spectra-cli 4.2.0 → 4.3.0

package/dist/panoramic/graph/graph-builder.js

@@ -12,6 +12,7 @@ import * as path from 'node:path';
 import * as crypto from 'node:crypto';
 import { writeAtomicJson } from '../../utils/atomic-write.js';
 import { CONFIDENCE_SCORES, mapEvidenceConfidence } from './confidence-mapper.js';
+import { isAbsoluteForeignPath } from '../../knowledge-graph/relativize.js';
 // ============================================================
 // ArchitectureIRElementKind → GraphNode.kind 映射表
 // ============================================================
@@ -37,6 +38,10 @@ function undirectedEdgeKey(source, target, relation) {
     const [s, t] = source <= target ? [source, target] : [target, source];
     return `${s}|${t}|${relation}`;
 }
+/** 完整 SHA-256 hex（供 inputHash 的内容子哈希使用，最终 inputHash 再统一截 16 位） */
+function sha256Hex(input) {
+    return crypto.createHash('sha256').update(input).digest('hex');
+}
 /**
  * 生成有向图边 key（保留方向性）
  */
@@ -44,6 +49,49 @@ function directedEdgeKey(source, target, relation) {
     return `${source}|${target}|${relation}`;
 }
 // ============================================================
+// 内部辅助：边 / 节点 upsert（Feature 178 — 五路数据源去重）
+// ============================================================
+/**
+ * 按 directed 选择有向 / 无向 key 派生。
+ *
+ * Feature 178：五路数据源统一经此派生 edge key（含 unifiedGraph 路，其 directed 实参为
+ * 该边自身的 isDirectional）。收敛原先逐字复制 5 次的 `directed?directedEdgeKey:undirectedEdgeKey` 三元。
+ */
+function edgeKey(source, target, relation, directed) {
+    return directed
+        ? directedEdgeKey(source, target, relation)
+        : undirectedEdgeKey(source, target, relation);
+}
+/**
+ * 边 upsert（confidence-max-wins）。
+ *
+ * 同 key 仅当新边 confidenceScore 严格更高时覆盖。供 DocGraph / ArchitectureIR /
+ * CrossReference / Extraction 四路同质边写入统一调用（Feature 178）。
+ * unifiedGraph 第五路 directional 合并语义不同，不走此 helper。
+ */
+export function upsertEdge(edgeMap, edge, directed) {
+    const key = edgeKey(edge.source, edge.target, edge.relation, directed);
+    const existing = edgeMap.get(key);
+    if (!existing || edge.confidenceScore > existing.confidenceScore) {
+        edgeMap.set(key, edge);
+    }
+}
+/**
+ * 节点 upsert（last-write-wins + metadata 合并）。
+ *
+ * 同 id 时后写覆盖先写，但保留先写 metadata 中后写没有的键（`{...existing, ...new}`）。
+ * 供 DocGraph specs / ArchitectureIR elements / Extraction nodes 三路统一调用（Feature 178）。
+ * DocGraph 为首路 existing 恒 undefined（buildDocGraph 已按 specPath 去重），合并退化为裸 set。
+ * unifiedGraph 第五路 first-write-wins + callSitesCount 扩展语义不同，不走此 helper。
+ */
+export function upsertNode(nodeMap, node) {
+    const existing = nodeMap.get(node.id);
+    if (existing) {
+        node.metadata = { ...existing.metadata, ...node.metadata };
+    }
+    nodeMap.set(node.id, node);
+}
+// ============================================================
 // 核心构建函数
 // ============================================================
 /**
@@ -88,7 +136,7 @@ export function buildKnowledgeGraph(options) {
                         sourceTag: 'doc-graph',
                     },
                 };
-                nodeMap.set(id, node);
+                upsertNode(nodeMap, node);
             }
             // 遍历引用边
             for (const ref of docGraph.references) {
@@ -102,14 +150,7 @@ export function buildKnowledgeGraph(options) {
                     confidence,
                     confidenceScore,
                 };
-                const key = directed
-                    ? directedEdgeKey(edge.source, edge.target, edge.relation)
-                    : undirectedEdgeKey(edge.source, edge.target, edge.relation);
-                // 取高 confidenceScore 的边
-                const existing = edgeMap.get(key);
-                if (!existing || confidenceScore > existing.confidenceScore) {
-                    edgeMap.set(key, edge);
-                }
+                upsertEdge(edgeMap, edge, directed);
             }
         }
         catch (err) {
@@ -147,11 +188,7 @@ export function buildKnowledgeGraph(options) {
                     },
                 };
                 // last-write-wins + metadata 合并：后写覆盖先写，但保留先写的 metadata 字段
-                const existingNode = nodeMap.get(element.id);
-                if (existingNode) {
-                    node.metadata = { ...existingNode.metadata, ...node.metadata };
-                }
-                nodeMap.set(element.id, node);
+                upsertNode(nodeMap, node);
             }
             // 遍历关系边
             for (const rel of ir.relationships) {
@@ -173,13 +210,7 @@ export function buildKnowledgeGraph(options) {
                         metadata: { originalDirection: `${relationship.sourceId}→${relationship.destinationId}` },
                     });
                 }
-                const key = directed
-                    ? directedEdgeKey(edge.source, edge.target, edge.relation)
-                    : undirectedEdgeKey(edge.source, edge.target, edge.relation);
-                const existing = edgeMap.get(key);
-                if (!existing || confidenceScore > existing.confidenceScore) {
-                    edgeMap.set(key, edge);
-                }
+                upsertEdge(edgeMap, edge, directed);
             }
         }
         catch (err) {
@@ -210,13 +241,7 @@ export function buildKnowledgeGraph(options) {
                     confidence,
                     confidenceScore,
                 };
-                const key = directed
-                    ? directedEdgeKey(edge.source, edge.target, edge.relation)
-                    : undirectedEdgeKey(edge.source, edge.target, edge.relation);
-                const existing = edgeMap.get(key);
-                if (!existing || confidenceScore > existing.confidenceScore) {
-                    edgeMap.set(key, edge);
-                }
+                upsertEdge(edgeMap, edge, directed);
             }
         }
         catch (err) {
@@ -251,11 +276,7 @@ export function buildKnowledgeGraph(options) {
                         },
                     };
                     // last-write-wins：提取节点覆盖同 ID 的前序节点，但合并 metadata
-                    const existingNode = nodeMap.get(node.id);
-                    if (existingNode) {
-                        graphNode.metadata = { ...existingNode.metadata, ...graphNode.metadata };
-                    }
-                    nodeMap.set(node.id, graphNode);
+                    upsertNode(nodeMap, graphNode);
                 }
                 for (const edge of result.edges) {
                     const confidenceScore = CONFIDENCE_SCORES[edge.confidence] ?? 0.5;
@@ -266,13 +287,7 @@ export function buildKnowledgeGraph(options) {
