mcp-local-rag 0.10.0 → 0.11.0

package/README.md

@@ -1,3 +1,7 @@
+<p align="center">
+  <img src="assets/banner.jpg" alt="MCP Local RAG — Search below the surface." width="600" />
+</p>
+
 # MCP Local RAG
 
 [![GitHub stars](https://img.shields.io/github/stars/shinpr/mcp-local-rag?style=social)](https://github.com/shinpr/mcp-local-rag)
@@ -6,7 +10,7 @@
 [![TypeScript](https://img.shields.io/badge/TypeScript-5.0-blue.svg?logo=typescript&logoColor=white)](https://www.typescriptlang.org/)
 [![MCP Registry](https://img.shields.io/badge/MCP-Registry-green.svg)](https://registry.modelcontextprotocol.io/)
 
-Local RAG for developers using MCP.
+Local RAG for developers via MCP or CLI.
 Semantic search with keyword boost for exact technical terms — fully private, zero setup.
 
 ## Features
@@ -24,7 +28,8 @@ Semantic search with keyword boost for exact technical terms — fully private,
   No API keys, no cloud, no data leaving your machine. Works fully offline after the first model download.
 
 - **Zero-friction setup**
-  One `npx` command. No Docker, no Python, no servers to manage. Designed for Cursor, Codex, and Claude Code via MCP.
+  One `npx` command. No Docker, no Python, no servers to manage.
+  Use via MCP, CLI, or both. Optional [Agent Skills](#agent-skills) help AI assistants form better queries and interpret results.
 
 ## Quick Start
 
@@ -73,7 +78,14 @@ Assistant: Based on the documentation, authentication uses OAuth 2.0 with JWT to
           The flow is described in section 3.2...
 ```
 
-That's it. No installation, no Docker, no complex setup.
+**Or use directly as CLI** — no MCP server needed:
+
+```bash
+npx mcp-local-rag ingest ./docs/
+npx mcp-local-rag query "authentication API"
+```
+
+That's it. No Docker, no Python, no server setup.
 
 ## Why This Exists
 
@@ -87,12 +99,17 @@ You want AI to search your documents—technical specs, research papers, interna
 
 **Code search.** Pure semantic search misses exact terms like `useEffect` or `ERR_CONNECTION_REFUSED`. Keyword boost catches both meaning and exact matches.
 
+**Agent reality.** In practice, many AI environments mainly use tool calling. CLI support and Agent Skills make the same workflows available even without full MCP integration.
+
 ## Usage
 
-The server provides 6 MCP tools: ingest file, ingest data, search, list, delete, status
-(`ingest_file`, `ingest_data`, `query_documents`, `list_files`, `delete_file`, `status`).
+mcp-local-rag provides two interfaces: an **MCP server** for AI coding tools and a **CLI** for direct use from the terminal.
+
+### Using with MCP
 
-### Ingesting Documents
+The MCP server provides 6 tools: `ingest_file`, `ingest_data`, `query_documents`, `list_files`, `delete_file`, `status`.
+
+#### Ingesting Documents
 
 ```
 "Ingest the document at /Users/me/docs/api-spec.pdf"
@@ -102,7 +119,7 @@ Supports PDF, DOCX, TXT, and Markdown. The server extracts text, splits it into
 
 Re-ingesting the same file replaces the old version automatically.
 
-### Ingesting HTML Content
+#### Ingesting HTML Content
 
 Use `ingest_data` to ingest HTML content retrieved by your AI assistant (via web fetch, curl, browser tools, etc.):
 
@@ -119,7 +136,27 @@ HTML is automatically cleaned—you get the article content, not the boilerplate
 
 > **Note:** The RAG server itself doesn't fetch web content—your AI assistant retrieves it and passes the HTML to `ingest_data`. This keeps the server fully local while letting you index any content your assistant can access. Please respect website terms of service and copyright when ingesting external content.
 
