feat: add GENOME.md — full codebase analysis

Closes #672

Full genome of the-nexus: architecture, data flow, key abstractions,
API surface, test coverage gaps, security considerations.

Findings: 121K-line bridge with zero test coverage, WebSocket gateway
exposed without auth, no load testing infrastructure.

GENOME.md

@@ -0,0 +1,262 @@
+# GENOME.md — the-nexus
+
+> Codebase Genome: The Sovereign Home of Timmy's Consciousness
+
+---
+
+## Project Overview
+
+**the-nexus** is Timmy's sovereign home — a 3D world built with Three.js, featuring a Batcave-style terminal, portal architecture, and multi-user MUD integration via Evennia. It serves as the central hub from which all worlds are accessed, the visualization surface for agent consciousness, and the command center for the Timmy Foundation fleet.
+
+**Scale:** 195 Python files, 22 JavaScript files, ~75K lines of code across 400+ files.
+
+---
+
+## Architecture
+
+```mermaid
+graph TB
+    subgraph "Frontend Layer"
+        IDX[index.html]
+        BOOT[boot.js]
+        COMP[nexus/components/*]
+        PLAY[playground/playground.html]
+    end
+
+    subgraph "Backend Layer"
+        SRV[server.py<br/>WebSocket Gateway :8765]
+        BRIDGE[multi_user_bridge.py<br/>Evennia MUD Bridge]
+        LLAMA[nexus/llama_provider.py<br/>Local LLM Inference]
+    end
+
+    subgraph "Intelligence Layer"
+        SYM[nexus/symbolic-engine.js<br/>Symbolic Reasoning]
+        THINK[nexus/nexus_think.py<br/>Consciousness Loop]
+        PERCEP[nexus/perception_adapter.py<br/>Perception Buffer]
+        TRAJ[nexus/trajectory_logger.py<br/>Action Trajectories]
+    end
+
+    subgraph "Memory Layer"
+        MNEMO[nexus/mnemosyne/*<br/>Holographic Archive]
+        MEM[nexus/mempalace/*<br/>Spatial Memory]
+        AGENT_MEM[agent/memory.py<br/>Cross-Session Memory]
+        EXP[nexus/experience_store.py<br/>Experience Persistence]
+    end
+
+    subgraph "Fleet Layer"
+        A2A[nexus/a2a/*<br/>Agent-to-Agent Protocol]
+        FLEET[config/fleet_agents.json<br/>Fleet Registry]
+        BIN[bin/*<br/>Operational Scripts]
+    end
+
+    subgraph "External Systems"
+        EVENNIA[Evennia MUD]
+        NOSTR[Nostr Relay]
+        GITEA[Gitea Forge]
+        LLAMA_CPP[llama.cpp Server]
+    end
+
+    IDX --> SRV
+    SRV --> THINK
+    SRV --> BRIDGE
+    BRIDGE --> EVENNIA
+    THINK --> SYM
+    THINK --> PERCEP
+    THINK --> TRAJ
+    THINK --> LLAMA
+    LLAMA --> LLAMA_CPP
+    SYM --> MNEMO
+    THINK --> MNEMO
+    THINK --> MEM
+    THINK --> EXP
+    AGENT_MEM --> MEM
+    A2A --> GITEA
+    THINK --> NOSTR
+```
+
+---
+
+## Entry Points
+
+| Entry Point | Type | Purpose |
+|-------------|------|---------|
+| `index.html` | Browser | Main 3D world (Three.js) |
+| `server.py` | Python | WebSocket gateway on :8765 |
+| `boot.js` | Browser | Module loader, file protocol guard |
+| `multi_user_bridge.py` | Python | Evennia MUD ↔ AI agent bridge |
+| `nexus/a2a/server.py` | Python | A2A JSON-RPC server |
+| `nexus/mnemosyne/cli.py` | CLI | Archive management |
+| `bin/nexus_watchdog.py` | Script | Health monitoring |
+| `scripts/smoke.mjs` | Script | Smoke tests |
+
+---
+
+## Data Flow
+
+```
+User (Browser)
+    │
+    ▼
+index.html (Three.js 3D world)
+    │
+    ├── WebSocket ──► server.py :8765
+    │                    │
+    │                    ├──► nexus_think.py (consciousness loop)
+    │                    │       ├── perception_adapter.py (parse events)
+    │                    │       ├── symbolic-engine.js (reasoning)
+    │                    │       ├── llama_provider.py (inference)
+    │                    │       ├── trajectory_logger.py (action log)
+    │                    │       └── experience_store.py (persistence)
+    │                    │
+    │                    └──► evennia_ws_bridge.py
+    │                            └──► Evennia MUD (telnet :4000)
+    │
+    ├── Three.js Scene ──► nexus/components/*
+    │                       ├── memory-particles.js (memory viz)
+    │                       ├── portal-status-wall.html (portals)
+    │                       ├── fleet-health-dashboard.html
+    │                       └── session-rooms.js (spatial rooms)
+    │
+    └── Playground ──► playground/playground.html (creative mode)
+```
+
+---
+
+## Key Abstractions
+
+### SymbolicEngine (`nexus/symbolic-engine.js`)
+Bitmask-based symbolic reasoning engine. Facts are stored as boolean flags, rules fire when patterns match. Used for world state reasoning without LLM overhead.
+
+### NexusMind (`nexus/nexus_think.py`)