                         confidence: edge.confidence,
                         confidenceScore,
                     };
-                    const key = directed
-                        ? directedEdgeKey(graphEdge.source, graphEdge.target, graphEdge.relation)
-                        : undirectedEdgeKey(graphEdge.source, graphEdge.target, graphEdge.relation);
-                    const existing = edgeMap.get(key);
-                    if (!existing || confidenceScore > existing.confidenceScore) {
-                        edgeMap.set(key, graphEdge);
-                    }
+                    upsertEdge(edgeMap, graphEdge, directed);
                 }
             }
         }
@@ -316,6 +331,9 @@ export function buildKnowledgeGraph(options) {
                 // module / package / spec 等其他 kind 直接保留（与 GraphNode kind 范围对齐）
                 const ugKind = ugNode.kind ?? 'module';
                 const mappedKind = ugKind === 'symbol' ? 'component' : ugKind;
+                // Feature 193 决策 1d：透传 producer 侧 external 标记，使 portable 守卫与
+                // 加载期 stale 检测能豁免 projectRoot 外的节点（node_modules / 跨仓引用，FR-004）。
+                const isExternal = ugNode.metadata?.['external'] === true;
                 nodeMap.set(ugNode.id, {
                     id: ugNode.id,
                     kind: mappedKind,
@@ -325,6 +343,7 @@ export function buildKnowledgeGraph(options) {
                         unifiedKind: ugKind,
                         ...(ugNode.filePath ? { sourcePath: ugNode.filePath } : {}),
                         ...(callSitesCount !== undefined ? { callSitesCount } : {}),
+                        ...(isExternal ? { external: true } : {}),
                     },
                 });
             }
@@ -336,12 +355,12 @@ export function buildKnowledgeGraph(options) {
                 const confidence = tier === 'high' ? 'EXTRACTED' : tier === 'medium' ? 'INFERRED' : 'AMBIGUOUS';
                 const confidenceScore = CONFIDENCE_SCORES[confidence];
                 const isDirectional = ugEdge.directional !== undefined ? ugEdge.directional : DIRECTIONAL_RELATIONS.has(ugEdge.relation);
-                const edgeKey = isDirectional
-                    ? directedEdgeKey(ugEdge.source, ugEdge.target, ugEdge.relation)
-                    : undirectedEdgeKey(ugEdge.source, ugEdge.target, ugEdge.relation);
-                const existingEdge = edgeMap.get(edgeKey);
+                // Feature 178：key 派生统一走共享 edgeKey()（第五路 directed 实参为本边 isDirectional）；
+                // 下方 directional 升级合并语义与前四路 confidence-max-wins 不同，保留内联不走 upsertEdge。
+                const key = edgeKey(ugEdge.source, ugEdge.target, ugEdge.relation, isDirectional);
+                const existingEdge = edgeMap.get(key);
                 if (!existingEdge) {
-                    edgeMap.set(edgeKey, {
+                    edgeMap.set(key, {
                         source: ugEdge.source,
                         target: ugEdge.target,
                         relation: ugEdge.relation,
@@ -378,16 +397,16 @@ export function buildKnowledgeGraph(options) {
     // --------------------------------------------------------
     // 步骤 5：计算 inputHash
     // --------------------------------------------------------
+    // F175 FR-006/C-1：对"剥时间戳后的内容"做稳定 SHA-256（保留内容敏感性，禁退化为 count）。
