@sudosandwich/limps 2.13.0 → 2.13.2

package/README.md

@@ -4,7 +4,7 @@
 
 [![npm](https://img.shields.io/npm/v/@sudosandwich/limps)](https://www.npmjs.com/package/@sudosandwich/limps)
 [![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](https://opensource.org/licenses/MIT)
-![Tests](https://img.shields.io/badge/Tests-1167%20passing-brightgreen)
+![Tests](https://img.shields.io/badge/Tests-1488%20passing-brightgreen)
 ![Coverage](https://img.shields.io/badge/Coverage-%3E70%25-brightgreen)
 [![MCP Badge](https://lobehub.com/badge/mcp/paulbreuler-limps)](https://lobehub.com/mcp/paulbreuler-limps)
 
@@ -494,10 +494,27 @@ This repo ships Claude Code slash commands in [`.claude/commands/`](/.claude/com
 
 **Vercel Skills** (for other AI IDEs):
 
+Install the limps planning skill to get AI-powered guidance for plan creation, agent workflows, and task management:
+
 ```bash
-npx skills add paulbreuler/limps/skills/limps-planning
+# Install only the limps planning skill (recommended for consumers)
+npx skills add https://github.com/sudosandwich/limps/tree/main/.claude/skills/limps-plan-operations
+
+# Or install all available skills
+npx skills add sudosandwich/limps
 ```
 
+**Available Skills:**
+
+| Skill | Description |
+|-------|-------------|
+| `limps-plan-operations` | Plan identification, artifact loading, distillation rules, and lifecycle guidance using limps MCP tools |
+| `mcp-code-review` | Security-focused code review for MCP servers and LLM safety |
+| `branch-code-review` | General code review for design, maintainability, and correctness |
+| `git-commit-best-practices` | Conventional commits and repository best practices |
+
+See [`skills.yaml`](./skills.yaml) for the complete manifest of the `.claude/skills` packages installed via `npx skills add` above; the separate `skills/limps-planning/` package in this repo is a legacy distribution and new consumers should prefer the `.claude/skills` method.
+
 ## Extensions
 
 Extensions add MCP tools and resources. Install from npm:

package/dist/cli/graph-watch.d.ts

@@ -6,5 +6,5 @@ export interface GraphWatchOptions {
     webhookUrl?: string;
     filePath?: string;
 }
-export declare function startGraphWatch(config: ServerConfig, db: DatabaseType, options?: GraphWatchOptions): GraphWatcher;
+export declare function startGraphWatch(config: ServerConfig, db: DatabaseType, options?: GraphWatchOptions): Promise<GraphWatcher>;
 //# sourceMappingURL=graph-watch.d.ts.map

package/dist/cli/graph-watch.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"graph-watch.d.ts","sourceRoot":"","sources":["../../src/cli/graph-watch.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,QAAQ,IAAI,YAAY,EAAE,MAAM,gBAAgB,CAAC;AAC/D,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,cAAc,CAAC;AAEjD,OAAO,EAAE,YAAY,EAA4B,MAAM,qBAAqB,CAAC;AAG7E,MAAM,WAAW,iBAAiB;IAChC,QAAQ,CAAC,EAAE,MAAM,EAAE,CAAC;IACpB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,QAAQ,CAAC,EAAE,MAAM,CAAC;CACnB;AAED,wBAAsB,eAAe,CACnC,MAAM,EAAE,YAAY,EACpB,EAAE,EAAE,YAAY,EAChB,OAAO,CAAC,EAAE,iBAAiB,GAC1B,OAAO,CAAC,YAAY,CAAC,CAiBvB"}

package/dist/cli/graph-watch.js

@@ -1,6 +1,6 @@
 import { GraphStorage } from '../graph/storage.js';
 import { GraphWatcher } from '../graph/watcher.js';
-export function startGraphWatch(config, db, options) {
+export async function startGraphWatch(config, db, options) {
     const storage = new GraphStorage(db);
     const channels = (options?.channels ?? ['log']);
     const watcherOptions = {
@@ -12,7 +12,7 @@ export function startGraphWatch(config, db, options) {
         },
     };
     const watcher = new GraphWatcher(storage, watcherOptions);
-    watcher.start();
+    await watcher.start();
     return watcher;
 }
 //# sourceMappingURL=graph-watch.js.map

package/dist/cli/graph-watch.js.map

@@ -1 +1 @@
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+{"version":3,"file":"graph-watch.js","sourceRoot":"","sources":["../../src/cli/graph-watch.ts"],"names":[],"mappings":"AAEA,OAAO,EAAE,YAAY,EAAE,MAAM,qBAAqB,CAAC;AACnD,OAAO,EAAE,YAAY,EAA4B,MAAM,qBAAqB,CAAC;AAS7E,MAAM,CAAC,KAAK,UAAU,eAAe,CACnC,MAAoB,EACpB,EAAgB,EAChB,OAA2B;IAE3B,MAAM,OAAO,GAAG,IAAI,YAAY,CAAC,EAAE,CAAC,CAAC;IAErC,MAAM,QAAQ,GAAG,CAAC,OAAO,EAAE,QAAQ,IAAI,CAAC,KAAK,CAAC,CAA+B,CAAC;IAE9E,MAAM,cAAc,GAAwB;QAC1C,SAAS,EAAE,MAAM,CAAC,SAAS;QAC3B,cAAc,EAAE;YACd,QAAQ;YACR,UAAU,EAAE,OAAO,EAAE,UAAU;YAC/B,QAAQ,EAAE,OAAO,EAAE,QAAQ;SAC5B;KACF,CAAC;IAEF,MAAM,OAAO,GAAG,IAAI,YAAY,CAAC,OAAO,EAAE,cAAc,CAAC,CAAC;IAC1D,MAAM,OAAO,CAAC,KAAK,EAAE,CAAC;IACtB,OAAO,OAAO,CAAC;AACjB,CAAC"}