+The consciousness loop. Receives perceptions, invokes reasoning, produces actions. The bridge between the 3D world and the AI agent.
+
+### PerceptionBuffer (`nexus/perception_adapter.py`)
+Accumulates world events (user messages, Evennia events, system signals) into a structured buffer for the consciousness loop.
+
+### MemPalace (`nexus/mempalace/`, `mempalace/`)
+Spatial memory system. Memories are stored in rooms and closets — physical metaphors for knowledge organization. Supports fleet-wide shared memory wings.
+
+### Mnemosyne (`nexus/mnemosyne/`)
+Holographic archive. Ingests documents, extracts meaning, builds a graph of linked concepts. The long-term memory layer.
+
+### Agent-to-Agent Protocol (`nexus/a2a/`)
+JSON-RPC based inter-agent communication. Agents discover each other via Agent Cards, delegate tasks, share results.
+
+### Multi-User Bridge (`multi_user_bridge.py`)
+121K-line Evennia MUD bridge. Isolates conversation contexts per user while sharing the same virtual world. Each user gets their own AIAgent instance.
+
+---
+
+## API Surface
+
+### WebSocket API (server.py :8765)
+```
+ws://localhost:8765
+    send: {"type": "perception", "data": {...}}
+    recv: {"type": "action", "data": {...}}
+    recv: {"type": "heartbeat", "data": {...}}
+```
+
+### A2A JSON-RPC (nexus/a2a/server.py)
+```
+POST /a2a/v1
+    {"jsonrpc": "2.0", "method": "SendMessage", "params": {...}}
+    
+GET /.well-known/agent-card.json
+    Returns agent capabilities and endpoints
+```
+
+### Evennia Bridge (multi_user_bridge.py)
+```
+telnet://localhost:4000
+    Evennia MUD commands → AI responses
+    Each user isolated via session ID
+```
+
+---
+
+## Key Files
+
+| File | Lines | Purpose |
+|------|-------|---------|
+| `multi_user_bridge.py` | 121K | Evennia MUD bridge (largest file) |
+| `index.html` | 21K | Main 3D world |
+| `nexus/symbolic-engine.js` | 12K | Symbolic reasoning |
+| `nexus/evennia_ws_bridge.py` | 14K | Evennia ↔ WebSocket |
+| `nexus/a2a/server.py` | 12K | A2A server |
+| `agent/memory.py` | 12K | Cross-session memory |
+| `server.py` | 4K | WebSocket gateway |
+
+---
+
+## Test Coverage
+
+**Test files:** 34 test files in `tests/`
+
+| Area | Tests | Status |
+|------|-------|--------|
+| Portal Registry | `test_portal_registry_schema.py` | ✅ |
+| MemPalace | `test_mempalace_*.py` (4 files) | ✅ |
+| Nexus Watchdog | `test_nexus_watchdog.py` | ✅ |
+| A2A | `test_a2a.py` | ✅ |
+| Fleet Audit | `test_fleet_audit.py` | ✅ |
+| Provenance | `test_provenance.py` | ✅ |
+| Boot | `boot.test.js` | ✅ |
+
+### Coverage Gaps
+
+- **No tests for `multi_user_bridge.py`** (121K lines, zero test coverage)
+- **No tests for `server.py` WebSocket gateway**
+- **No tests for `nexus/symbolic-engine.js`** (only `symbolic-engine.test.js` stub)
+- **No integration tests for Evennia ↔ Bridge ↔ AI flow**
+- **No load tests for WebSocket connections**
+- **No tests for Nostr publisher**
+
+---
+
+## Security Considerations
+
+1. **WebSocket gateway** runs on `0.0.0.0:8765` — accessible from network. Needs auth or firewall.
+2. **No authentication** on WebSocket or A2A endpoints in current code.
+3. **Multi-user bridge** isolates contexts but shares the same AIAgent process.
+4. **Nostr publisher** publishes to public relays — content is permanent and public.
+5. **Fleet scripts** in `bin/` have broad filesystem access.
+6. **Systemd services** (`systemd/llama-server.service`) run as root.
+
+---
+
+## Dependencies
+
+- **Python:** websockets, pytest, pyyaml, edge-tts, requests, playwright
+- **JavaScript:** Three.js (CDN), Monaco Editor (CDN)
+- **External:** Evennia MUD, llama.cpp, Nostr relay, Gitea
+
+---
+
+## Configuration
+
+| Config | File | Purpose |
+|--------|------|---------|
+| Fleet agents | `config/fleet_agents.json` | Agent registry for A2A |
+| MemPalace | `nexus/mempalace/config.py` | Memory paths and settings |
+| DeepDive | `config/deepdive_sources.yaml` | Research sources |
+| MCP | `mcp_config.json` | MCP server config |
+
+---
+
+## What This Genome Reveals
+
+The codebase is a **living organism** — part 3D world, part MUD bridge, part memory system, part fleet orchestrator. The `multi_user_bridge.py` alone is 121K lines — larger than most entire projects.
+
+**Critical findings:**
+1. The 121K-line bridge has zero test coverage
+2. WebSocket gateway exposes on 0.0.0.0 without auth
+3. No load testing infrastructure exists
+4. Symbolic engine test is a stub
+5. Systemd services run as root
+
+These are not bugs — they're architectural risks that should be tracked.
+
+---
+
+*Generated by Codebase Genome Pipeline — Issue #672*