+    // 仅 generatedAt 变 → hash 不变（byte-stable）；语义内容变 → hash 变（cache 正确失效）。
     const hashParts = [];
     if (options.docGraph) {
         const dg = options.docGraph;
-        if (dg.generatedAt)
-            hashParts.push(dg.generatedAt);
+        hashParts.push(`docGraph:${sha256Hex(stableStringify(stripVolatileFields(dg)))}`);
     }
     if (options.architectureIR) {
         const ir = options.architectureIR;
-        if (ir.generatedAt)
-            hashParts.push(ir.generatedAt);
+        hashParts.push(`architectureIR:${sha256Hex(stableStringify(stripVolatileFields(ir)))}`);
     }
     let inputHash;
     if (hashParts.length > 0) {
@@ -449,12 +468,199 @@ export function enrichNodeDegrees(graphJson, godNodes) {
  *
  * @param graphJson - buildKnowledgeGraph() 的返回值
  * @param outputDir - 项目输出根目录（graph.json 写入 {outputDir}/_meta/graph.json）
+ * @param options - 归一化选项（默认 undefined，等价 stripTimestamps:false）；透传 normalizeGraphForWrite
  * @returns 实际写入的绝对路径
  */
-export function writeKnowledgeGraph(graphJson, outputDir) {
+export function writeKnowledgeGraph(graphJson, outputDir, options) {
+    // F183 修复 1：将 normalizeGraphForWrite 内聚进写盘出口，使 graph / community / batch
+    // 三路写盘自动经过同一归一化，消除「CLI graph/community 未归一化 → 跨写盘点形态不一致」。
+    //
+    // 执行顺序严格为：① portable 守卫扫描 → ② normalizeGraphForWrite → ③ writeAtomicJson。
+    // why 此序：portable 守卫只读、不改 graphJson，置于归一化前后均不影响其扫描结果；
+    // 当前 normalizeGraphForWrite 仅做排序/字段剥除、不做路径转换，故先扫后归一化无副作用。
+    // I-1 备注：若未来 normalizeGraphForWrite 增加「绝对路径 → 相对路径」转换，则守卫必须移到
+    // 归一化「之后」（否则守卫会对未转换的绝对路径误报），届时需重排此处顺序。
+    const violations = scanGraphPortabilityViolations(graphJson);
+    if (violations.count > 0) {
+        console.warn(`[portable-guard] graph.json 含 ${violations.count} 个绝对路径泄漏（producer 侧应已相对化）：` +
+            `${violations.samples.join(', ')}${violations.count > violations.samples.length ? ' …' : ''}`);
+    }
+    // ② 内聚归一化（in-place）：默认 options=undefined → stripTimestamps:false，保留各路时间戳
+    normalizeGraphForWrite(graphJson, options);
     const graphJsonPath = path.join(outputDir, '_meta', 'graph.json');
-    // 同步调用，无需 await
+    // ③ 同步原子写盘，无需 await
     writeAtomicJson(graphJsonPath, graphJson);
     return path.resolve(graphJsonPath);
 }
+/**
+ * Feature 193 决策 1d — 扫描 GraphJSON 中残留的绝对路径（portable 守卫 tripwire）。
+ *
+ * 扫描面（isAbsoluteForeignPath 跨平台判定，无需 projectRoot；Codex implement-new2：
+ * 与 graph-query 加载期检测共用同一 helper，POSIX 运行时也能识别 Windows 盘符泄漏）：
+ *   - node.id（symbol id 的 file part）
+ *   - link.source / link.target（symbol id 的 file part）
+ *   - node.metadata.sourcePath / sourceFile / sourceTarget
+ *   - hyperedge.nodes 引用
+ *
+ * external 节点（metadata.external=true）的绝对路径是 FR-004 合法保留，**不计入违例**。
+ * 守卫不做转换，仅计数 + 取样，供 writeKnowledgeGraph 告警与测试态断言（应为 0）。
+ */
+export function scanGraphPortabilityViolations(graphJson) {
+    let count = 0;
+    const samples = [];
+    const record = (value) => {
+        count += 1;
+        if (samples.length < 5)
+            samples.push(value);
+    };
+    // id 的 file part = 第一个 `::` 之前（symbol id）或整个 id（module id）
+    const filePartOf = (id) => {
+        const idx = id.indexOf('::');
+        return idx >= 0 ? id.slice(0, idx) : id;
+    };
+    // 标了 external 的节点集合（其绝对 id / 绝对 source-target 为 FR-004 合法保留）
+    const externalIds = new Set();
+    for (const node of graphJson.nodes) {
