Commit Graph

14 Commits

Author SHA1 Message Date
a26914bbe8 feat: Add Studio UI, intake system, and extractor improvements
Dashboard:
- Add Studio page with drag-drop model upload and Claude chat
- Add intake system for study creation workflow
- Improve session manager and context builder
- Add intake API routes and frontend components

Optimization Engine:
- Add CLI module for command-line operations
- Add intake module for study preprocessing
- Add validation module with gate checks
- Improve Zernike extractor documentation
- Update spec models with better validation
- Enhance solve_simulation robustness

Documentation:
- Add ATOMIZER_STUDIO.md planning doc
- Add ATOMIZER_UX_SYSTEM.md for UX patterns
- Update extractor library docs
- Add study-readme-generator skill

Tools:
- Add test scripts for extraction validation
- Add Zernike recentering test

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
2026-01-27 12:02:30 -05:00
a3f18dc377 chore: Project cleanup and Canvas UX improvements (Phase 7-9)
## Cleanup (v0.5.0)
- Delete 102+ orphaned MCP session temp files
- Remove build artifacts (htmlcov, dist, __pycache__)
- Archive superseded plan docs (RALPH_LOOP V2/V3, CANVAS V3, etc.)
- Move debug/analysis scripts from tests/ to tools/analysis/
- Archive redundant NX journals to archive/nx_journals/
- Archive monolithic PROTOCOL.md to docs/archive/
- Update .gitignore with missing patterns
- Clean old study files (optimization_log_old.txt, run_optimization_old.py)

## Canvas UX (Phases 7-9)
- Phase 7: Resizable panels with localStorage persistence
  - Left sidebar: 200-400px, Right panel: 280-600px
  - New useResizablePanel hook and ResizeHandle component
- Phase 8: Enable all palette items
  - All 8 node types now draggable
  - Singleton logic for model/solver/algorithm/surrogate
- Phase 9: Solver configuration
  - Add SolverEngine type (nxnastran, mscnastran, python, etc.)
  - Add NastranSolutionType (SOL101-SOL200)
  - Engine/solution dropdowns in config panel
  - Python script path support

## Documentation
- Update CHANGELOG.md with recent versions
- Update docs/00_INDEX.md
- Create examples/README.md
- Add docs/plans/CANVAS_UX_IMPROVEMENTS.md
2026-01-24 15:17:34 -05:00
c224b16ac3 feat: Add panel management, validation, and error handling to canvas
Phase 1 - Panel Management System:
- Create usePanelStore.ts for centralized panel state management
- Add PanelContainer.tsx for draggable floating panels
- Create FloatingIntrospectionPanel.tsx (persistent, doesn't disappear on node click)
- Create ResultsPanel.tsx for trial result details
- Refactor NodeConfigPanelV2 to use panel store for introspection
- Integrate PanelContainer into CanvasView

Phase 2 - Pre-run Validation:
- Create specValidator.ts with comprehensive validation rules
- Add ValidationPanel (enhanced version with error navigation)
- Add Validate button to SpecRenderer with status indicator
- Block run if validation fails
- Check for: design vars, objectives, extractors, bounds, connections

Phase 3 - Error Handling & Recovery:
- Create ErrorPanel.tsx for displaying optimization errors
- Add error classification (nx_crash, solver_fail, extractor_error, etc.)
- Add recovery suggestions based on error type
- Update status endpoint to return error info
- Add _get_study_error_info helper to check error_status.json and DB
- Integrate error detection into status polling

Documentation:
- Add CANVAS_ROBUSTNESS_PLAN.md with full implementation plan
2026-01-21 21:35:31 -05:00
ea437d360e docs: Major documentation overhaul - restructure folders, update tagline, add Getting Started guide
- Restructure docs/ folder (remove numeric prefixes):
  - 04_USER_GUIDES -> guides/
  - 05_API_REFERENCE -> api/
  - 06_PHYSICS -> physics/
  - 07_DEVELOPMENT -> development/
  - 08_ARCHIVE -> archive/
  - 09_DIAGRAMS -> diagrams/

- Replace tagline 'Talk, don't click' with 'LLM-driven optimization framework' in 9 files

