Examples update

Author: alex-omophub

examples/map_between_vocabularies.py

@@ -16,8 +16,7 @@ def get_mappings() -> None:
 
         result = client.mappings.get(
             concept_id,
-            target_vocabularies=["ICD10CM", "Read", "ICD9CM"],
-            include_mapping_quality=True,
+            target_vocabulary="ICD10CM",
         )
 
         source = result.get("source_concept", {})
@@ -32,12 +31,8 @@ def get_mappings() -> None:
             target_vocab = m.get("target_vocabulary_id", "?")
             target_code = m.get("target_concept_code", "?")
             target_name = m.get("target_concept_name", "?")
-            # Access confidence via quality when available
-            quality = m.get("quality", {})
-            confidence = quality.get("confidence_score", "N/A") if quality else "N/A"
             print(f"\n  [{target_vocab}] {target_code}")
             print(f"    Name: {target_name}")
-            print(f"    Confidence: {confidence}")
     except omophub.OMOPHubError as e:
         print(f"API error: {e.message}")
     finally:
@@ -89,14 +84,11 @@ def lookup_by_code() -> None:
         print(f"  Vocabulary: {concept.get('vocabulary_id', 'Unknown')}")
         print(f"  Standard: {concept.get('standard_concept', 'N/A')}")
 
-        # If it's not a standard concept, find mappings to standard concepts
+        # If it's not a standard concept, find mappings
         if concept.get("standard_concept") != "S":
-            mappings = client.mappings.get(
-                concept.get("concept_id", 0),
-                standard_only=True,
-            )
+            mappings = client.mappings.get(concept.get("concept_id", 0))
 
-            print("\n  Standard mappings:")
+            print("\n  Mappings to other vocabularies:")
             for m in mappings.get("mappings", [])[:5]:
                 print(f"    → {m.get('target_concept_name', 'Unknown')}")
     except omophub.OMOPHubError as e:

examples/navigate_hierarchy.py

@@ -59,7 +59,7 @@ def explore_relationships() -> None:
     # Aspirin
     concept_id = 1112807
 
-    result = client.concepts.relationships(concept_id, page_size=20)
+    result = client.concepts.relationships(concept_id)
 
     relationships = result.get("relationships", result)
     summary = result.get("relationship_summary", {})

examples/search_concepts.py

@@ -56,7 +56,7 @@ def autocomplete_example() -> None:
     print("\n=== Autocomplete ===")
 
     # Get suggestions as user types
-    suggestions = client.concepts.suggest("hypert", limit=5)
+    suggestions = client.concepts.suggest("hypert", page_size=5)
 
     print("Suggestions for 'hypert':")
     for s in suggestions[:5]: