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/06_PHYSICS/00_INDEX.md

@@ -0,0 +1,59 @@
+# Physics Documentation Index
+
+This folder contains detailed physics and domain-specific documentation for Atomizer's analysis capabilities. These documents explain the **engineering and scientific foundations** behind the extractors and insights.
+
+---
+
+## Document Catalog
+
+| Document | Topic | When to Read |
+|----------|-------|--------------|
+| [ZERNIKE_FUNDAMENTALS.md](ZERNIKE_FUNDAMENTALS.md) | Zernike polynomial basics, RMS calculation, multi-subcase analysis | Setting up mirror optimization, understanding WFE metrics |
+| [ZERNIKE_OPD_METHOD.md](ZERNIKE_OPD_METHOD.md) | **Rigorous OPD method** for lateral displacement correction | Lateral support optimization, validating WFE accuracy |
+
+---
+
+## Quick Navigation
+
+### For Mirror/Optics Optimization
+
+1. **New to Zernike?** Start with [ZERNIKE_FUNDAMENTALS.md](ZERNIKE_FUNDAMENTALS.md)
+2. **Lateral support optimization?** Read [ZERNIKE_OPD_METHOD.md](ZERNIKE_OPD_METHOD.md) - **critical**
+3. **Mid-spatial frequency analysis?** See SYS_16 (msf_zernike insight)
+
+### For Structural Optimization
+
+- Stress extraction: See `SYS_12_EXTRACTOR_LIBRARY.md` (E3, E12)
+- Strain energy: See `SYS_12_EXTRACTOR_LIBRARY.md` (E13)
+
+### For Thermal Analysis
+
+- Temperature extraction: See `SYS_12_EXTRACTOR_LIBRARY.md` (E15-E17)
+
+---
+
+## Related Documentation
+
+| Location | Content |
+|----------|---------|
+| `.claude/skills/modules/extractors-catalog.md` | Quick extractor lookup |
+| `.claude/skills/modules/insights-catalog.md` | Quick insight lookup |
+| `docs/protocols/system/SYS_12_EXTRACTOR_LIBRARY.md` | Extractor specifications |
+| `docs/protocols/system/SYS_16_STUDY_INSIGHTS.md` | Insight specifications |
+
+---
+
+## Contributing Physics Documentation
+
+When adding new physics documentation:
+
+1. **Naming**: Use `{TOPIC}_{SUBTOPIC}.md` format (e.g., `THERMAL_GRADIENTS.md`)
+2. **Structure**: Follow the pattern in existing documents:
+   - Executive Summary
+   - Mathematical Formulation
+   - When This Matters
+   - Implementation Details
+   - Usage Guide
+   - Validation
+3. **Cross-reference**: Update this index and related skill modules
+4. **Link to code**: Reference the implementing extractors/insights