- Create comprehensive docs/GETTING_STARTED.md:
  - Prerequisites and quick setup
  - Project structure overview
  - First study tutorial (Claude or manual)
  - Dashboard usage guide
  - Neural acceleration introduction

- Rewrite docs/00_INDEX.md with correct paths and modern structure

- Archive obsolete files:
  - 01_PROTOCOLS.md -> archive/historical/01_PROTOCOLS_legacy.md
  - 03_GETTING_STARTED.md -> archive/historical/
  - ATOMIZER_PODCAST_BRIEFING.md -> archive/marketing/

- Update timestamps to 2026-01-20 across all key files

- Update .gitignore to exclude docs/generated/

- Version bump: ATOMIZER_CONTEXT v1.8 -> v2.0
2026-01-20 10:03:45 -05:00
ac5e9b4054 docs: Comprehensive documentation update for Dashboard V3 and Canvas
## Documentation Updates
- DASHBOARD.md: Updated to V3.0 with Canvas V3 features, file browser, introspection
- DASHBOARD_IMPLEMENTATION_STATUS.md: Marked Canvas V3 features as COMPLETE
- CANVAS.md: New comprehensive guide for Canvas Builder V3 with all features
- CLAUDE.md: Added dashboard quick reference and Canvas V3 features

## Canvas V3 Features Documented
- File Browser: Browse studies directory for model files
- Model Introspection: Auto-discover expressions, solver type, dependencies
- One-Click Add: Add expressions as design variables instantly
- Claude Bug Fixes: WebSocket reconnection, SQL errors resolved
- Health Check: /api/health endpoint for monitoring

## Backend Services
- NX introspection service with expression discovery
- File browser API with type filtering
- Claude session management improvements
- Context builder enhancements

## Frontend Components
- FileBrowser: Modal for file selection with search
- IntrospectionPanel: View discovered model information
- ExpressionSelector: Dropdown for design variable configuration
- Improved chat hooks with reconnection logic

## Plan Documents
- Added RALPH_LOOP_CANVAS_V2/V3 implementation records
- Added ATOMIZER_DASHBOARD_V2_MASTER_PLAN
- Added investigation and sync documentation

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
2026-01-16 20:48:58 -05:00
1c7c7aff05 feat(canvas): Add file browser, introspection, and improve node flow
Phase 1-7 of Canvas V4 Ralph Loop implementation:

Backend:
- Add /api/files routes for browsing model files
- Add /api/nx routes for NX model introspection
- Add NXIntrospector service to discover expressions and extractors
- Add health check with database status

Frontend:
- Add FileBrowser component for selecting .sim/.prt/.fem files
- Add IntrospectionPanel to discover expressions and extractors
- Update NodeConfigPanel with browse and introspect buttons
- Update schema with NODE_HANDLES for proper flow direction
- Update validation for correct DesignVar -> Model -> Solver flow
- Update useCanvasStore.addNode() to accept custom data

Flow correction: Design Variables now connect TO Model (as source),
not FROM Model. This matches the actual data flow in optimization.

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
2026-01-16 14:47:10 -05:00
862d07e309 docs: Mark Canvas integration plan as completed 2026-01-14 22:21:48 -05:00
73a7b9d9f1 feat: Add dashboard chat integration and MCP server
Major changes:
- Dashboard: WebSocket-based chat with session management
- Dashboard: New chat components (ChatPane, ChatInput, ModeToggle)
- Dashboard: Enhanced UI with parallel coordinates chart
- MCP Server: New atomizer-tools server for Claude integration
- Extractors: Enhanced Zernike OPD extractor
- Reports: Improved report generator

New studies (configs and scripts only):
- M1 Mirror: Cost reduction campaign studies
- Simple Beam, Simple Bracket, UAV Arm studies

Note: Large iteration data (2_iterations/, best_design_archive/)
excluded via .gitignore - kept on local Gitea only.