package/dist/commands/graph/watch.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"watch.d.ts","sourceRoot":"","sources":["../../../src/commands/graph/watch.tsx"],"names":[],"mappings":"AAAA,OAAO,KAA8B,MAAM,OAAO,CAAC;AAEnD,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAMxB,eAAO,MAAM,WAAW,uCAAuC,CAAC;AAEhE,eAAO,MAAM,IAAI,sBAAc,CAAC;AAEhC,eAAO,MAAM,OAAO;;;;;iBAQlB,CAAC;AAEH,UAAU,KAAK;IACb,IAAI,EAAE,CAAC,CAAC,KAAK,CAAC,OAAO,IAAI,CAAC,CAAC;IAC3B,OAAO,EAAE,CAAC,CAAC,KAAK,CAAC,OAAO,OAAO,CAAC,CAAC;CAClC;AAED,MAAM,CAAC,OAAO,UAAU,iBAAiB,CAAC,EAAE,OAAO,EAAE,EAAE,KAAK,GAAG,KAAK,CAAC,SAAS,CA0E7E"}

package/dist/commands/graph/watch.js

@@ -1,5 +1,5 @@
 import { jsx as _jsx, jsxs as _jsxs } from "react/jsx-runtime";
-import { useEffect } from 'react';
+import { useEffect, useState } from 'react';
 import { Text } from 'ink';
 import { z } from 'zod';
 import { loadConfig } from '../../config.js';
@@ -22,18 +22,47 @@ export default function GraphWatchCommand({ options }) {
         ? resolveProjectConfigPath(options.project)
         : resolveConfigPath(options.config);
     const config = loadConfig(configPath);
+    const [error, setError] = useState(null);
     useEffect(() => {
         const db = openGraphDb(config);
         const channels = options.channels?.split(',').map((c) => c.trim()) ?? ['log'];
-        const watcher = startGraphWatch(config, db, {
-            channels,
-            webhookUrl: options['webhook-url'],
-        });
+        let watcherRef = null;
+        let cancelled = false;
+        const startWatcherAsync = async () => {
+            try {
+                const w = await startGraphWatch(config, db, {
+                    channels,
+                    webhookUrl: options['webhook-url'],
+                });
+                if (cancelled) {
+                    // Cleanup ran before watcher started - stop immediately
+                    await w.stop();
+                    db.close();
+                }
+                else {
+                    watcherRef = w;
+                }
+            }
+            catch (err) {
+                const message = err instanceof Error ? err.message : String(err);
+                console.error('Failed to start graph watcher:', err);
+                if (!cancelled) {
+                    setError(message);
+                }
+            }
+        };
+        void startWatcherAsync();
         const cleanup = () => {
-            void watcher
-                .stop()
-                .then(() => db.close())
-                .catch(() => db.close());
+            cancelled = true;
+            if (watcherRef) {
+                void watcherRef
+                    .stop()
+                    .then(() => db.close())
+                    .catch(() => db.close());
+            }
+            else {
+                db.close();
+            }
         };
         process.on('SIGINT', cleanup);
         process.on('SIGTERM', cleanup);
@@ -43,6 +72,9 @@ export default function GraphWatchCommand({ options }) {
             process.removeListener('SIGTERM', cleanup);
         };
     }, [config, options.channels, options['webhook-url']]);
+    if (error) {
+        return (_jsxs(Text, { children: [_jsx(Text, { color: "red", children: "Error:" }), " Failed to start watcher: ", error] }));
+    }
     return (_jsxs(Text, { children: [_jsx(Text, { color: "cyan", children: "Watching" }), " ", config.plansPath, " for changes...", '\n', "Press Ctrl+C to stop."] }));
 }
 //# sourceMappingURL=watch.js.map

package/dist/commands/graph/watch.js.map

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

@@ -77,6 +77,8 @@ export interface ServerConfig {
     docsPaths?: string[];
     fileExtensions?: string[];
     dataPath: string;
+    maxFileSize?: number;
+    maxDepth?: number;
     scoring: {
         preset?: ScoringPreset;
         weights: Partial<ScoringWeights>;
@@ -93,6 +95,15 @@ export interface ServerConfig {
  */
 export declare const CURRENT_CONFIG_VERSION = 1;
 export type ConfigMigrationStep = (config: Record<string, unknown>) => void;
+/**
+ * Default maximum file size in bytes (1 MB).
+ * Files larger than this are skipped during indexing and rejected on write.
+ */
+export declare const DEFAULT_MAX_FILE_SIZE = 1048576;
+/**
+ * Default maximum directory recursion depth for indexing and watching.
+ */
+export declare const DEFAULT_MAX_DEPTH = 10;
 /**
  * Default scoring weights for task prioritization (initial config values).
  */
@@ -149,12 +160,12 @@ export declare const DEFAULT_DEBOUNCE_DELAY = 200;
 export declare function expandTilde(path: string): string;
 /**
  * Load configuration from file.
- * Creates default configuration file if it doesn't exist.
  * Paths are resolved relative to the config file location.
  * Removes deprecated coordination.json if found in config or data dir.
  *
  * @param configPath - Path to config.json file
  * @returns Server configuration
+ * @throws Error if config file does not exist
  */
 export declare function loadConfig(configPath: string): ServerConfig;
 /**
@@ -181,4 +192,14 @@ export declare function getAllDocsPaths(config: ServerConfig): string[];
  * @returns Array of file extensions (e.g., ['.md', '.jsx', '.tsx'])
  */
 export declare function getFileExtensions(config: ServerConfig): string[];
+/**
+ * Get maximum file size from config.
+ * Returns configured value or default (1 MB).
+ */
+export declare function getMaxFileSize(config: ServerConfig): number;
+/**
+ * Get maximum directory recursion depth from config.
+ * Returns configured value or default (10).
+ */
+export declare function getMaxDepth(config: ServerConfig): number;
 //# sourceMappingURL=config.d.ts.map

