[2025-10-01T11:17:29.059895] [QUERYOME] Starting research for query 1457: '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:
Both ketogenic and glucogenic amino acids as 

Options:
{'A': 'Isoleucine', 'B': 'Leucine', 'C': 'Arginine', 'D': 'Glycine'}'
[2025-10-01T11:17:29.119283] [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:
Both ketogenic and glucogenic amino acids as 

Options:
{'A': 'Isoleucine', 'B': 'Leucine', 'C': 'Arginine', 'D': 'Glycine'}'
[2025-10-01T11:17:29.121115] Saving text to bench_final/run1/medmcqa/medmcqa_1456/pi_initial_prompt.txt
[2025-10-01T11:17:29.127327] [PI] Calling o3 for initial analysis...
[2025-10-01T11:17:36.011397] [PI] Reasoning iteration 1
[2025-10-01T11:17:36.013949] [PI reasoning] **Identifying amino acid types**

I need to figure out which amino acid is both ketogenic and glucogenic among the options: A) Isoleucine, B) Leucine, C) Arginine, and D) Glycine. From what I know, Leucine is strictly ketogenic, while Arginine and Glycine are only glucogenic. Isoleucine, however, fits both categories. So, my answer is A) Isoleucine. I’ll make sure to support this with concise reasoning and evidence from standard sources.
[2025-10-01T11:17:36.015397] [PI] Executing function call 1: hybrid_search
[2025-10-01T11:17:36.020568] [PI] Function arguments: {'query': 'amino acids both ketogenic and glucogenic isoleucine phenylalanine', 'k': 5, 'faiss_weight': 0.5, 'bm25_weight': 0.5, 'use_rrf': True}
[2025-10-01T11:17:36.024057] Saving JSON to bench_final/run1/medmcqa/medmcqa_1456/pi_iteration_1_tool_call_2_hybrid_search.json
[2025-10-01T11:18:15.447637] [PI] Function hybrid_search executed successfully
[2025-10-01T11:18:15.450760] Saving JSON to bench_final/run1/medmcqa/medmcqa_1456/pi_iteration_1_tool_result_2_hybrid_search.json
[2025-10-01T11:18:15.459173] [PI] Continuing reasoning with 1 function responses...
[2025-10-01T11:18:19.521760] [PI] Reasoning iteration 2
[2025-10-01T11:18:19.525021] [PI] Executing function call 1: hybrid_search
[2025-10-01T11:18:19.527110] [PI] Function arguments: {'query': 'isoleucine ketogenic and glucogenic', 'k': 5, 'faiss_weight': 0.4, 'bm25_weight': 0.6, 'use_rrf': True}
[2025-10-01T11:18:19.530582] Saving JSON to bench_final/run1/medmcqa/medmcqa_1456/pi_iteration_2_tool_call_2_hybrid_search.json
[2025-10-01T11:18:27.586877] [PI] Function hybrid_search executed successfully
[2025-10-01T11:18:27.589720] Saving JSON to bench_final/run1/medmcqa/medmcqa_1456/pi_iteration_2_tool_result_2_hybrid_search.json
[2025-10-01T11:18:27.595604] [PI] Continuing reasoning with 1 function responses...
[2025-10-01T11:18:33.309533] [PI] Reasoning iteration 3
[2025-10-01T11:18:33.310987] [PI] Executing function call 1: hybrid_search
[2025-10-01T11:18:33.314613] [PI] Function arguments: {'query': 'only ketogenic amino acids leucine lysine', 'k': 5, 'faiss_weight': 0.5, 'bm25_weight': 0.5, 'use_rrf': True}
[2025-10-01T11:18:33.317290] Saving JSON to bench_final/run1/medmcqa/medmcqa_1456/pi_iteration_3_tool_call_2_hybrid_search.json
[2025-10-01T11:19:17.255294] [PI] Function hybrid_search executed successfully
[2025-10-01T11:19:17.258986] Saving JSON to bench_final/run1/medmcqa/medmcqa_1456/pi_iteration_3_tool_result_2_hybrid_search.json
[2025-10-01T11:19:17.263809] [PI] Continuing reasoning with 1 function responses...
[2025-10-01T11:19:22.550413] [PI] Reasoning iteration 4
[2025-10-01T11:19:22.552288] [PI] Executing function call 1: hybrid_search
[2025-10-01T11:19:22.555421] [PI] Function arguments: {'query': 'ketogenic and glucogenic amino acids phenylalanine tyrosine isoleucine', 'k': 5, 'faiss_weight': 0.6, 'bm25_weight': 0.4, 'use_rrf': True}
[2025-10-01T11:19:22.557658] Saving JSON to bench_final/run1/medmcqa/medmcqa_1456/pi_iteration_4_tool_call_2_hybrid_search.json
[2025-10-01T11:19:39.114740] [PI] Function hybrid_search executed successfully
[2025-10-01T11:19:39.116676] Saving JSON to bench_final/run1/medmcqa/medmcqa_1456/pi_iteration_4_tool_result_2_hybrid_search.json
[2025-10-01T11:19:39.126569] [PI] Continuing reasoning with 1 function responses...
[2025-10-01T11:19:43.886348] [PI] Reasoning iteration 5
[2025-10-01T11:19:43.887825] [PI] Executing function call 1: hybrid_search
[2025-10-01T11:19:43.889750] [PI] Function arguments: {'query': 'both glucogenic and ketogenic isoleucine PubMed', 'k': 10, 'faiss_weight': 0.4, 'bm25_weight': 0.6, 'use_rrf': True}
[2025-10-01T11:19:43.890777] Saving JSON to bench_final/run1/medmcqa/medmcqa_1456/pi_iteration_5_tool_call_2_hybrid_search.json
[2025-10-01T11:20:14.310328] [PI] Function hybrid_search executed successfully
[2025-10-01T11:20:14.312683] Saving JSON to bench_final/run1/medmcqa/medmcqa_1456/pi_iteration_5_tool_result_2_hybrid_search.json
[2025-10-01T11:20:14.330175] [PI] Continuing reasoning with 1 function responses...
[2025-10-01T11:20:29.609823] [PI] Reasoning iteration 6
[2025-10-01T11:20:29.611438] [PI] No function calls found in response
[2025-10-01T11:20:29.614178] [PI] No more function calls - research complete
[2025-10-01T11:20:29.615827] Saving text to bench_final/run1/medmcqa/medmcqa_1456/pi_final_answer.txt
[2025-10-01T11:20:29.642131] [QUERYOME] Query completed successfully
