@mcp-graph-workflow/mcp-graph 3.0.0

package/dist/api/routes/integrations.js

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+import { Router } from "express";
+import { getIntegrationsStatus } from "../../core/integrations/tool-status.js";
+import { readSerenaMemory, readAllSerenaMemories } from "../../core/integrations/serena-reader.js";
+import { buildEnrichedContext } from "../../core/integrations/enriched-context.js";
+import { KnowledgeStore } from "../../core/store/knowledge-store.js";
+export function createIntegrationsRouter(store, basePath) {
+    const router = Router();
+    router.get("/status", async (_req, res, next) => {
+        try {
+            const status = await getIntegrationsStatus(basePath);
+            res.json(status);
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    router.get("/serena/memories", async (_req, res, next) => {
+        try {
+            const memories = await readAllSerenaMemories(basePath);
+            res.json(memories);
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    router.get("/serena/memories/:name", async (req, res, next) => {
+        try {
+            const name = req.params.name;
+            const memory = await readSerenaMemory(basePath, name);
+            if (!memory) {
+                res.status(404).json({ error: `Memory not found: ${name}` });
+                return;
+            }
+            res.json(memory);
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    router.get("/gitnexus/url", async (_req, res, next) => {
+        try {
+            const status = await getIntegrationsStatus(basePath);
+            if (!status.gitnexus.running) {
+                res.status(503).json({
+                    error: "GitNexus is not running",
+                    instructions: "Run: gitnexus analyze && gitnexus serve",
+                });
+                return;
+            }
+            res.json({ url: status.gitnexus.url });
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    // ── Enriched context (Serena + GitNexus combined) ──
+    router.get("/enriched-context/:symbol", async (req, res, next) => {
+        try {
+            const symbol = req.params.symbol;
+            const ctx = await buildEnrichedContext(symbol, basePath);
+            res.json(ctx);
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    // ── Knowledge sync status ───────────────────────
+    router.get("/knowledge-status", (_req, res, next) => {
+        try {
+            const knowledgeStore = new KnowledgeStore(store.getDb());
+            const sourceTypes = ["upload", "serena", "code_context", "docs", "web_capture"];
+            const statuses = sourceTypes.map((st) => ({
+                source: st,
+                documentCount: knowledgeStore.count(st),
+            }));
+            const total = knowledgeStore.count();
+            res.json({ total, sources: statuses.filter((s) => s.documentCount > 0) });
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    return router;
+}
+//# sourceMappingURL=integrations.js.map

package/dist/api/routes/integrations.js.map

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package/dist/api/routes/knowledge.d.ts

@@ -0,0 +1,8 @@
+/**
+ * Knowledge API routes — upload, list, search knowledge documents.
+ * Knowledge docs are reference material (not PRD tasks).
+ */
+import { Router } from "express";
+import type { SqliteStore } from "../../core/store/sqlite-store.js";
+export declare function createKnowledgeRouter(store: SqliteStore): Router;
+//# sourceMappingURL=knowledge.d.ts.map

package/dist/api/routes/knowledge.d.ts.map

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package/dist/api/routes/knowledge.js

