@roarpeng/graphflow 1.9.16 → 1.12.2

package/CHANGELOG.md

@@ -2,7 +2,55 @@
 
 All notable changes to this project are documented in this file.
 
-## [Unreleased]
+## [1.12.2] - 2026-08-22
+
+### Fixed
+
+- **Windows release gate**：MCP structured-result 测试显式使用 file graph backend，避免 SQLite 连接仍在打开时清理临时目录导致 `EBUSY`。这是 v1.12.1 Windows validate 失败的直接根因；Linux/macOS 本地矩阵未暴露该平台锁差异。
+
+## [1.12.1] - 2026-08-22
+
+### Added
+
+- **MCP Streamable HTTP transport**：新增 stateless JSON 与 stateful SSE 双模式；支持 MCP initialize、draft `server/discover`、ping、tools、resources 和 structured tool results。启动方式：`graphflow mcp serve --http` 或 `graphflow-mcp --http`
+- **HTTP 生命周期与安全默认**：显式 DELETE 关闭 stateful session；默认仅绑定 loopback，Host 校验防止 rebinding，浏览器 Origin 默认拒绝并可用 allowlist 显式放行
+- **端到端 transport 矩阵**：SDK Client 分别验证 HTTP JSON 与 stateful SSE；raw 请求验证 discovery、未知路径、非法 Origin、DELETE 后 stale session 和非 loopback 保护
+
+### Changed
+
+- `@modelcontextprotocol/sdk` 固定到 1.30 runtime 面；stdio legacy handshake 继续兼容
+
+### Tests
+
+- 新增 `tests/mcp-streamable-http.test.ts`；全量回归 141 文件 / 956 用例通过，扩展 bundled runtime 冒烟 7/7 通过
+
+## [1.12.0] - 2026-08-22
+
+### Added
+
+- **dsh 知识节点面板静态化（R4 落地）**：新增预构建 CJS factory bundle `dsh/client.js`（`window.__ModuleLoader__.load({id:"@roarpeng/graphflow/dsh",factory})`，named 导出 apply+inject；注册 `conversation.session.header.utilities` 开关与 `shell.overlay` 面板两个 slot，PANEL_CSS 闭包内注入防重），随 bundle 层开机自动加载——**不再需要按会话手动激活动态插件**。数据通道走 Connection 通用 RPC：glue 注册 `/gf`（`ctx.connection.rpc.handle(…,{authority:"trusted-host"})`，自带 browser-trust fence），handler 返回 RpcResult 信封 `{ok,value:{workbench,dialogues}}`；浏览器端 `connection.rpc.call("/gf","nodes",{workspaceRoot})` 取数。package.json 叠加声明 `dsh.client{platform:"web"}` + `exports["./client"]`/`exports["./dsh/package.json"]`（后者让现有 glue 行原样成为 client 扫描条目，实测 Node 解析通过）
+- **Context Fidelity 指标流（R1）**：新增 `graphflow-out/context-fidelity.json`、anchor recall@k、missing anchors 和基于归一化 LCS 的 body coverage；`FlywheelReport.fidelity` 增加 sample / recall / coverage 聚合。token savings 与信息保真度从此是两条可审计指标
+- **SKILL.md 双向互操作（R2）**：新增 `skill markdown export|import`；导出只带 portable 元数据与 playbook，不带走 GraphFlow 本地信任决策；导入一律保守标记 `import/correctable`，不继承 proven 或 canary 证据
+- **Engineering KG 抽取落地（R3）**：新增确定性中英文 Concept/Requirement 抽取器；CLI `knowledge extract [--all|--session] [--dry-run]` 与 MCP `graphflow_index({knowledgeExtract:true})` 可把对话结论写入图谱并保留 dialogue-turn `derived_from` 审计链
+- **MCP structured results + stateless discovery**：全部工具结果继续保留 `content[0].text` 兼容层，同时返回 `structuredContent`；tool schema 声明 JSON Schema 2020-12；SDK 升级到 1.30，stdio 兼容握手之外支持 `server/discover`
+- **O(1) 技能读路径 + 自适应遗忘**：`readSkillState` / `loadCompositeSkill` 优先 `getNodesByIds`；skill decay 改为陈旧度 × 失败压力 × 成功保持 × proven 保护的确定性曲线，只软衰减，不删除经验
+- **学习飞轮真实证据链（R0）**：`proven` 准入从"原子出现次数 `uses>=2`"改为"成功 episode 绑定计数 `successCount>=阈值`"（默认 2，`GRAPHFLOW_SKILL_PROVEN_MIN_SUCCESS` 可覆盖；按 episodeId 去重，旧数据经 `linkedSuccess+provenance.episodeId` 自动迁移，已 proven 节点不降级）；删除 `FALLBACK_GOLDEN_TOKENS` 硬编码闭集，golden 词集动态生成（检索 golden 数据集 `expectAny` + 运行时 pass episode/symbol 证据叠加 `registerGoldenEvidenceTokens`）；golden-overlap/符号检查降为辅助条件，不再一票否决真实成功记录
+- **dsh 对话 A 面真实回填**：修复 glue 监听器读错会话事件信封字段（assistant 消息在 `event.data.message`，旧代码读 `event.message` 恒为空）这一"回复永远待回复"的根因；重写为 `turn/end` 提交模型（`assistant/message` 按 step 只喂"本 turn 最后文本"缓冲；`turn/end` 按 (session, turn) 去重提交；interrupted/aborted 不填）；回填管线 = 进程内 runtime（`captureAssistantReply`；命中 workbench topic 时追加 dialogue turn 填充，保证 A 面必闭）→ CLI 兜底（`context preview --reply` + `dialogue record --reply` 双幂等 tip 填）；latest-wins 每 session 串行队列 + no-pending-turn 有界重试；`GRAPHFLOW_CAPTURE_REPLY=0` 一票关闭
+- **对话节点噪声过滤扩展**：`SYSTEM_MESSAGE_SOURCE_KINDS` 黑名单新增 `subagent-settled`/`subagent-report`（子代理完成/汇报通知此前被记成用户提问的直接根因）及 `agent-instructions`/`session-reference`/`goal`/`skill-catalog`；`user` kind 白名单放行真人输入，未知来源维持 role 回退保守兜底
+- **file 图存储进程内缓存（R1）**：`graphify-file-client` 按绝对路径缓存解析 store 与懒构建倒排索引（`queryByKeyword` 不再每次重建索引），mtime+size 校验失效、写路径 write-through（拷贝构建 + `readSnapshot` 浅拷贝防污染）、跨实例共享；导出测试钩子
+
+### Fixed
+
+- **MCP unsafe-cwd 下工具级 rootDir 被吞（工具全灭）**：`resolveConfig()` 内部无条件先执行 `bindRuntimeWorkspaceRoot`（只认配置文件 `workspaceRoot`），MCP 服务端 cwd=家目录时在调用方 rootDir 应用前就抛 `Refusing to index unsafe workspace root`——而服务端启动日志承诺 "Pass rootDir on tools"。现在 `resolveConfig(configPath, { rootDir })` 把 rootDir 传入内部绑定（优先级 rootDir > projectWorkspaceRoot > cwd 发现不变，unsafe 安全检查不放宽）；`src/surfaces/cli/runtime/{graph,dialogue,routing}.ts` 全部持有 rootDir 的调用点已接线；`resolveRuntimeWorkspaceRoot` 支持注入 `fromDir`（测试免 `process.chdir`）
+
+### Tests
+
+- `tests/resolve-config-rootdir.test.ts`（新增 6 用例）：unsafe cwd + rootDir 不抛错且绑定生效；不传 rootDir 保持抛错；显式 configPath 分支；`fromDir` 注入向上发现
+- `tests/dsh-plugin-glue.test.ts`：reply 断言重写到 turn/end 提交模型（信封形状、按 turn 去重重放无副作用、aborted/interrupted 跳过、CLI 兜底双 spawn 参数与 cwd）
+- `tests/graphify-file-client-cache.test.ts`（新增 9 用例）+ `auto-transport` / `auto-transport-fallback`（+5）：缓存命中/外部变更失效/仅 mtime 失效/写透三方一致/交错读写、sqlite 不可用与初始化失败静默回退
+- `tests/m-learning-success-evidence.test.ts`（新增 9 用例）；更新 5 个编码旧 `uses>=2→proven` 规则的测试
+- 全量回归：140 文件 / 953 用例全绿；`tsc --noEmit` 零错误
+- v1.12 新增回归：context fidelity、SKILL.md round-trip、Engineering KG extraction、structuredContent/stateless discovery、O(1) skill read、adaptive decay
 