package/dist/config.d.ts.map

@@ -1 +1 @@
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package/dist/config.js

@@ -1,4 +1,4 @@
-import { readFileSync, writeFileSync, existsSync, mkdirSync, unlinkSync } from 'fs';
+import { readFileSync, writeFileSync, existsSync, unlinkSync } from 'fs';
 import { resolve, dirname, join } from 'path';
 import { homedir } from 'os';
 /**
@@ -34,6 +34,15 @@ const CONFIG_MIGRATIONS = [
  * Default file extensions to index.
  */
 const DEFAULT_FILE_EXTENSIONS = ['.md'];
+/**
+ * Default maximum file size in bytes (1 MB).
+ * Files larger than this are skipped during indexing and rejected on write.
+ */
+export const DEFAULT_MAX_FILE_SIZE = 1_048_576;
+/**
+ * Default maximum directory recursion depth for indexing and watching.
+ */
+export const DEFAULT_MAX_DEPTH = 10;
 /**
  * Default scoring weights for task prioritization (initial config values).
  */
@@ -162,11 +171,15 @@ export function getScoringBiases(config) {
 export const DEFAULT_DEBOUNCE_DELAY = 200;
 /**
  * Default server configuration.
+ *
+ * Note: docsPaths is intentionally undefined by default. Only plansPath is indexed
+ * unless additional docsPaths are explicitly configured. This prevents accidentally
+ * indexing entire repositories which can cause slow startup times.
  */
 const DEFAULT_CONFIG = {
     configVersion: CURRENT_CONFIG_VERSION,
     plansPath: './plans',
-    docsPaths: undefined,
+    docsPaths: undefined, // Only plansPath indexed by default - add docsPaths explicitly if needed
     fileExtensions: undefined,
     dataPath: './data',
     scoring: {
@@ -207,26 +220,17 @@ function removeDeprecatedCoordinationFile(filePath) {
 }
 /**
  * Load configuration from file.
- * Creates default configuration file if it doesn't exist.
  * Paths are resolved relative to the config file location.
  * Removes deprecated coordination.json if found in config or data dir.
  *
  * @param configPath - Path to config.json file
  * @returns Server configuration
+ * @throws Error if config file does not exist
  */
 export function loadConfig(configPath) {
     const configDir = dirname(configPath);
     if (!existsSync(configPath)) {
-        // Create default config file
-        const defaultConfig = { ...DEFAULT_CONFIG };
-        // Resolve paths relative to config file
-        defaultConfig.plansPath = resolve(configDir, DEFAULT_CONFIG.plansPath);
-        defaultConfig.dataPath = resolve(configDir, DEFAULT_CONFIG.dataPath);
-        mkdirSync(configDir, { recursive: true });
-        writeFileSync(configPath, JSON.stringify(defaultConfig, null, 2), 'utf-8');
-        removeDeprecatedCoordinationFile(join(configDir, 'coordination.json'));
-        removeDeprecatedCoordinationFile(join(defaultConfig.dataPath, 'coordination.json'));
-        return defaultConfig;
+        throw new Error(`Config file not found: ${configPath}\nRun \`limps init <project>\` to create a new project config.`);
     }
     const content = readFileSync(configPath, 'utf-8');
     const config = JSON.parse(content);
@@ -333,6 +337,18 @@ export function validateConfig(config) {
             return false;
         }
     }
+    // Check optional maxFileSize (must be positive number if present)
+    if (c.maxFileSize !== undefined) {
+        if (typeof c.maxFileSize !== 'number' || c.maxFileSize <= 0) {
+            return false;
+        }
+    }
+    // Check optional maxDepth (must be positive integer if present)
+    if (c.maxDepth !== undefined) {
+        if (typeof c.maxDepth !== 'number' || c.maxDepth < 1 || !Number.isInteger(c.maxDepth)) {
+            return false;
+        }
+    }
     if (c.tools !== undefined) {
         if (typeof c.tools !== 'object' || c.tools === null) {
             return false;
@@ -512,4 +528,18 @@ export function getAllDocsPaths(config) {
 export function getFileExtensions(config) {
     return config.fileExtensions || DEFAULT_FILE_EXTENSIONS;
 }
+/**
+ * Get maximum file size from config.
+ * Returns configured value or default (1 MB).
+ */
+export function getMaxFileSize(config) {
+    return config.maxFileSize ?? DEFAULT_MAX_FILE_SIZE;
+}
+/**
+ * Get maximum directory recursion depth from config.
+ * Returns configured value or default (10).
+ */
+export function getMaxDepth(config) {
+    return config.maxDepth ?? DEFAULT_MAX_DEPTH;
+}
 //# sourceMappingURL=config.js.map

package/dist/config.js.map

@@ -1 +1 @@
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package/dist/graph/watcher.d.ts

