docs: add Mission Cell foundation spec (#879)

bin/issue_backlog_manager.py

@@ -1,287 +0,0 @@
-#!/usr/bin/env python3
-"""
-Issue Backlog Manager — Triage, categorize, and manage Gitea issue backlogs.
-
-Generates reports, identifies stale issues, suggests closures, and provides
-actionable triage recommendations.
-
-Usage:
-    python bin/issue_backlog_manager.py timmy-home              # Full report
-    python bin/issue_backlog_manager.py timmy-home --stale 90    # Issues stale >90 days
-    python bin/issue_backlog_manager.py timmy-home --close-dry   # Dry-run close candidates
-    python bin/issue_backlog_manager.py timmy-home --json        # JSON output
-"""
-
-import json
-import os
-import re
-import sys
-from collections import Counter, defaultdict
-from datetime import datetime, timedelta, timezone
-from pathlib import Path
-from typing import Any
-
-try:
-    import urllib.request
-except ImportError:
-    print("Error: urllib required")
-    sys.exit(1)
-
-# ---------------------------------------------------------------------------
-# Config
-# ---------------------------------------------------------------------------
-
-GITEA_BASE = os.environ.get("GITEA_API_BASE", "https://forge.alexanderwhitestone.com/api/v1")
-TOKEN_PATH = os.environ.get("GITEA_TOKEN_PATH", str(Path.home() / ".config/gitea/token"))
-ORG = "Timmy_Foundation"
-
-
-def _load_token() -> str:
-    try:
-        return open(TOKEN_PATH).read().strip()
-    except FileNotFoundError:
-        print(f"Token not found at {TOKEN_PATH}", file=sys.stderr)
-        sys.exit(1)
-
-
-def api_get(path: str, token: str) -> Any:
-    req = urllib.request.Request(f"{GITEA_BASE}{path}")
-    req.add_header("Authorization", f"token {token}")
-    return json.loads(urllib.request.urlopen(req, timeout=30).read())
-
-
-# ---------------------------------------------------------------------------
-# Issue fetching
-# ---------------------------------------------------------------------------
-
-def fetch_all_open_issues(repo: str, token: str) -> list[dict]:
-    """Fetch all open issues for a repo (paginated)."""
-    issues = []
-    page = 1
-    while True:
-        batch = api_get(f"/repos/{ORG}/{repo}/issues?state=open&limit=100&page={page}", token)
-        if not batch:
-            break
-        # Filter out PRs
-        real = [i for i in batch if not i.get("pull_request")]
-        issues.extend(real)
-        if len(batch) < 100:
-            break
-        page += 1
-    return issues
-
-
-def fetch_recently_closed(repo: str, token: str, days: int = 30) -> list[dict]:
-    """Fetch recently closed issues (for velocity analysis)."""
-    since = (datetime.now(timezone.utc) - timedelta(days=days)).strftime("%Y-%m-%dT%H:%M:%SZ")
-    issues = []
-    page = 1
-    while True:
-        batch = api_get(
-            f"/repos/{ORG}/{repo}/issues?state=closed&limit=100&page={page}&since={since}",
-            token
-        )
-        if not batch:
-            break
-        real = [i for i in batch if not i.get("pull_request")]
-        issues.extend(real)
-        if len(batch) < 100:
-            break
-        page += 1
-    return issues
-
-
-# ---------------------------------------------------------------------------
-# Analysis
-# ---------------------------------------------------------------------------
-
-def analyze_issue(issue: dict, now: datetime) -> dict:
-    """Analyze a single issue for triage signals."""
