Update README examples to include force_refresh parameter and modify query conditions for TransgeneExpressionHere

Author: Robbie1977

README.md

@@ -14,7 +14,7 @@ import vfbquery as vfb
 ```
 Class example:
 ```python
-vfb.get_term_info('FBbt_00003748')
+vfb.get_term_info('FBbt_00003748', force_refresh=True)
 ```
 ```json
 {
@@ -1005,6 +1005,7 @@ vfb.get_term_info('FBbt_00003748')
             "short_form": {
                "$and": [
                   "Class",
+                  "Nervous_system",
                   "Anatomy"
                ]
             },

src/test/readme_parser.py

@@ -38,21 +38,27 @@ def extract_code_blocks(readme_path):
                     continue
 
                 # Check if this call uses performance test terms - skip force_refresh for those
-                if 'FBbt_00003748' in call or 'VFB_00101567' in call:
+                # NOTE: FBbt_00003748 (medulla) now needs force_refresh to get updated queries
+                if 'VFB_00101567' in call:
                     processed_python_blocks.append(call)
                     continue
 
                 # Check if the call already has parameters
                 if '(' in call and ')' in call:
-                    # Insert force_refresh=True before the closing parenthesis
-                    # Handle both cases: with and without existing parameters
-                    if call.rstrip(')').endswith('('):
-                        # No parameters: vfb.function()
-                        modified_call = call[:-1] + 'force_refresh=True)'
+                    # Check if force_refresh is already present
+                    if 'force_refresh' in call:
+                        # Already has force_refresh, use as-is
+                        processed_python_blocks.append(call)
                     else:
-                        # Has parameters: vfb.function(param1, param2)
-                        modified_call = call[:-1] + ', force_refresh=True)'
-                    processed_python_blocks.append(modified_call)
+                        # Insert force_refresh=True before the closing parenthesis
+                        # Handle both cases: with and without existing parameters
+                        if call.rstrip(')').endswith('('):
+                            # No parameters: vfb.function()
+                            modified_call = call[:-1] + 'force_refresh=True)'
+                        else:
+                            # Has parameters: vfb.function(param1, param2)
+                            modified_call = call[:-1] + ', force_refresh=True)'
+                        processed_python_blocks.append(modified_call)
                 else:
                     # Shouldn't happen, but include original call if no parentheses
                     processed_python_blocks.append(call)

src/vfbquery/vfb_queries.py

@@ -858,7 +858,7 @@ def term_info_parse_object(results, short_form):
             queries.append(q)
 
         # Transgene expression query
-        if termInfo["SuperTypes"] and contains_all_tags(termInfo["SuperTypes"], ["Class", "Anatomy"]):
+        if termInfo["SuperTypes"] and contains_all_tags(termInfo["SuperTypes"], ["Class", "Nervous_system", "Anatomy"]):
             q = TransgeneExpressionHere_to_schema(termInfo["Name"], {"short_form": vfbTerm.term.core.short_form})
             queries.append(q)
 
@@ -1581,7 +1581,7 @@ def TermsForPub_to_schema(name, take_default):
 
 def TransgeneExpressionHere_to_schema(name, take_default):
     """Schema for TransgeneExpressionHere query."""
-    return Query(query="TransgeneExpressionHere", label=f"Transgene expression in {name}", function="get_transgene_expression_here", takes={"short_form": {"$and": ["Class", "Anatomy"]}, "default": take_default}, preview=5, preview_columns=["id", "name", "tags"])
+    return Query(query="TransgeneExpressionHere", label=f"Transgene expression in {name}", function="get_transgene_expression_here", takes={"short_form": {"$and": ["Class", "Nervous_system", "Anatomy"]}, "default": take_default}, preview=5, preview_columns=["id", "name", "tags"])
 
 
 def serialize_solr_output(results):