@optave/codegraph 3.3.0 → 3.4.0

package/dist/infrastructure/native.js.map

@@ -1 +1 @@
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package/dist/infrastructure/registry.d.ts

@@ -1,13 +1,25 @@
+export declare const REGISTRY_PATH: string;
+/** Default TTL: entries not accessed within 30 days are pruned. */
+export declare const DEFAULT_TTL_DAYS = 30;
+interface RegistryEntry {
+    path: string;
+    dbPath: string;
+    addedAt: string;
+    lastAccessedAt?: string;
+}
+interface Registry {
+    repos: Record<string, RegistryEntry>;
+}
 /**
  * Load the registry from disk.
  * Returns `{ repos: {} }` on missing or corrupt file.
  */
-export function loadRegistry(registryPath?: string): any;
+export declare function loadRegistry(registryPath?: string): Registry;
 /**
  * Persist the registry to disk (atomic write via temp + rename).
  * Creates the parent directory if needed.
  */
-export function saveRegistry(registry: any, registryPath?: string): void;
+export declare function saveRegistry(registry: Registry, registryPath?: string): void;
 /**
  * Register a project directory. Idempotent.
  * Name defaults to `path.basename(rootDir)`.
@@ -16,29 +28,35 @@ export function saveRegistry(registry: any, registryPath?: string): void;
  * pointing to a different path, auto-suffixes (`api` → `api-2`, `api-3`, …).
  * Re-registering the same path updates in place. Explicit names always overwrite.
  */
-export function registerRepo(rootDir: any, name: any, registryPath?: string): {
-    name: any;
-    entry: any;
+export declare function registerRepo(rootDir: string, name?: string, registryPath?: string): {
+    name: string;
+    entry: RegistryEntry;
 };
 /**
  * Remove a repo from the registry. Returns false if not found.
  */
-export function unregisterRepo(name: any, registryPath?: string): boolean;
+export declare function unregisterRepo(name: string, registryPath?: string): boolean;
+export interface RepoListEntry {
+    name: string;
+    path: string;
+    dbPath: string;
+    addedAt: string;
+    lastAccessedAt: string;
+}
 /**
  * List all registered repos, sorted by name.
  */
-export function listRepos(registryPath?: string): {
-    name: string;
-    path: any;
-    dbPath: any;
-    addedAt: any;
-    lastAccessedAt: any;
-}[];
+export declare function listRepos(registryPath?: string): RepoListEntry[];
 /**
  * Resolve a repo name to its database path.
  * Returns undefined if the repo is not found or its DB file is missing.
  */
-export function resolveRepoDbPath(name: any, registryPath?: string): any;
+export declare function resolveRepoDbPath(name: string, registryPath?: string): string | undefined;
+interface PrunedEntry {
+    name: string;
+    path: string;
+    reason: 'missing' | 'expired';
+}
 /**
  * Remove registry entries whose repo directory no longer exists on disk,
  * or that haven't been accessed within `ttlDays` days.
@@ -46,12 +64,6 @@ export function resolveRepoDbPath(name: any, registryPath?: string): any;
  *
  * When `dryRun` is true, entries are identified but not removed from disk.
  */
-export function pruneRegistry(registryPath?: string, ttlDays?: number, excludeNames?: any[], dryRun?: boolean): {
-    name: string;
-    path: any;
-    reason: string;
-}[];
-export const REGISTRY_PATH: string;
-/** Default TTL: entries not accessed within 30 days are pruned. */
-export const DEFAULT_TTL_DAYS: 30;
+export declare function pruneRegistry(registryPath?: string, ttlDays?: number, excludeNames?: string[], dryRun?: boolean): PrunedEntry[];
+export {};
 //# sourceMappingURL=registry.d.ts.map

package/dist/infrastructure/registry.d.ts.map

@@ -1 +1 @@
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package/dist/infrastructure/registry.js

@@ -2,7 +2,7 @@ import fs from 'node:fs';
 import os from 'node:os';
 import path from 'node:path';
 import { debug, warn } from './logger.js';
-export const REGISTRY_PATH = process.env.CODEGRAPH_REGISTRY_PATH || path.join(os.homedir(), '.codegraph', 'registry.json');
+export const REGISTRY_PATH = process.env['CODEGRAPH_REGISTRY_PATH'] || path.join(os.homedir(), '.codegraph', 'registry.json');
 /** Default TTL: entries not accessed within 30 days are pruned. */
 export const DEFAULT_TTL_DAYS = 30;
 /**

package/dist/infrastructure/registry.js.map

@@ -1 +1 @@
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package/dist/infrastructure/result-formatter.d.ts

@@ -1,2 +1,2 @@
-export { outputResult } from "../presentation/result-formatter.js";
+export { outputResult } from '../presentation/result-formatter.js';
 //# sourceMappingURL=result-formatter.d.ts.map

package/dist/infrastructure/result-formatter.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"result-formatter.d.ts","sourceRoot":"","sources":["../../src/infrastructure/result-formatter.js"],"names":[],"mappings":""}
+{"version":3,"file":"result-formatter.d.ts","sourceRoot":"","sources":["../../src/infrastructure/result-formatter.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,YAAY,EAAE,MAAM,qCAAqC,CAAC"}

package/dist/infrastructure/result-formatter.js.map

@@ -1 +1 @@
-{"version":3,"file":"result-formatter.js","sourceRoot":"","sources":["../../src/infrastructure/result-formatter.js"],"names":[],"mappings":"AAAA,mFAAmF;AACnF,OAAO,EAAE,YAAY,EAAE,MAAM,qCAAqC,CAAC"}
+{"version":3,"file":"result-formatter.js","sourceRoot":"","sources":["../../src/infrastructure/result-formatter.ts"],"names":[],"mappings":"AAAA,mFAAmF;AACnF,OAAO,EAAE,YAAY,EAAE,MAAM,qCAAqC,CAAC"}

package/dist/infrastructure/test-filter.d.ts

@@ -1,5 +1,5 @@
-/** Check whether a file path looks like a test file. */
-export function isTestFile(filePath: any): boolean;
 /** Pattern matching test/spec/stories files. */
-export const TEST_PATTERN: RegExp;
+export declare const TEST_PATTERN: RegExp;
+/** Check whether a file path looks like a test file. */
+export declare function isTestFile(filePath: string): boolean;
 //# sourceMappingURL=test-filter.d.ts.map

package/dist/infrastructure/test-filter.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"test-filter.d.ts","sourceRoot":"","sources":["../../src/infrastructure/test-filter.ts"],"names":[],"mappings":"AAAA,gDAAgD;AAChD,eAAO,MAAM,YAAY,QAAmD,CAAC;AAE7E,wDAAwD;AACxD,wBAAgB,UAAU,CAAC,QAAQ,EAAE,MAAM,GAAG,OAAO,CAEpD"}

package/dist/infrastructure/test-filter.js.map

@@ -1 +1 @@
-{"version":3,"file":"test-filter.js","sourceRoot":"","sources":["../../src/infrastructure/test-filter.js"],"names":[],"mappings":"AAAA,gDAAgD;AAChD,MAAM,CAAC,MAAM,YAAY,GAAG,gDAAgD,CAAC;AAE7E,wDAAwD;AACxD,MAAM,UAAU,UAAU,CAAC,QAAQ;IACjC,OAAO,YAAY,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAC;AACrC,CAAC"}
+{"version":3,"file":"test-filter.js","sourceRoot":"","sources":["../../src/infrastructure/test-filter.ts"],"names":[],"mappings":"AAAA,gDAAgD;AAChD,MAAM,CAAC,MAAM,YAAY,GAAG,gDAAgD,CAAC;AAE7E,wDAAwD;AACxD,MAAM,UAAU,UAAU,CAAC,QAAgB;IACzC,OAAO,YAAY,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAC;AACrC,CAAC"}

package/dist/infrastructure/update-check.d.ts

@@ -2,23 +2,25 @@
  * Minimal semver comparison. Returns -1, 0, or 1.
  * Only handles numeric x.y.z (no pre-release tags).
  */
-export function semverCompare(a: any, b: any): 0 | 1 | -1;
+export declare function semverCompare(a: string, b: string): -1 | 0 | 1;
+interface UpdateResult {
+    current: string;
+    latest: string;
+}
+interface CheckForUpdatesOptions {
+    cachePath?: string;
+    _fetchLatest?: () => Promise<string | null>;
+}
 /**
  * Check whether a newer version of codegraph is available.
  *
  * Returns `{ current, latest }` if an update is available, `null` otherwise.
  * Silently returns null on any error — never affects CLI operation.
- *
- * Options:
- *   cachePath — override cache file location (for testing)
- *   _fetchLatest — override the fetch function (for testing)
  */
-export function checkForUpdates(currentVersion: any, options?: {}): Promise<{
-    current: any;
-    latest: any;
-} | null>;
+export declare function checkForUpdates(currentVersion: string, options?: CheckForUpdatesOptions): Promise<UpdateResult | null>;
 /**
  * Print a visible update notification box to stderr.
  */
-export function printUpdateNotification(current: any, latest: any): void;
+export declare function printUpdateNotification(current: string, latest: string): void;
+export {};
 //# sourceMappingURL=update-check.d.ts.map

package/dist/infrastructure/update-check.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"update-check.d.ts","sourceRoot":"","sources":["../../src/infrastructure/update-check.ts"],"names":[],"mappings":"AAkBA;;;GAGG;AACH,wBAAgB,aAAa,CAAC,CAAC,EAAE,MAAM,EAAE,CAAC,EAAE,MAAM,GAAG,CAAC,CAAC,GAAG,CAAC,GAAG,CAAC,CAU9D;AAqED,UAAU,YAAY;IACpB,OAAO,EAAE,MAAM,CAAC;IAChB,MAAM,EAAE,MAAM,CAAC;CAChB;AAED,UAAU,sBAAsB;IAC9B,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,YAAY,CAAC,EAAE,MAAM,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CAAC;CAC7C;AAED;;;;;GAKG;AACH,wBAAsB,eAAe,CACnC,cAAc,EAAE,MAAM,EACtB,OAAO,GAAE,sBAA2B,GACnC,OAAO,CAAC,YAAY,GAAG,IAAI,CAAC,CAmC9B;AAED;;GAEG;AACH,wBAAgB,uBAAuB,CAAC,OAAO,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,GAAG,IAAI,CAa7E"}

package/dist/infrastructure/update-check.js

@@ -2,7 +2,7 @@ import fs from 'node:fs';
 import https from 'node:https';
 import os from 'node:os';
 import path from 'node:path';
-const CACHE_PATH = process.env.CODEGRAPH_UPDATE_CACHE_PATH ||
+const CACHE_PATH = process.env['CODEGRAPH_UPDATE_CACHE_PATH'] ||
     path.join(os.homedir(), '.codegraph', 'update-check.json');
 const CACHE_TTL_MS = 24 * 60 * 60 * 1000; // 24 hours
 const FETCH_TIMEOUT_MS = 3000;
@@ -91,16 +91,12 @@ function fetchLatestVersion() {
  *
  * Returns `{ current, latest }` if an update is available, `null` otherwise.
  * Silently returns null on any error — never affects CLI operation.
- *
- * Options:
- *   cachePath — override cache file location (for testing)
- *   _fetchLatest — override the fetch function (for testing)
  */
 export async function checkForUpdates(currentVersion, options = {}) {
     // Suppress in non-interactive / CI contexts
-    if (process.env.CI)
+    if (process.env['CI'])
         return null;
-    if (process.env.NO_UPDATE_CHECK)
+    if (process.env['NO_UPDATE_CHECK'])
         return null;
     if (!process.stderr.isTTY)
         return null;

package/dist/infrastructure/update-check.js.map

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package/dist/mcp/index.d.ts

@@ -1,3 +1,3 @@
-export { startMCPServer } from "./server.js";
-export { buildToolList, TOOLS } from "./tool-registry.js";
+export { startMCPServer } from './server.js';
+export { buildToolList, TOOLS } from './tool-registry.js';
 //# sourceMappingURL=index.d.ts.map

package/dist/mcp/index.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/mcp/index.js"],"names":[],"mappings":""}
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/mcp/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,cAAc,EAAE,MAAM,aAAa,CAAC;AAC7C,OAAO,EAAE,aAAa,EAAE,KAAK,EAAE,MAAM,oBAAoB,CAAC"}

package/dist/mcp/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/mcp/index.js"],"names":[],"mappings":"AAAA,OAAO,EAAE,cAAc,EAAE,MAAM,aAAa,CAAC;AAC7C,OAAO,EAAE,aAAa,EAAE,KAAK,EAAE,MAAM,oBAAoB,CAAC"}
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/mcp/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,cAAc,EAAE,MAAM,aAAa,CAAC;AAC7C,OAAO,EAAE,aAAa,EAAE,KAAK,EAAE,MAAM,oBAAoB,CAAC"}

package/dist/mcp/middleware.d.ts

@@ -1,26 +1,26 @@
+/**
+ * MCP middleware helpers — pagination defaults and limits.
+ */
+import { MCP_DEFAULTS, MCP_MAX_LIMIT } from '../shared/paginate.js';
+export { MCP_DEFAULTS, MCP_MAX_LIMIT };
 /**
  * Initialize MCP defaults from config. Call once at server startup.
- * @param {object} [configMcpDefaults] - config.mcp.defaults overrides
  */
-export function initMcpDefaults(configMcpDefaults?: object): void;
+export declare function initMcpDefaults(configMcpDefaults?: Record<string, number>): void;
 /**
  * Reset MCP defaults back to the base defaults. Useful for test isolation.
  */
-export function resetMcpDefaults(): void;
+export declare function resetMcpDefaults(): void;
 /**
  * Resolve effective limit for a tool call.
- * @param {object} args - Tool arguments
- * @param {string} toolName - Tool name (for default lookup)
- * @returns {number}
  */
-export function effectiveLimit(args: object, toolName: string): number;
+export declare function effectiveLimit(args: {
+    limit?: number;
+}, toolName: string): number;
 /**
  * Resolve effective offset for a tool call.
- * @param {object} args - Tool arguments
- * @returns {number}
  */
-export function effectiveOffset(args: object): number;
-import { MCP_DEFAULTS } from '../shared/paginate.js';
-import { MCP_MAX_LIMIT } from '../shared/paginate.js';
-export { MCP_DEFAULTS, MCP_MAX_LIMIT };
+export declare function effectiveOffset(args: {
+    offset?: number;
+}): number;
 //# sourceMappingURL=middleware.d.ts.map

package/dist/mcp/middleware.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"middleware.d.ts","sourceRoot":"","sources":["../../src/mcp/middleware.js"],"names":[],"mappings":"AAWA;;;GAGG;AACH,oDAFW,MAAM,QAIhB;AAED;;GAEG;AACH,yCAEC;AAED;;;;;GAKG;AACH,qCAJW,MAAM,YACN,MAAM,GACJ,MAAM,CAIlB;AAED;;;;GAIG;AACH,sCAHW,MAAM,GACJ,MAAM,CAIlB;6BAvC2D,uBAAuB;8BAAvB,uBAAuB"}
+{"version":3,"file":"middleware.d.ts","sourceRoot":"","sources":["../../src/mcp/middleware.ts"],"names":[],"mappings":"AAAA;;GAEG;AAEH,OAAO,EAAkB,YAAY,EAAE,aAAa,EAAE,MAAM,uBAAuB,CAAC;AAEpF,OAAO,EAAE,YAAY,EAAE,aAAa,EAAE,CAAC;AAKvC;;GAEG;AACH,wBAAgB,eAAe,CAAC,iBAAiB,CAAC,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,GAAG,IAAI,CAEhF;AAED;;GAEG;AACH,wBAAgB,gBAAgB,IAAI,IAAI,CAEvC;AAED;;GAEG;AACH,wBAAgB,cAAc,CAAC,IAAI,EAAE;IAAE,KAAK,CAAC,EAAE,MAAM,CAAA;CAAE,EAAE,QAAQ,EAAE,MAAM,GAAG,MAAM,CAEjF;AAED;;GAEG;AACH,wBAAgB,eAAe,CAAC,IAAI,EAAE;IAAE,MAAM,CAAC,EAAE,MAAM,CAAA;CAAE,GAAG,MAAM,CAEjE"}

package/dist/mcp/middleware.js

@@ -7,7 +7,6 @@ export { MCP_DEFAULTS, MCP_MAX_LIMIT };
 let resolvedDefaults = MCP_DEFAULTS;
 /**
  * Initialize MCP defaults from config. Call once at server startup.
- * @param {object} [configMcpDefaults] - config.mcp.defaults overrides
  */
 export function initMcpDefaults(configMcpDefaults) {
     resolvedDefaults = getMcpDefaults(configMcpDefaults);
@@ -20,17 +19,12 @@ export function resetMcpDefaults() {
 }
 /**
  * Resolve effective limit for a tool call.
- * @param {object} args - Tool arguments
- * @param {string} toolName - Tool name (for default lookup)
- * @returns {number}
  */
 export function effectiveLimit(args, toolName) {
     return Math.min(args.limit ?? resolvedDefaults[toolName] ?? 100, MCP_MAX_LIMIT);
 }
 /**
  * Resolve effective offset for a tool call.
- * @param {object} args - Tool arguments
- * @returns {number}
  */
 export function effectiveOffset(args) {
     return args.offset ?? 0;

package/dist/mcp/middleware.js.map

@@ -1 +1 @@
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+{"version":3,"file":"middleware.js","sourceRoot":"","sources":["../../src/mcp/middleware.ts"],"names":[],"mappings":"AAAA;;GAEG;AAEH,OAAO,EAAE,cAAc,EAAE,YAAY,EAAE,aAAa,EAAE,MAAM,uBAAuB,CAAC;AAEpF,OAAO,EAAE,YAAY,EAAE,aAAa,EAAE,CAAC;AAEvC,uFAAuF;AACvF,IAAI,gBAAgB,GAA2B,YAAY,CAAC;AAE5D;;GAEG;AACH,MAAM,UAAU,eAAe,CAAC,iBAA0C;IACxE,gBAAgB,GAAG,cAAc,CAAC,iBAAiB,CAA2B,CAAC;AACjF,CAAC;AAED;;GAEG;AACH,MAAM,UAAU,gBAAgB;IAC9B,gBAAgB,GAAG,YAAY,CAAC;AAClC,CAAC;AAED;;GAEG;AACH,MAAM,UAAU,cAAc,CAAC,IAAwB,EAAE,QAAgB;IACvE,OAAO,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,KAAK,IAAI,gBAAgB,CAAC,QAAQ,CAAC,IAAI,GAAG,EAAE,aAAa,CAAC,CAAC;AAClF,CAAC;AAED;;GAEG;AACH,MAAM,UAAU,eAAe,CAAC,IAAyB;IACvD,OAAO,IAAI,CAAC,MAAM,IAAI,CAAC,CAAC;AAC1B,CAAC"}

package/dist/mcp/server.d.ts

@@ -1,2 +1,22 @@
-export function startMCPServer(customDbPath: any, options?: {}): Promise<void>;
+/**
+ * MCP (Model Context Protocol) server for codegraph.
+ * Exposes codegraph queries as tools that AI coding assistants can call.
+ *
+ * Requires: npm install @modelcontextprotocol/sdk
+ */
+import { findDbPath } from '../db/index.js';
+import type { CodegraphConfig, MCPServerOptions } from '../types.js';
+export interface McpToolContext {
+    dbPath: string | undefined;
+    getQueries(): Promise<any>;
+    getDatabase(): any;
+    findDbPath: typeof findDbPath;
+    allowedRepos: string[] | undefined;
+    MCP_MAX_LIMIT: number;
+}
+interface MCPServerOptionsInternal extends MCPServerOptions {
+    config?: CodegraphConfig;
+}
+export declare function startMCPServer(customDbPath?: string, options?: MCPServerOptionsInternal): Promise<void>;
+export {};
 //# sourceMappingURL=server.d.ts.map

package/dist/mcp/server.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"server.d.ts","sourceRoot":"","sources":["../../src/mcp/server.js"],"names":[],"mappings":"AA2FA,+EAmDC"}
+{"version":3,"file":"server.d.ts","sourceRoot":"","sources":["../../src/mcp/server.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAOH,OAAO,EAAE,UAAU,EAAE,MAAM,gBAAgB,CAAC;AAI5C,OAAO,KAAK,EAAE,eAAe,EAAE,gBAAgB,EAAE,MAAM,aAAa,CAAC;AAarE,MAAM,WAAW,cAAc;IAC7B,MAAM,EAAE,MAAM,GAAG,SAAS,CAAC;IAE3B,UAAU,IAAI,OAAO,CAAC,GAAG,CAAC,CAAC;IAE3B,WAAW,IAAI,GAAG,CAAC;IACnB,UAAU,EAAE,OAAO,UAAU,CAAC;IAC9B,YAAY,EAAE,MAAM,EAAE,GAAG,SAAS,CAAC;IACnC,aAAa,EAAE,MAAM,CAAC;CACvB;AAED,UAAU,wBAAyB,SAAQ,gBAAgB;IACzD,MAAM,CAAC,EAAE,eAAe,CAAC;CAC1B;AAgFD,wBAAsB,cAAc,CAClC,YAAY,CAAC,EAAE,MAAM,EACrB,OAAO,GAAE,wBAA6B,GACrC,OAAO,CAAC,IAAI,CAAC,CA2Hf"}