 ## [1.9.16] - 2026-08-21
 

package/README.md

@@ -2,7 +2,7 @@
 
 English | [中文](README.zh.md)
 
-[![npm version](https://img.shields.io/badge/npm-1.9.16-blue)](https://www.npmjs.com/package/@roarpeng/graphflow)
+[![npm version](https://img.shields.io/badge/npm-1.12.2-blue)](https://www.npmjs.com/package/@roarpeng/graphflow)
 
 > **The memory & context harness for coding agents.** Local-first code knowledge graph · bounded context compression (~98% token savings) · cross-session learning flywheel.
 
@@ -84,7 +84,7 @@ Single-purpose tools each do one thing well; GraphFlow combines graph + compress
 
 > The differentiator is the **learning flywheel**: graph indexing and token compression are replicable; project-private experience (skills, lessons, decisions) accumulated across sessions is not — it compounds with use. Serena is a complement, not a competitor — see [GraphFlow + Serena: better together](docs/comparison.md#graphflow--serena-better-together联合方案).
 
-## Core capabilities (v1.7.15+)
+## Core capabilities (v1.12+)
 
 | Module | Capability |
 | --- | --- |
@@ -92,16 +92,16 @@ Single-purpose tools each do one thing well; GraphFlow combines graph + compress
 | **Goal alignment** | Goal anchor nodes (intent five-tuple as first-class citizen, original requirement auto-injected); low-confidence clarification gate (no plan below 0.6); runtime alignment-check; deviation classification (misread-requirement / scope-creep / tech-drift); goal version chain + diffs |
 | **Knowledge graph** | 12-language AST indexing; File / Module / Symbol + **Concept / Requirement**; cross-layer edges `documents` / `implements` / `derived_from`; Office/PDF → Markdown via optional **`@firecrawl/anydoc`** (MIT). **CLI/npm**: optionalDependency. **VSIX**: not bundled; on activate the extension **auto-downloads the current-OS binary** into `~/.graphflow/optional-deps` when `graphflow.downloadAnydoc` is true (default). Disable the setting to skip network; source indexing still works. |
 | **Context compression** | L1/L2/L3 layered anchors; graph compression (edge weights + PageRank, LRU cache); stem-matching recall (orchestrate ↔ orchestration); vector recall + RRF; RepoMap overview; adaptive budget |
-| **Retrieval quality** | Golden-set regression gate (132 queries, Hit@5=100%, MRR=0.836, NDCG@5=0.601) |
+| **Retrieval & fidelity** | Golden-set regression gate (132 queries, Hit@5=100%, MRR=0.836, NDCG@5=0.601); separate anchor-recall and normalized body-coverage metrics persisted beside token savings |
 | **Vector index** | In-process memoization + disk persistence (fingerprint-checked, seconds to restore after MCP restart) |
 | **Storage backends** | `file` / `memory` / `sqlite` (FTS5, tokenizer-enhanced `searchtext`, camelCase searchable) / **`auto` (sqlite-first with fallback)** / `mcp-http` |
-| **Learning flywheel** | Episodic memory, reflection, skill nodes (score ±1, bounded [-20,20]), nightly training, skill decay/pruning, **auto-capture + Claude Code hooks (on by default)**, **SkillOpt-lite** bounded guidance edits, four-class lifecycle + **canary gate for synced skills**, `npm run backfill:episodes`, contribution reports (`skill report` / `graphflow_diagnose` / `route diagnose`) |
+| **Learning flywheel** | Episodic memory, reflection, skill nodes (score ±1, bounded [-20,20]), nightly training, adaptive evidence-aware forgetting, **auto-capture + Claude Code hooks (on by default)**, **SkillOpt-lite** bounded guidance edits, four-class lifecycle + **canary gate for synced skills**, portable SKILL.md import/export, `npm run backfill:episodes`, contribution reports (`skill report` / `graphflow_diagnose` / `route diagnose`) |
 | **Team sharing** | `skill sync`: export/import skill packs to a committable `.graphflow/skills/team-skills.json`; imports are a **bidirectional MERGE** (per-skill-id union, newer `updatedAt` wins, ties keep local, local-only skills preserved; `--force` to overwrite); golden retrieval queries round-trip via `.graphflow/team-golden.json`; [security model](docs/team-memory-security.md) |
 | **Benchmarks** | [Comprehensive 92.9%](benchmarks/COMPREHENSIVE-RESULTS.md) · [Independent-style 96.2%](benchmarks/INDEPENDENT-RESULTS.md) · [context-readiness eval](benchmarks/SWE-BENCH-RESULTS.md) · [98.2% token savings](benchmarks/RESULTS.md) |