+        if (node.metadata && node.metadata['external'] === true) {
+            externalIds.add(node.id);
+        }
+    }
+    for (const node of graphJson.nodes) {
+        const isExternal = externalIds.has(node.id);
+        // Codex implement-W2：external 豁免只覆盖 id 与 sourcePath（节点自身在 node_modules/跨仓的
+        // 合法绝对身份与文件路径，FR-004）；sourceFile / sourceTarget 代表不同关系映射，仍须 portable，
+        // 不随整节点跳过——否则 external 标记可掩盖真实路径泄漏。
+        if (!isExternal && isAbsoluteForeignPath(filePartOf(node.id)))
+            record(node.id);
+        const meta = node.metadata ?? {};
+        for (const key of ['sourcePath', 'sourceFile', 'sourceTarget']) {
+            if (isExternal && key === 'sourcePath')
+                continue;
+            const v = meta[key];
+            if (typeof v === 'string' && isAbsoluteForeignPath(v))
+                record(`${node.id}.metadata.${key}=${v}`);
+        }
+    }
+    for (const link of graphJson.links) {
+        // external 端点豁免（端点 id 在 externalIds 中）
+        if (!externalIds.has(link.source) && isAbsoluteForeignPath(filePartOf(link.source))) {
+            record(`edge.source=${link.source}`);
+        }
+        if (!externalIds.has(link.target) && isAbsoluteForeignPath(filePartOf(link.target))) {
+            record(`edge.target=${link.target}`);
+        }
+    }
+    if (graphJson.hyperedges) {
+        for (const he of graphJson.hyperedges) {
+            for (const nid of he.nodes) {
+                if (!externalIds.has(nid) && isAbsoluteForeignPath(filePartOf(nid))) {
+                    record(`hyperedge[${he.id}].node=${nid}`);
+                }
+            }
+        }
+    }
+    return { count, samples };
+}
+// ============================================================
+// 写盘前归一化（normalizeGraphForWrite）— byte-stable 支撑
+// ============================================================
+/**
+ * 节点 metadata 中属于"本轮运行态"的字段名——这些字段由生成流程内部使用（如
+ * buildDocGraph 的 relevance/unlinked 计算），不代表持久化语义，写盘前一律剥除（C-1）。
+ */
+const RUNTIME_NODE_METADATA_FIELDS = ['currentRun'];
+/**
+ * 写盘前原地归一化 GraphJSON，使同一语义输入产出逐字节稳定的磁盘文件（FR-006/FR-007）。
+ *
+ * 归一化面（in-place，调用前后对象/数组引用保持相同——仅 sort 改变元素顺序）：
+ *   (a) options.stripTimestamps 时把 graph.generatedAt 剥为固定 epoch
+ *   (b) nodes 按 id 字典序排序
+ *   (c) links 按 source + target + relation 三元组字典序排序
+ *   (d) hyperedges（若有）按 id 字典序排序
+ *   (e) 剥除节点 metadata 中的本轮运行态字段（currentRun 等）——该字段仅供
+ *       buildDocGraph 内部 relevance/unlinked 计算使用，不应进入持久化 graph.json，
+ *       否则 full 路径（currentRun:true）与无改动增量路径（cache-hit 的 currentRun:false）
+ *       会在结构上不可能 deepEqual，破坏 SC-003 byte-stable（C-1）。
+ */
+export function normalizeGraphForWrite(graphJson, options) {
+    if (options?.stripTimestamps) {
+        // 固定 epoch，使 byte-stable 比较不受真实生成时间影响
+        graphJson.graph.generatedAt = '1970-01-01T00:00:00.000Z';
+    }
+    // 剥除节点 metadata 的运行态字段（无论是否 stripTimestamps 都剥——运行态字段
+    // 不属于持久化语义，且在 full vs incremental 两路取值不同会破坏 byte-stable）
+    for (const node of graphJson.nodes) {
+        if (node.metadata && typeof node.metadata === 'object') {
+            for (const field of RUNTIME_NODE_METADATA_FIELDS) {
+                if (field in node.metadata) {
+                    delete node.metadata[field];
+                }
+            }
+        }
+    }