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
2026-01-13 15:53:55 -05:00
69c0d76b50 docs: Mark restructuring plan as complete
All phases successfully implemented:
- OP_08 report generation added
- Protocol numbering fixed (SYS_16-18)
- Code reorganized (surrogates, tests)
- Dependencies cleaned (pyproject.toml)
- M1_Mirror studies archived
- README updated with LLM section

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

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
2026-01-07 09:09:22 -05:00
c061146a77 docs: Final documentation polish and consistency fixes
- Update README.md with LLM assistant section
- Create optimization_memory JSONL structure
- Move implementation plans from skills/modules to docs/plans
- Verify all imports work correctly

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

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
2026-01-07 09:07:44 -05:00
b8a04c62b8 docs: Consolidate documentation and fix protocol numbering (partial)
Phase 2 of restructuring plan:
- Rename SYS_16_STUDY_INSIGHTS -> SYS_17_STUDY_INSIGHTS
- Rename SYS_17_CONTEXT_ENGINEERING -> SYS_18_CONTEXT_ENGINEERING
- Promote Bootstrap V3.0 (Context Engineering) as default
- Archive old Bootstrap V2.0
- Create knowledge_base/playbook.json for ACE framework
- Add OP_08 (Generate Report) to routing tables
- Add SYS_16-18 to protocol tables
- Update docs/protocols/README.md to version 1.1
- Update CLAUDE.md with new protocols
- Create docs/plans/RESTRUCTURING_PLAN.md for continuation

Remaining: Phase 2.8 (Cheatsheet), Phases 3-6

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

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
2026-01-07 08:52:07 -05:00
32caa5d05c feat: Implement Study Interview Mode as default study creation method
Study Interview Mode is now the DEFAULT for all study creation requests.
This intelligent Q&A system guides users through optimization setup with:

- 7-phase interview flow: introspection → objectives → constraints → design_variables → validation → review → complete
- Material-aware validation with 12 materials and fuzzy name matching
- Anti-pattern detection for 12 common mistakes (mass-no-constraint, stress-over-yield, etc.)
- Auto extractor mapping E1-E24 based on goal keywords
- State persistence with JSON serialization and backup rotation
- StudyBlueprint generation with full validation

Triggers: "create a study", "new study", "optimize this", any study creation intent
Skip with: "skip interview", "quick setup", "manual config"

Components:
- StudyInterviewEngine: Main orchestrator
- QuestionEngine: Conditional logic evaluation
- EngineeringValidator: MaterialsDatabase + AntiPatternDetector
- InterviewPresenter: Markdown formatting for Claude
- StudyBlueprint: Validated configuration output
- InterviewState: Persistent state management

All 129 tests passing.

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

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
2026-01-03 11:06:07 -05:00
82f36689b7 feat: Pre-migration checkpoint - updated docs and utilities
Updates before optimization_engine migration:
- Updated migration plan to v2.1 with complete file inventory
- Added OP_07 disk optimization protocol
- Added SYS_16 self-aware turbo protocol
- Added study archiver and cleanup utilities
- Added ensemble surrogate module
- Updated NX solver and session manager
- Updated zernike HTML generator
- Added context engineering plan
- LAC session insights updates

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

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
2025-12-29 10:22:45 -05:00
Antoine
0cb2808c44 feat: Add Phase 2 & 3 physics extractors for multi-physics optimization
Phase 2 - Structural Analysis:
- extract_principal_stress: σ1, σ2, σ3 principal stresses from OP2
- extract_strain_energy: Element and total strain energy
- extract_spc_forces: Reaction forces at boundary conditions

Phase 3 - Multi-Physics:
- extract_temperature: Nodal temperatures from thermal OP2 (SOL 153/159)
- extract_temperature_gradient: Thermal gradient approximation
- extract_heat_flux: Element heat flux from thermal analysis
- extract_modal_mass: Modal effective mass from F06 (SOL 103)
- get_first_frequency: Convenience function for first natural frequency

Documentation:
- Updated SYS_12_EXTRACTOR_LIBRARY.md with E12-E18 specifications
- Updated NX_OPEN_AUTOMATION_ROADMAP.md marking Phase 3 complete
- Added test_phase3_extractors.py for validation

All extractors follow consistent API pattern returning Dict with
success, data, and error fields for robust error handling.

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

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
2025-12-06 13:40:14 -05:00