 | **Model routing** | Smart / Economy tiers; multi-provider health probes and fallback (DeepSeek, OpenAI, Anthropic, Bailian, Doubao) |
 | **Workbench** | Plan DAG seeds function-topic containers; collapsed outline; click `topicId` to resume; drift forks a side branch; original Q/A stored via `assistantReply` |
 | **Observability** | `graphflow_diagnose` / `route diagnose`: provider health + graph stats + token savings + **flywheel health** (auto-capture, episodes, skills by class, session journal) + workbench outline |
-| **Agent surfaces** | CLI `--json`; MCP stdio (10 tools); auto-install into 15+ agents (incl. **Codex Windows NODE/NPX_CLI short-path MCP**) |
+| **Agent surfaces** | CLI `--json`; MCP stdio and Streamable HTTP (stateless JSON or stateful SSE, 10 tools); auto-install into 15+ agents (incl. **Codex Windows NODE/NPX_CLI short-path MCP**) |
 | **Engineering quality** | TypeScript strict; vitest suite; `npm run ci` includes extension packaging and smoke tests |
 
 ### Positioning
@@ -117,7 +117,7 @@ Single-purpose tools each do one thing well; GraphFlow combines graph + compress
 | `graphflow_run` | Orchestration + bridge execution descriptor |
 | `graphflow_report_outcome` | Outcome backfill (incl. deviation classification), closes the learning flywheel |
 | `graphflow_insight` | ATP insight submit / merge (agent bridge protocol) |
-| `graphflow_index` | Incremental / full indexing |
+| `graphflow_index` | Incremental / full indexing; optional `knowledgeExtract: true` distills dialogue turns into Concept / Requirement nodes with provenance edges |
 | `graphflow_skill_insights` | Skill insights |
 | `graphflow_diagnose` | Diagnostics (provider + graph + token savings + flywheel + `graph.workbenchOutline`) |
 | `graphflow_artifact` | Graph artifact import / export |
@@ -149,6 +149,7 @@ graphflow workbench tree --json            # on-demand function DAG + side branc
 graphflow run "update readme"              # orchestrate (bridge)
 graphflow skill insights                   # skill insights
 graphflow skill report                     # flywheel contribution report
+graphflow mcp serve --http                 # stateless MCP Streamable HTTP (add --stateful for SSE sessions)
 graphflow skill sync export                # export team skill pack + golden queries (share via git)
 graphflow skill sync import                # import team skill pack (MERGE; --force to overwrite) + golden merge into .graphflow/team-golden.json
 graphflow route diagnose                   # routing diagnostics
@@ -299,7 +300,7 @@ npm install
 npm run ci        # lint + build + tests + extension packaging + smoke
 ```
 
-Requires Node.js ≥ 20, npm ≥ 10. Expected: lint clean, build succeeds, 692 tests pass.
+Requires Node.js ≥ 20, npm ≥ 10. Expected: lint clean, build succeeds, 956 tests pass.
 
 ## Project structure
 
@@ -319,7 +320,7 @@ GraphFlow/
 │   └── surfaces/
 │       ├── cli/        # CLI + runtime
 │       └── mcp/        # MCP server (10 tools)
-├── tests/              # 99 files / 692 tests (incl. retrieval golden set, bridge+DAG)
+├── tests/              # 141 files / 956 tests (incl. fidelity, SKILL.md, Engineering KG, MCP HTTP/stdio matrix)
 ├── benchmarks/         # comprehensive + independent + SWE-bench + token savings + skill A/B (reproducible)
 ├── docs/               # ATP spec + context contract + experience memory + comparisons
 ├── vscode-extension/   # VS Code panel and commands

package/README.zh.md

@@ -2,17 +2,18 @@
 
 [English](README.md) | 中文
 
-[![npm version](https://img.shields.io/badge/npm-1.9.16-blue)](https://www.npmjs.com/package/@roarpeng/graphflow)
+[![npm version](https://img.shields.io/badge/npm-1.12.2-blue)](https://www.npmjs.com/package/@roarpeng/graphflow)
 
 > **给编程 Agent 用的记忆与上下文 harness。** 本地优先的代码知识图谱 · 有界上下文压缩（约 98% token 节省） · 跨会话学习飞轮。
 
-GraphFlow 把 **记忆 + hooks + skills** 做成可移植的 MCP 表面（Cursor、Claude Code、DeepSeek Harness、15+ Agent），让无状态模型变成可长期工作的编码助手。纯 TypeScript/Node，CLI + MCP + VS Code 扩展，完全离线，无需 API Key。
+GraphFlow 把 **记忆 + hooks + skills** 做成可移植的 MCP 表面（Cursor、Claude Code、DeepSeek Harness、15+ Agent），让无状态模型变成可长期工作的编码助手。v1.12 增加 fidelity 指标、SKILL.md 互操作和 Concept / Requirement 工程知识层。纯 TypeScript/Node，CLI + MCP + VS Code 扩展，完全离线，无需 API Key。
 
 ## 快速开始
 
