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
Phase 2 - Execution Bridge:
- Update /start endpoint to fallback to generic runner when no study script exists
- Auto-detect model files (.prt, .sim) from 1_setup/model/ directory
- Pass atomizer_spec.json path to generic runner
Phase 3 - Live Monitoring & Results Overlay:
- Add ResultBadge component for displaying values on canvas nodes
- Extend schema with resultValue and isFeasible fields
- Update DesignVarNode, ObjectiveNode, ConstraintNode, ExtractorNode to show results
- Add Run/Stop buttons and Results toggle to SpecRenderer
- Poll /status endpoint every 3s and map best_trial values to nodes
- Show green/red badges for constraint feasibility
- Create introspect_sim.py NX journal to extract solutions, BCs from SIM files
- Update introspect_sim_file() to optionally call NX journal for full introspection
- Add FEM mesh section (nodes, elements, materials, properties) to IntrospectionPanel
- Add SIM solutions and boundary conditions sections to IntrospectionPanel
- Show introspection method and NX errors in panel
Backend:
- GET /nx/parts - List all .prt files in model directory
- GET /nx/introspect/{part_name} - Introspect a specific part file
(e.g., M1_Blank.prt instead of just the assembly)
- Each part gets its own cache file (_introspection_{stem}.json)
Frontend IntrospectionPanel:
- Add 'FEA Results' section showing existing OP2/F06 sources
- Green checkmark when results exist, shows recommended source
- Expand file_deps and fea_results sections by default
- Add CheckCircle2 and Database icons
This allows introspecting component parts that contain the actual
design variable expressions (e.g., M1_Blank has 56 expressions
while the assembly ASSY_M1 only has 5).
- scan_existing_fea_results() scans study for existing OP2/F06 files
- Introspection now returns existing_fea_results with recommended source
- New POST /nx/extract endpoint runs extractors on existing OP2 files
- Supports: displacement, stress, frequency, mass_bdf, zernike
- No NX solve needed - uses PyNastran and Atomizer extractors directly
This allows users to test extractors and get physics data from existing
simulation results without re-running the FEA solver.
- Use same approach as run_optimization.py with use_iteration_folders=True
- NXSolver.create_iteration_folder() handles proper file copying
- Read NX settings from atomizer_spec.json or optimization_config.json
- Extract Nastran version from NX install path
- Creates iter0 folder for baseline (consistent with optimization numbering)
This fixes the issue where manually copying files didn't preserve
NX file dependency chain (.sim -> .afm -> .fem -> _i.prt -> .prt)
- Parse Nastran log file to detect memory allocation failures
- Extract requested vs available memory from log
- Provide actionable error message with specific values
- Include log files in result_files response
- Read nx_install_path from atomizer_spec.json if available
- Auto-detect from common Siemens installation paths
- Fixes issue where NX2512 wasn't found (actual path is DesigncenterNX2512)
Drag-drop fixes:
- Fix Objective default data: use nested 'source' object with extractor_id/output_name
- Fix Constraint default data: use 'type' field (not constraint_type), 'threshold' (not limit)
Undo/Redo fixes:
- Remove dependency on isDirty flag (which is always false due to auto-save)
- Record snapshots based on actual spec changes via deep comparison
Code generation improvements:
- Update system prompt to support multiple extractor types:
* OP2-based extractors for FEA results (stress, displacement, frequency)
* Expression-based extractors for NX model values (dimensions, volumes)
* Computed extractors for derived values (no FEA needed)
- Claude will now choose appropriate signature based on user's description
Backend:
- Add POST /api/optimization/studies/{study_id}/nx/run-baseline endpoint
- Creates trial_baseline folder in 2_iterations/
- Copies all model files and runs NXSolver
- Returns paths to result files (.op2, .f06, .bdf) for extractor testing
Frontend:
- Add 'Run Baseline Simulation' button to IntrospectionPanel
- Show progress spinner during simulation
- Display result files when complete (OP2, F06, BDF)
- Show error messages if simulation fails
This enables:
- Testing custom extractors against real FEA results
- Validating the simulation pipeline before optimization
- Inspecting boundary conditions and loads
- SpecRenderer: Add localNodes state with applyNodeChanges for smooth node dragging
- SpecRenderer: Fix getDefaultNodeData() - extractor uses 'custom_function' type with function definition