@@ -14,7 +14,7 @@ export declare class GraphWatcher {
     private readonly detector;
     private readonly notifier;
     constructor(storage: GraphStorage, options: GraphWatcherOptions);
-    start(): void;
+    start(): Promise<void>;
     stop(): Promise<void>;
     private handleChange;
     private handleSettled;

package/dist/graph/watcher.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"watcher.d.ts","sourceRoot":"","sources":["../../src/graph/watcher.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,cAAc,CAAC;AAGjD,OAAO,EAAoB,KAAK,uBAAuB,EAAE,MAAM,wBAAwB,CAAC;AACxF,OAAO,EAAY,KAAK,cAAc,EAAE,MAAM,eAAe,CAAC;AAE9D,MAAM,WAAW,mBAAmB;IAClC,SAAS,EAAE,MAAM,CAAC;IAClB,eAAe,CAAC,EAAE,uBAAuB,CAAC;IAC1C,cAAc,CAAC,EAAE,cAAc,CAAC;CACjC;AAED,qBAAa,YAAY;IAOrB,OAAO,CAAC,QAAQ,CAAC,OAAO;IACxB,OAAO,CAAC,QAAQ,CAAC,OAAO;IAP1B,OAAO,CAAC,OAAO,CAA0B;IACzC,OAAO,CAAC,QAAQ,CAAC,SAAS,CAAyB;IACnD,OAAO,CAAC,QAAQ,CAAC,QAAQ,CAA0B;IACnD,OAAO,CAAC,QAAQ,CAAC,QAAQ,CAAkB;gBAGxB,OAAO,EAAE,YAAY,EACrB,OAAO,EAAE,mBAAmB;IAS/C,KAAK,IAAI,IAAI;IAkBP,IAAI,IAAI,OAAO,CAAC,IAAI,CAAC;YAOb,YAAY;YA4BZ,aAAa;IAY3B,OAAO,CAAC,YAAY;CAgBrB"}
+{"version":3,"file":"watcher.d.ts","sourceRoot":"","sources":["../../src/graph/watcher.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,cAAc,CAAC;AAGjD,OAAO,EAAoB,KAAK,uBAAuB,EAAE,MAAM,wBAAwB,CAAC;AACxF,OAAO,EAAY,KAAK,cAAc,EAAE,MAAM,eAAe,CAAC;AAE9D,MAAM,WAAW,mBAAmB;IAClC,SAAS,EAAE,MAAM,CAAC;IAClB,eAAe,CAAC,EAAE,uBAAuB,CAAC;IAC1C,cAAc,CAAC,EAAE,cAAc,CAAC;CACjC;AAED,qBAAa,YAAY;IAOrB,OAAO,CAAC,QAAQ,CAAC,OAAO;IACxB,OAAO,CAAC,QAAQ,CAAC,OAAO;IAP1B,OAAO,CAAC,OAAO,CAA6B;IAC5C,OAAO,CAAC,QAAQ,CAAC,SAAS,CAAyB;IACnD,OAAO,CAAC,QAAQ,CAAC,QAAQ,CAA0B;IACnD,OAAO,CAAC,QAAQ,CAAC,QAAQ,CAAkB;gBAGxB,OAAO,EAAE,YAAY,EACrB,OAAO,EAAE,mBAAmB;IASzC,KAAK,IAAI,OAAO,CAAC,IAAI,CAAC;IAkBtB,IAAI,IAAI,OAAO,CAAC,IAAI,CAAC;YAOb,YAAY;YA4BZ,aAAa;IAY3B,OAAO,CAAC,YAAY;CAgBrB"}

package/dist/graph/watcher.js

@@ -21,12 +21,12 @@ export class GraphWatcher {
                 : null;
         this.notifier = options.notifierConfig ? new Notifier(options.notifierConfig) : null;
     }
-    start() {
+    async start() {
         if (this.watcher)
             return;
-        this.watcher = startWatcher(this.options.plansPath, async (path, event) => {
+        this.watcher = await startWatcher(this.options.plansPath, async (path, event) => {
             await this.handleChange(path, event);
-        }, ['.md'], ['.git', 'node_modules', '.tmp', '.obsidian'], 200, 1500, async (changes) => {
+        }, ['.md'], ['.git', 'node_modules', '.tmp', '.obsidian', 'dist', 'build', '.cache'], 200, 1500, async (changes) => {
             await this.handleSettled(changes);
         });
     }

