fix(generator): resolve GROQ_FAST_MODEL NameError and empty thought extraction in MarkdownRenderer

Clean PDF filename display, format page citations, bump micro font sizes to 12px, add collapsible LLM synthesis in TracePilot, and fix GaugePilot navigation

feat: Context-Aware Glossary, 7 Chunking Strategies, Dual-Tier Memory System, and Structure-Aware Overhaul

feat(ui): auto-expanding prompt input box and collapsible thought process accordion

feat: multi-select query enhancements, conversation-scoped docs, rich markdown tables, and UI overhaul