From 6bc8086bdbe1e1066ee719d4aded89ee4d740092 Mon Sep 17 00:00:00 2001 From: Yasemin Bridges Date: Wed, 4 Oct 2023 11:42:32 +0100 Subject: [PATCH] adding tests for post-processing outputs --- tests/test_post_process_results_format.py | 39 +++++++++++++++++++++++ 1 file changed, 39 insertions(+) create mode 100644 tests/test_post_process_results_format.py diff --git a/tests/test_post_process_results_format.py b/tests/test_post_process_results_format.py new file mode 100644 index 0000000..60824f9 --- /dev/null +++ b/tests/test_post_process_results_format.py @@ -0,0 +1,39 @@ +import unittest + +import pandas as pd +from pheval.post_processing.post_processing import PhEvalGeneResult + +from pheval_gado.post_process.post_process_results_format import PhEvalGeneResultFromGADOCreator + +gado_result = pd.DataFrame( + {'Ensg': {0: 'ENSG00000105607', 1: 'ENSG00000091483', 2: 'ENSG00000156709', 3: 'ENSG00000171503'}, + 'Hgnc': {0: 'GCDH', 1: 'FH', 2: 'AIFM1', 3: 'ETFDH'}, 'Rank': {0: 1, 1: 2, 2: 3, 3: 4}, + 'Zscore': {0: 8.588, 1: 8.53, 2: 8.47, 3: 8.317}, 'HP:0000256': {0: 3.0, 1: 3.0, 2: 2.67, 3: 3.0}, + 'HP:0002059': {0: 3.159, 1: 3.0, 2: 3.0, 3: 1.549}, 'HP:0002170': {0: 3.0, 1: 3.0, 2: 2.98, 3: 1.622}, + 'HP:0003215': {0: 5.55, 1: 5.962, 2: 5.668, 3: 7.842}, 'HP:0001332': {0: 4.494, 1: 4.111, 2: 4.621, 3: 4.585}}) + +gado_entry = gado_result.iloc[0] + + +class TestPhEvalGeneResultFromGADOCreator(unittest.TestCase): + + @classmethod + def setUpClass(cls) -> None: + cls.gado_converter = PhEvalGeneResultFromGADOCreator(gado_result) + + def test__find_gene_identifier(self): + self.assertEqual(self.gado_converter._find_gene_identifier(gado_entry), "ENSG00000105607") + + def test__find_gene_symbol(self): + self.assertEqual(self.gado_converter._find_gene_symbol(gado_entry), "GCDH") + + def test__find_score(self): + self.assertEqual(self.gado_converter._find_score(gado_entry), 8.588) + + def test_extract_pheval_gene_requirements(self): + self.assertEqual(self.gado_converter.extract_pheval_gene_requirements(), + [PhEvalGeneResult(gene_symbol='GCDH', gene_identifier='ENSG00000105607', score=8.588), + PhEvalGeneResult(gene_symbol='FH', gene_identifier='ENSG00000091483', score=8.53), + PhEvalGeneResult(gene_symbol='AIFM1', gene_identifier='ENSG00000156709', score=8.47), + PhEvalGeneResult(gene_symbol='ETFDH', gene_identifier='ENSG00000171503', score=8.317)] + )