[2025-09-25T11:36:45.928653] [QUERYOME] Starting research for query 156: 'Instructions: 
 Answer the question below. Please respond with the option letter (A, B, or C) first. (HINT: Each PubMedQA instance is composed of (1) a question which is either an existing research article title or derived from one, (2) a context which is the corresponding abstract without its conclusion, (3) a long answer, which is the conclusion of the abstract and, presumably, answers the research question, and (4) a yes/no/maybe answer which summarizes the conclusion.) 

Question:
Expression of c-kit protooncogen in hepatitis B virus-induced chronic hepatitis, cirrhosis and hepatocellular carcinoma: has it a diagnostic role? 

Options:
{'A': 'yes', 'B': 'no', 'C': 'maybe'}'
[2025-09-25T11:36:46.001601] [PI] Starting research for query: 'Instructions: 
 Answer the question below. Please respond with the option letter (A, B, or C) first. (HINT: Each PubMedQA instance is composed of (1) a question which is either an existing research article title or derived from one, (2) a context which is the corresponding abstract without its conclusion, (3) a long answer, which is the conclusion of the abstract and, presumably, answers the research question, and (4) a yes/no/maybe answer which summarizes the conclusion.) 

Question:
Expression of c-kit protooncogen in hepatitis B virus-induced chronic hepatitis, cirrhosis and hepatocellular carcinoma: has it a diagnostic role? 

Options:
{'A': 'yes', 'B': 'no', 'C': 'maybe'}'
[2025-09-25T11:36:46.013618] Saving text to bench_final/run1/pubmedqa/pubmedqa_155/pi_initial_prompt.txt
[2025-09-25T11:36:46.018554] [PI] Calling o3 for initial analysis...
[2025-09-25T11:36:53.385157] [PI] Reasoning iteration 1
[2025-09-25T11:36:53.386722] [PI] Executing function call 1: hybrid_search
[2025-09-25T11:36:53.389165] [PI] Function arguments: {'query': 'Expression of c-kit protooncogen in hepatitis B virus-induced chronic hepatitis, cirrhosis and hepatocellular carcinoma', 'k': 10, 'faiss_weight': 0.5, 'bm25_weight': 0.5, 'use_rrf': True}
[2025-09-25T11:36:53.390822] Saving JSON to bench_final/run1/pubmedqa/pubmedqa_155/pi_iteration_1_tool_call_2_hybrid_search.json
[2025-09-25T11:36:56.714486] [PI] Function hybrid_search executed successfully
[2025-09-25T11:36:56.718137] Saving JSON to bench_final/run1/pubmedqa/pubmedqa_155/pi_iteration_1_tool_result_2_hybrid_search.json
[2025-09-25T11:36:56.726405] [PI] Continuing reasoning with 1 function responses...
[2025-09-25T11:37:07.943998] [PI] Reasoning iteration 2
[2025-09-25T11:37:07.945740] [PI] No function calls found in response
[2025-09-25T11:37:07.948517] [PI] No more function calls - research complete
[2025-09-25T11:37:07.950645] Saving text to bench_final/run1/pubmedqa/pubmedqa_155/pi_final_answer.txt
[2025-09-25T11:37:07.956434] [QUERYOME] Query completed successfully
