[2025-10-02T04:27:32.678462] [QUERYOME] Starting research for query 1862: '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 the following is not glucogenic?

Options:
A. Pyruvate
B. Oxaloacetate
C. Acetyl-CoA
D. Lactate'
[2025-10-02T04:27:32.718642] [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 the following is not glucogenic?

Options:
A. Pyruvate
B. Oxaloacetate
C. Acetyl-CoA
D. Lactate'
[2025-10-02T04:27:32.721439] Saving text to bench_final/run1/medmcqa/medmcqa_3422/pi_initial_prompt.txt
[2025-10-02T04:27:32.726880] [PI] Calling o3 for initial analysis...
[2025-10-02T04:27:39.546109] [PI] Reasoning iteration 1
[2025-10-02T04:27:39.547760] [PI reasoning] **Answering the MCQ on Glucogenic Substances**

I need to determine which option is not glucogenic among pyruvate, oxaloacetate, acetyl-CoA, and lactate. Glucogenic substances can convert to glucose through gluconeogenesis. Pyruvate, oxaloacetate, and lactate are all glucogenic precursors. However, acetyl-CoA cannot produce net glucose in humans because its conversion in the citric acid cycle results in the loss of carbons as CO2. So, the answer is C: Acetyl-CoA. I’ll look for supporting literature to include.
[2025-10-02T04:27:39.550649] [PI] Executing function call 1: hybrid_search
[2025-10-02T04:27:39.552270] [PI] Function arguments: {'query': 'acetyl-CoA cannot be converted to glucose humans not glucogenic', 'k': 5, 'faiss_weight': 0.7, 'bm25_weight': 0.3, 'use_rrf': True}
[2025-10-02T04:27:39.555200] Saving JSON to bench_final/run1/medmcqa/medmcqa_3422/pi_iteration_1_tool_call_2_hybrid_search.json
[2025-10-02T04:27:40.650996] [PI] Function hybrid_search executed successfully
[2025-10-02T04:27:40.652943] Saving JSON to bench_final/run1/medmcqa/medmcqa_3422/pi_iteration_1_tool_result_2_hybrid_search.json
[2025-10-02T04:27:40.660692] [PI] Continuing reasoning with 1 function responses...
[2025-10-02T04:27:44.711776] [PI] Reasoning iteration 2
[2025-10-02T04:27:44.713743] [PI] Executing function call 1: hybrid_search
[2025-10-02T04:27:44.716738] [PI] Function arguments: {'query': 'net loss carbons acetyl-CoA cannot yield net glucose gluconeogenesis', 'k': 10, 'faiss_weight': 0.6, 'bm25_weight': 0.4, 'use_rrf': True}
[2025-10-02T04:27:44.718414] Saving JSON to bench_final/run1/medmcqa/medmcqa_3422/pi_iteration_2_tool_call_2_hybrid_search.json
[2025-10-02T04:27:45.937909] [PI] Function hybrid_search executed successfully
[2025-10-02T04:27:45.940268] Saving JSON to bench_final/run1/medmcqa/medmcqa_3422/pi_iteration_2_tool_result_2_hybrid_search.json
[2025-10-02T04:27:45.986940] [PI] Continuing reasoning with 1 function responses...
[2025-10-02T04:27:51.193284] [PI] Reasoning iteration 3
[2025-10-02T04:27:51.195268] [PI] Executing function call 1: hybrid_search
[2025-10-02T04:27:51.196646] [PI] Function arguments: {'query': 'acetyl-CoA cannot be converted to glucose net gluconeogenesis mammals', 'k': 10, 'faiss_weight': 0.7, 'bm25_weight': 0.3, 'use_rrf': True}
[2025-10-02T04:27:51.198223] Saving JSON to bench_final/run1/medmcqa/medmcqa_3422/pi_iteration_3_tool_call_2_hybrid_search.json
[2025-10-02T04:27:52.836620] [PI] Function hybrid_search executed successfully
[2025-10-02T04:27:52.838505] Saving JSON to bench_final/run1/medmcqa/medmcqa_3422/pi_iteration_3_tool_result_2_hybrid_search.json
[2025-10-02T04:27:52.846515] [PI] Continuing reasoning with 1 function responses...
[2025-10-02T04:27:58.418505] [PI] Reasoning iteration 4
[2025-10-02T04:27:58.422179] [PI] Executing function call 1: bm25_author_keywords_search
[2025-10-02T04:27:58.424022] [PI] Function arguments: {'query': 'acetyl-CoA not gluconeogenic', 'k': 10}
[2025-10-02T04:27:58.427191] Saving JSON to bench_final/run1/medmcqa/medmcqa_3422/pi_iteration_4_tool_call_2_bm25_author_keywords_search.json
[2025-10-02T04:27:58.956127] [PI] Function bm25_author_keywords_search executed successfully
[2025-10-02T04:27:58.958121] Saving JSON to bench_final/run1/medmcqa/medmcqa_3422/pi_iteration_4_tool_result_2_bm25_author_keywords_search.json
[2025-10-02T04:27:58.966557] [PI] Continuing reasoning with 1 function responses...
[2025-10-02T04:28:07.245093] [PI] Reasoning iteration 5
[2025-10-02T04:28:07.246718] [PI] No function calls found in response
[2025-10-02T04:28:07.248703] [PI] No more function calls - research complete
[2025-10-02T04:28:07.251369] Saving text to bench_final/run1/medmcqa/medmcqa_3422/pi_final_answer.txt
[2025-10-02T04:28:07.256544] [QUERYOME] Query completed successfully