-    created = datetime.fromisoformat(issue["created_at"].replace("Z", "+00:00"))
-    updated = datetime.fromisoformat(issue["updated_at"].replace("Z", "+00:00"))
-    age_days = (now - created).days
-    stale_days = (now - updated).days
-
-    labels = [l["name"] for l in issue.get("labels", [])]
-    has_assignee = bool(issue.get("assignees"))
-    has_pr_ref = bool(re.search(r"#\d+|PR|pull", issue.get("body", ""), re.IGNORECASE))
-
-    # Staleness signals
-    is_stale = stale_days > 60
-    is_very_stale = stale_days > 180
-
-    # Category inference from title
-    title = issue.get("title", "").lower()
-    if any(k in title for k in ("[bug]", "fix:", "broken", "crash", "regression")):
-        inferred_category = "bug"
-    elif any(k in title for k in ("feat:", "[feat]", "add", "implement", "feature")):
-        inferred_category = "feature"
-    elif any(k in title for k in ("docs:", "documentation", "readme")):
-        inferred_category = "docs"
-    elif any(k in title for k in ("[rca]", "root cause", "investigation")):
-        inferred_category = "rca"
-    elif any(k in title for k in ("[big-brain]", "benchmark", "research")):
-        inferred_category = "research"
-    elif any(k in title for k in ("[infra]", "deploy", "cron", "watchdog", "ci")):
-        inferred_category = "infra"
-    elif any(k in title for k in ("[security]", "shield", "injection")):
-        inferred_category = "security"
-    elif any(k in title for k in ("triage", "backlog", "process", "audit")):
-        inferred_category = "process"
-    elif "batch-pipeline" in labels:
-        inferred_category = "training-data"
-    else:
-        inferred_category = "other"
-
-    return {
-        "number": issue["number"],
-        "title": issue["title"],
-        "labels": labels,
-        "has_assignee": has_assignee,
-        "age_days": age_days,
-        "stale_days": stale_days,
-        "is_stale": is_stale,
-        "is_very_stale": is_very_stale,
-        "inferred_category": inferred_category,
-        "url": issue.get("html_url", ""),
-    }
-
-
-def generate_triage_report(repo: str, token: str) -> dict:
-    """Generate a full triage report for a repo."""
-    now = datetime.now(timezone.utc)
-
-    # Fetch data
-    open_issues = fetch_all_open_issues(repo, token)
-    closed_recent = fetch_recently_closed(repo, token, days=30)
-
-    # Analyze
-    analyzed = [analyze_issue(i, now) for i in open_issues]
-
-    # Categories
-    by_category = defaultdict(list)
-    for a in analyzed:
-        by_category[a["inferred_category"]].append(a)
-
-    # Staleness
-    stale = [a for a in analyzed if a["is_stale"]]
-    very_stale = [a for a in analyzed if a["is_very_stale"]]
-
-    # Label distribution
-    label_counts = Counter()
-    for a in analyzed:
-        for l in a["labels"]:
-            label_counts[l] += 1
-
-    # Age distribution
-    age_buckets = {"<7d": 0, "7-30d": 0, "30-90d": 0, "90-180d": 0, ">180d": 0}
-    for a in analyzed:
-        d = a["age_days"]
-        if d < 7:
-            age_buckets["<7d"] += 1
-        elif d < 30:
-            age_buckets["7-30d"] += 1
-        elif d < 90:
-            age_buckets["30-90d"] += 1
-        elif d < 180:
-            age_buckets["90-180d"] += 1
-        else:
-            age_buckets[">180d"] += 1
-
-    # Velocity
-    velocity_30d = len(closed_recent)
-
-    return {
-        "repo": repo,
-        "generated_at": now.isoformat(),
-        "summary": {
-            "open_issues": len(open_issues),
