feat: Major update - Physics docs, Zernike OPD, insights, NX journals, tools

Documentation:
- Add docs/06_PHYSICS/ with Zernike fundamentals and OPD method docs
- Add docs/guides/CMA-ES_EXPLAINED.md optimization guide
- Update CLAUDE.md and ATOMIZER_CONTEXT.md with current architecture
- Update OP_01_CREATE_STUDY protocol

Planning:
- Add DYNAMIC_RESPONSE plans for random vibration/PSD support
- Add OPTIMIZATION_ENGINE_MIGRATION_PLAN for code reorganization

Insights System:
- Update design_space, modal_analysis, stress_field, thermal_field insights
- Improve error handling and data validation

NX Journals:
- Add analyze_wfe_zernike.py for Zernike WFE analysis
- Add capture_study_images.py for automated screenshots
- Add extract_expressions.py and introspect_part.py utilities
- Add user_generated_journals/journal_top_view_image_taking.py

Tests & Tools:
- Add comprehensive Zernike OPD test suite
- Add audit_v10 tests for WFE validation
- Add tools for Pareto graphs and mirror data extraction
- Add migrate_studies_to_topics.py utility

Knowledge Base:
- Initialize LAC (Learning Atomizer Core) with failure/success patterns

Dashboard:
- Update Setup.tsx and launch_dashboard.py
- Add restart-dev.bat helper script

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

docs/protocols/operations/OP_01_CREATE_STUDY.md

@@ -71,6 +71,71 @@ When creating a new study:
 
 ---
 
+## README Hierarchy (Parent-Child Documentation)
+
+**Two-level documentation system**:
+
+```
+studies/{geometry_type}/
+├── README.md                          # PARENT: Project-level context
+│   ├── Project overview               # What is this geometry/component?
+│   ├── Physical system specs          # Material, dimensions, constraints
+│   ├── Optical/mechanical specs       # Domain-specific requirements
+│   ├── Design variables catalog       # ALL possible variables with descriptions
+│   ├── Objectives catalog             # ALL possible objectives
+│   ├── Campaign history               # Summary of all sub-studies
+│   └── Sub-studies index              # Links to each sub-study
+│
+├── sub_study_V1/
+│   └── README.md                      # CHILD: Study-specific details
+│       ├── Link to parent             # "See ../README.md for context"
+│       ├── Study focus                # What THIS study optimizes
+│       ├── Active variables           # Which params enabled
+│       ├── Algorithm config           # Sampler, trials, settings
+│       ├── Baseline/seeding           # Starting point
+│       └── Results summary            # Best trial, learnings
+│
+└── sub_study_V2/
+    └── README.md                      # CHILD: References parent, adds specifics
+```
+
+### Parent README Content (Geometry-Level)
+
+| Section | Content |
+|---------|---------|
+| Project Overview | What the component is, purpose, context |
+| Physical System | Material, mass targets, loading conditions |
+| Domain Specs | Optical prescription (mirrors), structural limits (brackets) |
+| Design Variables | Complete catalog with ranges and descriptions |
+| Objectives | All possible metrics with formulas |
+| Campaign History | Evolution across sub-studies |
+| Sub-Studies Index | Table with links, status, best results |
+| Technical Notes | Domain-specific implementation details |
+
+### Child README Content (Study-Level)
+
+| Section | Content |
+|---------|---------|
+| Parent Reference | `> See [../README.md](../README.md) for project context` |
+| Study Focus | What differentiates THIS study |
+| Active Variables | Which parameters are enabled (subset of parent catalog) |
+| Algorithm Config | Sampler, n_trials, sigma, seed |
+| Baseline | Starting point (seeded from prior study or default) |
+| Results | Best trial, improvement metrics |
+| Key Learnings | What was discovered |
+
+### When to Create Parent README
+
+- **First study** for a geometry type → Create parent README immediately
+- **Subsequent studies** → Add to parent's sub-studies index
+- **New geometry type** → Create both parent and child READMEs
+
+### Example Reference
+
+See `studies/M1_Mirror/README.md` for a complete parent README example.
+
+---
+
 ## Detailed Steps
 
 ### Step 1: Gather Requirements