feat: geometric graph topology + module pages + phantom link cleanup

Graph topology (Metatron's Cube pattern — 1 center + 12 outer nodes):
- index: now links to ALL 12 other nodes (complete hub)
- Inner ring cycle: hot→log→overview→dashboard→concepts/_index→entities/_index
  - Added: hot↔WikiMap, log↔sources/_index, dashboard↔concepts/_index
  - Added: entities/_index↔hot, entities/_index↔LLM Wiki Pattern
  - Added: sources/_index↔log, sources/_index↔entities/_index
- Outer ring: concepts connected in triangle + Karpathy/sources cross-linked
  - Added: dashboard↔Compounding, entities/_index↔LLM Wiki Pattern

graph.json physics for geometric arrangement:
- repelStrength: 80 (strong push-apart for uniform spacing)
- linkStrength: 3.0 (locks ring geometry)
- linkDistance: 80 (tighter rings)
- centerStrength: 0.25 (moderate center pull)
- nodeSizeMultiplier: 2.0 (hub nodes visually dominant)
- Added colors: questions=yellow, comparisons=red, nav=teal

Phantom links removed from Hot Cache.md:
- Removed [[Page A]], [[Page B]], [[New Page 1]], [[Existing Page]]

New module pages:
- wiki/questions/How does the LLM Wiki pattern work.md
- wiki/comparisons/Wiki vs RAG.md
- Adds questions/ and comparisons/ domains to the graph (yellow + red nodes)

wiki/concepts/Hot Cache.md

@@ -60,9 +60,9 @@ YYYY-MM-DD — [what happened]
 - [Second]
 
 ## Recent Changes
-- Created: [[New Page 1]]
-- Updated: [[Existing Page]] (added section on X)
-- Flagged: Contradiction between [[Page A]] and [[Page B]]
+- Created: new wiki pages from this ingest
+- Updated: existing pages with new connections
+- Flagged: contradictions between sources where found
 
 ## Active Threads
 - User is researching [topic]