-            "stale_60d": len(stale),
-            "very_stale_180d": len(very_stale),
-            "closed_last_30d": velocity_30d,
-            "estimated_burn_days": len(open_issues) / max(velocity_30d / 30, 0.1),
-        },
-        "by_category": {k: len(v) for k, v in by_category.items()},
-        "age_distribution": age_buckets,
-        "top_labels": dict(label_counts.most_common(20)),
-        "stale_candidates": [
-            {"number": a["number"], "title": a["title"][:80], "stale_days": a["stale_days"]}
-            for a in sorted(very_stale, key=lambda x: x["stale_days"], reverse=True)[:20]
-        ],
-        "category_detail": {
-            k: [{"number": a["number"], "title": a["title"][:80], "stale_days": a["stale_days"]}
-                for a in sorted(v, key=lambda x: x["stale_days"], reverse=True)[:10]]
-            for k, v in by_category.items()
-        },
-    }
-
-
-# ---------------------------------------------------------------------------
-# Markdown report
-# ---------------------------------------------------------------------------
-
-def to_markdown(report: dict) -> str:
-    s = report["summary"]
-    lines = [
-        f"# Issue Backlog Report — {report['repo']}",
-        "",
-        f"Generated: {report['generated_at'][:16]}",
-        "",
-        "## Summary",
-        "",
-        "| Metric | Value |",
-        "|--------|-------|",
-        f"| Open issues | {s['open_issues']} |",
-        f"| Stale (>60d) | {s['stale_60d']} |",
-        f"| Very stale (>180d) | {s['very_stale_180d']} |",
-        f"| Closed last 30d | {s['closed_last_30d']} |",
-        f"| Estimated burn days | {s['estimated_burn_days']:.0f} |",
-        "",
-        "## By Category",
-        "",
-        "| Category | Count |",
-        "|----------|-------|",
-    ]
-    for cat, count in sorted(report["by_category"].items(), key=lambda x: -x[1]):
-        lines.append(f"| {cat} | {count} |")
-
-    lines.extend(["", "## Age Distribution", "", "| Age | Count |", "|-----|-------|"])
-    for bucket, count in report["age_distribution"].items():
-        lines.append(f"| {bucket} | {count} |")
-
-    if report["stale_candidates"]:
-        lines.extend(["", "## Stale Candidates (closure review)", ""])
-        for sc in report["stale_candidates"][:15]:
-            lines.append(f"- #{sc['number']}: {sc['title']} (stale {sc['stale_days']}d)")
-
-    lines.extend(["", "## Top Labels", ""])
-    for label, count in list(report["top_labels"].items())[:10]:
-        lines.append(f"- {label}: {count}")
-
-    return "\n".join(lines)
-
-
-# ---------------------------------------------------------------------------
-# CLI
-# ---------------------------------------------------------------------------
-
-def main():
-    import argparse
-    parser = argparse.ArgumentParser(description="Issue Backlog Manager")
-    parser.add_argument("repo", help="Repository name (e.g., timmy-home)")
-    parser.add_argument("--json", action="store_true", help="JSON output")
-    parser.add_argument("--stale", type=int, default=60, help="Stale threshold in days")
-    parser.add_argument("--close-dry", action="store_true", help="Show close candidates (dry run)")
-    args = parser.parse_args()
-
-    token = _load_token()
-    report = generate_triage_report(args.repo, token)
-
-    if args.json:
-        print(json.dumps(report, indent=2, default=str))
-    else:
-        print(to_markdown(report))
-
-
-if __name__ == "__main__":
-    main()