- SpecRenderer: Fix constraint default - use constraint_type instead of type
- CanvasView: Show config panel INSTEAD of chat when node selected (not blocked)
- NodeConfigPanelV2: Enable showHeader for code editor toolbar (Generate/Snippets/Validate/Test buttons)
- NodeConfigPanelV2: Pass studyId to IntrospectionPanel
- IntrospectionPanel: Accept studyId prop and use correct API endpoint
- optimization.py: Search multiple directories for model files including 1_setup/model/
Backend:
- Add POST /generate-extractor for AI code generation via Claude CLI
- Add POST /generate-extractor/stream for SSE streaming generation
- Add POST /validate-extractor with enhanced syntax checking
- Add POST /check-dependencies for import analysis
- Add POST /test-extractor for live OP2 file testing
- Add ClaudeCodeSession service for managing CLI sessions
Frontend:
- Add lib/api/claude.ts with typed API functions
- Enhance CodeEditorPanel with:
- Streaming generation with live preview
- Code snippets library (6 templates: displacement, stress, frequency, mass, energy, reaction)
- Test button for live OP2 validation
- Cancel button for stopping generation
- Dependency warnings display
- Integrate streaming and testing into NodeConfigPanelV2
Uses Claude CLI (--print mode) to leverage Pro/Max subscription without API costs.
Phase 1 - Foundation:
- Add NodeConfigPanelV2 using useSpecStore for AtomizerSpec v2.0 mode
- Deprecate AtomizerCanvas and useCanvasStore with migration docs
- Add VITE_USE_LEGACY_CANVAS env var for emergency fallback
- Enhance NodePalette with collapse support, filtering, exports
- Add drag-drop support to SpecRenderer with default node data
- Setup test infrastructure (Vitest + Playwright configs)
- Add useSpecStore unit tests (15 tests)
Phase 2 - File Structure & Model:
- Create FileStructurePanel with tree view of study files
- Add ModelNodeV2 with collapsible file dependencies
- Add tabbed left sidebar (Components/Files tabs)
- Add GET /api/files/structure/{study_id} backend endpoint
- Auto-expand 1_setup folders in file tree
- Show model file introspection with solver type and expressions
Technical:
- All TypeScript checks pass
- All 15 unit tests pass
- Production build successful
## 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>
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>
- Ensure MCP config file is created before CLI calls
- Pass --mcp-config flag to Claude CLI for atomizer tools access
- Add mcp__atomizer-tools__* to allowed tools in user mode
- Enables canvas validate/execute/interpret intent tools
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Phase 4 of Canvas Professional Upgrade:
- Add /studies/{id}/nx/introspect endpoint for full model introspection
- Add /studies/{id}/nx/expressions endpoint for expression list
- Add caching to avoid re-running NX journal on each request
- Add frontend API client methods: introspectNxModel, getNxExpressions
- Use existing introspect_part.py extractor
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- Add canvas.ts MCP tool with validate_canvas_intent, execute_canvas_intent, interpret_canvas_intent
- Add useCanvasChat.ts bridge hook connecting canvas to chat system
- Update context_builder.py with canvas tool instructions
- Add ExecuteDialog for study name input
- Add ChatPanel for canvas-integrated Claude responses
- Connect AtomizerCanvas to Claude via useCanvasChat
Canvas workflow now:
1. Build graph visually
2. Click Validate/Analyze/Execute
3. Claude processes intent via MCP tools
4. Response shown in integrated chat panel
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
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>
- Replace Standard (Z-only) extraction with OPD method (X,Y,Z displacement)
- Add toggle buttons to switch between WFE, ΔX, ΔY, ΔZ views
- Show method comparison metrics (OPD vs Standard RMS difference)
- Display lateral displacement statistics (max/RMS)
- Fall back to Standard method if BDF geometry file not found
- Use ZernikeOPDExtractor for more accurate WFE computation (+8-11%)
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Major improvements to Zernike WFE visualization:
- Add ZernikeDashboardInsight: Unified dashboard with all orientations (40°, 60°, 90°)
on one page with light theme and executive summary
- Add OPD method toggle: Switch between Standard (Z-only) and OPD (X,Y,Z) methods
in ZernikeWFEInsight with interactive buttons
- Add lateral displacement maps: Visualize X,Y displacement for each orientation
- Add displacement component views: Toggle between WFE, ΔX, ΔY, ΔZ in relative views
- Add metrics comparison table showing both methods side-by-side
New extractors:
- extract_zernike_figure.py: ZernikeOPDExtractor using BDF geometry interpolation
- extract_zernike_opd.py: Parabola-based OPD with focal length
Key finding: OPD method gives 8-11% higher WFE values than Standard method
(more conservative/accurate for surfaces with lateral displacement under gravity)
Documentation updates:
- SYS_12: Added E22 ZernikeOPD as recommended method
- SYS_16: Added ZernikeDashboard, updated ZernikeWFE with OPD features
- Cheatsheet: Added Zernike method comparison table
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Dashboard integration for Study Insights module (SYS_16):
- Backend: New /api/insights/ routes for generating and viewing insights
- Frontend: New Insights.tsx page with Plotly visualization
- Navigation: Added Insights tab between Analysis and Results
Available insight types:
- Zernike WFE (wavefront error for mirrors)
- Stress Field (Von Mises stress contours)
- Modal Analysis (natural frequencies/mode shapes)
- Thermal Field (temperature distribution)
- Design Space (parameter-objective exploration)
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Dashboard enhancements:
- Add Analysis page with tabs: Overview, Parameters, Pareto, Correlations, Constraints, Surrogate, Runs
- Add PlotlyCorrelationHeatmap for parameter-objective correlation analysis
- Add PlotlyFeasibilityChart for constraint satisfaction visualization
- Add PlotlySurrogateQuality for FEA vs NN prediction comparison
- Add PlotlyRunComparison for comparing optimization runs within a study
Real-time improvements:
- Replace watchdog file-watching with SQLite database polling for better Windows reliability
- Add DatabasePoller class with 2-second polling interval
- Enhanced WebSocket messages: trial_completed, new_best, pareto_update, progress
Desktop notifications:
- Add useNotifications hook using Web Notifications API
- Add NotificationSettings toggle component
- Notify users when new best solutions are found
Config editor:
- Add PUT /studies/{study_id}/config endpoint with auto-backup
- Add ConfigEditor modal with tabs: General, Variables, Objectives, Settings, JSON
- Prevents editing while optimization is running
Enhanced Pareto visualization:
- Add dark mode styling with transparent backgrounds
- Add stats bar showing Pareto, FEA, NN, and infeasible counts
- Add Pareto front connecting line for 2D view
- Add table showing top 10 Pareto-optimal solutions
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
Phase 1 - Accurate study status detection:
- Add is_optimization_running() to check for active processes
- Add get_accurate_study_status() with proper status logic
- Status now: not_started, running, paused, completed
- Add "paused" status styling (orange) to Home page
Phase 2 - Global Claude terminal:
- Create ClaudeTerminalContext for app-level state
- Create GlobalClaudeTerminal floating component
- Terminal persists across page navigation
- Shows green indicator when connected
- Remove inline terminal from Dashboard
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
- Add trial limiting (300 max) and reduce polling to 15s for large studies
- Make dashboard layout wider with col-span adjustments
- Claude terminal now runs from Atomizer root for CLAUDE.md/skills access
- Add study context display in terminal on connect
- Add KaTeX math rendering styles for study reports
- Add surrogate tuner module for hyperparameter optimization
- Fix backend proxy to port 8001
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
- Add embedded Claude Code terminal with xterm.js for full CLI experience
- Create WebSocket PTY backend for real-time terminal communication
- Add terminal status endpoint to check CLI availability
- Update dashboard to use Claude Code terminal instead of API chat
- Add optimization control panel with start/stop/validate actions
- Add study context provider for global state management
- Update frontend with new dependencies (xterm.js addons)
- Comprehensive README documentation for all new features
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
- Add ConvergencePlot component with running best, statistics, gradient fill
- Add ParameterImportanceChart with Pearson correlation analysis
- Add StudyReportViewer with KaTeX math rendering and full markdown support
- Update pruning endpoint to query Optuna database directly
- Add /report endpoint for STUDY_REPORT.md files
- Fix chart data transformation for single/multi-objective studies
- Update Protocol 13 documentation with new components
- Update generate-report skill with dashboard integration
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude <noreply@anthropic.com>