+    // in-place 排序（不替换数组引用，保持调用方持有的引用稳定）
+    graphJson.nodes.sort((a, b) => a.id.localeCompare(b.id));
+    graphJson.links.sort((a, b) => {
+        const ka = `${a.source}\x1f${a.target}\x1f${a.relation}`;
+        const kb = `${b.source}\x1f${b.target}\x1f${b.relation}`;
+        return ka.localeCompare(kb);
+    });
+    if (graphJson.hyperedges) {
+        graphJson.hyperedges.sort((a, b) => a.id.localeCompare(b.id));
+    }
+}
+/**
+ * 每次运行必变的非确定性字段名（深拷贝时递归剥除），保留全部语义内容。
+ *
+ * 含两类：
+ *   - 时间戳类（generatedAt/lastUpdated/timestamp）：每次运行墙钟必变。
+ *   - 运行态类（currentRun）：full 路径下为 true、cache-hit 增量路径下为 false（C-1）。
+ *     若不剥除，full vs 无改动增量的 docGraph 序列化串不同 → inputHash 不同 →
+ *     graph.json 在结构上不可能 deepEqual（破坏 SC-003 byte-stable）。
+ */
+const VOLATILE_FIELD_NAMES = new Set(['generatedAt', 'lastUpdated', 'timestamp', 'currentRun']);
+/**
+ * 深拷贝并递归剥除非确定性字段（如 generatedAt），保留全部语义内容，供稳定 hash 计算使用。
+ *
+ * C-1：仅移除时间戳类易变字段，**不**退化为 count 摘要——必须保留内容敏感性，
+ * 否则两个内容不同但 node/edge 数相同的 docGraph 会撞 hash → 静默返回 stale cache。
+ */
+export function stripVolatileFields(value) {
+    return stripVolatileRec(value);
+}
+function stripVolatileRec(value) {
+    if (Array.isArray(value)) {
+        return value.map((item) => stripVolatileRec(item));
+    }
+    if (value !== null && typeof value === 'object') {
+        const out = {};
+        for (const [key, val] of Object.entries(value)) {
+            if (VOLATILE_FIELD_NAMES.has(key))
+                continue;
+            out[key] = stripVolatileRec(val);
+        }
+        return out;
+    }
+    return value;
+}
+/**
+ * key 有序的稳定 JSON 序列化，使内容相同的对象产出相同字符串（不受 key 插入顺序影响）。
+ * 递归对所有对象 key 排序；数组保留原顺序（语义有序）。
+ */
+export function stableStringify(value) {
+    return JSON.stringify(sortKeysRec(value));
+}
+function sortKeysRec(value) {
+    if (Array.isArray(value)) {
+        return value.map((item) => sortKeysRec(item));
+    }
+    if (value !== null && typeof value === 'object') {
+        const out = {};
+        for (const key of Object.keys(value).sort((a, b) => a.localeCompare(b))) {
+            out[key] = sortKeysRec(value[key]);
+        }
+        return out;
+    }
+    return value;
+}
 //# sourceMappingURL=graph-builder.js.map

package/dist/panoramic/graph/graph-builder.js.map

@@ -1 +1 @@
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package/dist/panoramic/graph/graph-query.d.ts

@@ -109,6 +109,22 @@ export interface SemanticEdgeInfo {
  * @returns 去重、过滤后的小写 token 数组
  */
 export declare function tokenize(q: string): string[];
+/**
+ * 加载期检测旧绝对格式图（Feature 193 决策 1c / FR-006）。
+ *
+ * 判定规则：node.id 的 file part 跨平台绝对/异源 且 非当前 projectRoot 段级包含
+ * → graph-format-stale（典型：copy 自主仓的旧绝对图前缀 ≠ 当前 worktree）。
+ *
+ * - **全量扫描** node ids（命中首个违例即短路），不抽样（前 N 节点恰为相对/doc 形态时
+ *   抽样 100% 漏判，Codex plan-W3）。
+ * - 跨平台绝对判定 + 段级包含判定复用 relativize.ts 共享 helper（Codex implement-C1，
+ *   三处调用点单一事实源）：POSIX/Windows 盘符路径都识别；`/repo/app-old` 不误匹配 `/repo/app`；
+ *   `..foo` 同名子目录不误判越界。
+ * - 不依赖 canonicalize（canonicalize 对非 projectRoot 前缀的绝对 id 无能为力）。
+ * - external 节点（metadata.external=true）的绝对 id 是 FR-004 合法保留，豁免判定。
+ * - 检测到 → 抛 Error（消息含 'graph-format-stale' + 重建指引），不静默 not-found。
+ */
+export declare function assertGraphFormatNotStale(graph: Readonly<GraphJSON>, projectRoot: string): void;
 /**
  * 知识图谱查询引擎
  * 从 GraphJSON 构建内存索引，提供高效查询接口

