Antoine/Atomizer
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7 Commits

Author SHA1 Message Date
Anto01
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- Archive superseded plan docs (RALPH_LOOP V2/V3, CANVAS V3, etc.)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
Anto01
7bdb74f93b refactor: Reorganize code structure and create tests directory 
- Consolidate surrogates module to processors/surrogates/
- Move ensemble_surrogate.py to proper location
- Add deprecation shim for old import path
- Create tests/ directory with pytest structure
- Move test files from archive/test_scripts/
- Add conftest.py with shared fixtures

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

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-07 09:01:37 -05:00
Anto01
18c221a218 chore: Clean up orphaned files and update .gitignore 
- Delete orphaned files: temp_compare.py, run_cleanup.py
- Delete stale cache files from archive/temp_outputs/
- Update .gitignore with .coverage.*, .obsidian/ entries

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

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-07 08:37:58 -05:00
Anto01
eabcc4c3ca refactor: Major reorganization of optimization_engine module structure 
BREAKING CHANGE: Module paths have been reorganized for better maintainability.
Backwards compatibility aliases with deprecation warnings are provided.

New Structure:
- core/           - Optimization runners (runner, intelligent_optimizer, etc.)
- processors/     - Data processing
  - surrogates/   - Neural network surrogates
- nx/             - NX/Nastran integration (solver, updater, session_manager)
- study/          - Study management (creator, wizard, state, reset)
- reporting/      - Reports and analysis (visualizer, report_generator)
- config/         - Configuration management (manager, builder)
- utils/          - Utilities (logger, auto_doc, etc.)
- future/         - Research/experimental code

Migration:
- ~200 import changes across 125 files
- All __init__.py files use lazy loading to avoid circular imports
- Backwards compatibility layer supports old import paths with warnings
- All existing functionality preserved

To migrate existing code:
  OLD: from optimization_engine.nx_solver import NXSolver
  NEW: from optimization_engine.nx.solver import NXSolver

  OLD: from optimization_engine.runner import OptimizationRunner
  NEW: from optimization_engine.core.runner import OptimizationRunner

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

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2025-12-29 12:30:59 -05:00
Anto01
cf454f6e40 feat: Add TrialManager and DashboardDB for unified trial management 
- Add TrialManager (trial_manager.py) for consistent trial_NNNN naming
- Add DashboardDB (dashboard_db.py) for Optuna-compatible database schema
- Update CLAUDE.md with trial management documentation
- Update ATOMIZER_CONTEXT.md with v1.8 trial system
- Update cheatsheet v2.2 with new utilities
- Update SYS_14 protocol to v2.3 with TrialManager integration
- Add LAC learnings for trial management patterns
- Add archive/README.md for deprecated code policy

Key principles:
- Trial numbers NEVER reset (monotonic)
- Folders NEVER get overwritten
- Database always synced with filesystem
- Surrogate predictions are NOT trials (only FEA results)

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

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2025-12-28 12:20:19 -05:00
Antoine
d1261d62fd refactor: Major project cleanup and reorganization 
## Removed Duplicate Directories
- Deleted old `dashboard/` (replaced by atomizer-dashboard)
- Deleted old `mcp_server/` Python tools (moved model_discovery to optimization_engine)
- Deleted `tests/mcp_server/` (obsolete tests)
- Deleted `launch_dashboard.bat` (old launcher)

## Consolidated Code
- Moved `mcp_server/tools/model_discovery.py` to `optimization_engine/model_discovery/`
- Updated import in `optimization_config_builder.py`
- Deleted stub `extract_mass.py` (use extract_mass_from_bdf instead)
- Deleted unused `intelligent_setup.py` and `hybrid_study_creator.py`
- Archived `result_extractors/` to `archive/deprecated/`

## Documentation Cleanup
- Deleted deprecated `docs/06_PROTOCOLS_DETAILED/` (14 files)
- Archived dated dev docs to `docs/08_ARCHIVE/sessions/`
- Archived old plans to `docs/08_ARCHIVE/plans/`
- Updated `docs/protocols/README.md` with SYS_15

## Skills Consolidation
- Archived redundant study creation skills to `.claude/skills/archive/`
- Kept `core/study-creation-core.md` as canonical

## Housekeeping
- Updated `.gitignore` to prevent `nul` and `_dat_run*.dat`

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

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2025-12-12 11:24:02 -05:00
Anto01
2b3573ec42 feat: Add AtomizerField training data export and intelligent model discovery 
Major additions:
- Training data export system for AtomizerField neural network training
- Bracket stiffness optimization study with 50+ training samples
- Intelligent NX model discovery (auto-detect solutions, expressions, mesh)
- Result extractors module for displacement, stress, frequency, mass
- User-generated NX journals for advanced workflows
- Archive structure for legacy scripts and test outputs
- Protocol documentation and dashboard launcher

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

Co-Authored-By: Claude <noreply@anthropic.com>
 2025-11-26 12:01:50 -05:00