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docs: reorganize documentation structure for clarity
DELETE (duplicates/obsolete): - to_do/REFERENCE_GRADDIO_DEMO_ANALYSIS.md - bugs/P0_MAGENTIC_MODE_BROKEN.md (superseded by FIX_PLAN) CREATE: - future-roadmap/ for planned phases 15-17 - decisions/architecture-2025-11/ for magentic-pydantic docs - bugs/ACTIVE_BUGS.md index MOVE: - DEEP_RESEARCH_ROADMAP.md → future-roadmap/ - 04_OPENALEX_INTEGRATION.md → future-roadmap/ - brainstorming/implementation/*.md → future-roadmap/phases/ - brainstorming/magentic-pydantic/*.md → decisions/architecture-2025-11/ UPDATE: - docs/index.md: Updated links, Europe PMC references, test count631e5fc