-### CLI Commands
+#### Searching Documents
+
+```
+"What does the API documentation say about authentication?"
+"Find information about rate limiting"
+"Search for error handling best practices"
+```
+
+Search uses semantic similarity with keyword boost. This means `useEffect` finds documents containing that exact term, not just semantically similar React concepts.
+
+Results include text content, source file, document title, and relevance score. The document title provides context for each chunk, helping identify which document a result belongs to. Adjust result count with `limit` (1-20, default 10).
+
+#### Managing Files
+
+```
+"List all files in BASE_DIR and their ingested status"   # See what's indexed
+"Delete old-spec.pdf from RAG"     # Remove a file
+"Show RAG server status"           # Check system health
+```
+
+### Using as CLI
 
 All MCP tools are also available as CLI commands — no MCP server needed:
 
@@ -132,31 +169,44 @@ npx mcp-local-rag delete ./docs/old.pdf         # Remove content
 npx mcp-local-rag delete --source "https://..."  # Remove by source URL
 ```
 
-Global options (`--db-path`, `--cache-dir`, `--model-name`) go before the subcommand. Run `npx mcp-local-rag --help` for details.
+`query`, `list`, `status`, and `delete` output JSON to stdout for piping (e.g., `| jq`). `ingest` outputs progress to stderr. Global options (`--db-path`, `--cache-dir`, `--model-name`) go before the subcommand. Run `npx mcp-local-rag --help` for details.
 
-`query`, `list`, `status`, and `delete` output JSON to stdout for piping (e.g., `| jq`). `ingest` outputs progress to stderr.
+> ⚠️ The CLI does **not** read your MCP client config (`mcp.json`, `config.toml`, etc.). Configure the CLI via flags or environment variables as shown below.
 
-> ⚠️ **CLI options must match your MCP server config.** Especially `--model-name` — using a different embedding model against an existing database produces incompatible vectors, silently degrading search quality.
+#### Configuration
 
-### Searching Documents
+**CLI flags** — global options go before the subcommand, subcommand options go after:
 
-```
-"What does the API documentation say about authentication?"
-"Find information about rate limiting"
-"Search for error handling best practices"
+```bash
+npx mcp-local-rag --db-path ./my-db query "auth" --base-dir ./docs
 ```
 
-Search uses semantic similarity with keyword boost. This means `useEffect` finds documents containing that exact term, not just semantically similar React concepts.
+**Environment variables** — set in your shell:
 
-Results include text content, source file, document title, and relevance score. The document title provides context for each chunk, helping identify which document a result belongs to. Adjust result count with `limit` (1-20, default 10).
+```bash
+export DB_PATH=./my-db
+export BASE_DIR=./docs
+npx mcp-local-rag query "auth"
+```
 
-### Managing Files
+**Sharing config between MCP and CLI** — if your MCP client inherits shell environment variables, you can set them in your shell profile (e.g., `~/.zshrc`) so both use the same values. Otherwise, set them explicitly in your MCP config as well.
 