config/lazarus_pit.json

@@ -0,0 +1,15 @@
+{
+  "missions_root": "/var/missions",
+  "heartbeat_job": "lazarus_pit",
+  "heartbeat_interval_seconds": 60,
+  "stale_after_seconds": 180,
+  "required_subdirs": [
+    "meta",
+    "config",
+    "state",
+    "logs",
+    "artifacts",
+    "worktree"
+  ],
+  "heartbeat_file": "state/heartbeat.json"
+}

docs/mission-cell-spec.md

@@ -0,0 +1,68 @@
+# Mission Cell Directory Spec
+
+This document defines the foundational Mission Cell filesystem contract for Lazarus Pit.
+It is a grounded M6 foundation slice, not the full Mission Cell runtime.
+
+Root layout:
+- `/var/missions/<uuid>/`
+
+Required subdirectories:
+- `meta/`
+- `config/`
+- `state/`
+- `logs/`
+- `artifacts/`
+- `worktree/`
+
+Required seed files:
+- `meta/mission.json`
+- `config/cell.json`
+- `state/heartbeat.json`
+- `logs/daemon.log`
+
+## Intent of each path
+
+- `meta/mission.json`
+  - durable mission identity and lifecycle metadata
+  - includes `mission_id`, `created_at`, and current status
+- `config/cell.json`
+  - local cell wiring
+  - points to the worktree, artifacts directory, and heartbeat file
+- `state/heartbeat.json`
+  - latest cell heartbeat timestamp and state
+  - consumed by Lazarus Pit scans for healthy vs stale cell classification
+- `logs/daemon.log`
+  - daemon-local operational log target
+- `artifacts/`
+  - handoff packets, reports, checkpoints, and mission outputs
+- `worktree/`
+  - mission-specific checked-out repository workspace
+
+## Lazarus Pit daemon skeleton
+
+`scripts/lazarus_pit.py` provides the foundation daemon behavior:
+- initialize a Mission Cell scaffold with `--init-cell <uuid>`
+- scan all cells under the configured missions root
+- classify cells as `healthy`, `stale`, `incomplete`, or `uninitialized`
+- emit a daemon heartbeat through the existing cron heartbeat writer
+- output a JSON health report for higher-level watchers
+
+Default config lives at:
+- `config/lazarus_pit.json`
+
+## Example bootstrap
+
+```bash
+python3 scripts/lazarus_pit.py --init-cell 123e4567-e89b-12d3-a456-426614174000 --json
+python3 scripts/lazarus_pit.py --write-heartbeat --json
+```
+
+## What remains for full #879 completion
+
+This slice does not yet complete the whole issue.
+Still open:
+- health heartbeat endpoint on existing wizard gateways
+- Gitea mission proposal issue template
+- live daemon service wiring / long-running supervisor integration
+
+Refs: #879