package/dist/panoramic/graph/graph-query.d.ts.map

@@ -1 +1 @@
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package/dist/panoramic/graph/graph-query.js

@@ -4,8 +4,10 @@
  * 参照 graphify 极简设计，不引入任何新运行时依赖
  */
 import { readFileSync } from 'node:fs';
+import * as path from 'node:path';
 import { SEMANTIC_EDGE_RELATIONS } from './graph-types.js';
 import { resolveGraphReportPath } from './graph-paths.js';
+import { isAbsoluteForeignPath, isPathContainedUnder } from '../../knowledge-graph/relativize.js';
 // ============================================================
 // 查询词拆分（Bug 142）
 // ============================================================
@@ -38,6 +40,45 @@ export function tokenize(q) {
         .filter((t) => t.length > 1)));
 }
 // ============================================================
+// Feature 193 — graph-format-stale 检测（决策 1c）
+// ============================================================
+/**
+ * 取节点 id 的文件路径部分（第一个 `::` 之前；module 节点无 `::` 则取整个 id）。
+ */
+function nodeIdFilePart(id) {
+    const idx = id.indexOf('::');
+    return idx >= 0 ? id.slice(0, idx) : id;
+}
+/**
+ * 加载期检测旧绝对格式图（Feature 193 决策 1c / FR-006）。
+ *
+ * 判定规则：node.id 的 file part 跨平台绝对/异源 且 非当前 projectRoot 段级包含
+ * → graph-format-stale（典型：copy 自主仓的旧绝对图前缀 ≠ 当前 worktree）。
+ *
+ * - **全量扫描** node ids（命中首个违例即短路），不抽样（前 N 节点恰为相对/doc 形态时
+ *   抽样 100% 漏判，Codex plan-W3）。
+ * - 跨平台绝对判定 + 段级包含判定复用 relativize.ts 共享 helper（Codex implement-C1，
+ *   三处调用点单一事实源）：POSIX/Windows 盘符路径都识别；`/repo/app-old` 不误匹配 `/repo/app`；
+ *   `..foo` 同名子目录不误判越界。
+ * - 不依赖 canonicalize（canonicalize 对非 projectRoot 前缀的绝对 id 无能为力）。
+ * - external 节点（metadata.external=true）的绝对 id 是 FR-004 合法保留，豁免判定。
+ * - 检测到 → 抛 Error（消息含 'graph-format-stale' + 重建指引），不静默 not-found。
+ */
+export function assertGraphFormatNotStale(graph, projectRoot) {
+    const root = path.resolve(projectRoot);
+    for (const node of graph.nodes) {
+        // external 节点的绝对路径合法（node_modules / 跨仓引用），跳过
+        if (node.metadata && node.metadata['external'] === true)
+            continue;
+        const filePart = nodeIdFilePart(node.id);
+        if (isAbsoluteForeignPath(filePart) && !isPathContainedUnder(root, filePart)) {
+            throw new Error(`graph-format-stale: 图节点 id 含非当前项目根的绝对路径（${node.id}）。` +
+                `\n该图可能 copy 自其他 worktree / 主仓的旧绝对格式。` +
+                `\n请运行 \`spectra index\` 或 \`spectra batch\` 在当前 worktree 重建图。`);
+        }
+    }
+}
+// ============================================================
 // GraphQueryEngine 核心类
 // ============================================================
 /**
@@ -149,7 +190,14 @@ export class GraphQueryEngine {
             !Array.isArray(parsed['links'])) {
             throw new Error('图谱 JSON 格式不合法：缺少必要字段 nodes 或 links 数组');
         }
-        return new GraphQueryEngine(parsed, projectRoot);
+        const graph = parsed;
+        // Feature 193 决策 1c：加载期 graph-format-stale 检测。
+        // 旧绝对 id 图（典型：copy 自主仓的图）前缀 ≠ 当前 worktree → 抛明确错误，
+        // 不让 exact nodeMap 工具（graph_node / graph_path）静默退化为 not-found。
+        if (projectRoot !== undefined) {
+            assertGraphFormatNotStale(graph, projectRoot);
+        }
+        return new GraphQueryEngine(graph, projectRoot);
     }
     // ──────────────────────────────────────────────────────────
     // 私有辅助方法