[2025-10-01T07:31:03.038399] [QUERYOME] Starting research for query 1298: 'Instructions: 
 Answer the question below. First, respond with the single best option letter (A, B, C, or D). Then provide a concise reasoning (1–3 sentences). Use both the retrieved evidence and your own medical knowledge to choose the most accurate answer. 

Question:
Which of following is not a tumor suppressor gene? 

Options:
{'A': 'pRb', 'B': 'FHIT', 'C': 'PTCH', 'D': 'c-erbB1'}'
[2025-10-01T07:31:03.102446] [PI] Starting research for query: 'Instructions: 
 Answer the question below. First, respond with the single best option letter (A, B, C, or D). Then provide a concise reasoning (1–3 sentences). Use both the retrieved evidence and your own medical knowledge to choose the most accurate answer. 

Question:
Which of following is not a tumor suppressor gene? 

Options:
{'A': 'pRb', 'B': 'FHIT', 'C': 'PTCH', 'D': 'c-erbB1'}'
[2025-10-01T07:31:03.113463] Saving text to bench_final/run1/medmcqa/medmcqa_1297/pi_initial_prompt.txt
[2025-10-01T07:31:03.135670] [PI] Calling o3 for initial analysis...
[2025-10-01T07:31:14.435678] [PI] Reasoning iteration 1
[2025-10-01T07:31:14.440688] [PI reasoning] **Identifying tumor suppressors**

I'm looking into a simple question about which gene is not a tumor suppressor. pRb, FHIT, and PTCH are known tumor suppressor genes, while c-erbB1, or EGFR, functions as a proto-oncogene. Therefore, the answer is D. I think I'll support this with citations to show that EGFR is indeed an oncogene, contrasting it with the others. I might rely on my existing knowledge but also consider a quick search for verification.
[2025-10-01T07:31:14.445931] [PI] Executing function call 1: hybrid_search
[2025-10-01T07:31:14.450952] [PI] Function arguments: {'query': 'c-erbB1 oncogene EGFR proto oncogene', 'k': 5, 'faiss_weight': 0.4, 'bm25_weight': 0.6, 'use_rrf': True}
[2025-10-01T07:31:14.452642] Saving JSON to bench_final/run1/medmcqa/medmcqa_1297/pi_iteration_1_tool_call_2_hybrid_search.json
[2025-10-01T07:31:47.125562] [PI] Function hybrid_search executed successfully
[2025-10-01T07:31:47.127351] Saving JSON to bench_final/run1/medmcqa/medmcqa_1297/pi_iteration_1_tool_result_2_hybrid_search.json
[2025-10-01T07:31:47.139538] [PI] Continuing reasoning with 1 function responses...
[2025-10-01T07:31:53.551790] [PI] Reasoning iteration 2
[2025-10-01T07:31:53.555404] [PI] Executing function call 1: hybrid_search
[2025-10-01T07:31:53.557478] [PI] Function arguments: {'query': 'retinoblastoma gene pRb tumor suppressor', 'k': 5, 'faiss_weight': 0.5, 'bm25_weight': 0.5, 'use_rrf': True}
[2025-10-01T07:31:53.560262] Saving JSON to bench_final/run1/medmcqa/medmcqa_1297/pi_iteration_2_tool_call_2_hybrid_search.json
[2025-10-01T07:32:01.286883] [PI] Function hybrid_search executed successfully
[2025-10-01T07:32:01.291429] Saving JSON to bench_final/run1/medmcqa/medmcqa_1297/pi_iteration_2_tool_result_2_hybrid_search.json
[2025-10-01T07:32:01.296687] [PI] Continuing reasoning with 1 function responses...
[2025-10-01T07:32:04.855877] [PI] Reasoning iteration 3
[2025-10-01T07:32:04.857871] [PI] Executing function call 1: hybrid_search
[2025-10-01T07:32:04.860771] [PI] Function arguments: {'query': 'FHIT tumor suppressor gene', 'k': 5, 'faiss_weight': 0.5, 'bm25_weight': 0.5, 'use_rrf': True}
[2025-10-01T07:32:04.862622] Saving JSON to bench_final/run1/medmcqa/medmcqa_1297/pi_iteration_3_tool_call_2_hybrid_search.json
[2025-10-01T07:32:32.203046] [PI] Function hybrid_search executed successfully
[2025-10-01T07:32:32.213462] Saving JSON to bench_final/run1/medmcqa/medmcqa_1297/pi_iteration_3_tool_result_2_hybrid_search.json
[2025-10-01T07:32:32.232984] [PI] Continuing reasoning with 1 function responses...
[2025-10-01T07:32:35.236745] [PI] Reasoning iteration 4
[2025-10-01T07:32:35.241078] [PI] Executing function call 1: hybrid_search
[2025-10-01T07:32:35.243092] [PI] Function arguments: {'query': 'PTCH tumor suppressor gene Gorlin syndrome', 'k': 5, 'faiss_weight': 0.5, 'bm25_weight': 0.5, 'use_rrf': True}
[2025-10-01T07:32:35.245312] Saving JSON to bench_final/run1/medmcqa/medmcqa_1297/pi_iteration_4_tool_call_2_hybrid_search.json
[2025-10-01T07:32:55.672029] [PI] Function hybrid_search executed successfully
[2025-10-01T07:32:55.676250] Saving JSON to bench_final/run1/medmcqa/medmcqa_1297/pi_iteration_4_tool_result_2_hybrid_search.json
[2025-10-01T07:32:55.686390] [PI] Continuing reasoning with 1 function responses...
[2025-10-01T07:33:02.335226] [PI] Reasoning iteration 5
[2025-10-01T07:33:02.337363] [PI] No function calls found in response
[2025-10-01T07:33:02.340250] [PI] No more function calls - research complete
[2025-10-01T07:33:02.341919] Saving text to bench_final/run1/medmcqa/medmcqa_1297/pi_final_answer.txt
[2025-10-01T07:33:02.350573] [QUERYOME] Query completed successfully