 ```bash
 npx @roarpeng/graphflow graph index .
 npx @roarpeng/graphflow context preview "orchestrator" --json
+graphflow mcp serve --http         # MCP Streamable HTTP（默认 stateless；--stateful 开启 SSE session）
 npx @roarpeng/graphflow install    # 自动接入已检测到的 Agent（含 dsh）
 ```
 

package/dist/config/resolve.d.ts

@@ -3,5 +3,17 @@ import type { GraphFlowConfig } from "./schema";
 export declare function resolveConfigPath(path?: string): string;
 /** Path used when persisting settings; defaults to global unless a project root config already exists. */
 export declare function resolveWritableConfigPath(path?: string): string;
-export declare function resolveConfig(path?: string): GraphFlowConfig;
+/**
+ * Resolve the effective GraphFlow config for the current process.
+ *
+ * @param path Explicit config path; default resolves project/global/overlay layers.
+ * @param bind Optional workspace-root override, forwarded into the internal
+ *   `bindRuntimeWorkspaceRoot` so a caller-provided `rootDir` (e.g. an MCP tool
+ *   argument) takes priority over `projectWorkspaceRoot` and over discovery
+ *   from an unsafe `process.cwd()` (home dir / AppData), instead of throwing
+ *   "Refusing to index unsafe workspace root" before the override is applied.
+ */
+export declare function resolveConfig(path?: string, bind?: {
+    rootDir?: string;
+}): GraphFlowConfig;
 //# sourceMappingURL=resolve.d.ts.map

package/dist/config/resolve.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"resolve.d.ts","sourceRoot":"","sources":["../../src/config/resolve.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,eAAe,EAAE,MAAM,UAAU,CAAC;AAchD,+EAA+E;AAC/E,wBAAgB,iBAAiB,CAAC,IAAI,SAA0B,GAAG,MAAM,CAqBxE;AAED,0GAA0G;AAC1G,wBAAgB,yBAAyB,CAAC,IAAI,SAA0B,GAAG,MAAM,CAWhF;AAOD,wBAAgB,aAAa,CAAC,IAAI,SAA0B,GAAG,eAAe,CAgD7E"}
+{"version":3,"file":"resolve.d.ts","sourceRoot":"","sources":["../../src/config/resolve.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,eAAe,EAAE,MAAM,UAAU,CAAC;AAchD,+EAA+E;AAC/E,wBAAgB,iBAAiB,CAAC,IAAI,SAA0B,GAAG,MAAM,CAqBxE;AAED,0GAA0G;AAC1G,wBAAgB,yBAAyB,CAAC,IAAI,SAA0B,GAAG,MAAM,CAWhF;AAOD;;;;;;;;;GASG;AACH,wBAAgB,aAAa,CAC3B,IAAI,SAA0B,EAC9B,IAAI,CAAC,EAAE;IAAE,OAAO,CAAC,EAAE,MAAM,CAAA;CAAE,GAC1B,eAAe,CAgDjB"}

package/dist/config/resolve.js

@@ -50,14 +50,24 @@ function finalizeConfig(config) {
     (0, provider_env_1.applyProviderEnvFromConfig)(config);
     return config;
 }
-function resolveConfig(path = "graphflow.config.json") {
+/**
+ * Resolve the effective GraphFlow config for the current process.
+ *
+ * @param path Explicit config path; default resolves project/global/overlay layers.
+ * @param bind Optional workspace-root override, forwarded into the internal
+ *   `bindRuntimeWorkspaceRoot` so a caller-provided `rootDir` (e.g. an MCP tool
+ *   argument) takes priority over `projectWorkspaceRoot` and over discovery
+ *   from an unsafe `process.cwd()` (home dir / AppData), instead of throwing
+ *   "Refusing to index unsafe workspace root" before the override is applied.
+ */
+function resolveConfig(path = "graphflow.config.json", bind) {
     if (!isDefaultProjectConfigPath(path)) {
         const result = (0, loader_1.loadConfigSafe)(path);
         if (result.usedFallback && result.error) {
             logger_1.logger.warn({ path: result.configPath, error: result.error }, "Using default config for explicit path");
         }
         const projectRoot = result.config.graphPolicy.workspaceRoot;
-        return finalizeConfig((0, workspace_root_1.bindRuntimeWorkspaceRoot)(result.config, projectRoot ? { projectWorkspaceRoot: projectRoot } : undefined));
+        return finalizeConfig((0, workspace_root_1.bindRuntimeWorkspaceRoot)(result.config, mergeRuntimeWorkspaceBind(bind, projectRoot)));
     }
     const globalPath = (0, scaffold_1.resolveGlobalConfigPath)();
     const base = (0, node_fs_1.existsSync)(globalPath) ? loadLayer(globalPath) : (0, defaults_1.getDefaultConfig)();
@@ -85,7 +95,23 @@ function resolveConfig(path = "graphflow.config.json") {
     else {
         merged = base;
     }
-    return finalizeConfig((0, workspace_root_1.bindRuntimeWorkspaceRoot)(merged, projectWorkspaceRoot ? { projectWorkspaceRoot } : undefined));
+    return finalizeConfig((0, workspace_root_1.bindRuntimeWorkspaceRoot)(merged, mergeRuntimeWorkspaceBind(bind, projectWorkspaceRoot)));
+}
+/**
+ * Merge the caller-provided `rootDir` override with the project-level
+ * `workspaceRoot` for the internal bind. `rootDir` is listed first so
+ * `resolveRuntimeWorkspaceRoot`'s existing priority applies: explicit rootDir
+ * wins over projectWorkspaceRoot. Returns undefined when neither is present
