r--tests/unit/db/test_traits.py36
1 files changed, 22 insertions, 14 deletions
diff --git a/tests/unit/db/test_traits.py b/tests/unit/db/test_traits.py
index 2a52ea6..3840dd1 100644
--- a/tests/unit/db/test_traits.py
+++ b/tests/unit/db/test_traits.py
@@ -14,13 +14,15 @@ class TestTraitsDBFunctions(TestCase):
def test_retrieve_trait_dataset_name(self):
"""Test that the function is called correctly."""
- for trait_type, thresh, trait_dataset_name, columns in [
+ for trait_type, thresh, trait_dataset_name, columns, table in [
["ProbeSet", 9, "testName",
- "Id, Name, FullName, ShortName, DataScale"],
- ["Geno", 3, "genoTraitName", "Id, Name, FullName, ShortName"],
+ "Id, Name, FullName, ShortName, DataScale", "ProbeSetFreeze"],
+ ["Geno", 3, "genoTraitName", "Id, Name, FullName, ShortName",
+ "GenoFreeze"],
["Publish", 6, "publishTraitName",
- "Id, Name, FullName, ShortName"],
- ["Temp", 4, "tempTraitName", "Id, Name, FullName, ShortName"]]:
+ "Id, Name, FullName, ShortName", "PublishFreeze"],
+ ["Temp", 4, "tempTraitName", "Id, Name, FullName, ShortName",
+ "TempFreeze"]]:
db_mock = mock.MagicMock()
with self.subTest(trait_type=trait_type):
with db_mock.cursor() as cursor:
@@ -33,12 +35,13 @@ class TestTraitsDBFunctions(TestCase):
("testName", "testNameFull", "testNameShort",
"dataScale"))
cursor.execute.assert_called_once_with(
- "SELECT {cols} "
- "FROM {ttype}Freeze "
+ "SELECT %(columns)s "
+ "FROM %(table)s "
"WHERE public > %(threshold)s AND "
"(Name = %(name)s OR FullName = %(name)s OR ShortName = %(name)s)".format(
cols=columns, ttype=trait_type),
- {"threshold": thresh, "name": trait_dataset_name})
+ {"threshold": thresh, "name": trait_dataset_name,
+ "table": table, "columns": columns})
def test_retrieve_publish_trait_info(self):
"""Test retrieval of type `Publish` traits."""
@@ -147,11 +150,16 @@ class TestTraitsDBFunctions(TestCase):
def test_retrieve_trait_info(self):
"""Test that information on traits is retrieved as appropriate."""
- for trait_type, trait_name, trait_dataset_id, trait_dataset_name, in [
- ["Publish", "PublishTraitName", 1, "PublishDatasetTraitName"],
- ["ProbeSet", "ProbeSetTraitName", 2, "ProbeSetDatasetTraitName"],
- ["Geno", "GenoTraitName", 3, "GenoDatasetTraitName"],
- ["Temp", "TempTraitName", 4, "TempDatasetTraitName"]]:
+ for trait_type, trait_name, trait_dataset_id, trait_dataset_name, expected in [
+ ["Publish", "PublishTraitName", 1, "PublishDatasetTraitName",
+ {"haveinfo": 0, "homologeneid": None, "type": "Publish",
+ "confidential": 0}],
+ ["ProbeSet", "ProbeSetTraitName", 2, "ProbeSetDatasetTraitName",
+ {"haveinfo": 0, "homologeneid": None, "type": "ProbeSet"}],
+ ["Geno", "GenoTraitName", 3, "GenoDatasetTraitName",
+ {"haveinfo": 0, "homologeneid": None, "type": "Geno"}],
+ ["Temp", "TempTraitName", 4, "TempDatasetTraitName",
+ {"haveinfo": 0, "homologeneid": None, "type": "Temp"}]]:
db_mock = mock.MagicMock()
with self.subTest(trait_type=trait_type):
with db_mock.cursor() as cursor:
@@ -160,7 +168,7 @@ class TestTraitsDBFunctions(TestCase):
retrieve_trait_info(
trait_type, trait_name, trait_dataset_id,
trait_dataset_name, db_mock),
- {})
+ expected)
def test_update_sample_data(self):
"""Test that the SQL queries when calling update_sample_data are called with