[2025-09-25T13:21:57.113223] [QUERYOME] Starting research for query 465: '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:
Is non-HDL-cholesterol a better predictor of long-term outcome in patients after acute myocardial infarction compared to LDL-cholesterol? 

Options:
{'A': 'yes', 'B': 'no', 'C': 'maybe'}'
[2025-09-25T13:21:57.187860] [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:
Is non-HDL-cholesterol a better predictor of long-term outcome in patients after acute myocardial infarction compared to LDL-cholesterol? 

Options:
{'A': 'yes', 'B': 'no', 'C': 'maybe'}'
[2025-09-25T13:21:57.189507] Saving text to bench_final/run1/pubmedqa/pubmedqa_464/pi_initial_prompt.txt
[2025-09-25T13:21:57.194787] [PI] Calling o3 for initial analysis...
[2025-09-25T13:22:13.322397] [PI] Reasoning iteration 1
[2025-09-25T13:22:13.324069] [PI reasoning] **Evaluating cholesterol predictors**

I'm thinking through a question from the PubMedQA dataset: is non-HDL cholesterol a better long-term predictor after an acute myocardial infarction compared to LDL? I remember a study showing that non-HDL cholesterol is superior for long-term outcomes. So, I'll answer "yes," based on evidence that non-HDL cholesterol correlates with higher risk. The expected response is "A.” I could provide a brief explanation if needed, but the focus is just on that letter first.
[2025-09-25T13:22:13.326935] [PI] Executing function call 1: hybrid_search
[2025-09-25T13:22:13.328577] [PI] Function arguments: {'query': 'non-HDL cholesterol better predictor long-term outcome myocardial infarction compared LDL cholesterol', 'k': 10, 'faiss_weight': 0.7, 'bm25_weight': 0.3, 'use_rrf': True}
[2025-09-25T13:22:13.331284] Saving JSON to bench_final/run1/pubmedqa/pubmedqa_464/pi_iteration_1_tool_call_2_hybrid_search.json
[2025-09-25T13:22:15.819798] [PI] Function hybrid_search executed successfully
[2025-09-25T13:22:15.823244] Saving JSON to bench_final/run1/pubmedqa/pubmedqa_464/pi_iteration_1_tool_result_2_hybrid_search.json
[2025-09-25T13:22:15.833152] [PI] Continuing reasoning with 1 function responses...
[2025-09-25T13:22:24.216456] [PI] Reasoning iteration 2
[2025-09-25T13:22:24.217790] [PI] No function calls found in response
[2025-09-25T13:22:24.221333] [PI] No more function calls - research complete
[2025-09-25T13:22:24.222897] Saving text to bench_final/run1/pubmedqa/pubmedqa_464/pi_final_answer.txt
[2025-09-25T13:22:24.227590] [QUERYOME] Query completed successfully