package/dist/mcp/server.js

@@ -5,6 +5,8 @@
  * Requires: npm install @modelcontextprotocol/sdk
  */
 import { createRequire } from 'node:module';
+const require = createRequire(import.meta.url);
+const { version: PKG_VERSION } = require('../../package.json');
 import { findDbPath } from '../db/index.js';
 import { loadConfig } from '../infrastructure/config.js';
 import { CodegraphError, ConfigError } from '../shared/errors.js';
@@ -13,14 +15,12 @@ import { initMcpDefaults } from './middleware.js';
 import { buildToolList } from './tool-registry.js';
 import { TOOL_HANDLERS } from './tools/index.js';
 /**
- * Start the MCP server.
- * This function requires @modelcontextprotocol/sdk to be installed.
- *
- * @param {string} [customDbPath] - Path to a specific graph.db
- * @param {object} [options]
- * @param {boolean} [options.multiRepo] - Enable multi-repo access (default: false)
- * @param {string[]} [options.allowedRepos] - Restrict access to these repo names only
+ * Module-level guard to register shutdown handlers only once per process.
+ * Because tests use vi.resetModules(), this module-level variable resets
+ * on each re-import — but the process-level flag on `process` persists.
  */
+// biome-ignore lint/suspicious/noExplicitAny: MCP SDK server type is lazy-loaded
+let _activeServer = null;
 async function loadMCPSdk() {
     try {
         const sdk = await import('@modelcontextprotocol/sdk/server/index.js');
@@ -82,17 +82,19 @@ export async function startMCPServer(customDbPath, options = {}) {
     const multiRepo = options.multiRepo || !!allowedRepos;
     // Apply config-based MCP page-size overrides
     const config = options.config || loadConfig();
-    initMcpDefaults(config.mcp?.defaults);
+    initMcpDefaults(config.mcp?.defaults ? { ...config.mcp.defaults } : undefined);
     const { Server, StdioServerTransport, ListToolsRequestSchema, CallToolRequestSchema } = await loadMCPSdk();
     // Connect transport FIRST so the server can receive the client's
     // `initialize` request while heavy modules (queries, better-sqlite3)
     // are still loading.  These are lazy-loaded on the first tool call
     // and cached for subsequent calls.
     const { getQueries, getDatabase } = createLazyLoaders();
-    const server = new Server({ name: 'codegraph', version: '1.0.0' }, { capabilities: { tools: {} } });
+    // biome-ignore lint/suspicious/noExplicitAny: MCP SDK types are lazy-loaded and untyped
+    const server = new Server({ name: 'codegraph', version: PKG_VERSION }, { capabilities: { tools: {} } });
     server.setRequestHandler(ListToolsRequestSchema, async () => ({
         tools: buildToolList(multiRepo),
     }));
+    // biome-ignore lint/suspicious/noExplicitAny: MCP SDK request type is dynamic
     server.setRequestHandler(CallToolRequestSchema, async (request) => {
         const { name, arguments: args } = request.params;
         try {
@@ -102,19 +104,83 @@ export async function startMCPServer(customDbPath, options = {}) {
             if (!toolEntry) {
                 return { content: [{ type: 'text', text: `Unknown tool: ${name}` }], isError: true };
             }
-            const ctx = { dbPath, getQueries, getDatabase, findDbPath, allowedRepos, MCP_MAX_LIMIT };
+            const ctx = {
+                dbPath: dbPath,
+                getQueries,
+                getDatabase,
+                findDbPath,
+                allowedRepos,
+                MCP_MAX_LIMIT,
+            };
             const result = await toolEntry.handler(args, ctx);
-            if (result?.content)
+            if (result && typeof result === 'object' && 'content' in result) {
                 return result;
+            }
             return { content: [{ type: 'text', text: JSON.stringify(result, null, 2) }] };
         }
         catch (err) {
             const code = err instanceof CodegraphError ? err.code : 'UNKNOWN_ERROR';
-            const text = err instanceof CodegraphError ? `[${code}] ${err.message}` : `Error: ${err.message}`;
+            const text = err instanceof CodegraphError
+                ? `[${code}] ${err.message}`
+                : `Error: ${err.message}`;
             return { content: [{ type: 'text', text }], isError: true };
         }
     });
+    // biome-ignore lint/suspicious/noExplicitAny: MCP SDK types are lazy-loaded and untyped
     const transport = new StdioServerTransport();
-    await server.connect(transport);
+    // Graceful shutdown — when the client disconnects (e.g. session clear),
+    // close the server cleanly so the process exits without error.
+    // Track the active server at module level so handlers always reference
+    // the latest instance (matters when tests call startMCPServer repeatedly).
+    _activeServer = server;
+    // Register handlers once per process to avoid listener accumulation.
+    // Use a process-level flag so it survives vi.resetModules() in tests.
+    const g = globalThis;
+    // biome-ignore lint/complexity/useLiteralKeys: bracket notation required by TS noPropertyAccessFromIndexSignature
+    if (!g['__codegraph_shutdown_installed']) {
+        // biome-ignore lint/complexity/useLiteralKeys: bracket notation required by TS noPropertyAccessFromIndexSignature
+        g['__codegraph_shutdown_installed'] = true;
+        const shutdown = async () => {
+            try {
+                await _activeServer?.close();
+            }
+            catch { }
+            process.exit(0);
+        };
+        const silentExit = (err) => {
+            // Only suppress broken-pipe errors from closed stdio transport;
+            // let real bugs surface with a non-zero exit code.
+            if (err.code === 'EPIPE' || err.code === 'ERR_STREAM_DESTROYED') {
+                process.exit(0);
+            }
+            process.stderr.write(`Uncaught exception: ${err.stack ?? err.message}\n`);
+            process.exit(1);
+        };
+        const silentReject = (reason) => {
+            const err = reason instanceof Error ? reason : new Error(String(reason));
+            const code = err.code;
+            if (code === 'EPIPE' || code === 'ERR_STREAM_DESTROYED') {
+                process.exit(0);
+            }
+            process.stderr.write(`Unhandled rejection: ${err.stack ?? err.message}\n`);
+            process.exit(1);
+        };
+        process.on('SIGINT', shutdown);
+        process.on('SIGTERM', shutdown);
+        process.on('SIGHUP', shutdown);
+        process.on('uncaughtException', silentExit);
+        process.on('unhandledRejection', silentReject);
+    }
+    try {
+        await server.connect(transport);
+    }
+    catch (err) {
+        const code = err.code;
+        if (code === 'EPIPE' || code === 'ERR_STREAM_DESTROYED') {
+            process.exit(0);
+        }
+        process.stderr.write(`MCP transport connect failed: ${err.stack ?? err.message}\n`);
+        process.exit(1);
+    }
 }
 //# sourceMappingURL=server.js.map