@@ -0,0 +1,144 @@
+/**
+ * Knowledge API routes — upload, list, search knowledge documents.
+ * Knowledge docs are reference material (not PRD tasks).
+ */
+import { Router } from "express";
+import { z } from "zod/v4";
+import { KnowledgeStore } from "../../core/store/knowledge-store.js";
+import { KnowledgeSourceTypeSchema } from "../../schemas/knowledge.schema.js";
+import { chunkText } from "../../core/rag/chunk-text.js";
+import { logger } from "../../core/utils/logger.js";
+const UploadSchema = z.object({
+    title: z.string().min(1),
+    content: z.string().min(1),
+    sourceType: KnowledgeSourceTypeSchema.optional(),
+    sourceId: z.string().optional(),
+    metadata: z.record(z.string(), z.unknown()).optional(),
+});
+const SearchSchema = z.object({
+    query: z.string().min(1),
+    limit: z.number().int().positive().optional(),
+});
+export function createKnowledgeRouter(store) {
+    const router = Router();
+    const knowledgeStore = new KnowledgeStore(store.getDb());
+    // ── POST / — upload a knowledge document ─────
+    router.post("/", (req, res, next) => {
+        try {
+            const parsed = UploadSchema.safeParse(req.body);
+            if (!parsed.success) {
+                res.status(400).json({ error: "Invalid request body", issues: parsed.error.issues });
+                return;
+            }
+            const { title, content, sourceType, sourceId, metadata } = parsed.data;
+            const chunks = chunkText(content);
+            const docs = knowledgeStore.insertChunks(chunks.map((chunk) => ({
+                sourceType: sourceType ?? "upload",
+                sourceId: sourceId ?? `upload-${Date.now()}`,
+                title: chunks.length > 1 ? `${title} [${chunk.index + 1}/${chunks.length}]` : title,
+                content: chunk.content,
+                chunkIndex: chunk.index,
+                metadata,
+            })));
+            logger.info("Knowledge uploaded", { title, chunks: docs.length });
+            res.status(201).json({
+                ok: true,
+                documents: docs,
+                chunksCreated: docs.length,
+            });
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    // ── GET / — list knowledge documents ──────────
+    router.get("/", (req, res, next) => {
+        try {
+            const sourceType = req.query.sourceType;
+            const limit = req.query.limit ? Number(req.query.limit) : undefined;
+            const offset = req.query.offset ? Number(req.query.offset) : undefined;
+            const validSourceType = sourceType
+                ? KnowledgeSourceTypeSchema.safeParse(sourceType)
+                : undefined;
+            const docs = knowledgeStore.list({
+                sourceType: validSourceType?.success ? validSourceType.data : undefined,
+                limit,
+                offset,
+            });
+            res.json({
+                documents: docs,
+                total: knowledgeStore.count(validSourceType?.success ? validSourceType.data : undefined),
+            });
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    // ── POST /search — FTS search knowledge ──────
+    router.post("/search", (req, res, next) => {
+        try {
+            const parsed = SearchSchema.safeParse(req.body);
+            if (!parsed.success) {
+                res.status(400).json({ error: "Missing required field: query" });
+                return;
+            }
+            const { query, limit } = parsed.data;
+            const results = knowledgeStore.search(query, limit ?? 20);
+            res.json({
+                query,
+                results,
+                total: results.length,
+            });
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    // ── GET /:id — get a knowledge document ──────
+    router.get("/:id", (req, res, next) => {
+        try {
+            const doc = knowledgeStore.getById(req.params.id);
+            if (!doc) {
+                res.status(404).json({ error: "Knowledge document not found" });
+                return;
+            }
+            res.json(doc);
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    // ── DELETE /:id — delete a knowledge document ─
+    router.delete("/:id", (req, res, next) => {
+        try {
+            const deleted = knowledgeStore.delete(req.params.id);
+            if (!deleted) {
+                res.status(404).json({ error: "Knowledge document not found" });
+                return;
+            }
+            res.json({ ok: true });
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    // ── GET /stats — knowledge store stats ────────
+    router.get("/stats/summary", (_req, res, next) => {
+        try {
+            const total = knowledgeStore.count();
+            const bySource = {};
+            const sourceTypes = ["upload", "serena", "code_context", "docs", "web_capture"];
+            for (const st of sourceTypes) {
+                const c = knowledgeStore.count(st);
+                if (c > 0)
+                    bySource[st] = c;
+            }
+            res.json({ total, bySource });
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    return router;
+}
+//# sourceMappingURL=knowledge.js.map

package/dist/api/routes/knowledge.js.map

@@ -0,0 +1 @@
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package/dist/api/routes/nodes.d.ts

@@ -0,0 +1,4 @@
+import { Router } from "express";
+import type { SqliteStore } from "../../core/store/sqlite-store.js";
+export declare function createNodesRouter(store: SqliteStore): Router;
+//# sourceMappingURL=nodes.d.ts.map

package/dist/api/routes/nodes.d.ts.map

@@ -0,0 +1 @@
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package/dist/api/routes/nodes.js