+ * (equivalent to the historical no-options call).
+ */
+function mergeRuntimeWorkspaceBind(bind, projectWorkspaceRoot) {
+    const merged = {
+        ...(bind?.rootDir ? { rootDir: bind.rootDir } : {}),
+        ...(projectWorkspaceRoot ? { projectWorkspaceRoot } : {}),
+    };
+    return merged.rootDir !== undefined || merged.projectWorkspaceRoot !== undefined
+        ? merged
+        : undefined;
 }
 function loadLayer(path) {
     const result = (0, loader_1.loadConfigSafe)(path);

package/dist/config/resolve.js.map

@@ -1 +1 @@
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package/dist/config/workspace-root.d.ts

@@ -2,6 +2,12 @@ import type { GraphFlowConfig } from "./schema";
 export declare function resolveRuntimeWorkspaceRoot(options?: {
     rootDir?: string;
     projectWorkspaceRoot?: string;
+    /**
+     * Injectable working directory used for upward discovery and the final cwd
+     * fallback. Defaults to process.cwd(). Lets tests exercise unsafe-cwd paths
+     * without process.chdir() (which races under parallel test workers).
+     */
+    fromDir?: string;
 }): string;
 export declare function bindRuntimeWorkspaceRoot(config: GraphFlowConfig, options?: {
     rootDir?: string;

package/dist/config/workspace-root.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"workspace-root.d.ts","sourceRoot":"","sources":["../../src/config/workspace-root.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,eAAe,EAAE,MAAM,UAAU,CAAC;AAiChD,wBAAgB,2BAA2B,CAAC,OAAO,CAAC,EAAE;IACpD,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,oBAAoB,CAAC,EAAE,MAAM,CAAC;IAC9B;;;;OAIG;IACH,OAAO,CAAC,EAAE,MAAM,CAAC;CAClB,GAAG,MAAM,CAoDT;AAED,wBAAgB,wBAAwB,CACtC,MAAM,EAAE,eAAe,EACvB,OAAO,CAAC,EAAE;IACR,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,oBAAoB,CAAC,EAAE,MAAM,CAAC;CAC/B,GACA,eAAe,CASjB;AAED,wEAAwE;AACxE,wBAAgB,kCAAkC,CAAC,MAAM,EAAE,eAAe,GAAG,eAAe,CAM3F"}

package/dist/config/workspace-root.js

@@ -46,14 +46,15 @@ function resolveRuntimeWorkspaceRoot(options) {
     if (options?.projectWorkspaceRoot?.trim()) {
         return assertSafeWorkspaceRoot(options.projectWorkspaceRoot.trim(), "projectWorkspaceRoot");
     }
-    const discovered = (0, discover_workspace_1.discoverWorkspaceRoot)(process.cwd());
+    const baseDir = options?.fromDir?.trim() ? (0, node_path_1.resolve)(options.fromDir.trim()) : process.cwd();
+    const discovered = (0, discover_workspace_1.discoverWorkspaceRoot)(baseDir);
     if (discovered) {
         // Defense in depth: discovery must never surface home/AppData. Skip if it does.
         if (!(0, discover_workspace_1.isUnsafeWorkspaceFallback)(discovered)) {
             return (0, node_path_1.resolve)(discovered);
         }
     }
-    const cwd = (0, node_path_1.resolve)(process.cwd());
+    const cwd = (0, node_path_1.resolve)(baseDir);
     if ((0, discover_workspace_1.isUsableWorkspaceFallback)(cwd)) {
         return cwd;
     }

package/dist/config/workspace-root.js.map

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+{"version":3,"file":"workspace-root.js","sourceRoot":"","sources":["../../src/config/workspace-root.ts"],"names":[],"mappings":";;AAkCA,kEA6DC;AAED,4DAeC;AAGD,gFAMC;AAzHD,yCAAoC;AAEpC,6DAO8B;AAE9B;;;;;;;;;;;GAWG;AACH,SAAS,uBAAuB,CAAC,IAAY,EAAE,MAAc;IAC3D,MAAM,QAAQ,GAAG,IAAA,mBAAO,EAAC,IAAI,CAAC,CAAC;IAC/B,IAAI,IAAA,8CAAyB,EAAC,QAAQ,CAAC,EAAE,CAAC;QACxC,MAAM,IAAI,KAAK,CACb,8CAA8C,MAAM,KAAK,QAAQ,IAAI;YACnE,4EAA4E,CAC/E,CAAC;IACJ,CAAC;IACD,OAAO,QAAQ,CAAC;AAClB,CAAC;AAED,SAAgB,2BAA2B,CAAC,OAS3C;IACC,IAAI,OAAO,EAAE,OAAO,EAAE,IAAI,EAAE,EAAE,CAAC;QAC7B,OAAO,uBAAuB,CAAC,OAAO,CAAC,OAAO,CAAC,IAAI,EAAE,EAAE,SAAS,CAAC,CAAC;IACpE,CAAC;IAED,MAAM,OAAO,GAAG,OAAO,CAAC,GAAG,CAAC,wBAAwB,EAAE,IAAI,EAAE,CAAC;IAC7D,IAAI,OAAO,EAAE,CAAC;QACZ,MAAM,WAAW,GAAG,IAAA,mBAAO,EAAC,OAAO,CAAC,CAAC;QACrC,sEAAsE;QACtE,kEAAkE;QAClE,2EAA2E;QAC3E,+CAA+C;QAC/C,IAAI,IAAA,qDAAgC,EAAC,OAAO,CAAC,IAAI,IAAA,8CAAyB,EAAC,WAAW,CAAC,EAAE,CAAC;YACxF,OAAO,OAAO,CAAC,GAAG,CAAC,wBAAwB,CAAC;QAC9C,CAAC;aAAM,CAAC;YACN,OAAO,WAAW,CAAC;QACrB,CAAC;IACH,CAAC;IAED,IAAI,OAAO,EAAE,oBAAoB,EAAE,IAAI,EAAE,EAAE,CAAC;QAC1C,OAAO,uBAAuB,CAAC,OAAO,CAAC,oBAAoB,CAAC,IAAI,EAAE,EAAE,sBAAsB,CAAC,CAAC;IAC9F,CAAC;IAED,MAAM,OAAO,GAAG,OAAO,EAAE,OAAO,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,IAAA,mBAAO,EAAC,OAAO,CAAC,OAAO,CAAC,IAAI,EAAE,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,GAAG,EAAE,CAAC;IAE3F,MAAM,UAAU,GAAG,IAAA,0CAAqB,EAAC,OAAO,CAAC,CAAC;IAClD,IAAI,UAAU,EAAE,CAAC;QACf,gFAAgF;QAChF,IAAI,CAAC,IAAA,8CAAyB,EAAC,UAAU,CAAC,EAAE,CAAC;YAC3C,OAAO,IAAA,mBAAO,EAAC,UAAU,CAAC,CAAC;QAC7B,CAAC;IACH,CAAC;IAED,MAAM,GAAG,GAAG,IAAA,mBAAO,EAAC,OAAO,CAAC,CAAC;IAC7B,IAAI,IAAA,8CAAyB,EAAC,GAAG,CAAC,EAAE,CAAC;QACnC,OAAO,GAAG,CAAC;IACb,CAAC;IAED,IAAI,IAAA,gDAA2B,EAAC,GAAG,CAAC,IAAI,IAAA,8CAAyB,EAAC,GAAG,CAAC,EAAE,CAAC;QACvE,MAAM,MAAM,GAAG,IAAA,+CAA0B,GAAE,CAAC;QAC5C,IAAI,MAAM,EAAE,CAAC;YACX,OAAO,uBAAuB,CAAC,MAAM,EAAE,oBAAoB,CAAC,CAAC;QAC/D,CAAC;QACD,IAAI,IAAA,gDAA2B,EAAC,GAAG,CAAC,EAAE,CAAC;YACrC,OAAO,GAAG,CAAC;QACb,CAAC;QACD,MAAM,IAAI,KAAK,CACb,4CAA4C,GAAG,2DAA2D,CAC3G,CAAC;IACJ,CAAC;IAED,OAAO,GAAG,CAAC;AACb,CAAC;AAED,SAAgB,wBAAwB,CACtC,MAAuB,EACvB,OAGC;IAED,MAAM,aAAa,GAAG,2BAA2B,CAAC,OAAO,CAAC,CAAC;IAC3D,OAAO;QACL,GAAG,MAAM;QACT,WAAW,EAAE;YACX,GAAG,MAAM,CAAC,WAAW;YACrB,aAAa;SACd;KACF,CAAC;AACJ,CAAC;AAED,wEAAwE;AACxE,SAAgB,kCAAkC,CAAC,MAAuB;IACxE,MAAM,EAAE,aAAa,EAAE,QAAQ,EAAE,GAAG,WAAW,EAAE,GAAG,MAAM,CAAC,WAAW,CAAC;IACvE,OAAO;QACL,GAAG,MAAM;QACT,WAAW,EAAE,WAA6C;KAC3D,CAAC;AACJ,CAAC"}

package/dist/graph/graphify-file-client.d.ts

@@ -3,6 +3,44 @@ interface GraphStore {
     nodes: GraphNode[];
     edges: GraphEdge[];
 }
+/** Recorded file identity used to validate a cache entry (mtime + size). */
+interface FileStat {
+    mtimeMs: number;
+    size: number;
+}
+/**
+ * One cache entry per absolute store path.
+ *
+ * - `store` is the parsed graph object. Internal write paths never mutate it
+ *   (they build a fresh object and pass it to writeStore), and readSnapshot
+ *   returns a shallow copy, so the shared entry cannot be corrupted by callers.
+ * - `index` is the inverted index over `store.nodes`' searchable text; it is
+ *   built lazily on the first keyword query and reset to null on every write.
+ * - `stat` is the {mtimeMs, size} of the file when the entry was recorded
+ *   (null when the file did not exist at that moment).
+ */
+interface StoreCacheEntry {
+    store: GraphStore;
+    index: Map<string, Set<string>> | null;
+    stat: FileStat | null;
+}
+/**
+ * Process-wide store cache keyed by the absolute store path, so every
+ * GraphifyFileClient instance pointing at the same file (the context-slicer
+ * reads snapshots several times per request) shares one parsed store + index
+ * instead of re-reading + re-parsing the whole graph JSON each time.
+ *
+ * Entries are validated with a cheap statSync (mtime + size) on every read, so
+ * external writes are picked up; our own writes update the entry write-through.
+ *
+ * Exported for tests (introspection / reset); production code should treat it
+ * as an internal detail.
+ */
+export declare const graphifyFileStoreCache: Map<string, StoreCacheEntry>;
+/** Test-only: number of times a store file was actually read from disk. */
+export declare function getGraphifyFileStoreParseCount(): number;
+/** Test-only: drop every cached entry and reset the parse counter. */
+export declare function resetGraphifyFileStoreCacheForTests(): void;
 export declare class GraphifyFileClient {
     private readonly storePath;
     constructor(storePath: string);
@@ -17,7 +55,18 @@ export declare class GraphifyFileClient {
     }[]>;
     private buildIndex;
     private readStore;
+    /**
+     * Return the validated cache entry for this store path: a cheap statSync
+     * against the recorded mtime+size decides between a cache hit and a full
+     * read + JSON.parse. All cache operations are synchronous, and every public
+     * method runs its whole body without yielding, so no async gap can observe
+     * a half-updated entry (single-threaded safety).
+     */
+    private readStoreEntry;
+    private parseStoreFile;
     private writeStore;
+    /** Record the freshly written store (and its on-disk stat) in the cache. */
+    private updateCacheAfterWrite;
     private edgeKey;
     deleteNode(id: string): Promise<void>;
     deleteNodes(ids: string[]): Promise<void>;

package/dist/graph/graphify-file-client.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"graphify-file-client.d.ts","sourceRoot":"","sources":["../../src/graph/graphify-file-client.ts"],"names":[],"mappings":"AAWA,OAAO,KAAK,EAAE,SAAS,EAAE,SAAS,EAAE,MAAM,eAAe,CAAC;AAI1D,UAAU,UAAU;IAClB,KAAK,EAAE,SAAS,EAAE,CAAC;IACnB,KAAK,EAAE,SAAS,EAAE,CAAC;CACpB;AAED,4EAA4E;AAC5E,UAAU,QAAQ;IAChB,OAAO,EAAE,MAAM,CAAC;IAChB,IAAI,EAAE,MAAM,CAAC;CACd;AAED;;;;;;;;;;GAUG;AACH,UAAU,eAAe;IACvB,KAAK,EAAE,UAAU,CAAC;IAClB,KAAK,EAAE,GAAG,CAAC,MAAM,EAAE,GAAG,CAAC,MAAM,CAAC,CAAC,GAAG,IAAI,CAAC;IACvC,IAAI,EAAE,QAAQ,GAAG,IAAI,CAAC;CACvB;AAED;;;;;;;;;;;GAWG;AACH,eAAO,MAAM,sBAAsB,8BAAqC,CAAC;AAIzE,2EAA2E;AAC3E,wBAAgB,8BAA8B,IAAI,MAAM,CAEvD;AAED,sEAAsE;AACtE,wBAAgB,mCAAmC,IAAI,IAAI,CAG1D;AAsBD,qBAAa,kBAAkB;IACjB,OAAO,CAAC,QAAQ,CAAC,SAAS;gBAAT,SAAS,EAAE,MAAM;IAExC,WAAW,CAAC,KAAK,EAAE,SAAS,EAAE,GAAG,OAAO,CAAC,IAAI,CAAC;IAc9C,WAAW,CAAC,KAAK,EAAE,SAAS,EAAE,GAAG,OAAO,CAAC,IAAI,CAAC;IAgBpD,YAAY,IAAI,UAAU;IAMpB,cAAc,CAAC,KAAK,EAAE,MAAM,GAAG,OAAO,CAAC,SAAS,EAAE,CAAC;IA0BnD,aAAa,CAAC,GAAG,EAAE,MAAM,EAAE,GAAG,OAAO,CAAC,SAAS,EAAE,CAAC;IAMlD,YAAY,CAChB,OAAO,EAAE,MAAM,EAAE,EACjB,SAAS,CAAC,EAAE,SAAS,CAAC,UAAU,CAAC,EAAE,EACnC,SAAS,GAAE,KAAK,GAAG,IAAI,GAAG,MAAe,GACxC,OAAO,CAAC;QAAE,IAAI,EAAE,SAAS,CAAC;QAAC,GAAG,EAAE,SAAS,CAAC,UAAU,CAAC,CAAA;KAAE,EAAE,CAAC;IAiC7D,OAAO,CAAC,UAAU;IAelB,OAAO,CAAC,SAAS;IAIjB;;;;;;OAMG;IACH,OAAO,CAAC,cAAc;IActB,OAAO,CAAC,cAAc;IA6BtB,OAAO,CAAC,UAAU;IAgClB,4EAA4E;IAC5E,OAAO,CAAC,qBAAqB;IAa7B,OAAO,CAAC,OAAO;IAIT,UAAU,CAAC,EAAE,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC;IAIrC,WAAW,CAAC,GAAG,EAAE,MAAM,EAAE,GAAG,OAAO,CAAC,IAAI,CAAC;IAUzC,UAAU,CAAC,IAAI,EAAE,MAAM,EAAE,EAAE,EAAE,MAAM,EAAE,QAAQ,EAAE,SAAS,CAAC,UAAU,CAAC,GAAG,OAAO,CAAC,IAAI,CAAC;CAS3F"}

package/dist/graph/graphify-file-client.js

@@ -1,11 +1,56 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.GraphifyFileClient = void 0;
+exports.GraphifyFileClient = exports.graphifyFileStoreCache = void 0;
+exports.getGraphifyFileStoreParseCount = getGraphifyFileStoreParseCount;
+exports.resetGraphifyFileStoreCacheForTests = resetGraphifyFileStoreCacheForTests;
 const node_crypto_1 = require("node:crypto");
 const node_fs_1 = require("node:fs");
 const node_path_1 = require("node:path");
 const logger_1 = require("../utils/logger");
 const graph_utils_1 = require("./graph-utils");
+/**
+ * Process-wide store cache keyed by the absolute store path, so every
+ * GraphifyFileClient instance pointing at the same file (the context-slicer
+ * reads snapshots several times per request) shares one parsed store + index
+ * instead of re-reading + re-parsing the whole graph JSON each time.
+ *
+ * Entries are validated with a cheap statSync (mtime + size) on every read, so
+ * external writes are picked up; our own writes update the entry write-through.
+ *
+ * Exported for tests (introspection / reset); production code should treat it
+ * as an internal detail.
+ */
+exports.graphifyFileStoreCache = new Map();
+let graphifyFileStoreParseCount = 0;
+/** Test-only: number of times a store file was actually read from disk. */
+function getGraphifyFileStoreParseCount() {
+    return graphifyFileStoreParseCount;
+}
+/** Test-only: drop every cached entry and reset the parse counter. */
+function resetGraphifyFileStoreCacheForTests() {
+    exports.graphifyFileStoreCache.clear();
+    graphifyFileStoreParseCount = 0;
+}
+function statIfExists(absPath) {
+    try {
+        const st = (0, node_fs_1.statSync)(absPath);
+        return { mtimeMs: st.mtimeMs, size: st.size };
+    }
+    catch (error) {
+        const code = error.code;
+        // Missing file (or a path component that is not a directory) => "no store yet".
+        if (code === "ENOENT" || code === "ENOTDIR") {
+            return null;
+        }
+        // Permission errors etc. must surface exactly like readFileSync would.
+        throw error;
+    }
+}
+function sameStat(a, b) {
+    if (a === null || b === null)
+        return a === b;
+    return a.mtimeMs === b.mtimeMs && a.size === b.size;
+}
 class GraphifyFileClient {
     storePath;
     constructor(storePath) {
@@ -19,32 +64,41 @@ class GraphifyFileClient {
         }
         this.writeStore({
             nodes: Array.from(map.values()),
-            edges: store.edges,
+            edges: [...store.edges],
         });
     }
     async upsertEdges(edges) {
         const store = this.readStore();
-        const edgeKeys = new Set(store.edges.map((edge) => this.edgeKey(edge)));
+        const next = { nodes: [...store.nodes], edges: [...store.edges] };
+        const edgeKeys = new Set(next.edges.map((edge) => this.edgeKey(edge)));
         for (const edge of edges) {
             const key = this.edgeKey(edge);
             if (!edgeKeys.has(key)) {
                 edgeKeys.add(key);
-                store.edges.push(edge);
+                next.edges.push(edge);
             }
         }
-        this.writeStore(store);
+        this.writeStore(next);
     }
     readSnapshot() {
-        return this.readStore();
+        const { store } = this.readStoreEntry();
+        // Shallow copy so callers can never corrupt the shared cache entry.
+        return { nodes: [...store.nodes], edges: [...store.edges] };
     }
     async queryByKeyword(query) {
-        const store = this.readStore();
+        const entry = this.readStoreEntry();
+        const store = entry.store;
         const tokens = (0, graph_utils_1.tokenizeForIndex)(query);
         if (tokens.length === 0) {