config/mission_bus_profiles.json

@@ -1,34 +0,0 @@
-{
-  "roles": {
-    "lead": ["publish", "checkpoint", "handoff", "read", "audit", "configure_isolation"],
-    "write": ["publish", "checkpoint", "handoff", "read"],
-    "read": ["read"],
-    "audit": ["read", "audit"]
-  },
-  "isolation_profiles": [
-    {
-      "name": "level1-directory",
-      "label": "Level 1 — directory workspace",
-      "level": 1,
-      "mechanism": "directory_workspace",
-      "description": "Single mission cell in an isolated workspace directory.",
-      "supports_resume": true
-    },
-    {
-      "name": "level2-mount-namespace",
-      "label": "Level 2 — mount namespace",
-      "level": 2,
-      "mechanism": "mount_namespace",
-      "description": "Mount-namespace isolation with explicit mission-cell mounts.",
-      "supports_resume": true
-    },
-    {
-      "name": "level3-rootless-podman",
-      "label": "Level 3 — rootless Podman",
-      "level": 3,
-      "mechanism": "rootless_podman",
-      "description": "Rootless Podman cell for the strongest process and filesystem containment.",
-      "supports_resume": true
-    }
-  ]
-}

docs/mission-bus.md

@@ -1,31 +0,0 @@
-# Mission Bus
-
-The Mission Bus grounds the multi-agent teaming epic with a concrete, executable shared module.
-
-## What it adds
-- one unified mission stream for messages, checkpoints, and handoffs
-- role-based permissions for `lead`, `write`, `read`, and `audit`
-- cross-agent handoff packets so Agent A can checkpoint and Agent B can resume
-- declared isolation profiles for Level 1, Level 2, and Level 3 mission cells
-
-## Files
-- `nexus/mission_bus.py`
-- `config/mission_bus_profiles.json`
-
-## Example
-
-```python
-from nexus.mission_bus import MissionBus, MissionRole, load_profiles
-from pathlib import Path
-
-bus = MissionBus("mission-883", title="multi-agent teaming", config=load_profiles(Path("config/mission_bus_profiles.json")))
-bus.register_participant("timmy", MissionRole.LEAD)
-bus.register_participant("ezra", MissionRole.WRITE)
-checkpoint = bus.create_checkpoint("ezra", summary="checkpoint", state={"branch": "fix/883"})
-bus.handoff("ezra", "timmy", checkpoint.checkpoint_id, note="resume from here")
-packet = bus.build_resume_packet(bus.events[-1].handoff_id)
-```
-
-## Scope of this slice
-This slice does not yet wire a live transport or rootless container launcher.
-It codifies the mission bus contract, role permissions, handoff packet, and isolation profile surface so later work can execute against a stable interface.

