diff options
Diffstat (limited to 'wqflask')
| -rw-r--r-- | wqflask/tests/wqflask/show_trait/test_show_trait.py | 21 |
1 files changed, 0 insertions, 21 deletions
diff --git a/wqflask/tests/wqflask/show_trait/test_show_trait.py b/wqflask/tests/wqflask/show_trait/test_show_trait.py index 70061e2d..ce850c8b 100644 --- a/wqflask/tests/wqflask/show_trait/test_show_trait.py +++ b/wqflask/tests/wqflask/show_trait/test_show_trait.py @@ -67,11 +67,8 @@ class TestTraits(unittest.TestCase): } } """ - get_return_obj = TraitObject({"content": content_json_string}) - mock_get.return_value = get_return_obj - results = get_ncbi_summary(trait) mock_exists.assert_called_once() mock_get.assert_called_once_with(f"http://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=gene&id={trait.geneid}&retmode=json") @@ -93,7 +90,6 @@ class TestTraits(unittest.TestCase): } } """ - results = get_ncbi_summary(trait) self.assertEqual(results, None) @@ -101,13 +97,11 @@ class TestTraits(unittest.TestCase): """test for hash num_cases with dataset.type set to Probeset""" create_dataset = TraitObject({"type": "ProbeSet"}) create_trait = TraitObject({"dataset": create_dataset}) - self.assertFalse(has_num_cases(create_trait)) def test_hash_num_cases_no_probeset(self): """test for hash num cases with dataset.type not Probeset""" create_dataset = TraitObject({"type": "Temp"}) - construct_data = { "nm1": TraitObject({"num_cases": False}), "nm2": TraitObject({"num_cases": True}), @@ -125,7 +119,6 @@ class TestTraits(unittest.TestCase): {"dataset": create_dataset, "data": construct_data2}) results = has_num_cases(create_trait) - self.assertTrue(has_num_cases(create_trait)) self.assertFalse(has_num_cases(create_trait2)) @@ -144,7 +137,6 @@ class TestTraits(unittest.TestCase): expected_with_numcase = (450, "750px") expected_no_numcase = (450, "670px") expected_one_sample = (250, "540px") - self.assertEqual(results_with_numcase, expected_with_numcase) self.assertEqual(result_no_numcase, expected_no_numcase) self.assertEqual(results_one_sample, @@ -154,7 +146,6 @@ class TestTraits(unittest.TestCase): """test for getting categorical variable names with no samples""" trait = TraitObject({}) sample_list = TraitObject({"se_exists": True, "attributes": []}) - self.assertEqual(get_categorical_variables(trait, sample_list), []) def test_get_categorical_variables_with_sample_attributes(self): @@ -179,9 +170,7 @@ class TestTraits(unittest.TestCase): """test for getting trait units""" trait = TraitObject( {"description_fmt": "[this is a description] another test [N/A]"}) - trait_no_unit_type = TraitObject({"description_fmt": ""}) - results = get_trait_units(trait) results_no_unit = get_trait_units(trait_no_unit_type) self.assertEqual(results, "this is a descriptionN/A") @@ -195,13 +184,9 @@ class TestTraits(unittest.TestCase): ["Geno1", "Geno2"], ["Geno3"]] trait = TraitObject({"locus_chr": "test_chr", "locus_mb": "test_mb"}) - group_name = TraitObject({"name": "group_name"}) - this_db = TraitObject({"group": group_name}) - results_with_item_db = get_nearest_marker(trait, this_db) - called_with_value = """SELECT Geno.Name FROM Geno, GenoXRef, GenoFreeze WHERE Geno.Chr = 'test_chr' AND @@ -218,11 +203,9 @@ class TestTraits(unittest.TestCase): def test_get_nearest_marker_empty_db(self, mock_db): """test for getting nearest marker with empty db""" mock_db.db.execute.return_value.fetchall.return_value = [] - trait = TraitObject({"locus_chr": "test_chr", "locus_mb": "test_mb"}) group_name = TraitObject({"name": "group_name"}) this_db = TraitObject({"group": group_name}) - results_empty_db = get_nearest_marker(trait, this_db) mock_db.db.execute.assert_called_once() self.assertEqual(results_empty_db, "") @@ -240,7 +223,6 @@ class TestTraits(unittest.TestCase): [["physic", "Mb"]]] results = get_genotype_scales(genofiles_list) - expected_results = { "~/data/files/f1": [["morgan", "cM"]], "~/data/files/f2": [["morgan", "cM"]], @@ -249,7 +231,6 @@ class TestTraits(unittest.TestCase): multiple_calls = [mock.call('~/data/files/f1'), mock.call('~/data/files/f2'), mock.call('~/data/files/f3')] - mock_get_scales.assert_has_calls(multiple_calls) self.assertEqual(results, expected_results) @@ -258,8 +239,6 @@ class TestTraits(unittest.TestCase): """test for getting genotype scales with genofile as a string""" file_location = "~/another_file_location" mock_get_scales.return_value = [["physic", "Mb"]] - expected_results = {f"{file_location}": [["physic", "Mb"]]} - self.assertEqual(get_genotype_scales(file_location), expected_results) mock_get_scales.assert_called_once_with(file_location) |