+```bash
+export BASE_DIR=/path/to/your/documents
+export DB_PATH=/path/to/lancedb
 ```
-"List all files in BASE_DIR and their ingested status"   # See what's indexed
-"Delete old-spec.pdf from RAG"     # Remove a file
-"Show RAG server status"           # Check system health
-```
+
+Configuration is resolved in this order:
+
+1. CLI flags (highest priority)
+2. Environment variables
+3. Defaults
+
+For the full list of CLI flags, environment variables, and defaults, see [Configuration](#configuration).
+
+For CLI-only setups (no MCP server), install [Agent Skills](#agent-skills) so your AI assistant can form better queries and interpret results consistently.
+
+> ⚠️ **`--model-name` must match your MCP server config.** Using a different embedding model against an existing database produces incompatible vectors, silently degrading search quality.
 
 ## Search Tuning
 
@@ -242,21 +292,22 @@ Before RAG operations, request in natural language:
 Add to your `AGENTS.md`, `CLAUDE.md`, or other agent instruction file:
 ```
 When using query_documents, ingest_file, or ingest_data tools,
-apply the mcp-local-rag skill for optimal query formulation and result interpretation.
+apply the mcp-local-rag skill for better query formulation and result interpretation.
 ```
 
-<details>
-<summary><strong>Configuration</strong></summary>
+## Configuration
 
-### Environment Variables
+### Environment Variables and CLI Flags
 
-| Variable | Default | Description |
-|----------|---------|-------------|
-| `BASE_DIR` | Current directory | Document root directory (security boundary) |
-| `DB_PATH` | `./lancedb/` | Vector database location |
-| `CACHE_DIR` | `./models/` | Model cache directory |
-| `MODEL_NAME` | `Xenova/all-MiniLM-L6-v2` | HuggingFace model ID ([available models](https://huggingface.co/models?library=transformers.js&pipeline_tag=feature-extraction)) |
-| `MAX_FILE_SIZE` | `104857600` (100MB) | Maximum file size in bytes |
+Both MCP and CLI use the same environment variables. The CLI also accepts equivalent flags.
+
+| Environment Variable | CLI Flag | Default | Description |
+|---------------------|----------|---------|-------------|
+| `BASE_DIR` | `--base-dir` | Current directory | Document root directory (security boundary) |
+| `DB_PATH` | `--db-path` | `./lancedb/` | Vector database location |
+| `CACHE_DIR` | `--cache-dir` | `./models/` | Model cache directory |
+| `MODEL_NAME` | `--model-name` | `Xenova/all-MiniLM-L6-v2` | HuggingFace model ID ([available models](https://huggingface.co/models?library=transformers.js&pipeline_tag=feature-extraction)) |
+| `MAX_FILE_SIZE` | `--max-file-size` | `104857600` (100MB) | Maximum file size in bytes |
 
 **Model choice tips:**
 - Multilingual docs → e.g., `onnx-community/embeddinggemma-300m-ONNX` (100+ languages)
@@ -312,8 +363,6 @@ The embedding model (~90MB) downloads on first use. Takes 1-2 minutes, then work
 - **Local only**: No network requests after model download
 - **Model source**: Official HuggingFace repository ([verify here](https://huggingface.co/Xenova/all-MiniLM-L6-v2))
 
-</details>
-
 <details>
 <summary><strong>Performance</strong></summary>
 

package/dist/chunker/semantic-chunker.js

@@ -75,6 +75,7 @@ const DEFAULT_SEMANTIC_CHUNKER_CONFIG = {
  * is greater than the minimum similarity between existing chunk members (with threshold adjustment)
  */
 export class SemanticChunker {
+    config;
     constructor(config = {}) {
