graph TD
    subgraph "Entry Points"
        CLI["src/cli.ts + src/cli/<br/>One-shot CLI adapter<br/>setup, diagnostics, analysis, decompilation"]
        MAIN["src/main.ts + src/main/<br/>MCP stdio server adapter<br/>config, session, process lifetime"]
        DISPATCH["scripts/rea.mjs<br/>Executable dispatcher<br/>routes mcp / one-shot"]
    end

    subgraph "Production Composition"
        COMPOSITION["src/composition/<br/>fresh typed provider and session factories<br/>one-shot binding and independent optional loading"]
    end

    subgraph "Adapters"
        SERVER["src/server/<br/>MCP request translation<br/>createServer, tool registration, toolResult"]
        HOPPER_BRIDGE["bridge/hopper_bridge.py<br/>Runs inside Hopper<br/>adapts operations to Hopper Python API"]
        GHIDRA_BRIDGE["bridge/ghidra/ReaGhidraBridge.java<br/>Packaged HeadlessScript<br/>inventory, decompiler, references, CFG"]
        INSTALL["src/cli/ + src/application/Setup*<br/>Host installation adapters<br/>macOS: verified vendor DMG to ~/Applications<br/>Linux: verified vendor package + apt/dnf/pacman"]
    end

    subgraph "Application Layer"
        APP["src/application/<br/>Shared CLI/MCP workflows<br/>enhanced analysis and investigations"]
        SESSION["SessionProviderRouter + BinarySession<br/>one immutable deep binding per target<br/>disjoint auxiliary routing"]
        REGISTRY["AnalysisProviderRegistry<br/>sorted deep candidates<br/>deterministic selection, no fallback"]
        RECORDS["src/application/investigation/<br/>composed InvestigationRecords + narrow ports<br/>EvidenceLedger and Unknown ownership"]
        SNAPSHOT["BinarySessionRecords + AnalysisSnapshotCache<br/>binary target/profile snapshots<br/>compatibility facade and post-commit notifications"]
        JS_RECON["src/application/javascript/ + src/artifacts/javascript/<br/>JavaScript artifact reconstruction<br/>directory/ASAR reads<br/>AST-only bundle projection"]
    end

    subgraph "Provider Layers"
        PWNTOOLS["src/native/pwntools/ + src/native/pwndbg/<br/>BYO offline ELF/core adapters<br/>owned snapshots/Python and optional core-only GDB<br/>unchanged upstream parsers, ABI structures and mapping API"]
        EVM["src/evm/<br/>unchanged EVMole/WASM in bounded owned worker<br/>explicit carrier parsing and inferred interface adapter"]
        HOPPER["src/hopper/<br/>Hopper launch & Unix-socket protocol<br/>BridgeLauncher, HopperClient, protocol"]
        GHIDRA["src/ghidra/<br/>Ghidra discovery, profile & function analysis<br/>snapshot, Unix/Windows transport, bounded lifecycle"]
        IDA["src/ida/<br/>Upstream MCP contract adaptation<br/>live GUI binding or owned headless database"]
        IDA_MCP["External ida-pro-mcp<br/>GUI proxy or database supervisor<br/>upstream installation and engine lifecycle"]
        AUX["src/artifacts/ + src/native/<br/>artifact inventory and extraction<br/>format readers and native capabilities"]
        BROWSER["src/browser/<br/>CDP / Playwright capture<br/>captured scripts and native module resolution<br/>execution/: coverage, listener and source attribution"]
        JS_CODEC["src/javascript/sourceMaps/<br/>pinned upstream map codec<br/>owned heap-limited Node process, complete point evidence"]
        INSPECTOR["src/inspector/<br/>passive V8 Inspector discovery and capture<br/>script and target locations"]
        DOTNET["src/dotnet/<br/>Managed static metadata provider<br/>PE/CLI metadata inventory, members, IL"]
        FIRMWARE["src/firmware/<br/>Binwalk / Unblob adapters<br/>owned processes, report normalization, private extraction"]
        ANDROID["src/android/<br/>Static APK adapter<br/>owned SDK stdio, pinned headless JADX, normalization"]
        REFERENCE["src/reference/<br/>Filesystem reference-source reader<br/>bounded traversal, validation, errors"]
    end

