92 lines
5.5 KiB
Markdown
92 lines
5.5 KiB
Markdown
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# Atomizer Repo Structure (for War-Room Audit)
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## Top-level directories
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```
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/home/papa/repos/Atomizer/
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├── archive/ — Old/deprecated scripts
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├── atomizer-dashboard/ — Dashboard (React?)
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├── atomizer_field_training_data/ — GNN training data
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├── .claude/ — Claude Code skills & commands
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├── config/ — Config templates
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├── .devloop/ — Dev loop state
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├── docs/ — Documentation (massive)
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├── examples/ — Example configs & scripts
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├── hq/ — HQ system (channels, projects, mission-control)
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├── knowledge_base/ — KB module (lac.py, playbook.json)
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├── mcp-server/ — MCP server
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├── nx_journals/ — NX Open journal scripts
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├── optimization_engine/ — CORE: the main engine
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├── projects/ — Project definitions (hydrotech-beam, isogrid-dev-plate)
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├── studies/ — Study instances (bracket, M1_Mirror)
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├── templates/ — Study templates
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├── tests/ — Test suite
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├── tools/ — CLI tools & analysis scripts
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├── atomizer.py — Main entry point
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├── launch_dashboard.py — Dashboard launcher
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└── README.md, CHANGELOG.md, PROJECT_STATE.md, PROJECT_STATUS.md
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```
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## optimization_engine/ submodules
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```
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optimization_engine/
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├── cli/ — CLI interface
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├── config/ — Config builder, wizard, spec models, migrator, validator
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├── context/ — Session state, playbook, reflector, feedback loop, compaction
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├── core/ — Runners (base, neural), optimizers (gradient, intelligent), strategy selectors
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├── custom_functions/ — NX material generators
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├── devloop/ — Dev loop (analyzer, orchestrator, planner, test runner)
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├── extractors/ — 25+ extractors (mass, stress, displacement, frequency, zernike, temperature, etc.)
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├── future/ — Planned features (LLM runner, research agent, report gen, workflow decomposer)
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├── gnn/ — Graph neural network (zernike GNN, polar graph, training)
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├── hooks/ — Hook system + NX CAD/CAE hooks (expression, feature, geometry, model introspection, solver)
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├── insights/ — Insight generators (design space, modal, stress field, thermal, zernike, wfe/psd)
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├── intake/ — Project intake (config, context, processor)
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├── interview/ — Interview mode (question engine, study blueprint, engineering validator, intelligence)
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├── model_discovery/ — Model discovery
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├── nx/ — NX integration (expressions, mesh, solver, updater, session manager)
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├── plugins/ — Plugin system (hook manager, validators, post_calculation, post_extraction, pre/post_solve, pre/post_mesh)
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├── processors/ — Surrogates (MLP, ensemble, active learning, auto trainer), adaptive characterization
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├── reporting/ — Reports (HTML, markdown, visualizer, landscape analyzer, results analyzer)
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├── schemas/ — Data schemas
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├── study/ — Study management (creator, wizard, state, continuation, benchmarking, reset)
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├── surrogates/ — Surrogate models (init only?)
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├── templates/ — Run templates
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├── utils/ — Utilities (dashboard DB, logger, NX file discovery, trial manager, archiver)
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├── validation/ — Validation (checker, gate)
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├── validators/ — Validators (config, model, results, simulation, study)
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└── run_optimization.py — Main runner
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```
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## Obsidian vault docs (2-Projects/Atomizer-AtomasteAI/)
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```
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├── Documentation/ — Understanding Atomizer, Architecture, Lessons Learned, Overview
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├── Development/ — FEM-KB integration, Optimization Monitor, Tech Specs (UX, Wizard, Protocol OS, Canvas Sync), Dream Workflow, Next-Level Masterplan, Dev Log
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├── Explorations/ — Stock market tools
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├── Notes/ — Demo ideas, Release video, Claude Skills
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├── Reports/ — Summary reports
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├── 11-HQ-IMPROVEMENTS-PLAN.md
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├── 12-CONTEXT-LIFECYCLE-MANAGEMENT.md
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└── MAP - Atomizer Project.md
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```
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## docs/ structure
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```
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docs/
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├── api/ — Context engineering, GNN, NX integration, NXOpen resources
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├── development/ — Architecture overview, Claude Code instructions, Dashboard gap analysis, User guide, Development guidance/roadmap
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├── diagrams/ — Architecture overview, protocol workflows
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├── generated/ — Extractor cheatsheet, templates
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├── guides/ — Dashboard (multiple plans/implementations), Canvas, CMA-ES, DevLoop, Neural features, Physics loss, PKM, Training data
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├── handoff/ — Trajectory optimization setup
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├── hq/ — 00-13 planning docs, Agent workflows, KB/Study conventions, Project structure
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├── logs/ — Implementation log
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├── physics/ — Zernike (fundamentals, OPD, trajectory)
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├── plans/ — Context engineering, Fast solver, Studio, UX system, Model introspection, NX Open automation, SaaS roadmap, Unified config
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├── protocols/ — Protocols README
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├── reference/ — Atomizer field concept, Investigation/execution prompts
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├── reviews/ — Architecture review, Component relationships
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├── ROADMAP/ — 2026Q1 Create Wizard, Status Now
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├── WORKFLOWS/ — Analyze, Create, Deliver, Report, Run, Validate
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└── ARCHITECTURE.md, GETTING_STARTED.md, QUICK_REF.md, etc.
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```
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