宜博 / lemonboss

测试 788/788 全绿（76 文件，起点 786），未改任何既有断言。

## 1. idleTimeoutMs 硬编码 120s（「work 节点 → success」跑不通的唯一技术原因）

agent-manager.js 里 `this.config?...?.idleTimeout || 120_000`，且 `...options`
摊在前面被下一行覆盖，两个后果叠加：
- 默认 120 秒，比 stream-executor 自己 JSDoc 写的 30 分钟（1_800_000）小一个数量级，
  也和同进程 ClaudeCliProtocol 早已放到 24h 的 idle 上限完全对不上
- 调用方**无法覆写** —— 传了 options.idleTimeoutMs 也会被盖掉

真 CLI 下的后果：任何「先读几千行源码再动笔」的节点都在动笔前被杀
（readme-writer: idle timeout: no stream data for 120000ms）。

改成 调用方 > agent 配置 > DEFAULT_IDLE_TIMEOUT_MS(30min)，并把常量真的定义出来
—— 上一轮 Master agent 自己诊断出这个问题也动手改了，但引用了未定义的
DEFAULT_IDLE_TIMEOUT_MS，跑起来是 ReferenceError。

## 2. W7 判据在零边最小图上失效

判「org graph 成型了没有」原先看**边数**，理由是「节点 hire() 自己就会造，
拿节点数当信号会废掉『连雇两个人第二个不入图』」——理由成立，但边只是
「writeGraph 跑过」的代理，而真跑里 orggraph-planning 裁出过一张**零条边的单节点图**，
代理当场失效：三条判据全落空 → work 层本体被写进 org_graph_nodes，
下一次下达任务时被 advanceOne 当成 org 节点执行。

改成记录**来源**而不是猜：org_graph_nodes 加 authored_by（idempotent ALTER），
writeGraph 写 'planner'、hire 写 'hire'，判据看有没有 planner 写下的节点。
hire 先记的行随后被 planner 纳入时升格，反向不降级。
存量行 authored_by 为 NULL，回落到原来的边数代理，行为不变。

新增两条用例（既有 9 例造的全是有边的成型图，正好绕开这个形状），
并做过变异验证：把判据改回纯边数，两条精确变红，还原后逐字一致。

## 3. 前后端「能不能下达任务」的规则各写一份且不一致

前端 ACTIVE_RUN 含 blocked、后端 ACTIVE_ROOT_RUN_STATUS 不含（唯一索引
idx_graph_runs_one_active_root 里也没有）。后果：一家公司只要失败过一次，
控制台上就再也下不了第二个任务，而后端其实放行。

规则只留服务端一处：GET /graph-runs 返回 canDispatch / activeRootRunId，
前端照抄结果，不再自己复述取值域。字段缺失时保守放行，交给端点 409 兜底。

Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com>

hire() now checks system_agents (source_kind='template') before provisioning a new
company agent: if the role has a shared template row, skip copying agent.md and
instead let AgentManager.getAgentConfig()/PromptBuilder.build() resolve the prompt
from the shared legacy_path at call time, with per-company context assembled from a
new company-context.md. Roles without a template row (including the 6 ids that exist
in both system/agents/ and system/templates/, e.g. evolver-youtube-crawler) fall back
to the existing full-copy behavior unchanged.

- server/services/graph-service.js (new): lookupSharedAgentMd(), upsertOrgGraphNode()
- server/services/company-service.js: hire() reference-mode branch, _provisionReferenceAgent()
- server/src/core/agent-manager.js: getAgentConfig() resolves prompt/companyContextPath
- server/src/core/prompt-builder.js: build() concatenates company-context.md
- unit + integration tests covering all 6 acceptance criteria from
  docs/todo/system-design/27-p1-virtual-reference.md §6, including a regression test
  against the real idearun:evolver-youtube-crawler naming-collision case

Full regression suite (587 tests) passes; independent adversarial review found 0
blocking/major issues.

Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com>

- Moved data/system/ → system/ (agents, templates, skills, data, workspace)
- Updated all server route/service path references
- Updated all script path references
- Updated all documentation references
- Restructured .gitignore for cleaner system/ vs data/ boundary

system/ = platform-shared assets (system agents, template library)
data/ = tenant-specific company instance data

- System agents: 只保留 master (data/system/agents/master)
- Templates: 所有可复用 agent 模板 (data/system/templates/)
- Companies: 公司创建时自动部署 5 个元 Agent (innovator/hunter/digester/evolver/agent-creator)

路径修复:
- agent-chat.js: /list 扫描路径修正 (system/agents + companies/*/agents)
- agent-manager.js: 动态 agent 查找路径修正
- skill-config-loader.js: 修正 agents root
- pipeline-service.js: pipelines 输出到 companies/{id}/pipelines/
- billing.log: 移至 companies/{id}/logs/ 下

Skills 标准化:
- 所有 template agent 建立 .claude/skills/main_skill/SKILL.md
- company-service._copyTemplate() 新增 .claude/ 目录复制
- innovator SKILL.md v3.0: 移除旧 l3-hunt/l2-digest 命名
- 清理重复 agent_creator, 统一为 agent-creator

清理:
- 移除 data/agents, data/workspace, data/logs, data/goals 旧目录
- 清除所有未使用的 DATA_DIR 声明
- 清除 template 中的 conversations/logs/memory 运行态数据

…ter Agent cognitive auto-recovery loop

- Refactored CompanyDashboard into read-only Observer UI
- Enforced strict companyId:roleId namespacing across Node APIs and AgentManager
- Added dynamic <env_status> injection to PromptBuilder for robust context
- Introduced bin/lemon.js CLI for structured LLM tool execution
- Implemented in-stream error interceptors for implicit silent retry loop

- Implement OKR GoalsService with hierarchical node tracking
- Add /api/goals routes and integrate with dispatch/report APIs
- Create Innovator agent with Hunt→Digest→Evolving pipeline
- Create Hunter (l3-hunt), Digester (l2-digest), Evolver (evolving) meta agents
- Copy L1/L2 dependency skills into each agent's .claude/skills/
- Fix buildSystemPrompt to scan ALL skill subdirectories (critical)
- Fix agent list sorting: master pinned top, rest by lastActiveAt
- Rename master-001→master, innovator-001→innovator
- Establish meta agent output convention: write to target agent dir
- Add CXO agent base class for management agents
- Update CEO agent with delegation-first management model

- Agent as Micro-Container: each agent lives in data/agents/{id}/ with full encapsulation
- Persona vs Capability split: agent.md (identity) + .claude/skills/main_skill/SKILL.md (workflow)
- Conversations co-located: data/agents/{id}/conversations/ replaces global dir
- Meta Skills renamed: meta_hunt, meta_digest, meta_creator, meta_evolving, meta_benchmark, meta_research
- Dynamic Hot-Reload: AgentManager.getAgentConfig() falls back to filesystem scan
- Parallel Sub-Agent orchestration via Promise.all with multi-terminal UI
- Removed SQLite dependency, global skills/ directory, and legacy conversations/
- Full architecture docs: 18-local-filesystem-first-agent-encapsulation.md