package/dist/graph/watcher.js.map

@@ -1 +1 @@
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+{"version":3,"file":"watcher.js","sourceRoot":"","sources":["../../src/graph/watcher.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,OAAO,EAAE,QAAQ,EAAE,MAAM,MAAM,CAAC;AACzC,OAAO,EAAE,YAAY,EAAE,MAAM,IAAI,CAAC;AAClC,OAAO,EAAE,YAAY,EAAE,WAAW,EAAsB,MAAM,eAAe,CAAC;AAE9E,OAAO,EAAE,kBAAkB,EAAE,UAAU,EAAE,MAAM,cAAc,CAAC;AAC9D,OAAO,EAAE,eAAe,EAAE,MAAM,gBAAgB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAgC,MAAM,wBAAwB,CAAC;AACxF,OAAO,EAAE,QAAQ,EAAuB,MAAM,eAAe,CAAC;AAQ9D,MAAM,OAAO,YAAY;IAOJ;IACA;IAPX,OAAO,GAAwB,IAAI,CAAC;IAC3B,SAAS,GAAG,IAAI,eAAe,EAAE,CAAC;IAClC,QAAQ,CAA0B;IAClC,QAAQ,CAAkB;IAE3C,YACmB,OAAqB,EACrB,OAA4B;QAD5B,YAAO,GAAP,OAAO,CAAc;QACrB,YAAO,GAAP,OAAO,CAAqB;QAE7C,IAAI,CAAC,QAAQ;YACX,OAAO,CAAC,eAAe,KAAK,SAAS,IAAI,OAAO,CAAC,cAAc,KAAK,SAAS;gBAC3E,CAAC,CAAC,IAAI,gBAAgB,CAAC,OAAO,EAAE,OAAO,CAAC,eAAe,CAAC;gBACxD,CAAC,CAAC,IAAI,CAAC;QACX,IAAI,CAAC,QAAQ,GAAG,OAAO,CAAC,cAAc,CAAC,CAAC,CAAC,IAAI,QAAQ,CAAC,OAAO,CAAC,cAAc,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC;IACvF,CAAC;IAED,KAAK,CAAC,KAAK;QACT,IAAI,IAAI,CAAC,OAAO;YAAE,OAAO;QAEzB,IAAI,CAAC,OAAO,GAAG,MAAM,YAAY,CAC/B,IAAI,CAAC,OAAO,CAAC,SAAS,EACtB,KAAK,EAAE,IAAI,EAAE,KAAK,EAAE,EAAE;YACpB,MAAM,IAAI,CAAC,YAAY,CAAC,IAAI,EAAE,KAAK,CAAC,CAAC;QACvC,CAAC,EACD,CAAC,KAAK,CAAC,EACP,CAAC,MAAM,EAAE,cAAc,EAAE,MAAM,EAAE,WAAW,EAAE,MAAM,EAAE,OAAO,EAAE,QAAQ,CAAC,EACxE,GAAG,EACH,IAAI,EACJ,KAAK,EAAE,OAAO,EAAE,EAAE;YAChB,MAAM,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,CAAC;QACpC,CAAC,CACF,CAAC;IACJ,CAAC;IAED,KAAK,CAAC,IAAI;QACR,IAAI,IAAI,CAAC,OAAO,EAAE,CAAC;YACjB,MAAM,WAAW,CAAC,IAAI,CAAC,OAAO,CAAC,CAAC;YAChC,IAAI,CAAC,OAAO,GAAG,IAAI,CAAC;QACtB,CAAC;IACH,CAAC;IAEO,KAAK,CAAC,YAAY,CAAC,IAAY,EAAE,KAAkC;QACzE,IAAI,KAAK,KAAK,QAAQ,EAAE,CAAC;YACvB,IAAI,CAAC,OAAO,CAAC,sBAAsB,CAAC,IAAI,CAAC,CAAC;YAC1C,OAAO;QACT,CAAC;QAED,MAAM,OAAO,GAAG,IAAI,CAAC,YAAY,CAAC,IAAI,CAAC,CAAC;QACxC,IAAI,CAAC,OAAO;YAAE,OAAO;QAErB,IAAI,CAAC;YACH,MAAM,OAAO,GAAG,YAAY,CAAC,IAAI,EAAE,OAAO,CAAC,CAAC;YAC5C,MAAM,IAAI,GAAG,kBAAkB,CAAC,OAAO,CAAC,CAAC;YAEzC,IAAI,CAAC,UAAU,CAAC,IAAI,CAAC,OAAO,EAAE,IAAI,EAAE,IAAI,CAAC;gBAAE,OAAO;YAElD,MAAM,MAAM,GAAG,IAAI,CAAC,SAAS,CAAC,WAAW,CAAC,OAAO,CAAC,CAAC;YACnD,IAAI,MAAM,CAAC,QAAQ,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;gBAC/B,IAAI,CAAC,OAAO,CAAC,kBAAkB,CAAC,MAAM,CAAC,QAAQ,CAAC,CAAC;YACnD,CAAC;YACD,IAAI,MAAM,CAAC,aAAa,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;gBACpC,IAAI,CAAC,OAAO,CAAC,uBAAuB,CAAC,MAAM,CAAC,aAAa,CAAC,CAAC;YAC7D,CAAC;QACH,CAAC;QAAC,OAAO,KAAK,EAAE,CAAC;YACf,MAAM,GAAG,GAAG,KAAK,YAAY,KAAK,CAAC,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC;YACnE,OAAO,CAAC,KAAK,CAAC,kCAAkC,IAAI,KAAK,GAAG,EAAE,CAAC,CAAC;QAClE,CAAC;IACH,CAAC;IAEO,KAAK,CAAC,aAAa,CAAC,QAAyB;QACnD,IAAI,CAAC,IAAI,CAAC,QAAQ,IAAI,CAAC,IAAI,CAAC,QAAQ;YAAE,OAAO;QAE7C,IAAI,CAAC;YACH,MAAM,SAAS,GAAG,IAAI,CAAC,QAAQ,CAAC,SAAS,EAAE,CAAC;YAC5C,MAAM,IAAI,CAAC,QAAQ,CAAC,MAAM,CAAC,SAAS,CAAC,CAAC;QACxC,CAAC;QAAC,OAAO,KAAK,EAAE,CAAC;YACf,MAAM,GAAG,GAAG,KAAK,YAAY,KAAK,CAAC,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC;YACnE,OAAO,CAAC,KAAK,CAAC,8CAA8C,GAAG,EAAE,CAAC,CAAC;QACrE,CAAC;IACH,CAAC;IAEO,YAAY,CAAC,QAAgB;QACnC,iEAAiE;QACjE,IAAI,GAAG,GAAG,OAAO,CAAC,QAAQ,CAAC,CAAC;QAC5B,MAAM,SAAS,GAAG,IAAI,CAAC,OAAO,CAAC,SAAS,CAAC;QAEzC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC;YAC3B,MAAM,UAAU,GAAG,QAAQ,CAAC,GAAG,CAAC,CAAC;YACjC,IAAI,QAAQ,CAAC,IAAI,CAAC,UAAU,CAAC,EAAE,CAAC;gBAC9B,OAAO,GAAG,CAAC;YACb,CAAC;YACD,MAAM,MAAM,GAAG,OAAO,CAAC,GAAG,CAAC,CAAC;YAC5B,IAAI,MAAM,KAAK,GAAG,IAAI,MAAM,KAAK,SAAS;gBAAE,MAAM;YAClD,GAAG,GAAG,MAAM,CAAC;QACf,CAAC;QACD,OAAO,IAAI,CAAC;IACd,CAAC;CACF"}