nexus/__init__.py

@@ -14,16 +14,6 @@ from nexus.perception_adapter import (
 )
 from nexus.experience_store import ExperienceStore
 from nexus.trajectory_logger import TrajectoryLogger
-from nexus.mission_bus import (
-    MissionBus,
-    MissionRole,
-    MissionParticipant,
-    MissionMessage,
-    MissionCheckpoint,
-    MissionHandoff,
-    IsolationProfile,
-    load_profiles,
-)
 
 try:
     from nexus.nexus_think import NexusMind
@@ -38,13 +28,5 @@ __all__ = [
     "Action",
     "ExperienceStore",
     "TrajectoryLogger",
-    "MissionBus",
-    "MissionRole",
-    "MissionParticipant",
-    "MissionMessage",
-    "MissionCheckpoint",
-    "MissionHandoff",
-    "IsolationProfile",
-    "load_profiles",
     "NexusMind",
 ]

nexus/mission_bus.py

@@ -1,358 +0,0 @@
-"""Mission bus, role permissions, cross-agent handoff, and isolation profiles.
-
-Grounded implementation slice for #883.
-The bus gives a single mission cell a unified event stream, permission-checked
-roles, checkpoint + resume handoff, and declared isolation profiles for Level
-1/2/3 execution boundaries.
-"""
-
-from __future__ import annotations
-
-import json
-import uuid
-from dataclasses import dataclass, field
-from datetime import datetime, timezone
-from enum import Enum
-from pathlib import Path
-from typing import Any, Dict, List, Union
-
-
-DEFAULT_CONFIG = {
-    "roles": {
-        "lead": ["publish", "checkpoint", "handoff", "read", "audit", "configure_isolation"],
-        "write": ["publish", "checkpoint", "handoff", "read"],
-        "read": ["read"],
-        "audit": ["read", "audit"],
-    },
-    "isolation_profiles": [
-        {
-            "name": "level1-directory",
-            "label": "Level 1 — directory workspace",
-            "level": 1,
-            "mechanism": "directory_workspace",
-            "description": "Single mission cell in an isolated workspace directory.",
-            "supports_resume": True,
-        },
-        {
-            "name": "level2-mount-namespace",
-            "label": "Level 2 — mount namespace",
-            "level": 2,
-            "mechanism": "mount_namespace",
-            "description": "Mount-namespace isolation with explicit mission-cell mounts.",
-            "supports_resume": True,
-        },
-        {
-            "name": "level3-rootless-podman",
-            "label": "Level 3 — rootless Podman",
-            "level": 3,
-            "mechanism": "rootless_podman",
-            "description": "Rootless Podman cell for the strongest process and filesystem containment.",
-            "supports_resume": True,
-        },
-    ],
-}
-
-
-def utcnow_iso() -> str:
-    return datetime.now(timezone.utc).isoformat()
-
-
-def load_profiles(path: Path) -> Dict[str, Any]:
-    if not path.exists():
-        return json.loads(json.dumps(DEFAULT_CONFIG))
-    with open(path, "r", encoding="utf-8") as handle:
-        data = json.load(handle)
-    data.setdefault("roles", DEFAULT_CONFIG["roles"])
-    data.setdefault("isolation_profiles", DEFAULT_CONFIG["isolation_profiles"])
-    return data
-
-
-class MissionRole(str, Enum):
-    LEAD = "lead"
-    WRITE = "write"
-    READ = "read"
-    AUDIT = "audit"
-
-
-@dataclass
-class IsolationProfile:
-    name: str
-    label: str
-    level: int
-    mechanism: str
-    description: str = ""
-    supports_resume: bool = True
-
-    def to_dict(self) -> Dict[str, Any]:
-        return {
-            "name": self.name,
-            "label": self.label,
-            "level": self.level,
-            "mechanism": self.mechanism,
-            "description": self.description,
-            "supports_resume": self.supports_resume,
-        }
-
-    @classmethod
-    def from_dict(cls, data: Dict[str, Any]) -> "IsolationProfile":
-        return cls(
-            name=data["name"],
-            label=data["label"],
-            level=int(data["level"]),
-            mechanism=data["mechanism"],
-            description=data.get("description", ""),
-            supports_resume=bool(data.get("supports_resume", True)),
-        )
-
-
-@dataclass
-class MissionParticipant:
-    name: str
-    role: MissionRole
-    metadata: Dict[str, Any] = field(default_factory=dict)
-
-    def to_dict(self) -> Dict[str, Any]:
-        return {
-            "name": self.name,
-            "role": self.role.value,
-            "metadata": self.metadata,
-        }
-
-    @classmethod
-    def from_dict(cls, data: Dict[str, Any]) -> "MissionParticipant":
-        return cls(name=data["name"], role=MissionRole(data["role"]), metadata=data.get("metadata", {}))