@@ -0,0 +1,123 @@
+import { Router } from "express";
+import { z } from "zod/v4";
+import { NodeNotFoundError } from "../../core/utils/errors.js";
+import { NodeTypeSchema, NodeStatusSchema, GraphNodeSchema } from "../../schemas/node.schema.js";
+import { validateBody } from "../middleware/validate.js";
+import { generateId } from "../../core/utils/id.js";
+import { now } from "../../core/utils/time.js";
+const CreateNodeBodySchema = GraphNodeSchema.omit({ id: true, createdAt: true, updatedAt: true }).extend({
+    id: z.string().optional(),
+});
+const UpdateNodeBodySchema = z.object({
+    title: z.string().optional(),
+    description: z.string().nullable().optional(),
+    type: NodeTypeSchema.optional(),
+    status: NodeStatusSchema.optional(),
+    priority: z.union([z.literal(1), z.literal(2), z.literal(3), z.literal(4), z.literal(5)]).optional(),
+    xpSize: z.enum(["XS", "S", "M", "L", "XL"]).nullable().optional(),
+    estimateMinutes: z.number().nullable().optional(),
+    tags: z.array(z.string()).nullable().optional(),
+    parentId: z.string().nullable().optional(),
+    sprint: z.string().nullable().optional(),
+    blocked: z.boolean().optional(),
+    acceptanceCriteria: z.array(z.string()).nullable().optional(),
+    metadata: z.record(z.string(), z.unknown()).nullable().optional(),
+});
+export function createNodesRouter(store) {
+    const router = Router();
+    router.get("/", (req, res, next) => {
+        try {
+            const { type, status } = req.query;
+            if (type) {
+                const parsed = NodeTypeSchema.safeParse(type);
+                if (!parsed.success) {
+                    res.status(400).json({ error: `Invalid type: ${type}` });
+                    return;
+                }
+                res.json(store.getNodesByType(parsed.data));
+                return;
+            }
+            if (status) {
+                const parsed = NodeStatusSchema.safeParse(status);
+                if (!parsed.success) {
+                    res.status(400).json({ error: `Invalid status: ${status}` });
+                    return;
+                }
+                res.json(store.getNodesByStatus(parsed.data));
+                return;
+            }
+            res.json(store.getAllNodes());
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    router.get("/:id", (req, res, next) => {
+        try {
+            const id = req.params.id;
+            const node = store.getNodeById(id);
+            if (!node) {
+                throw new NodeNotFoundError(id);
+            }
+            res.json(node);
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    router.post("/", validateBody(CreateNodeBodySchema), (req, res, next) => {
+        try {
+            const timestamp = now();
+            const node = {
+                ...req.body,
+                id: req.body.id ?? generateId("node"),
+                createdAt: timestamp,
+                updatedAt: timestamp,
+            };
+            store.insertNode(node);
+            res.status(201).json(node);
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    router.patch("/:id", validateBody(UpdateNodeBodySchema), (req, res, next) => {
+        try {
+            const id = req.params.id;
+            const { status, ...fields } = req.body;
+            let updated = store.updateNode(id, fields);
+            if (status !== undefined) {
+                updated = store.updateNodeStatus(id, status);
+            }
+            if (!updated && Object.keys(req.body).length > 0) {
+                throw new NodeNotFoundError(id);
+            }
+            if (!updated) {
+                const existing = store.getNodeById(id);
+                if (!existing)
+                    throw new NodeNotFoundError(id);
+                res.json(existing);
+                return;
+            }
+            res.json(updated);
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    router.delete("/:id", (req, res, next) => {
+        try {
+            const id = req.params.id;
+            const deleted = store.deleteNode(id);
+            if (!deleted) {
+                throw new NodeNotFoundError(id);
+            }
+            res.status(204).send();
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    return router;
+}
+//# sourceMappingURL=nodes.js.map

package/dist/api/routes/nodes.js.map

@@ -0,0 +1 @@
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package/dist/api/routes/project.d.ts

@@ -0,0 +1,4 @@
+import { Router } from "express";
+import type { SqliteStore } from "../../core/store/sqlite-store.js";
+export declare function createProjectRouter(store: SqliteStore): Router;
+//# sourceMappingURL=project.d.ts.map

package/dist/api/routes/project.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"project.d.ts","sourceRoot":"","sources":["../../../src/api/routes/project.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,MAAM,EAAE,MAAM,SAAS,CAAC;AAEjC,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,kCAAkC,CAAC;AAOpE,wBAAgB,mBAAmB,CAAC,KAAK,EAAE,WAAW,GAAG,MAAM,CAmE9D"}