package/dist/indexer.d.ts

@@ -52,7 +52,7 @@ export declare function clearIndex(db: DatabaseType): void;
  * @param filePath - Path to the markdown file
  * @returns Document metadata
  */
-export declare function indexDocument(db: DatabaseType, filePath: string): Promise<DocumentMetadata>;
+export declare function indexDocument(db: DatabaseType, filePath: string, maxFileSize?: number): Promise<DocumentMetadata>;
 /**
  * Update document index in database and FTS5.
  *
@@ -83,7 +83,9 @@ export declare function indexAllDocuments(db: DatabaseType, plansPath: string, i
  * @param paths - Array of paths to index
  * @param extensions - File extensions to index (e.g., ['.md', '.jsx', '.tsx'])
  * @param ignorePatterns - Patterns to ignore (e.g., ['node_modules', '.git'])
+ * @param maxDepth - Maximum directory recursion depth
+ * @param maxFileSize - Maximum file size in bytes to index
  * @returns Combined indexing result
  */
-export declare function indexAllPaths(db: DatabaseType, paths: string[], extensions?: string[], ignorePatterns?: string[]): Promise<IndexingResult>;
+export declare function indexAllPaths(db: DatabaseType, paths: string[], extensions?: string[], ignorePatterns?: string[], maxDepth?: number, maxFileSize?: number): Promise<IndexingResult>;
 //# sourceMappingURL=indexer.d.ts.map