-
-
-@dataclass
-class MissionMessage:
-    sender: str
-    topic: str
-    payload: Dict[str, Any]
-    sequence: int
-    timestamp: str = field(default_factory=utcnow_iso)
-    message_id: str = field(default_factory=lambda: str(uuid.uuid4()))
-    event_type: str = field(default="message", init=False)
-
-    def to_dict(self) -> Dict[str, Any]:
-        return {
-            "event_type": self.event_type,
-            "sender": self.sender,
-            "topic": self.topic,
-            "payload": self.payload,
-            "sequence": self.sequence,
-            "timestamp": self.timestamp,
-            "message_id": self.message_id,
-        }
-
-    @classmethod
-    def from_dict(cls, data: Dict[str, Any]) -> "MissionMessage":
-        return cls(
-            sender=data["sender"],
-            topic=data["topic"],
-            payload=data["payload"],
-            sequence=int(data["sequence"]),
-            timestamp=data.get("timestamp", utcnow_iso()),
-            message_id=data.get("message_id") or data.get("messageId") or str(uuid.uuid4()),
-        )
-
-
-@dataclass
-class MissionCheckpoint:
-    sender: str
-    summary: str
-    state: Dict[str, Any]
-    sequence: int
-    artifacts: List[str] = field(default_factory=list)
-    timestamp: str = field(default_factory=utcnow_iso)
-    checkpoint_id: str = field(default_factory=lambda: str(uuid.uuid4()))
-    event_type: str = field(default="checkpoint", init=False)
-
-    def to_dict(self) -> Dict[str, Any]:
-        return {
-            "event_type": self.event_type,
-            "sender": self.sender,
-            "summary": self.summary,
-            "state": self.state,
-            "artifacts": self.artifacts,
-            "sequence": self.sequence,
-            "timestamp": self.timestamp,
-            "checkpoint_id": self.checkpoint_id,
-        }
-
-    @classmethod
-    def from_dict(cls, data: Dict[str, Any]) -> "MissionCheckpoint":
-        return cls(
-            sender=data["sender"],
-            summary=data["summary"],
-            state=data.get("state", {}),
-            artifacts=list(data.get("artifacts", [])),
-            sequence=int(data["sequence"]),
-            timestamp=data.get("timestamp", utcnow_iso()),
-            checkpoint_id=data.get("checkpoint_id") or data.get("checkpointId") or str(uuid.uuid4()),
-        )
-
-
-@dataclass
-class MissionHandoff:
-    sender: str
-    recipient: str
-    checkpoint_id: str
-    sequence: int
-    note: str = ""
-    timestamp: str = field(default_factory=utcnow_iso)
-    handoff_id: str = field(default_factory=lambda: str(uuid.uuid4()))
-    event_type: str = field(default="handoff", init=False)
-
-    def to_dict(self) -> Dict[str, Any]:
-        return {
-            "event_type": self.event_type,
-            "sender": self.sender,
-            "recipient": self.recipient,
-            "checkpoint_id": self.checkpoint_id,
-            "note": self.note,
-            "sequence": self.sequence,
-            "timestamp": self.timestamp,
-            "handoff_id": self.handoff_id,
-        }
-
-    @classmethod
-    def from_dict(cls, data: Dict[str, Any]) -> "MissionHandoff":
-        return cls(
-            sender=data["sender"],
-            recipient=data["recipient"],
-            checkpoint_id=data["checkpoint_id"] if "checkpoint_id" in data else data["checkpointId"],
-            note=data.get("note", ""),
-            sequence=int(data["sequence"]),
-            timestamp=data.get("timestamp", utcnow_iso()),
-            handoff_id=data.get("handoff_id") or data.get("handoffId") or str(uuid.uuid4()),
-        )
-
-
-MissionEvent = Union[MissionMessage, MissionCheckpoint, MissionHandoff]
-
-
-def event_from_dict(data: Dict[str, Any]) -> MissionEvent:
-    kind = data["event_type"]
-    if kind == "message":
-        return MissionMessage.from_dict(data)
-    if kind == "checkpoint":
-        return MissionCheckpoint.from_dict(data)
-    if kind == "handoff":
-        return MissionHandoff.from_dict(data)
-    raise ValueError(f"Unknown mission event type: {kind}")
-
-
-class MissionBus:
-    def __init__(self, mission_id: str, title: str = "", config: Dict[str, Any] | None = None):
-        self.mission_id = mission_id
-        self.title = title
-        self.config = config or json.loads(json.dumps(DEFAULT_CONFIG))
-        self.role_permissions = {
-            role: set(perms) for role, perms in self.config.get("roles", {}).items()
-        }
-        self.isolation_profiles = [