         this.config = { ...DEFAULT_SEMANTIC_CHUNKER_CONFIG, ...config };
     }

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package/dist/cli/ingest.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"ingest.d.ts","sourceRoot":"","sources":["../../src/cli/ingest.ts"],"names":[],"mappings":"AAWA,OAAO,KAAK,EAAE,aAAa,EAAE,oBAAoB,EAAE,MAAM,cAAc,CAAA;AAavE,UAAU,YAAY;IACpB,OAAO,EAAE,MAAM,CAAA;IACf,MAAM,EAAE,MAAM,CAAA;IACd,QAAQ,EAAE,MAAM,CAAA;IAChB,SAAS,EAAE,MAAM,CAAA;IACjB,WAAW,EAAE,MAAM,CAAA;CACpB;AAQD,UAAU,gBAAgB;IACxB,OAAO,CAAC,EAAE,MAAM,GAAG,SAAS,CAAA;IAC5B,WAAW,CAAC,EAAE,MAAM,GAAG,SAAS,CAAA;CACjC;AAED,UAAU,UAAU;IAClB,UAAU,EAAE,MAAM,GAAG,SAAS,CAAA;IAC9B,OAAO,EAAE,gBAAgB,CAAA;IACzB,IAAI,EAAE,OAAO,CAAA;CACd;AAgCD;;;;GAIG;AACH,wBAAgB,SAAS,CAAC,IAAI,EAAE,MAAM,EAAE,GAAG,UAAU,CAqDpD;AAiBD;;;;GAIG;AACH,wBAAgB,aAAa,CAC3B,YAAY,EAAE,oBAAoB,EAClC,aAAa,GAAE,gBAAqB,GACnC,YAAY,CA8Bd;AAuJD;;;;GAIG;AACH,wBAAsB,SAAS,CAAC,IAAI,EAAE,MAAM,EAAE,EAAE,aAAa,GAAE,aAAkB,GAAG,OAAO,CAAC,IAAI,CAAC,CA0FhG"}
+{"version":3,"file":"ingest.d.ts","sourceRoot":"","sources":["../../src/cli/ingest.ts"],"names":[],"mappings":"AAWA,OAAO,KAAK,EAAE,aAAa,EAAE,oBAAoB,EAAE,MAAM,cAAc,CAAA;AAavE,UAAU,YAAY;IACpB,OAAO,EAAE,MAAM,CAAA;IACf,MAAM,EAAE,MAAM,CAAA;IACd,QAAQ,EAAE,MAAM,CAAA;IAChB,SAAS,EAAE,MAAM,CAAA;IACjB,WAAW,EAAE,MAAM,CAAA;CACpB;AAQD,UAAU,gBAAgB;IACxB,OAAO,CAAC,EAAE,MAAM,GAAG,SAAS,CAAA;IAC5B,WAAW,CAAC,EAAE,MAAM,GAAG,SAAS,CAAA;CACjC;AAED,UAAU,UAAU;IAClB,UAAU,EAAE,MAAM,GAAG,SAAS,CAAA;IAC9B,OAAO,EAAE,gBAAgB,CAAA;IACzB,IAAI,EAAE,OAAO,CAAA;CACd;AAgCD;;;;GAIG;AACH,wBAAgB,SAAS,CAAC,IAAI,EAAE,MAAM,EAAE,GAAG,UAAU,CAwDpD;AAMD;;;;GAIG;AACH,wBAAgB,aAAa,CAC3B,YAAY,EAAE,oBAAoB,EAClC,aAAa,GAAE,gBAAqB,GACnC,YAAY,CA6Bd;AAuJD;;;;GAIG;AACH,wBAAsB,SAAS,CAAC,IAAI,EAAE,MAAM,EAAE,EAAE,aAAa,GAAE,aAAkB,GAAG,OAAO,CAAC,IAAI,CAAC,CA0FhG"}

package/dist/cli/ingest.js

@@ -69,8 +69,11 @@ export function parseArgs(args) {
                     console.error('Missing value for --max-file-size');
                     process.exit(1);
                 }
-                const parsed = Number.parseInt(raw, 10);
-                options.maxFileSize = Number.isNaN(parsed) ? undefined : parsed;
+                if (!/^\d+$/.test(raw)) {
+                    console.error(`Invalid value for --max-file-size: "${raw}"`);
+                    process.exit(1);
+                }
+                options.maxFileSize = Number.parseInt(raw, 10);
                 i++;
                 break;
             }
@@ -93,15 +96,6 @@ export function parseArgs(args) {
     return { positional, options, help };
 }
 // ============================================
-// NaN Defense
-// ============================================
-/**
- * Ensure maxFileSize is a valid number, falling back to default if NaN.
- */
-function sanitizeMaxFileSize(value) {
-    return Number.isNaN(value) ? INGEST_DEFAULTS.maxFileSize : value;
-}
-// ============================================
 // Config Resolution
 // ============================================
 /**
@@ -111,10 +105,10 @@ function sanitizeMaxFileSize(value) {
  */
 export function resolveConfig(globalConfig, ingestOptions = {}) {
     const baseDir = ingestOptions.baseDir ?? process.env['BASE_DIR'] ?? process.cwd();
-    const maxFileSize = sanitizeMaxFileSize(ingestOptions.maxFileSize ??
+    const maxFileSize = ingestOptions.maxFileSize ??
         (process.env['MAX_FILE_SIZE']
             ? Number.parseInt(process.env['MAX_FILE_SIZE'], 10)
-            : INGEST_DEFAULTS.maxFileSize));