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package/dist/mcp/tool-registry.d.ts

@@ -1,8 +1,21 @@
+/**
+ * MCP tool schema registry.
+ *
+ * Owns BASE_TOOLS, LIST_REPOS_TOOL, buildToolList(), and the backward-compatible TOOLS export.
+ */
+interface ToolSchema {
+    name: string;
+    description: string;
+    inputSchema: {
+        type: 'object';
+        properties: Record<string, unknown>;
+        required?: string[];
+    };
+}
 /**
  * Build the tool list based on multi-repo mode.
- * @param {boolean} multiRepo - If true, inject `repo` prop into each tool and append `list_repos`
- * @returns {object[]}
  */
-export function buildToolList(multiRepo: boolean): object[];
-export const TOOLS: object[];
+export declare function buildToolList(multiRepo: boolean): ToolSchema[];
+export declare const TOOLS: ToolSchema[];
+export {};
 //# sourceMappingURL=tool-registry.d.ts.map

package/dist/mcp/tool-registry.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"tool-registry.d.ts","sourceRoot":"","sources":["../../src/mcp/tool-registry.js"],"names":[],"mappings":"AAg0BA;;;;GAIG;AACH,yCAHW,OAAO,GACL,MAAM,EAAE,CAcpB;AAGD,6BAAyC"}
+{"version":3,"file":"tool-registry.d.ts","sourceRoot":"","sources":["../../src/mcp/tool-registry.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAKH,UAAU,UAAU;IAClB,IAAI,EAAE,MAAM,CAAC;IACb,WAAW,EAAE,MAAM,CAAC;IACpB,WAAW,EAAE;QACX,IAAI,EAAE,QAAQ,CAAC;QACf,UAAU,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;QACpC,QAAQ,CAAC,EAAE,MAAM,EAAE,CAAC;KACrB,CAAC;CACH;AAwzBD;;GAEG;AACH,wBAAgB,aAAa,CAAC,SAAS,EAAE,OAAO,GAAG,UAAU,EAAE,CAY9D;AAGD,eAAO,MAAM,KAAK,EAAE,UAAU,EAAwB,CAAC"}