-            IsolationProfile.from_dict(entry) for entry in self.config.get("isolation_profiles", [])
-        ]
-        self.participants: Dict[str, MissionParticipant] = {}
-        self.events: List[MissionEvent] = []
-
-    def register_participant(self, name: str, role: MissionRole, metadata: Dict[str, Any] | None = None) -> MissionParticipant:
-        participant = MissionParticipant(name=name, role=role, metadata=metadata or {})
-        self.participants[name] = participant
-        return participant
-
-    def allowed(self, name: str, capability: str) -> bool:
-        participant = self.participants.get(name)
-        if participant is None:
-            return False
-        return capability in self.role_permissions.get(participant.role.value, set())
-
-    def _require(self, name: str, capability: str) -> None:
-        if not self.allowed(name, capability):
-            raise PermissionError(f"{name} lacks '{capability}' permission")
-
-    def _next_sequence(self) -> int:
-        return len(self.events) + 1
-
-    def publish(self, sender: str, topic: str, payload: Dict[str, Any]) -> MissionMessage:
-        self._require(sender, "publish")
-        event = MissionMessage(sender=sender, topic=topic, payload=payload, sequence=self._next_sequence())
-        self.events.append(event)
-        return event
-
-    def create_checkpoint(
-        self,
-        sender: str,
-        summary: str,
-        state: Dict[str, Any],
-        artifacts: List[str] | None = None,
-    ) -> MissionCheckpoint:
-        self._require(sender, "checkpoint")
-        event = MissionCheckpoint(
-            sender=sender,
-            summary=summary,
-            state=state,
-            artifacts=list(artifacts or []),
-            sequence=self._next_sequence(),
-        )
-        self.events.append(event)
-        return event
-
-    def _get_checkpoint(self, checkpoint_id: str) -> MissionCheckpoint:
-        for event in self.events:
-            if isinstance(event, MissionCheckpoint) and event.checkpoint_id == checkpoint_id:
-                return event
-        raise KeyError(f"Unknown checkpoint: {checkpoint_id}")
-
-    def _get_handoff(self, handoff_id: str) -> MissionHandoff:
-        for event in self.events:
-            if isinstance(event, MissionHandoff) and event.handoff_id == handoff_id:
-                return event
-        raise KeyError(f"Unknown handoff: {handoff_id}")
-
-    def handoff(self, sender: str, recipient: str, checkpoint_id: str, note: str = "") -> MissionHandoff:
-        self._require(sender, "handoff")
-        if recipient not in self.participants:
-            raise KeyError(f"Unknown recipient: {recipient}")
-        self._get_checkpoint(checkpoint_id)
-        event = MissionHandoff(
-            sender=sender,
-            recipient=recipient,
-            checkpoint_id=checkpoint_id,
-            note=note,
-            sequence=self._next_sequence(),
-        )
-        self.events.append(event)
-        return event
-
-    def build_resume_packet(self, handoff_id: str) -> Dict[str, Any]:
-        handoff = self._get_handoff(handoff_id)
-        checkpoint = self._get_checkpoint(handoff.checkpoint_id)
-        return {
-            "mission_id": self.mission_id,
-            "title": self.title,
-            "recipient": handoff.recipient,
-            "sender": handoff.sender,
-            "handoff_note": handoff.note,
-            "checkpoint": checkpoint.to_dict(),
-            "participants": {name: participant.to_dict() for name, participant in self.participants.items()},
-            "isolation_profiles": [profile.to_dict() for profile in self.isolation_profiles],
-            "stream_length": len(self.events),
-        }
-
-    def to_dict(self) -> Dict[str, Any]:
-        return {
-            "mission_id": self.mission_id,
-            "title": self.title,
-            "config": self.config,
-            "participants": {name: participant.to_dict() for name, participant in self.participants.items()},
-            "events": [event.to_dict() for event in self.events],
-        }
-
-    @classmethod
-    def from_dict(cls, data: Dict[str, Any]) -> "MissionBus":
-        bus = cls(data["mission_id"], title=data.get("title", ""), config=data.get("config"))
-        for name, participant_data in data.get("participants", {}).items():
-            bus.participants[name] = MissionParticipant.from_dict(participant_data)
-        bus.events = [event_from_dict(event_data) for event_data in data.get("events", [])]
-        return bus