package/dist/api/routes/project.js

@@ -0,0 +1,70 @@
+import { Router } from "express";
+import { z } from "zod/v4";
+import { validateBody } from "../middleware/validate.js";
+const InitProjectBodySchema = z.object({
+    name: z.string().min(1).optional(),
+});
+export function createProjectRouter(store) {
+    const router = Router();
+    // GET /project — current active project
+    router.get("/", (_req, res, next) => {
+        try {
+            const project = store.getProject();
+            if (!project) {
+                res.status(404).json({ error: "No project initialized" });
+                return;
+            }
+            res.json(project);
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    // POST /project/init — initialize a new project
+    router.post("/init", validateBody(InitProjectBodySchema), (req, res, next) => {
+        try {
+            const project = store.initProject(req.body.name);
+            res.status(201).json(project);
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    // GET /project/active — alias for GET /project
+    router.get("/active", (_req, res, next) => {
+        try {
+            const project = store.getActiveProject();
+            if (!project) {
+                res.status(404).json({ error: "No active project" });
+                return;
+            }
+            res.json(project);
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    // GET /project/list — list all projects
+    router.get("/list", (_req, res, next) => {
+        try {
+            const projects = store.listProjects();
+            res.json({ total: projects.length, projects });
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    // POST /project/:id/activate — switch active project
+    router.post("/:id/activate", (req, res, next) => {
+        try {
+            store.activateProject(req.params.id);
+            const project = store.getProject();
+            res.json({ ok: true, project });
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    return router;
+}
+//# sourceMappingURL=project.js.map

package/dist/api/routes/project.js.map

@@ -0,0 +1 @@
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package/dist/api/routes/rag.d.ts

@@ -0,0 +1,8 @@
+/**
+ * RAG API routes — semantic search endpoint.
+ * Uses local embeddings for token-efficient retrieval.
+ */
+import { Router } from "express";
+import type { SqliteStore } from "../../core/store/sqlite-store.js";
+export declare function createRagRouter(store: SqliteStore): Router;
+//# sourceMappingURL=rag.d.ts.map

package/dist/api/routes/rag.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"rag.d.ts","sourceRoot":"","sources":["../../../src/api/routes/rag.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAE,MAAM,EAAE,MAAM,SAAS,CAAC;AAEjC,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,kCAAkC,CAAC;AAUpE,wBAAgB,eAAe,CAAC,KAAK,EAAE,WAAW,GAAG,MAAM,CA8D1D"}

package/dist/api/routes/rag.js

@@ -0,0 +1,70 @@
+/**
+ * RAG API routes — semantic search endpoint.
+ * Uses local embeddings for token-efficient retrieval.
+ */
+import { Router } from "express";
+import { z } from "zod/v4";
+import { EmbeddingStore } from "../../core/rag/embedding-store.js";
+import { indexAllEmbeddings, semanticSearch } from "../../core/rag/rag-pipeline.js";
+import { logger } from "../../core/utils/logger.js";
+const RagQuerySchema = z.object({
+    query: z.string().min(1),
+    limit: z.number().int().positive().optional(),
+});
+export function createRagRouter(store) {
+    const router = Router();
+    const embeddingStore = new EmbeddingStore(store);
+    let indexed = false;
+    // ── POST /query — semantic search ─────────────
+    router.post("/query", async (req, res, next) => {
+        try {
+            const parsed = RagQuerySchema.safeParse(req.body);
+            if (!parsed.success) {
+                res.status(400).json({ error: "Missing required field: query" });
+                return;
+            }
+            const { query, limit } = parsed.data;
+            // Lazy index on first query — indexes nodes + knowledge docs
+            if (!indexed) {
+                const result = await indexAllEmbeddings(store, embeddingStore);
+                indexed = (result.nodes + result.knowledge) > 0;
+                logger.info("RAG index built on first query", { nodes: result.nodes, knowledge: result.knowledge });
+            }
+            const results = await semanticSearch(embeddingStore, query, limit ?? 10);
+            res.json({
+                query,
+                results: results.map((r) => ({
+                    id: r.sourceId,
+                    text: r.text,
+                    similarity: Math.round(r.similarity * 1000) / 1000,
+                    source: r.source,
+                })),
+                totalIndexed: embeddingStore.count(),
+            });
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    // ── POST /reindex — rebuild embeddings ────────
+    router.post("/reindex", async (_req, res, next) => {
+        try {
+            embeddingStore.clear();
+            const result = await indexAllEmbeddings(store, embeddingStore);
+            indexed = (result.nodes + result.knowledge) > 0;
+            res.json({ ok: true, indexed: result.nodes + result.knowledge, nodes: result.nodes, knowledge: result.knowledge });
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    // ── GET /stats — embedding stats ──────────────
+    router.get("/stats", (_req, res) => {
+        res.json({
+            totalEmbeddings: embeddingStore.count(),
+            indexed,
+        });
+    });
+    return router;
+}
+//# sourceMappingURL=rag.js.map

package/dist/api/routes/rag.js.map

@@ -0,0 +1 @@
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package/dist/api/routes/search.d.ts

