Updated test_anndata_enricher.py test_graph_generator.py

test/graph_generator/test_graph_generator.py

@@ -54,7 +54,9 @@ def graph_generator_instance_for_kidney(enrichment_analyzer_instance_for_kidney_
     return GraphGenerator(ea)
 
 
-def test_graph_generator_init_missing_enrichment_process(enrichment_analyzer_instance_for_immune_data):
+def test_graph_generator_init_missing_enrichment_process(
+    enrichment_analyzer_instance_for_immune_data,
+):
     ea = enrichment_analyzer_instance_for_immune_data
     ea.co_annotation_report()
 
@@ -72,7 +74,9 @@ def test_graph_generator_init_missing_enrichment_process(enrichment_analyzer_ins
     assert exception.args[0] == expected_message
 
 
-def test_graph_generator_init_missing_analysis_process(enrichment_analyzer_instance_for_immune_data):
+def test_graph_generator_init_missing_analysis_process(
+    enrichment_analyzer_instance_for_immune_data,
+):
     ea = enrichment_analyzer_instance_for_immune_data
     ea.enricher_manager.simple_enrichment()
 
@@ -119,7 +123,7 @@ def test_graph_generator_init_with_valid_input(enrichment_analyzer_instance_for_
 def test_generate_rdf_graph(graph_generator_instance_for_kidney):
     graph_generator = graph_generator_instance_for_kidney
     graph_generator.generate_rdf_graph()
-    assert len(graph_generator.graph) == 441
+    assert len(graph_generator.graph) == 433
     assert (
         len([[s, p, o] for s, p, o in graph_generator.graph.triples((None, RDF.type, None))]) == 95
     )
@@ -135,7 +139,7 @@ def test_generate_rdf_graph(graph_generator_instance_for_kidney):
                 )
             ]
         )
-        == 85
+        == 77
     )
     assert (
         len(
@@ -161,11 +165,11 @@ def test_enrich_rdf_graph(graph_generator_instance_for_kidney):
     graph_generator = graph_generator_instance_for_kidney
     graph_generator.generate_rdf_graph()
 
-    assert len(graph_generator.graph) == 441
+    assert len(graph_generator.graph) == 433
 
     graph_generator.enrich_rdf_graph()
 
-    assert len(graph_generator.graph) == 1024
+    assert len(graph_generator.graph) == 903
     assert (
         URIRef(CONSIST_OF.get("iri")),
         RDFS.label,
@@ -182,7 +186,7 @@ def test_enrich_rdf_graph(graph_generator_instance_for_kidney):
                 if str(s).startswith("http://purl.obolibrary.org/obo/CL_")
             ]
         )
-        == 530
+        == 417
     )
 
 

test/test_anndata_enricher.py

@@ -39,7 +39,15 @@ def slim_data():
     ]
 
 
-def test_init_defaults(sample_immune_data, slim_data):
+def test_init_defaults(mocker, sample_immune_data, slim_data):
+    iterable_slim_data = slim_data
+    mocker.patch.object(
+        SlimManager,
+        "get_slim_list",
+        side_effect=[
+            iter(iterable_slim_data),
+        ],
+    )
     # Test initialization with default values
     enricher = AnndataEnricher(sample_immune_data)