[2025-10-01T19:09:52.541522] [QUERYOME] Starting research for query 568: '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 inclusion of cytoplasm?

Options:
A. Endoplasmic reticulum
B. Ribosome
C. Golgi body
D. Glycogen'
[2025-10-01T19:09:52.586942] [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 inclusion of cytoplasm?

Options:
A. Endoplasmic reticulum
B. Ribosome
C. Golgi body
D. Glycogen'
[2025-10-01T19:09:52.588839] Saving text to bench_final/run1/medmcqa/medmcqa_2128/pi_initial_prompt.txt
[2025-10-01T19:09:52.594394] [PI] Calling o3 for initial analysis...
[2025-10-01T19:09:57.125288] [PI] Reasoning iteration 1
[2025-10-01T19:09:57.127680] [PI] Executing function call 1: hybrid_search
[2025-10-01T19:09:57.129820] [PI] Function arguments: {'query': 'cytoplasmic inclusions glycogen lipofuscin lipid droplets definition inclusion bodies histology non living stores', 'k': 10, 'faiss_weight': 0.6, 'bm25_weight': 0.4, 'use_rrf': True}
[2025-10-01T19:09:57.132322] Saving JSON to bench_final/run1/medmcqa/medmcqa_2128/pi_iteration_1_tool_call_4_hybrid_search.json
[2025-10-01T19:10:00.218212] [PI] Function hybrid_search executed successfully
[2025-10-01T19:10:00.220247] Saving JSON to bench_final/run1/medmcqa/medmcqa_2128/pi_iteration_1_tool_result_4_hybrid_search.json
[2025-10-01T19:10:00.227775] [PI] Continuing reasoning with 1 function responses...
[2025-10-01T19:10:05.718421] [PI] Reasoning iteration 2
[2025-10-01T19:10:05.726670] [PI] Executing function call 1: hybrid_search
[2025-10-01T19:10:05.728571] [PI] Function arguments: {'query': 'glycogen cytoplasmic inclusion non living cell inclusion histology', 'k': 10, 'faiss_weight': 0.5, 'bm25_weight': 0.5, 'use_rrf': True}
[2025-10-01T19:10:05.731731] Saving JSON to bench_final/run1/medmcqa/medmcqa_2128/pi_iteration_2_tool_call_2_hybrid_search.json
[2025-10-01T19:10:07.753042] [PI] Function hybrid_search executed successfully
[2025-10-01T19:10:07.755001] Saving JSON to bench_final/run1/medmcqa/medmcqa_2128/pi_iteration_2_tool_result_2_hybrid_search.json
[2025-10-01T19:10:07.783441] [PI] Continuing reasoning with 1 function responses...
[2025-10-01T19:10:15.156361] [PI] Reasoning iteration 3
[2025-10-01T19:10:15.158233] [PI] No function calls found in response
[2025-10-01T19:10:15.160224] [PI] No more function calls - research complete
[2025-10-01T19:10:15.162826] Saving text to bench_final/run1/medmcqa/medmcqa_2128/pi_final_answer.txt
[2025-10-01T19:10:15.167909] [QUERYOME] Query completed successfully