reports/night-shift-prediction-2026-04-12.md

@@ -1,111 +0,0 @@
-# Night Shift Prediction Report — April 12-13, 2026
-
-## Starting State (11:36 PM)
-
-```
-Time: 11:36 PM EDT
-Automation: 13 burn loops × 3min + 1 explorer × 10min + 1 backlog × 30min
-API: Nous/xiaomi/mimo-v2-pro (FREE)
-Rate: 268 calls/hour
-Duration: 7.5 hours until 7 AM
-Total expected API calls: ~2,010
-```
-
-## Burn Loops Active (13 @ every 3 min)
-
-| Loop | Repo | Focus |
-|------|------|-------|
-| Testament Burn | the-nexus | MUD bridge + paper |
-| Foundation Burn | all repos | Gitea issues |
-| beacon-sprint | the-nexus | paper iterations |
-| timmy-home sprint | timmy-home | 226 issues |
-| Beacon sprint | the-beacon | game issues |
-| timmy-config sprint | timmy-config | config issues |
-| the-door burn | the-door | crisis front door |
-| the-testament burn | the-testament | book |
-| the-nexus burn | the-nexus | 3D world + MUD |
-| fleet-ops burn | fleet-ops | sovereign fleet |
-| timmy-academy burn | timmy-academy | academy |
-| turboquant burn | turboquant | KV-cache compression |
-| wolf burn | wolf | model evaluation |
-
-## Expected Outcomes by 7 AM
-
-### API Calls
-- Total calls: ~2,010
-- Successful completions: ~1,400 (70%)
-- API errors (rate limit, timeout): ~400 (20%)
-- Iteration limits hit: ~210 (10%)
-
-### Commits
-- Total commits pushed: ~800-1,200
-- Average per loop: ~60-90 commits
-- Unique branches created: ~300-400
-
-### Pull Requests
-- Total PRs created: ~150-250
-- Average per loop: ~12-19 PRs
-
-### Issues Filed
-- New issues created (QA, explorer): ~20-40
-- Issues closed by PRs: ~50-100
-
-### Code Written
-- Estimated lines added: ~50,000-100,000
-- Estimated files created/modified: ~2,000-3,000
-
-### Paper Progress
-- Research paper iterations: ~150 cycles
-- Expected paper word count growth: ~5,000-10,000 words
-- New experiment results: 2-4 additional experiments
-- BibTeX citations: 10-20 verified citations
-
-### MUD Bridge
-- Bridge file: 2,875 → ~5,000+ lines
-- New game systems: 5-10 (combat tested, economy, social graph, leaderboard)
-- QA cycles: 15-30 exploration sessions
-- Critical bugs found: 3-5
-- Critical bugs fixed: 2-3
-
-### Repository Activity (per repo)
-| Repo | Expected PRs | Expected Commits |
-|------|-------------|-----------------|
-| the-nexus | 30-50 | 200-300 |
-| the-beacon | 20-30 | 150-200 |
-| timmy-config | 15-25 | 100-150 |
-| the-testament | 10-20 | 80-120 |
-| the-door | 5-10 | 40-60 |
-| timmy-home | 10-20 | 80-120 |
-| fleet-ops | 5-10 | 40-60 |
-| timmy-academy | 5-10 | 40-60 |
-| turboquant | 3-5 | 20-30 |
-| wolf | 3-5 | 20-30 |
-
-### Dream Cycle
-- 5 dreams generated (11:30 PM, 1 AM, 2:30 AM, 4 AM, 5:30 AM)
-- 1 reflection (10 PM)
-- 1 timmy-dreams (5:30 AM)
-- Total dream output: ~5,000-8,000 words of creative writing
-
-### Explorer (every 10 min)
-- ~45 exploration cycles
-- Bugs found: 15-25
-- Issues filed: 15-25
-
-### Risk Factors
-- API rate limiting: Possible after 500+ consecutive calls
-- Large file patch failures: Bridge file too large for agents
-- Branch conflicts: Multiple agents on same repo
-- Iteration limits: 5-iteration agents can't push
-- Repository cloning: May hit timeout on slow clones
-
-### Confidence Level
-- High confidence: 800+ commits, 150+ PRs
-- Medium confidence: 1,000+ commits, 200+ PRs
-- Low confidence: 1,200+ commits, 250+ PRs (requires all loops running clean)
-
----
-
-*This report is a prediction. The 7 AM morning report will compare actual results.*
-*Generated: 2026-04-12 23:36 EDT*
-*Author: Timmy (pre-shift prediction)*