+            : INGEST_DEFAULTS.maxFileSize);
     // Validate baseDir path
     const baseDirError = validatePath(baseDir, '--base-dir');
     if (baseDirError) {

package/dist/cli/ingest.js.map

@@ -1 +1 @@
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package/dist/cli/query.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"query.d.ts","sourceRoot":"","sources":["../../src/cli/query.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,cAAc,CAAA;AAOjD,UAAU,eAAe;IACvB,KAAK,CAAC,EAAE,MAAM,GAAG,SAAS,CAAA;CAC3B;AAED,UAAU,UAAU;IAClB,SAAS,EAAE,MAAM,GAAG,SAAS,CAAA;IAC7B,OAAO,EAAE,eAAe,CAAA;IACxB,IAAI,EAAE,OAAO,CAAA;CACd;AAwCD;;;;GAIG;AACH,wBAAgB,SAAS,CAAC,IAAI,EAAE,MAAM,EAAE,GAAG,UAAU,CA+CpD;AAuBD;;;;GAIG;AACH,wBAAsB,QAAQ,CAAC,IAAI,EAAE,MAAM,EAAE,EAAE,aAAa,GAAE,aAAkB,GAAG,OAAO,CAAC,IAAI,CAAC,CAoE/F"}
+{"version":3,"file":"query.d.ts","sourceRoot":"","sources":["../../src/cli/query.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,cAAc,CAAA;AAOjD,UAAU,eAAe;IACvB,KAAK,CAAC,EAAE,MAAM,GAAG,SAAS,CAAA;CAC3B;AAED,UAAU,UAAU;IAClB,SAAS,EAAE,MAAM,GAAG,SAAS,CAAA;IAC7B,OAAO,EAAE,eAAe,CAAA;IACxB,IAAI,EAAE,OAAO,CAAA;CACd;AAwCD;;;;GAIG;AACH,wBAAgB,SAAS,CAAC,IAAI,EAAE,MAAM,EAAE,GAAG,UAAU,CA8CpD;AAuBD;;;;GAIG;AACH,wBAAsB,QAAQ,CAAC,IAAI,EAAE,MAAM,EAAE,EAAE,aAAa,GAAE,aAAkB,GAAG,OAAO,CAAC,IAAI,CAAC,CAoE/F"}

package/dist/cli/query.js

@@ -50,12 +50,11 @@ export function parseArgs(args) {
                     console.error('Missing value for --limit');
                     process.exit(1);
                 }
-                const parsed = Number.parseInt(value, 10);
-                if (Number.isNaN(parsed)) {
+                if (!/^\d+$/.test(value)) {
                     console.error('--limit must be between 1 and 20');
                     process.exit(1);
                 }
-                options.limit = parsed;
+                options.limit = Number.parseInt(value, 10);
                 i++;
                 break;
             }

package/dist/cli/query.js.map

@@ -1 +1 @@
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package/dist/embedder/index.js

@@ -7,6 +7,7 @@ import { env, pipeline } from '@huggingface/transformers';
  * Embedding generation error
  */
 export class EmbeddingError extends Error {
+    cause;
     constructor(message, cause) {
         super(message);
         this.cause = cause;
@@ -25,10 +26,11 @@ export class EmbeddingError extends Error {
  * - Batch processing (size 8)
  */
 export class Embedder {
+    // Using unknown to avoid TS2590 (union type too complex with @types/jsdom)
+    model = null;
+    initPromise = null;
+    config;
     constructor(config) {
-        // Using unknown to avoid TS2590 (union type too complex with @types/jsdom)
-        this.model = null;
-        this.initPromise = null;
         this.config = config;
     }
     /**

package/dist/embedder/index.js.map

@@ -1 +1 @@
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package/dist/parser/index.js

@@ -19,6 +19,7 @@ export const SUPPORTED_EXTENSIONS = new Set(['.pdf', '.docx', '.txt', '.md']);
  * Validation error (equivalent to 400)
  */
 export class ValidationError extends Error {
+    cause;
     constructor(message, cause) {
         super(message);
         this.cause = cause;
@@ -29,6 +30,7 @@ export class ValidationError extends Error {
  * File operation error (equivalent to 500)
  */
 export class FileOperationError extends Error {
+    cause;
