Anto01 a0c008a593 feat: Add neural loop automation - templates, auto-trainer, CLI ...

Closes the neural training loop with automated workflow:
- atomizer.py: One-command neural workflow CLI
- auto_trainer.py: Auto-training trigger system (50pt threshold)
- template_loader.py: Study creation from templates
- study_reset.py: Study reset/cleanup utility
- 3 templates: beam stiffness, bracket stress, frequency tuning
- State assessment document (Nov 25)

Usage: python atomizer.py neural-optimize --study my_study --trials 500

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

Co-Authored-By: Claude <noreply@anthropic.com>

2025-11-26 07:53:00 -05:00

..

custom_functions

feat: Complete Phase 2.5-2.7 - Intelligent LLM-Powered Workflow Analysis

2025-11-16 13:35:41 -05:00

future

refactor: Archive experimental LLM features for MVP stability (Phase 1.1)

2025-11-24 09:12:36 -05:00

plugins

feat: Add substudy system with live history tracking and workflow fixes

2025-11-16 21:29:54 -05:00

result_extractors

fix: Remove redundant save() call that overwrote NX expression updates

2025-11-17 21:24:02 -05:00

schemas

feat: Add configuration validation system for MVP stability (Phase 1.2)

2025-11-24 09:21:55 -05:00

validators

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

__init__.py

Rebrand project from nx-optimaster to Atomizer

2025-11-15 08:05:19 -05:00

active_learning_surrogate.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

adaptive_characterization.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

adaptive_surrogate.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

auto_trainer.py

feat: Add neural loop automation - templates, auto-trainer, CLI

2025-11-26 07:53:00 -05:00

benchmarking_substudy.py

feat: Add centralized configuration system and Phase 3.2 enhancements

2025-11-17 14:36:00 -05:00

capability_matcher.py

feat: Complete Phase 2.5-2.7 - Intelligent LLM-Powered Workflow Analysis

2025-11-16 13:35:41 -05:00

codebase_analyzer.py

feat: Complete Phase 2.5-2.7 - Intelligent LLM-Powered Workflow Analysis

2025-11-16 13:35:41 -05:00

comprehensive_results_analyzer.py

feat: Add centralized configuration system and Phase 3.2 enhancements

2025-11-17 14:36:00 -05:00

config_manager.py

feat: Add configuration validation system for MVP stability (Phase 1.2)

2025-11-24 09:21:55 -05:00

export_expressions.py

feat: Add robust NX expression import system for all expression types

2025-11-17 12:34:06 -05:00

extractor_library.py

refactor: Implement centralized extractor library to eliminate code duplication

2025-11-18 09:00:10 -05:00

feature_registry.json

feat: Complete Phase 2.5-2.7 - Intelligent LLM-Powered Workflow Analysis

2025-11-16 13:35:41 -05:00

generate_history_from_trials.py

feat: Complete Phase 3.3 - Visualization & Model Cleanup System

2025-11-17 19:07:41 -05:00

generate_report_markdown.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

generate_report.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

hybrid_study_creator.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

import_expressions.py

fix: Remove redundant save() call that overwrote NX expression updates

2025-11-17 21:24:02 -05:00

intelligent_optimizer.py

feat: Implement Protocol 13 - Real-Time Dashboard Tracking

2025-11-21 15:58:00 -05:00

intelligent_setup.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

landscape_analyzer.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

logger.py

feat: Add structured logging system for production-ready error handling (Phase 1.3)

2025-11-24 09:27:27 -05:00

mesh_converter.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

model_cleanup.py

feat: Complete Phase 3.3 - Visualization & Model Cleanup System

2025-11-17 19:07:41 -05:00

neural_surrogate.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

nx_session_manager.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

nx_solver.py

refactor: Archive experimental LLM features for MVP stability (Phase 1.1)

2025-11-24 09:12:36 -05:00

nx_updater.py

refactor: Centralize NX and environment configuration in config.py

2025-11-17 14:31:33 -05:00

op2_extractor.py

fix: Remove arbitrary aspect ratio validation and add comprehensive pruning diagnostics

2025-11-20 20:25:33 -05:00

optimization_config_builder.py

feat: Add optimization configuration builder with multi-objective support

2025-11-15 13:56:41 +00:00

optimization_setup_wizard.py

feat: Add substudy system with live history tracking and workflow fixes

2025-11-16 21:29:54 -05:00

pruning_logger.py

fix: Remove arbitrary aspect ratio validation and add comprehensive pruning diagnostics

2025-11-20 20:25:33 -05:00

pynastran_research_agent.py

feat: Add substudy system with live history tracking and workflow fixes

2025-11-16 21:29:54 -05:00

realtime_tracking.py

refactor: Archive experimental LLM features for MVP stability (Phase 1.1)

2025-11-24 09:12:36 -05:00

research_agent.py

feat: Complete Phase 2.5-2.7 - Intelligent LLM-Powered Workflow Analysis

2025-11-16 13:35:41 -05:00

run_optimization.py

fix: Stop passing design_vars to simulation_runner to match working 50-trial workflow

2025-11-17 21:29:21 -05:00

runner_with_neural.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

runner.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

simple_mlp_surrogate.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

simulation_validator.py

fix: Remove arbitrary aspect ratio validation and add comprehensive pruning diagnostics

2025-11-20 20:25:33 -05:00

solve_simulation_simple.py

feat: Add centralized configuration system and Phase 3.2 enhancements

2025-11-17 14:36:00 -05:00

solve_simulation.py

feat: Add automatic solution monitor disabling for multi-solution workflows

2025-11-24 10:36:10 -05:00

step_classifier.py

feat: Complete Phase 2.5-2.7 - Intelligent LLM-Powered Workflow Analysis

2025-11-16 13:35:41 -05:00

strategy_portfolio.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

strategy_selector.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

study_continuation.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

study_creator.py

feat: Add centralized configuration system and Phase 3.2 enhancements

2025-11-17 14:36:00 -05:00

study_reset.py

feat: Add neural loop automation - templates, auto-trainer, CLI

2025-11-26 07:53:00 -05:00

targeted_research_planner.py

feat: Complete Phase 2.5-2.7 - Intelligent LLM-Powered Workflow Analysis

2025-11-16 13:35:41 -05:00

template_loader.py

feat: Add neural loop automation - templates, auto-trainer, CLI

2025-11-26 07:53:00 -05:00

training_data_exporter.py

feat: Major update with validators, skills, dashboard, and docs reorganization

2025-11-25 19:23:58 -05:00

visualizer.py

feat: Complete Phase 3.3 - Visualization & Model Cleanup System

2025-11-17 19:07:41 -05:00

workflow_decomposer.py

feat: Complete Phase 2.5-2.7 - Intelligent LLM-Powered Workflow Analysis

2025-11-16 13:35:41 -05:00