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Atomizer/.gitignore
Anto01 2f3afc3813 feat: Add substudy system with live history tracking and workflow fixes
Major Features:
- Hierarchical substudy system (like NX Solutions/Subcases)
  * Shared model files across all substudies
  * Independent configuration per substudy
  * Continuation support from previous substudies
  * Real-time incremental history updates
- Live history tracking with optimization_history_incremental.json
- Complete bracket_displacement_maximizing study with substudy examples

Core Fixes:
- Fixed expression update workflow to pass design_vars through simulation_runner
  * Restored working NX journal expression update mechanism
  * OP2 timestamp verification instead of file deletion
  * Resolved issue where all trials returned identical objective values
- Fixed LLMOptimizationRunner to pass design variables to simulation runner
- Enhanced NXSolver with timestamp-based file regeneration verification

New Components:
- optimization_engine/llm_optimization_runner.py - LLM-driven optimization runner
- optimization_engine/optimization_setup_wizard.py - Phase 3.3 setup wizard
- studies/bracket_displacement_maximizing/ - Complete substudy example
  * run_substudy.py - Substudy runner with continuation
  * run_optimization.py - Standalone optimization runner
  * config/substudy_template.json - Template for new substudies
  * substudies/coarse_exploration/ - 20-trial coarse search
  * substudies/fine_tuning/ - 50-trial refinement (continuation example)
  * SUBSTUDIES_README.md - Complete substudy documentation

Technical Improvements:
- Incremental history saving after each trial (optimization_history_incremental.json)
- Expression update workflow: .prt update → NX journal receives values → geometry update → FEM update → solve
- Trial indexing fix in substudy result saving
- Updated README with substudy system documentation

Testing:
- Successfully ran 20-trial coarse_exploration substudy
- Verified different objective values across trials (workflow fix validated)
- Confirmed live history updates in real-time
- Tested shared model file usage across substudies

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

Co-Authored-By: Claude <noreply@anthropic.com>
2025-11-16 21:29:54 -05:00

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# Python
__pycache__/
*.py[cod]
*$py.class
*.so
.Python
build/
develop-eggs/
dist/
downloads/
eggs/
.eggs/
lib/
lib64/
parts/
sdist/
var/
wheels/
*.egg-info/
.installed.cfg
*.egg
MANIFEST
.pytest_cache/
.coverage
htmlcov/
*.cover
.hypothesis/
# Virtual Environment
venv/
ENV/
env/
.venv
# IDEs
.vscode/
.idea/
*.swp
*.swo
*~
.DS_Store
# NX/FEA Files
*.op2
*.f06
*.f04
*.xdb
*.log
*.diag
*.pch
*.master
*.dball
*.ldra
*.sdb
*.sim.bak
*.prt.bak
*.dat
*.html
*.png
# Optimization Results (generated during runs - do not commit)
optuna_study.db
optuna_study.db-journal
history.csv
history.json
history.bak
next.exp
RMS_log.csv
archives/
temp/
*.tmp
optimization_results/
**/optimization_results/
study_*.db
study_*_metadata.json
# Test outputs (generated during testing)
tests/optimization_results/
# Node modules (for dashboard)
node_modules/
.npm
.cache
dist/
build/
# Environment variables
.env
.env.local
# OS
Thumbs.db
desktop.ini