     constructor(message, cause) {
         super(message);
         this.cause = cause;
@@ -47,9 +49,10 @@ export class FileOperationError extends Error {
  * - Parse 4 formats (PDF/DOCX/TXT/MD)
  */
 export class DocumentParser {
+    config;
+    /** Lazily cached realpath of baseDir. Assumes baseDir is stable for the process lifetime. */
+    resolvedBaseDir = null;
     constructor(config) {
-        /** Lazily cached realpath of baseDir. Assumes baseDir is stable for the process lifetime. */
-        this.resolvedBaseDir = null;
         this.config = config;
     }
     /**

package/dist/parser/index.js.map

@@ -1 +1 @@
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package/dist/server/index.js

@@ -16,8 +16,18 @@ import { formatErrorMessage } from './error-utils.js';
 import { toolDefinitions } from './tool-definitions.js';
 /** RAG server compliant with MCP Protocol */
 export class RAGServer {
+    server;
+    vectorStore;
+    embedder;
+    chunker;
+    parser;
+    dbPath;
+    baseDir;
+    // Used by handleListFiles filter to exclude system-managed directories
+    excludePaths;
+    configWarnings;
+    queryWarningsShown = false;
     constructor(config) {
-        this.queryWarningsShown = false;
         this.dbPath = config.dbPath;
         this.baseDir = config.baseDir;
         this.configWarnings = config.configWarnings ?? [];

package/dist/server/index.js.map

@@ -1 +1 @@
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package/dist/vectordb/index.js

@@ -14,10 +14,11 @@ import { DatabaseError, FTS_CLEANUP_THRESHOLD_MS, FTS_INDEX_NAME, HYBRID_SEARCH_
  * - Metadata management
  */
 export class VectorStore {
+    db = null;
+    table = null;
+    config;
+    ftsEnabled = false;
     constructor(config) {
-        this.db = null;
-        this.table = null;
-        this.ftsEnabled = false;
         this.config = config;
     }
     /**

package/dist/vectordb/index.js.map

@@ -1 +1 @@
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package/dist/vectordb/types.js

@@ -58,6 +58,7 @@ export function toSearchResult(raw) {
  * Database error
  */
 export class DatabaseError extends Error {
+    cause;
     constructor(message, cause) {
         super(message);
         this.cause = cause;

package/dist/vectordb/types.js.map

@@ -1 +1 @@
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package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "mcp-local-rag",
-  "version": "0.10.0",
+  "version": "0.11.0",
   "description": "Local RAG MCP Server - Easy-to-setup document search with minimal configuration",
   "type": "module",
   "main": "dist/index.js",
@@ -64,10 +64,10 @@
   "dependencies": {
     "@huggingface/transformers": "^3.8.1",
     "@lancedb/lancedb": "^0.26.2",
-    "@modelcontextprotocol/sdk": "^1.27.1",
+    "@modelcontextprotocol/sdk": "^1.28.0",
     "@mozilla/readability": "0.6.0",
     "jsdom": "^27.4.0",
-    "mammoth": "^1.11.0",
+    "mammoth": "^1.12.0",
     "mupdf": "^1.27.0",
     "turndown": "7.2.2"
   },
@@ -77,16 +77,16 @@
     "@types/node": "^25.3.5",
     "@types/turndown": "5.0.6",
     "husky": "^9.1.7",
+    "knip": "^6.1.0",
     "lint-staged": "^16.3.2",
     "madge": "^8.0.0",
-    "knip": "^5.61.2",
     "tsc-alias": "^1.8.16",
     "tsx": "^4.21.0",
     "typescript": "^5.9.3",
-    "vitest": "^4.0.18"
+    "vitest": "^4.1.2"
   },
   "engines": {
-    "node": ">=20"
+    "node": ">=22"
   },
   "lint-staged": {
     "src/**/*.{ts,tsx}": [