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

@@ -0,0 +1,111 @@
+# 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)*

scripts/lazarus_pit.py

@@ -0,0 +1,229 @@
+#!/usr/bin/env python3
+"""Lazarus Pit daemon skeleton for Mission Cell foundations.
+
+This lands the Mission Cell filesystem contract plus a dry-run daemon report
+that can initialize cells, scan them for heartbeat freshness, and emit a
+meta-heartbeat for higher-level watchdogs.
+
+Refs: #879
+"""
+
+from __future__ import annotations
+
+import argparse
+import importlib.util
+import json
+import sys
+import time
+from pathlib import Path
+from typing import Any
+
+PROJECT_ROOT = Path(__file__).resolve().parent.parent
+
+_hb_spec = importlib.util.spec_from_file_location(
+    "_lazarus_pit_cron_heartbeat",
+    PROJECT_ROOT / "nexus" / "cron_heartbeat.py",
+)
+_hb = importlib.util.module_from_spec(_hb_spec)
+sys.modules["_lazarus_pit_cron_heartbeat"] = _hb
+_hb_spec.loader.exec_module(_hb)
+write_cron_heartbeat = _hb.write_cron_heartbeat
+DEFAULT_CONFIG_PATH = PROJECT_ROOT / "config" / "lazarus_pit.json"
+DEFAULT_REQUIRED_SUBDIRS = ["meta", "config", "state", "logs", "artifacts", "worktree"]
+
+
+def load_config(path: str | Path = DEFAULT_CONFIG_PATH) -> dict[str, Any]:
+    config_path = Path(path)
+    defaults = {
+        "missions_root": "/var/missions",
+        "heartbeat_job": "lazarus_pit",
+        "heartbeat_interval_seconds": 60,
+        "stale_after_seconds": 180,
+        "required_subdirs": list(DEFAULT_REQUIRED_SUBDIRS),
+        "heartbeat_file": "state/heartbeat.json",
+    }
+    if not config_path.exists():
+        return defaults
+    loaded = json.loads(config_path.read_text())
+    defaults.update(loaded)
+    if not defaults.get("required_subdirs"):
+        defaults["required_subdirs"] = list(DEFAULT_REQUIRED_SUBDIRS)
+    return defaults
+
+
+def build_cell_paths(mission_id: str, root: str | Path) -> dict[str, Path]:
+    base = Path(root) / mission_id
+    return {
+        "root": base,
+        "meta": base / "meta",
+        "config": base / "config",
+        "state": base / "state",
+        "logs": base / "logs",
+        "artifacts": base / "artifacts",
+        "worktree": base / "worktree",
+    }
+
+
+def init_cell(mission_id: str, root: str | Path, now: float | None = None) -> dict[str, Any]:
+    timestamp = time.time() if now is None else float(now)
+    paths = build_cell_paths(mission_id, root)
+    for path in paths.values():
+        if path.name != mission_id:
+            path.mkdir(parents=True, exist_ok=True)
+    paths["root"].mkdir(parents=True, exist_ok=True)
+
+    mission_meta = {
+        "mission_id": mission_id,
+        "created_at": timestamp,
+        "status": "bootstrapped",
+    }
+    (paths["meta"] / "mission.json").write_text(json.dumps(mission_meta, indent=2) + "\n")
+
+    cell_config = {
+        "mission_id": mission_id,
+        "worktree": str(paths["worktree"]),
+        "artifacts": str(paths["artifacts"]),
+        "heartbeat_file": str(paths["state"] / "heartbeat.json"),
+    }
+    (paths["config"] / "cell.json").write_text(json.dumps(cell_config, indent=2) + "\n")
+
+    heartbeat = {
+        "mission_id": mission_id,
+        "timestamp": timestamp,
+        "status": "bootstrapped",
+    }
+    (paths["state"] / "heartbeat.json").write_text(json.dumps(heartbeat, indent=2) + "\n")
+    (paths["logs"] / "daemon.log").touch()
+
+    return {
+        "mission_id": mission_id,
+        "root": str(paths["root"]),
+        "status": "bootstrapped",
+    }
+
+
+def _read_json(path: Path) -> dict[str, Any] | None:
+    if not path.exists():
+        return None
+    try:
+        return json.loads(path.read_text())
+    except json.JSONDecodeError:
+        return None
+
+
+def scan_mission_cells(
+    *,
+    root: str | Path,
+    required_subdirs: list[str],
+    heartbeat_relpath: str,
+    stale_after_seconds: int,
+    now: float | None = None,
+) -> list[dict[str, Any]]:
+    missions_root = Path(root)
+    timestamp = time.time() if now is None else float(now)