package/dist/indexer.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"indexer.d.ts","sourceRoot":"","sources":["../src/indexer.ts"],"names":[],"mappings":"AAAA,OAAiB,EAAE,KAAK,QAAQ,IAAI,YAAY,EAAE,MAAM,gBAAgB,CAAC;AAOzE;;GAEG;AACH,MAAM,WAAW,gBAAgB;IAC/B,IAAI,EAAE,MAAM,CAAC;IACb,KAAK,EAAE,MAAM,CAAC;IACd,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,MAAM,CAAC,EAAE,KAAK,GAAG,KAAK,GAAG,MAAM,GAAG,SAAS,GAAG,SAAS,CAAC;IACxD,YAAY,CAAC,EAAE,MAAM,EAAE,CAAC;IACxB,UAAU,EAAE,MAAM,CAAC;IACnB,IAAI,EAAE,MAAM,CAAC;CACd;AAED;;GAEG;AACH,MAAM,WAAW,cAAc;IAC7B,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,MAAM,CAAC;IAChB,MAAM,EAAE;QAAE,IAAI,EAAE,MAAM,CAAC;QAAC,KAAK,EAAE,MAAM,CAAA;KAAE,EAAE,CAAC;CAC3C;AAED;;;;;;GAMG;AACH,wBAAgB,kBAAkB,CAAC,MAAM,EAAE,MAAM,GAAG,YAAY,CAG/D;AAED;;;;;GAKG;AACH,wBAAgB,YAAY,CAAC,EAAE,EAAE,YAAY,GAAG,IAAI,CAqBnD;AAED;;;;GAIG;AACH,wBAAgB,UAAU,CAAC,EAAE,EAAE,YAAY,GAAG,IAAI,CAKjD;AA4ID;;;;;;GAMG;AACH,wBAAsB,aAAa,CAAC,EAAE,EAAE,YAAY,EAAE,QAAQ,EAAE,MAAM,GAAG,OAAO,CAAC,gBAAgB,CAAC,CAyDjG;AAED;;;;;GAKG;AACH,wBAAsB,mBAAmB,CACvC,EAAE,EAAE,YAAY,EAChB,QAAQ,EAAE,gBAAgB,GACzB,OAAO,CAAC,IAAI,CAAC,CAkCf;AAED;;;;;GAKG;AACH,wBAAsB,cAAc,CAAC,EAAE,EAAE,YAAY,EAAE,QAAQ,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAUtF;AAkED;;;;;;;GAOG;AACH,wBAAsB,iBAAiB,CACrC,EAAE,EAAE,YAAY,EAChB,SAAS,EAAE,MAAM,EACjB,cAAc,GAAE,MAAM,EAAkD,GACvE,OAAO,CAAC,cAAc,CAAC,CAiEzB;AAED;;;;;;;;GAQG;AACH,wBAAsB,aAAa,CACjC,EAAE,EAAE,YAAY,EAChB,KAAK,EAAE,MAAM,EAAE,EACf,UAAU,GAAE,MAAM,EAAY,EAC9B,cAAc,GAAE,MAAM,EAAkD,GACvE,OAAO,CAAC,cAAc,CAAC,CAyEzB"}
+{"version":3,"file":"indexer.d.ts","sourceRoot":"","sources":["../src/indexer.ts"],"names":[],"mappings":"AAAA,OAAiB,EAAE,KAAK,QAAQ,IAAI,YAAY,EAAE,MAAM,gBAAgB,CAAC;AASzE;;GAEG;AACH,MAAM,WAAW,gBAAgB;IAC/B,IAAI,EAAE,MAAM,CAAC;IACb,KAAK,EAAE,MAAM,CAAC;IACd,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,MAAM,CAAC,EAAE,KAAK,GAAG,KAAK,GAAG,MAAM,GAAG,SAAS,GAAG,SAAS,CAAC;IACxD,YAAY,CAAC,EAAE,MAAM,EAAE,CAAC;IACxB,UAAU,EAAE,MAAM,CAAC;IACnB,IAAI,EAAE,MAAM,CAAC;CACd;AAED;;GAEG;AACH,MAAM,WAAW,cAAc;IAC7B,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,MAAM,CAAC;IAChB,MAAM,EAAE;QAAE,IAAI,EAAE,MAAM,CAAC;QAAC,KAAK,EAAE,MAAM,CAAA;KAAE,EAAE,CAAC;CAC3C;AAED;;;;;;GAMG;AACH,wBAAgB,kBAAkB,CAAC,MAAM,EAAE,MAAM,GAAG,YAAY,CAG/D;AAED;;;;;GAKG;AACH,wBAAgB,YAAY,CAAC,EAAE,EAAE,YAAY,GAAG,IAAI,CAqBnD;AAED;;;;GAIG;AACH,wBAAgB,UAAU,CAAC,EAAE,EAAE,YAAY,GAAG,IAAI,CAKjD;AA4ID;;;;;;GAMG;AACH,wBAAsB,aAAa,CACjC,EAAE,EAAE,YAAY,EAChB,QAAQ,EAAE,MAAM,EAChB,WAAW,GAAE,MAA8B,GAC1C,OAAO,CAAC,gBAAgB,CAAC,CA+D3B;AAED;;;;;GAKG;AACH,wBAAsB,mBAAmB,CACvC,EAAE,EAAE,YAAY,EAChB,QAAQ,EAAE,gBAAgB,GACzB,OAAO,CAAC,IAAI,CAAC,CAkCf;AAED;;;;;GAKG;AACH,wBAAsB,cAAc,CAAC,EAAE,EAAE,YAAY,EAAE,QAAQ,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAUtF;AAkFD;;;;;;;GAOG;AACH,wBAAsB,iBAAiB,CACrC,EAAE,EAAE,YAAY,EAChB,SAAS,EAAE,MAAM,EACjB,cAAc,GAAE,MAAM,EAAkD,GACvE,OAAO,CAAC,cAAc,CAAC,CAiEzB;AAED;;;;;;;;;;GAUG;AACH,wBAAsB,aAAa,CACjC,EAAE,EAAE,YAAY,EAChB,KAAK,EAAE,MAAM,EAAE,EACf,UAAU,GAAE,MAAM,EAAY,EAC9B,cAAc,GAAE,MAAM,EAAkD,EACxE,QAAQ,GAAE,MAA0B,EACpC,WAAW,GAAE,MAA8B,GAC1C,OAAO,CAAC,cAAc,CAAC,CA0FzB"}