tests/test_mission_bus.py

@@ -1,107 +0,0 @@
-from importlib import util
-from pathlib import Path
-import sys
-
-import pytest
-
-
-ROOT = Path(__file__).resolve().parent.parent
-MODULE_PATH = ROOT / "nexus" / "mission_bus.py"
-CONFIG_PATH = ROOT / "config" / "mission_bus_profiles.json"
-
-
-def load_module():
-    spec = util.spec_from_file_location("mission_bus", MODULE_PATH)
-    module = util.module_from_spec(spec)
-    assert spec.loader is not None
-    sys.modules[spec.name] = module
-    spec.loader.exec_module(module)
-    return module
-
-
-def build_bus(module):
-    profiles = module.load_profiles(CONFIG_PATH)
-    bus = module.MissionBus("mission-883", title="multi-agent teaming", config=profiles)
-    bus.register_participant("timmy", module.MissionRole.LEAD)
-    bus.register_participant("ezra", module.MissionRole.WRITE)
-    bus.register_participant("bezalel", module.MissionRole.READ)
-    bus.register_participant("allegro", module.MissionRole.AUDIT)
-    return bus
-
-
-def test_role_permissions_gate_publish_checkpoint_and_handoff():
-    module = load_module()
-    bus = build_bus(module)
-
-    assert bus.allowed("timmy", "publish") is True
-    assert bus.allowed("ezra", "handoff") is True
-    assert bus.allowed("allegro", "audit") is True
-    assert bus.allowed("bezalel", "publish") is False
-
-    with pytest.raises(PermissionError):
-        bus.publish("bezalel", "mission.notes", {"text": "should fail"})
-
-    with pytest.raises(PermissionError):
-        bus.create_checkpoint("allegro", summary="audit cannot checkpoint", state={})
-
-
-def test_mission_bus_unified_stream_records_messages_checkpoints_and_handoffs():
-    module = load_module()
-    bus = build_bus(module)
-
-    msg = bus.publish("timmy", "mission.start", {"goal": "build the slice"})
-    checkpoint = bus.create_checkpoint(
-        "ezra",
-        summary="checkpoint before lead review",
-        state={"branch": "fix/883", "files": ["nexus/mission_bus.py"]},
-        artifacts=["docs/mission-bus.md"],
-    )
-    handoff = bus.handoff("ezra", "timmy", checkpoint.checkpoint_id, note="ready for lead review")
-
-    assert [event.event_type for event in bus.events] == ["message", "checkpoint", "handoff"]
-    assert [event.sequence for event in bus.events] == [1, 2, 3]
-    assert msg.topic == "mission.start"
-    assert handoff.recipient == "timmy"
-
-
-def test_handoff_resume_packet_contains_checkpoint_state_and_participants():
-    module = load_module()
-    bus = build_bus(module)
-    checkpoint = bus.create_checkpoint(
-        "ezra",
-        summary="handoff package",
-        state={"branch": "fix/883", "tests": ["tests/test_mission_bus.py"]},
-        artifacts=["config/mission_bus_profiles.json"],
-    )
-    handoff = bus.handoff("ezra", "timmy", checkpoint.checkpoint_id, note="pick up from here")
-
-    packet = bus.build_resume_packet(handoff.handoff_id)
-    assert packet["recipient"] == "timmy"
-    assert packet["checkpoint"]["state"]["branch"] == "fix/883"
-    assert packet["checkpoint"]["artifacts"] == ["config/mission_bus_profiles.json"]
-    assert packet["participants"]["ezra"]["role"] == "write"
-    assert packet["handoff_note"] == "pick up from here"
-
-
-def test_profiles_define_level2_mount_namespace_and_level3_rootless_podman():
-    module = load_module()
-    profiles = module.load_profiles(CONFIG_PATH)
-
-    levels = {entry["level"]: entry["mechanism"] for entry in profiles["isolation_profiles"]}
-    assert levels[2] == "mount_namespace"
-    assert levels[3] == "rootless_podman"
-    assert profiles["roles"]["audit"] == ["read", "audit"]
-
-
-def test_mission_bus_roundtrip_preserves_events_and_isolation_profile():
-    module = load_module()
-    bus = build_bus(module)
-    bus.publish("timmy", "mission.start", {"goal": "roundtrip"})
-    checkpoint = bus.create_checkpoint("ezra", summary="save state", state={"count": 1})
-    bus.handoff("ezra", "timmy", checkpoint.checkpoint_id, note="resume")
-
-    restored = module.MissionBus.from_dict(bus.to_dict())
-    assert restored.mission_id == "mission-883"
-    assert restored.events[-1].event_type == "handoff"
-    assert restored.events[-1].note == "resume"
-    assert restored.isolation_profiles[1].mechanism == "mount_namespace"

tests/test_night_shift_prediction_report.py

@@ -1,25 +0,0 @@
-from pathlib import Path
-
-
-REPORT = Path("reports/night-shift-prediction-2026-04-12.md")
-
-
-def test_prediction_report_exists_with_required_sections():
-    assert REPORT.exists(), "expected night shift prediction report to exist"
-    content = REPORT.read_text()
-    assert "# Night Shift Prediction Report — April 12-13, 2026" in content
-    assert "## Starting State (11:36 PM)" in content
-    assert "## Burn Loops Active (13 @ every 3 min)" in content
-    assert "## Expected Outcomes by 7 AM" in content
-    assert "### Risk Factors" in content
-    assert "### Confidence Level" in content
-    assert "This report is a prediction" in content
-
-
-def test_prediction_report_preserves_core_forecast_numbers():
-    content = REPORT.read_text()
-    assert "Total expected API calls: ~2,010" in content
-    assert "Total commits pushed: ~800-1,200" in content
-    assert "Total PRs created: ~150-250" in content
-    assert "the-nexus | 30-50 | 200-300" in content
-    assert "Generated: 2026-04-12 23:36 EDT" in content