+    if not missions_root.exists():
+        return []
+
+    cells: list[dict[str, Any]] = []
+    for entry in sorted(missions_root.iterdir()):
+        if not entry.is_dir():
+            continue
+        missing_paths = [name for name in required_subdirs if not (entry / name).exists()]
+        heartbeat_path = entry / heartbeat_relpath
+        heartbeat = _read_json(heartbeat_path)
+        last_timestamp = None
+        age_seconds = None
+        status = "uninitialized"
+
+        if heartbeat is not None and heartbeat.get("timestamp") is not None:
+            last_timestamp = float(heartbeat["timestamp"])
+            age_seconds = int(timestamp - last_timestamp)
+            status = "stale" if age_seconds > int(stale_after_seconds) else "healthy"
+        if missing_paths:
+            status = "incomplete"
+        elif heartbeat is None:
+            status = "uninitialized"
+
+        cells.append(
+            {
+                "mission_id": entry.name,
+                "root": str(entry),
+                "status": status,
+                "age_seconds": age_seconds,
+                "last_timestamp": last_timestamp,
+                "missing_paths": missing_paths,
+            }
+        )
+    return cells
+
+
+def build_daemon_report(config: dict[str, Any], now: float | None = None) -> dict[str, Any]:
+    cells = scan_mission_cells(
+        root=config["missions_root"],
+        required_subdirs=list(config["required_subdirs"]),
+        heartbeat_relpath=config["heartbeat_file"],
+        stale_after_seconds=int(config["stale_after_seconds"]),
+        now=now,
+    )
+    summary = {
+        "total_cells": len(cells),
+        "healthy": sum(1 for cell in cells if cell["status"] == "healthy"),
+        "stale": sum(1 for cell in cells if cell["status"] == "stale"),
+        "incomplete": sum(1 for cell in cells if cell["status"] == "incomplete"),
+        "uninitialized": sum(1 for cell in cells if cell["status"] == "uninitialized"),
+    }
+    return {
+        "missions_root": config["missions_root"],
+        "heartbeat_job": config["heartbeat_job"],
+        "heartbeat_interval_seconds": int(config["heartbeat_interval_seconds"]),
+        "summary": summary,
+        "cells": cells,
+    }
+
+
+def write_daemon_heartbeat(config: dict[str, Any], directory: Path | None = None):
+    return write_cron_heartbeat(
+        config["heartbeat_job"],
+        interval_seconds=int(config["heartbeat_interval_seconds"]),
+        directory=directory,
+    )
+
+
+def main(argv: list[str] | None = None) -> int:
+    parser = argparse.ArgumentParser(description="Lazarus Pit daemon skeleton")
+    parser.add_argument("--config", default=str(DEFAULT_CONFIG_PATH), help="Path to lazarus pit config JSON")
+    parser.add_argument("--root", help="Override missions root directory")
+    parser.add_argument("--init-cell", help="Initialize a mission cell directory scaffold")
+    parser.add_argument("--json", action="store_true", help="Print daemon report as JSON")
+    parser.add_argument("--write-heartbeat", action="store_true", help="Write lazarus pit daemon heartbeat")
+    parser.add_argument("--heartbeat-dir", help="Override heartbeat directory for testing or local runs")
+    args = parser.parse_args(argv)
+
+    config = load_config(args.config)
+    if args.root:
+        config["missions_root"] = args.root
+
+    if args.init_cell:
+        init_cell(args.init_cell, config["missions_root"])
+
+    report = build_daemon_report(config)
+
+    if args.write_heartbeat:
+        hb_dir = Path(args.heartbeat_dir) if args.heartbeat_dir else None
+        write_daemon_heartbeat(config, directory=hb_dir)
+
+    if args.json:
+        print(json.dumps(report, indent=2))
+        return 0
+
+    summary = report["summary"]
+    print(
+        "Lazarus Pit — cells={total_cells} healthy={healthy} stale={stale} incomplete={incomplete} uninitialized={uninitialized}".format(
+            **summary
+        )
+    )
+    return 0
+
+
+if __name__ == "__main__":
+    raise SystemExit(main())