    subgraph "Provider Process Foundation"
        PROCESS["src/process/<br/>owned process groups, private roots<br/>deadlines, bounded file reads and diagnostics, cleanup"]
        WINDOWS["src/windows/<br/>Windows host boundary adapters<br/>package loader, opaque handles, owned jobs and private runtimes"]
        WINDOWS_NATIVE["native/windows/src/<br/>Node-API implementation<br/>NTFS admission, protected DACLs and atomic Job Object assignment"]
    end

    subgraph "Contracts Layer"
        CONTRACTS["src/contracts/<br/>Caller-visible schemas for analysis, managed, browser, Electron, application, and session tools"]
        ERRORS["src/contracts/errorSchemas.ts<br/>Shared analysis error schemas<br/>CLI diagnostics, generated error catalog"]
    end

    subgraph "Domain Layer"
        DOMAIN["src/domain/<br/>Pure side-effect-free modules<br/>evidence, comparisons, application graphs"]
    end

    subgraph "Configuration"
        CONFIG["src/config/<br/>Zod-validated env parsing<br/>provider settings and origins"]
    end

    subgraph "Tests"
        TESTS["tests/<br/>Vitest suite<br/>fixtures/ holds fake launcher, bridge, and CDP seams"]
    end

    subgraph "Evaluation"
        EVALUATION["src/evaluation/<br/>Agent release evaluation<br/>session transcript scoring"]
    end

    DISPATCH --> CLI
    DISPATCH --> MAIN
    MAIN --> CONFIG
    MAIN --> SERVER
    MAIN --> APP
    CLI --> APP
    MAIN --> COMPOSITION
    CLI --> COMPOSITION
    SERVER --> COMPOSITION
    COMPOSITION --> SESSION
    APP --> FIRMWARE
    FIRMWARE --> PROCESS
    FIRMWARE --> CONTRACTS
    APP --> ANDROID
    ANDROID --> PROCESS
    ANDROID --> CONTRACTS
    ANDROID --> DOMAIN
    CLI --> ERRORS
    APP --> SESSION
    SESSION --> REGISTRY
    SESSION --> SNAPSHOT
    SNAPSHOT --> RECORDS
    APP -->|record callbacks| RECORDS
    SERVER -->|narrow record ports| RECORDS
    RECORDS --> DOMAIN
    COMPOSITION --> PWNTOOLS
    PWNTOOLS --> PROCESS
    PWNTOOLS --> DOMAIN
    COMPOSITION --> HOPPER
    COMPOSITION --> GHIDRA
    COMPOSITION --> IDA
    COMPOSITION --> AUX
    IDA --> IDA_MCP
    IDA --> CONTRACTS
    IDA --> DOMAIN
    SESSION --> AUX
    APP --> JS_RECON
    APP --> INSTALL
    SERVER --> CONTRACTS
    SERVER --> APP
    APP --> BROWSER
    APP -->|source-map codec port| JS_CODEC
    JS_CODEC --> PROCESS
    JS_CODEC --> DOMAIN
    APP -->|runtime observation port| INSPECTOR
    INSPECTOR -->|shared CDP and file-location helpers| BROWSER
    INSPECTOR --> DOMAIN
    APP --> DOTNET
    DOTNET --> DOMAIN
    HOPPER --> HOPPER_BRIDGE
    GHIDRA --> GHIDRA_BRIDGE
    HOPPER --> PROCESS
    GHIDRA --> PROCESS
    GHIDRA --> WINDOWS
    PROCESS --> WINDOWS
    WINDOWS --> WINDOWS_NATIVE
    APP --> PROCESS
    APP --> DOMAIN
    JS_RECON --> AUX
    JS_RECON --> DOMAIN
    APP --> REFERENCE
    REFERENCE --> DOMAIN
    CONTRACTS --> DOMAIN
    HOPPER --> DOMAIN
    GHIDRA --> DOMAIN
    AUX --> DOMAIN
    BROWSER --> DOMAIN
    PROCESS --> DOMAIN
    TESTS -.-> MAIN
    TESTS -.-> HOPPER
    TESTS -.-> GHIDRA
    TESTS -.-> IDA
    TESTS -.-> PROCESS
    TESTS -.-> BROWSER
    TESTS -.-> EVALUATION
    TESTS -.-> ERRORS

    COMPOSITION --> EVM
    APP -->|EVM interface port| EVM
    EVM --> PROCESS
    EVM --> DOMAIN