[2025-09-25T10:40:22.564597] [QUERYOME] Starting research for query 5: '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 perforation of the appendix a risk factor for tubal infertility and ectopic pregnancy? 

Options:
{'A': 'yes', 'B': 'no', 'C': 'maybe'}'
[2025-09-25T10:40:22.638345] [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 perforation of the appendix a risk factor for tubal infertility and ectopic pregnancy? 

Options:
{'A': 'yes', 'B': 'no', 'C': 'maybe'}'
[2025-09-25T10:40:22.639837] Saving text to bench_final/run1/pubmedqa/pubmedqa_4/pi_initial_prompt.txt
[2025-09-25T10:40:22.644535] [PI] Calling o3 for initial analysis...
[2025-09-25T10:40:28.033272] [PI] Reasoning iteration 1
[2025-09-25T10:40:28.034918] [PI] Executing function call 1: hybrid_search
[2025-09-25T10:40:28.036659] [PI] Function arguments: {'query': 'perforated appendix risk factor tubal infertility ectopic pregnancy', 'k': 10, 'faiss_weight': 0.6, 'bm25_weight': 0.4, 'use_rrf': True}
[2025-09-25T10:40:28.039391] Saving JSON to bench_final/run1/pubmedqa/pubmedqa_4/pi_iteration_1_tool_call_3_hybrid_search.json
[2025-09-25T10:40:34.726384] [PI] Function hybrid_search executed successfully
[2025-09-25T10:40:34.730319] Saving JSON to bench_final/run1/pubmedqa/pubmedqa_4/pi_iteration_1_tool_result_3_hybrid_search.json
[2025-09-25T10:40:34.740093] [PI] Continuing reasoning with 1 function responses...
[2025-09-25T10:40:44.313610] [PI] Reasoning iteration 2
[2025-09-25T10:40:44.315310] [PI reasoning] **Investigating infertility risks**

I'm looking into whether a perforated appendix is a risk factor for tubal infertility and ectopic pregnancy. One study mentions a relative risk of 1.8 for tubal pregnancy related to a ruptured appendix, but it's not statistically significant. The increase seems to fall within chance limits, so I'm wondering if there's more evidence. I should check for studies that link perforated appendix to pelvic adhesions and infertility, specifically focusing on tubal infertility in the context of appendicitis.
[2025-09-25T10:40:44.318508] [PI] Executing function call 1: hybrid_search
[2025-09-25T10:40:44.320673] [PI] Function arguments: {'query': 'perforated appendix tubal infertility', 'k': 10, 'faiss_weight': 0.6, 'bm25_weight': 0.4, 'use_rrf': True}
[2025-09-25T10:40:44.323181] Saving JSON to bench_final/run1/pubmedqa/pubmedqa_4/pi_iteration_2_tool_call_2_hybrid_search.json
[2025-09-25T10:40:49.971019] [PI] Function hybrid_search executed successfully
[2025-09-25T10:40:49.974450] Saving JSON to bench_final/run1/pubmedqa/pubmedqa_4/pi_iteration_2_tool_result_2_hybrid_search.json
[2025-09-25T10:40:49.983412] [PI] Continuing reasoning with 1 function responses...
[2025-09-25T10:41:04.349542] [PI] Reasoning iteration 3
[2025-09-25T10:41:04.351111] [PI] No function calls found in response
[2025-09-25T10:41:04.354067] [PI] No more function calls - research complete
[2025-09-25T10:41:04.355643] Saving text to bench_final/run1/pubmedqa/pubmedqa_4/pi_final_answer.txt
[2025-09-25T10:41:04.360484] [QUERYOME] Query completed successfully