tests/test_issue_backlog_manager.py

@@ -1,123 +0,0 @@
-"""Tests for issue backlog manager."""
-
-import json
-from datetime import datetime, timezone, timedelta
-from unittest.mock import patch, MagicMock
-
-import pytest
-import sys
-from pathlib import Path
-
-sys.path.insert(0, str(Path(__file__).parent.parent / "bin"))
-from issue_backlog_manager import analyze_issue, to_markdown
-
-
-@pytest.fixture
-def sample_issue():
-    return {
-        "number": 1234,
-        "title": "[BUG] Fix crash on startup",
-        "labels": [{"name": "bug"}, {"name": "p1"}],
-        "assignees": [{"login": "timmy"}],
-        "created_at": "2025-01-01T00:00:00Z",
-        "updated_at": "2025-06-01T00:00:00Z",
-        "body": "Fixes #999",
-        "html_url": "https://forge.example.com/...",
-    }
-
-
-class TestAnalyzeIssue:
-    def test_categorizes_bug(self, sample_issue):
-        now = datetime(2026, 4, 14, tzinfo=timezone.utc)
-        result = analyze_issue(sample_issue, now)
-        assert result["inferred_category"] == "bug"
-
-    def test_categorizes_feature(self, sample_issue):
-        sample_issue["title"] = "feat: Add new widget"
-        now = datetime(2026, 4, 14, tzinfo=timezone.utc)
-        result = analyze_issue(sample_issue, now)
-        assert result["inferred_category"] == "feature"
-
-    def test_categorizes_docs(self, sample_issue):
-        sample_issue["title"] = "docs: Update README"
-        now = datetime(2026, 4, 14, tzinfo=timezone.utc)
-        result = analyze_issue(sample_issue, now)
-        assert result["inferred_category"] == "docs"
-
-    def test_categorizes_training_data(self, sample_issue):
-        sample_issue["title"] = "Some issue"
-        sample_issue["labels"] = [{"name": "batch-pipeline"}]
-        now = datetime(2026, 4, 14, tzinfo=timezone.utc)
-        result = analyze_issue(sample_issue, now)
-        assert result["inferred_category"] == "training-data"
-
-    def test_detects_staleness(self, sample_issue):
-        # Updated 300 days ago
-        sample_issue["updated_at"] = "2025-06-01T00:00:00Z"
-        now = datetime(2026, 4, 14, tzinfo=timezone.utc)
-        result = analyze_issue(sample_issue, now)
-        assert result["is_stale"] is True
-        assert result["stale_days"] > 200
-
-    def test_detects_not_stale(self, sample_issue):
-        sample_issue["updated_at"] = "2026-04-10T00:00:00Z"
-        now = datetime(2026, 4, 14, tzinfo=timezone.utc)
-        result = analyze_issue(sample_issue, now)
-        assert result["is_stale"] is False
-
-    def test_age_days(self, sample_issue):
-        sample_issue["created_at"] = "2026-01-01T00:00:00Z"
-        now = datetime(2026, 4, 14, tzinfo=timezone.utc)
-        result = analyze_issue(sample_issue, now)
-        assert result["age_days"] > 100
-
-    def test_has_assignee(self, sample_issue):
-        now = datetime(2026, 4, 14, tzinfo=timezone.utc)
-        result = analyze_issue(sample_issue, now)
-        assert result["has_assignee"] is True
-
-    def test_no_assignee(self, sample_issue):
-        sample_issue["assignees"] = []
-        now = datetime(2026, 4, 14, tzinfo=timezone.utc)
-        result = analyze_issue(sample_issue, now)
-        assert result["has_assignee"] is False
-
-    def test_extracts_number(self, sample_issue):
-        now = datetime(2026, 4, 14, tzinfo=timezone.utc)
-        result = analyze_issue(sample_issue, now)
-        assert result["number"] == 1234
-
-
-class TestMarkdownReport:
-    def test_has_summary_section(self):
-        report = {
-            "repo": "test-repo",
-            "generated_at": "2026-04-14T00:00:00",
-            "summary": {"open_issues": 100, "stale_60d": 20, "very_stale_180d": 5,
-                        "closed_last_30d": 15, "estimated_burn_days": 200},
-            "by_category": {"bug": 30, "feature": 40},
-            "age_distribution": {"<7d": 10, "7-30d": 20, "30-90d": 30, "90-180d": 25, ">180d": 15},
-            "stale_candidates": [],
-            "top_labels": {"bug": 30, "feature": 40},
-            "category_detail": {},
-        }
-        md = to_markdown(report)
-        assert "# Issue Backlog Report" in md
-        assert "100" in md  # open issues
-        assert "bug" in md.lower()
-
-    def test_shows_stale_candidates(self):
-        report = {
-            "repo": "test",
-            "generated_at": "2026-04-14",
-            "summary": {"open_issues": 1, "stale_60d": 1, "very_stale_180d": 1,
-                        "closed_last_30d": 0, "estimated_burn_days": 999},
-            "by_category": {},
-            "age_distribution": {},
-            "stale_candidates": [{"number": 99, "title": "Old issue", "stale_days": 500}],
-            "top_labels": {},
-            "category_detail": {},
-        }
-        md = to_markdown(report)
-        assert "#99" in md
-        assert "500" in md