@@ -0,0 +1,4 @@
+import { Router } from "express";
+import type { SqliteStore } from "../../core/store/sqlite-store.js";
+export declare function createSearchRouter(store: SqliteStore): Router;
+//# sourceMappingURL=search.d.ts.map

package/dist/api/routes/search.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"search.d.ts","sourceRoot":"","sources":["../../../src/api/routes/search.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,MAAM,EAAE,MAAM,SAAS,CAAC;AACjC,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,kCAAkC,CAAC;AAEpE,wBAAgB,kBAAkB,CAAC,KAAK,EAAE,WAAW,GAAG,MAAM,CAyB7D"}

package/dist/api/routes/search.js

@@ -0,0 +1,25 @@
+import { Router } from "express";
+export function createSearchRouter(store) {
+    const router = Router();
+    router.get("/", (req, res, next) => {
+        try {
+            const q = req.query.q;
+            if (!q || q.trim().length === 0) {
+                res.status(400).json({ error: "Query parameter 'q' is required" });
+                return;
+            }
+            const limit = req.query.limit ? parseInt(req.query.limit, 10) : 20;
+            if (isNaN(limit) || limit < 1) {
+                res.status(400).json({ error: "Invalid limit parameter" });
+                return;
+            }
+            const results = store.searchNodes(q, limit);
+            res.json(results);
+        }
+        catch (err) {
+            next(err);
+        }
+    });
+    return router;
+}
+//# sourceMappingURL=search.js.map

package/dist/api/routes/search.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"search.js","sourceRoot":"","sources":["../../../src/api/routes/search.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,MAAM,EAAE,MAAM,SAAS,CAAC;AAGjC,MAAM,UAAU,kBAAkB,CAAC,KAAkB;IACnD,MAAM,MAAM,GAAG,MAAM,EAAE,CAAC;IAExB,MAAM,CAAC,GAAG,CAAC,GAAG,EAAE,CAAC,GAAG,EAAE,GAAG,EAAE,IAAI,EAAE,EAAE;QACjC,IAAI,CAAC;YACH,MAAM,CAAC,GAAG,GAAG,CAAC,KAAK,CAAC,CAAuB,CAAC;YAC5C,IAAI,CAAC,CAAC,IAAI,CAAC,CAAC,IAAI,EAAE,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;gBAChC,GAAG,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC,IAAI,CAAC,EAAE,KAAK,EAAE,iCAAiC,EAAE,CAAC,CAAC;gBACnE,OAAO;YACT,CAAC;YAED,MAAM,KAAK,GAAG,GAAG,CAAC,KAAK,CAAC,KAAK,CAAC,CAAC,CAAC,QAAQ,CAAC,GAAG,CAAC,KAAK,CAAC,KAAe,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC;YAC7E,IAAI,KAAK,CAAC,KAAK,CAAC,IAAI,KAAK,GAAG,CAAC,EAAE,CAAC;gBAC9B,GAAG,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC,IAAI,CAAC,EAAE,KAAK,EAAE,yBAAyB,EAAE,CAAC,CAAC;gBAC3D,OAAO;YACT,CAAC;YAED,MAAM,OAAO,GAAG,KAAK,CAAC,WAAW,CAAC,CAAC,EAAE,KAAK,CAAC,CAAC;YAC5C,GAAG,CAAC,IAAI,CAAC,OAAO,CAAC,CAAC;QACpB,CAAC;QAAC,OAAO,GAAG,EAAE,CAAC;YACb,IAAI,CAAC,GAAG,CAAC,CAAC;QACZ,CAAC;IACH,CAAC,CAAC,CAAC;IAEH,OAAO,MAAM,CAAC;AAChB,CAAC"}

package/dist/api/routes/skills.d.ts

@@ -0,0 +1,3 @@
+import { Router } from "express";
+export declare function createSkillsRouter(basePath: string): Router;
+//# sourceMappingURL=skills.d.ts.map

package/dist/api/routes/skills.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"skills.d.ts","sourceRoot":"","sources":["../../../src/api/routes/skills.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,MAAM,EAAE,MAAM,SAAS,CAAC;AAGjC,wBAAgB,kBAAkB,CAAC,QAAQ,EAAE,MAAM,GAAG,MAAM,CAa3D"}