"""module contains tests from datasets""" from unittest import TestCase from unittest import mock from gn3.computations.datasets import retrieve_trait_sample_data from gn3.computations.datasets import get_query_for_dataset_sample from gn3.computations.datasets import fetch_from_db_sample_data class TestDatasets(TestCase): """class contains tests for datasets""" @mock.patch("gn3.computations.datasets.fetch_from_db_sample_data") def test_retrieve_trait_sample_data(self, mock_fetch_sample_results): """test retrieving sample data\ for trait from the dataset""" trait_name = "1419792_at" dataset_id = "HC_M2_0606_P&" dataset_type = "Publish" dataset = { "id": dataset_id, "type": dataset_type, "name": dataset_id } fetch_results = [('BXD32', 8.001, None, None, 'BXD32')] mock_fetch_sample_results.return_value = fetch_results results = retrieve_trait_sample_data( dataset, trait_name) self.assertEqual(mock_fetch_sample_results.call_count, 1) self.assertEqual(results, fetch_results) def test_query_for_dataset_sample(self): """test for getting query for sample data""" no_results = get_query_for_dataset_sample("does not exists") query_exists = get_query_for_dataset_sample("Publish") self.assertEqual(no_results, None) self.assertIsInstance(query_exists, str) def test_fetch_from_db_sample_data(self): """test for function that fetches sample\ results from the database""" database_results = [('BXD31', 8.001, None, None, 'BXD31'), ('BXD32', 7.884, None, None, 'BXD32'), ('BXD42', 7.682, None, None, 'BXD42'), ('BXD42', 7.682, None, None, 'BXD42'), ('BXD40', 7.945, None, None, 'BXD40'), ('BXD43', 7.873, None, None, 'BXD43') ] database = mock.Mock() db_cursor = mock.Mock() db_cursor.execute.return_value = 6 db_cursor.fetchall.return_value = database_results database.cursor.return_value = db_cursor mock_pheno_query = """ SELECT Strain.Name, PublishData.value, PublishSE.error,NStrain.count, Strain.Name2 WHERE PublishXRef.InbredSetId = PublishFreeze.InbredSetId AND PublishData.Id = PublishXRef.DataId AND PublishXRef.Id = 1419792_at AND PublishFreeze.Id = '12' AND PublishData.StrainId = Strain.Id Order BY Strain.Name """ fetch_results = fetch_from_db_sample_data(mock_pheno_query, database) self.assertEqual(fetch_results, database_results)