package/dist/indexer.js

@@ -4,6 +4,8 @@ import { join, relative } from 'path';
 import { createHash } from 'crypto';
 import { FrontmatterHandler } from './utils/frontmatter.js';
 import { PathFilter } from './utils/pathfilter.js';
+import { checkPathSafety, isSymlink } from './utils/fs-safety.js';
+import { DEFAULT_MAX_DEPTH, DEFAULT_MAX_FILE_SIZE } from './config.js';
 /**
  * Initialize a SQLite database at the given path.
  * Creates the database file if it doesn't exist.
@@ -174,10 +176,15 @@ function calculateHash(content) {
  * @param filePath - Path to the markdown file
  * @returns Document metadata
  */
-export async function indexDocument(db, filePath) {
+export async function indexDocument(db, filePath, maxFileSize = DEFAULT_MAX_FILE_SIZE) {
     if (!existsSync(filePath)) {
         throw new Error(`File not found: ${filePath}`);
     }
+    // Safety check: reject symlinks and oversized files before reading content
+    const safety = checkPathSafety(filePath, { maxFileSize });
+    if (!safety.safe) {
+        throw new Error(`Skipping unsafe file ${filePath}: ${safety.reason}`);
+    }
     const content = readFileSync(filePath, 'utf-8');
     const stats = statSync(filePath);
     const modifiedAt = stats.mtimeMs;
@@ -264,15 +271,20 @@ export async function removeDocument(db, filePath) {
 }
 /**
  * Recursively find all files with specified extensions in a directory.
- * Uses PathFilter for consistent filtering.
+ * Uses PathFilter for consistent filtering. Rejects symlinks and enforces depth limits.
  *
  * @param dir - Directory to search
  * @param extensions - File extensions to match (e.g., ['.md', '.jsx', '.tsx'])
  * @param ignorePatterns - Patterns to ignore (legacy support, PathFilter handles this)
  * @param baseDir - Base directory for relative path calculation (internal use)
+ * @param maxDepth - Maximum recursion depth (default: DEFAULT_MAX_DEPTH)
+ * @param currentDepth - Current recursion depth (internal use)
  * @returns Array of file paths
  */
-function findFiles(dir, extensions = ['.md'], ignorePatterns = [], baseDir) {
+function findFiles(dir, extensions = ['.md'], ignorePatterns = [], baseDir, maxDepth = DEFAULT_MAX_DEPTH, currentDepth = 0) {
+    if (currentDepth > maxDepth) {
+        return [];
+    }
     const files = [];
     const entries = readdirSync(dir, { withFileTypes: true });
     const searchBase = baseDir || dir;
@@ -289,6 +301,10 @@ function findFiles(dir, extensions = ['.md'], ignorePatterns = [], baseDir) {
     });
     for (const entry of entries) {
         const fullPath = join(dir, entry.name);
+        // Skip symlinks unconditionally — prevents data leaks from outside the plans tree
+        if (isSymlink(fullPath)) {
+            continue;
+        }
         // Get relative path from the search root for PathFilter
         const relativePath = relative(searchBase, fullPath).replace(/\\/g, '/');
         // Use PathFilter to check if path is allowed
@@ -296,7 +312,7 @@ function findFiles(dir, extensions = ['.md'], ignorePatterns = [], baseDir) {
             continue;
         }
         if (entry.isDirectory()) {
-            files.push(...findFiles(fullPath, extensions, ignorePatterns, searchBase));
+            files.push(...findFiles(fullPath, extensions, ignorePatterns, searchBase, maxDepth, currentDepth + 1));
         }
         else if (entry.isFile()) {
             // PathFilter already checked extension, but double-check for safety
@@ -383,9 +399,11 @@ export async function indexAllDocuments(db, plansPath, ignorePatterns = ['.git',
  * @param paths - Array of paths to index
  * @param extensions - File extensions to index (e.g., ['.md', '.jsx', '.tsx'])
  * @param ignorePatterns - Patterns to ignore (e.g., ['node_modules', '.git'])
+ * @param maxDepth - Maximum directory recursion depth
+ * @param maxFileSize - Maximum file size in bytes to index
  * @returns Combined indexing result
  */
-export async function indexAllPaths(db, paths, extensions = ['.md'], ignorePatterns = ['.git', 'node_modules', '.tmp', '.obsidian']) {
+export async function indexAllPaths(db, paths, extensions = ['.md'], ignorePatterns = ['.git', 'node_modules', '.tmp', '.obsidian'], maxDepth = DEFAULT_MAX_DEPTH, maxFileSize = DEFAULT_MAX_FILE_SIZE) {
     const result = {
         indexed: 0,
         updated: 0,
@@ -400,7 +418,7 @@ export async function indexAllPaths(db, paths, extensions = ['.md'], ignorePatte
             result.errors.push({ path, error: `Directory not found: ${path}` });
             continue;
         }
-        const files = findFiles(path, extensions, ignorePatterns);
+        const files = findFiles(path, extensions, ignorePatterns, undefined, maxDepth);
         for (const file of files) {
             // Deduplicate files (in case paths overlap)
             if (!seenFiles.has(file)) {
@@ -409,6 +427,15 @@ export async function indexAllPaths(db, paths, extensions = ['.md'], ignorePatte
             }
         }
     }
+    // Warn if indexing suspiciously large number of files or root-like paths
+    const hasRootPath = paths.some((p) => p === '.' || p === './' || p === '/' || p.endsWith('/.'));
+    const isSuspiciousCount = allFiles.length > 200 || (hasRootPath && allFiles.length > 50);
+    if (isSuspiciousCount) {
+        console.error(`⚠️  Warning: About to index ${allFiles.length} files`);
+        console.error(`   This may take a while on first startup`);
+        console.error(`   Paths being indexed: ${paths.join(', ')}`);
+        console.error(`   If this wasn't intentional, check your configuration`);
+    }
     // Process files with limited concurrency
     const concurrency = 10;
     for (let i = 0; i < allFiles.length; i += concurrency) {
@@ -419,6 +446,12 @@ export async function indexAllPaths(db, paths, extensions = ['.md'], ignorePatte
                     result.errors.push({ path: filePath, error: 'File not found' });
                     return;
                 }
+                // Safety check: skip symlinks and oversized files
+                const safety = checkPathSafety(filePath, { maxFileSize });
+                if (!safety.safe) {
+                    result.skipped++;
+                    return;
+                }
                 const content = readFileSync(filePath, 'utf-8');
                 const hash = calculateHash(content);
                 const existing = db.prepare('SELECT hash FROM documents WHERE path = ?').get(filePath);
@@ -427,7 +460,7 @@ export async function indexAllPaths(db, paths, extensions = ['.md'], ignorePatte
                     return;
                 }
                 const wasExisting = existing !== undefined;
-                await indexDocument(db, filePath);
+                await indexDocument(db, filePath, maxFileSize);
                 if (wasExisting) {
                     result.updated++;
                 }