tests/test_lazarus_pit.py

@@ -0,0 +1,127 @@
+from __future__ import annotations
+
+import importlib.util
+import json
+import sys
+from pathlib import Path
+
+PROJECT_ROOT = Path(__file__).parent.parent
+
+_spec = importlib.util.spec_from_file_location(
+    "lazarus_pit_test",
+    PROJECT_ROOT / "scripts" / "lazarus_pit.py",
+)
+_mod = importlib.util.module_from_spec(_spec)
+sys.modules["lazarus_pit_test"] = _mod
+_spec.loader.exec_module(_mod)
+
+build_cell_paths = _mod.build_cell_paths
+build_daemon_report = _mod.build_daemon_report
+init_cell = _mod.init_cell
+load_config = _mod.load_config
+scan_mission_cells = _mod.scan_mission_cells
+write_daemon_heartbeat = _mod.write_daemon_heartbeat
+
+
+def test_init_cell_creates_foundation_structure(tmp_path):
+    mission_id = "123e4567-e89b-12d3-a456-426614174000"
+    cell = init_cell(mission_id, root=tmp_path, now=1_700_000_000)
+
+    paths = build_cell_paths(mission_id, tmp_path)
+    for key in ["meta", "config", "state", "logs", "artifacts", "worktree"]:
+        assert paths[key].is_dir(), f"expected {key} directory to exist"
+
+    meta = json.loads((paths["meta"] / "mission.json").read_text())
+    assert meta["mission_id"] == mission_id
+    assert meta["status"] == "bootstrapped"
+
+    heartbeat = json.loads((paths["state"] / "heartbeat.json").read_text())
+    assert heartbeat["mission_id"] == mission_id
+    assert heartbeat["status"] == "bootstrapped"
+    assert cell["root"] == str(paths["root"])
+
+
+def test_scan_mission_cells_marks_healthy_and_stale(tmp_path):
+    healthy_id = "healthy-cell"
+    stale_id = "stale-cell"
+
+    init_cell(healthy_id, root=tmp_path, now=1_700_000_000)
+    init_cell(stale_id, root=tmp_path, now=1_700_000_000)
+
+    healthy_paths = build_cell_paths(healthy_id, tmp_path)
+    stale_paths = build_cell_paths(stale_id, tmp_path)
+
+    (healthy_paths["state"] / "heartbeat.json").write_text(
+        json.dumps({"mission_id": healthy_id, "timestamp": 1_700_000_090, "status": "ok"})
+    )
+    (stale_paths["state"] / "heartbeat.json").write_text(
+        json.dumps({"mission_id": stale_id, "timestamp": 1_700_000_000, "status": "ok"})
+    )
+
+    cells = scan_mission_cells(
+        root=tmp_path,
+        required_subdirs=["meta", "config", "state", "logs", "artifacts", "worktree"],
+        heartbeat_relpath="state/heartbeat.json",
+        stale_after_seconds=60,
+        now=1_700_000_100,
+    )
+    by_id = {cell["mission_id"]: cell for cell in cells}
+
+    assert by_id[healthy_id]["status"] == "healthy"
+    assert by_id[healthy_id]["age_seconds"] == 10
+    assert by_id[stale_id]["status"] == "stale"
+    assert by_id[stale_id]["age_seconds"] == 100
+
+
+def test_build_daemon_report_and_write_heartbeat(tmp_path):
+    config_path = tmp_path / "lazarus_pit.json"
+    config_path.write_text(
+        json.dumps(
+            {
+                "missions_root": str(tmp_path / "missions"),
+                "heartbeat_job": "lazarus_pit",
+                "heartbeat_interval_seconds": 60,
+                "stale_after_seconds": 120,
+                "required_subdirs": ["meta", "config", "state", "logs", "artifacts", "worktree"],
+                "heartbeat_file": "state/heartbeat.json",
+            }
+        )
+    )
+
+    config = load_config(config_path)
+    init_cell("mission-one", root=Path(config["missions_root"]), now=2_000)
+    paths = build_cell_paths("mission-one", Path(config["missions_root"]))
+    (paths["state"] / "heartbeat.json").write_text(
+        json.dumps({"mission_id": "mission-one", "timestamp": 2_050, "status": "ok"})
+    )
+
+    report = build_daemon_report(config, now=2_100)
+    assert report["summary"]["total_cells"] == 1
+    assert report["summary"]["healthy"] == 1
+    assert report["summary"]["stale"] == 0
+    assert report["cells"][0]["mission_id"] == "mission-one"
+
+    heartbeat_path = write_daemon_heartbeat(config, directory=tmp_path / "heartbeats")
+    heartbeat = json.loads(heartbeat_path.read_text())
+    assert heartbeat["job"] == "lazarus_pit"
+    assert heartbeat["interval_seconds"] == 60
+
+
+def test_foundation_artifacts_exist_with_required_spec():
+    doc = PROJECT_ROOT / "docs" / "mission-cell-spec.md"
+    config = PROJECT_ROOT / "config" / "lazarus_pit.json"
+
+    assert doc.exists(), "expected mission cell spec doc"
+    assert config.exists(), "expected lazarus pit config"
+
+    content = doc.read_text()
+    for snippet in [
+        "/var/missions/<uuid>/",
+        "meta/mission.json",
+        "config/cell.json",
+        "state/heartbeat.json",
+        "logs/daemon.log",
+        "artifacts/",
+        "worktree/",
+    ]:
+        assert snippet in content

tests/test_night_shift_prediction_report.py

@@ -0,0 +1,25 @@
+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