             const normalized = query.toLowerCase();
             return store.nodes.filter((node) => (0, graph_utils_1.nodeSearchableText)(node).toLowerCase().includes(normalized));
         }
-        const index = this.buildIndex(store.nodes);
+        // The inverted index is stored on the cache entry, so repeated keyword
+        // queries over an unchanged store do not re-tokenize every node.
+        if (!entry.index) {
+            entry.index = this.buildIndex(store.nodes);
+        }
+        const index = entry.index;
         const matched = new Set();
         for (const tok of tokens) {
             const ids = index.get(tok);
@@ -106,10 +160,33 @@ class GraphifyFileClient {
         return index;
     }
     readStore() {
-        if (!(0, node_fs_1.existsSync)(this.storePath)) {
+        return this.readStoreEntry().store;
+    }
+    /**
+     * Return the validated cache entry for this store path: a cheap statSync
+     * against the recorded mtime+size decides between a cache hit and a full
+     * read + JSON.parse. All cache operations are synchronous, and every public
+     * method runs its whole body without yielding, so no async gap can observe
+     * a half-updated entry (single-threaded safety).
+     */
+    readStoreEntry() {
+        const absPath = (0, node_path_1.resolve)(this.storePath);
+        const current = statIfExists(absPath);
+        const cached = exports.graphifyFileStoreCache.get(absPath);
+        if (cached && sameStat(cached.stat, current)) {
+            return cached;
+        }
+        const store = current === null ? { nodes: [], edges: [] } : this.parseStoreFile(absPath);
+        const entry = { store, index: null, stat: current };
+        exports.graphifyFileStoreCache.set(absPath, entry);
+        return entry;
+    }
+    parseStoreFile(absPath) {
+        if (!(0, node_fs_1.existsSync)(absPath)) {
             return { nodes: [], edges: [] };
         }
-        const raw = (0, node_fs_1.readFileSync)(this.storePath, "utf8");
+        const raw = (0, node_fs_1.readFileSync)(absPath, "utf8");
+        graphifyFileStoreParseCount += 1;
         if (!raw.trim()) {
             return { nodes: [], edges: [] };
         }
@@ -140,6 +217,10 @@ class GraphifyFileClient {
         for (let i = 0; i < maxRetries; i++) {
             try {
                 (0, node_fs_1.renameSync)(tempPath, this.storePath);
+                // Write-through: only after the rename succeeded does the cache move to
+                // the new store. On failure the previous entry (matching the untouched
+                // file on disk) stays valid.
+                this.updateCacheAfterWrite(store);
                 return;
             }
             catch (error) {
@@ -153,6 +234,20 @@ class GraphifyFileClient {
             }
         }
     }
+    /** Record the freshly written store (and its on-disk stat) in the cache. */
+    updateCacheAfterWrite(store) {
+        const absPath = (0, node_path_1.resolve)(this.storePath);
+        let stat = null;
+        try {
+            const st = (0, node_fs_1.statSync)(absPath);
+            stat = { mtimeMs: st.mtimeMs, size: st.size };
+        }
+        catch {
+            // Extremely unlikely immediately after rename; leave stat null so the
+            // next read re-validates from disk.
+        }
+        exports.graphifyFileStoreCache.set(absPath, { store, index: null, stat });
+    }
     edgeKey(edge) {
         return `${edge.from}::${edge.relation}::${edge.to}`;
     }
@@ -164,14 +259,17 @@ class GraphifyFileClient {
             return;
         const idSet = new Set(ids);
         const store = this.readStore();
-        store.nodes = store.nodes.filter((n) => !idSet.has(n.id));
-        store.edges = store.edges.filter((e) => !(idSet.has(e.from) || idSet.has(e.to)));
-        this.writeStore(store);
+        this.writeStore({
+            nodes: store.nodes.filter((n) => !idSet.has(n.id)),
+            edges: store.edges.filter((e) => !(idSet.has(e.from) || idSet.has(e.to))),
+        });
     }
     async deleteEdge(from, to, relation) {
         const store = this.readStore();
-        store.edges = store.edges.filter((e) => !(e.from === from && e.to === to && e.relation === relation));
-        this.writeStore(store);
+        this.writeStore({
+            nodes: [...store.nodes],
+            edges: store.edges.filter((e) => !(e.from === from && e.to === to && e.relation === relation)),
+        });
     }
 }
 exports.GraphifyFileClient = GraphifyFileClient;

package/dist/graph/graphify-file-client.js.map

@@ -1 +1 @@
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