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# Directory Structure

```
├── __tests__
│   ├── handlers
│   │   ├── apply-diff.test.ts
│   │   ├── chmod-items.test.ts
│   │   ├── copy-items.test.ts
│   │   ├── create-directories.test.ts
│   │   ├── delete-items.test.ts
│   │   ├── list-files.test.ts
│   │   ├── move-items.test.ts
│   │   ├── read-content.test.ts
│   │   ├── replace-content.errors.test.ts
│   │   ├── replace-content.success.test.ts
│   │   ├── search-files.test.ts
│   │   ├── stat-items.test.ts
│   │   └── write-content.test.ts
│   ├── index.test.ts
│   ├── setup.ts
│   ├── test-utils.ts
│   └── utils
│       ├── apply-diff-utils.test.ts
│       ├── error-utils.test.ts
│       ├── path-utils.test.ts
│       ├── stats-utils.test.ts
│       └── string-utils.test.ts
├── .dockerignore
├── .github
│   ├── dependabot.yml
│   ├── FUNDING.yml
│   └── workflows
│       └── publish.yml
├── .gitignore
├── .husky
│   ├── commit-msg
│   └── pre-commit
├── .prettierrc.cjs
├── bun.lock
├── CHANGELOG.md
├── commit_msg.txt
├── commitlint.config.cjs
├── Dockerfile
├── docs
│   ├── .vitepress
│   │   └── config.mts
│   ├── guide
│   │   └── introduction.md
│   └── index.md
├── eslint.config.ts
├── LICENSE
├── memory-bank
│   ├── .clinerules
│   ├── activeContext.md
│   ├── productContext.md
│   ├── progress.md
│   ├── projectbrief.md
│   ├── systemPatterns.md
│   └── techContext.md
├── package.json
├── pnpm-lock.yaml
├── README.md
├── src
│   ├── handlers
│   │   ├── apply-diff.ts
│   │   ├── chmod-items.ts
│   │   ├── chown-items.ts
│   │   ├── common.ts
│   │   ├── copy-items.ts
│   │   ├── create-directories.ts
│   │   ├── delete-items.ts
│   │   ├── index.ts
│   │   ├── list-files.ts
│   │   ├── move-items.ts
│   │   ├── read-content.ts
│   │   ├── replace-content.ts
│   │   ├── search-files.ts
│   │   ├── stat-items.ts
│   │   └── write-content.ts
│   ├── index.ts
│   ├── schemas
│   │   └── apply-diff-schema.ts
│   ├── types
│   │   └── mcp-types.ts
│   └── utils
│       ├── apply-diff-utils.ts
│       ├── error-utils.ts
│       ├── path-utils.ts
│       ├── stats-utils.ts
│       └── string-utils.ts
├── tsconfig.json
└── vitest.config.ts
```

# Files

--------------------------------------------------------------------------------
/.dockerignore:
--------------------------------------------------------------------------------

```
 1 | # Git files
 2 | .git
 3 | .gitignore
 4 | 
 5 | # Node modules
 6 | node_modules
 7 | 
 8 | # Build artifacts (we only need the build output in the final stage)
 9 | 
10 | # Docker files
11 | Dockerfile
12 | .dockerignore
13 | 
14 | # Documentation / Other
15 | README.md
16 | memory-bank
17 | .vscode
```

--------------------------------------------------------------------------------
/.prettierrc.cjs:
--------------------------------------------------------------------------------

```
 1 | // .prettierrc.cjs
 2 | module.exports = {
 3 |   semi: true,
 4 |   trailingComma: 'all',
 5 |   singleQuote: true,
 6 |   printWidth: 100, // Target line width
 7 |   tabWidth: 2,
 8 |   endOfLine: 'lf',
 9 |   arrowParens: 'always',
10 |   jsxSingleQuote: false, // Use double quotes in JSX
11 |   bracketSpacing: true, // Add spaces inside braces: { foo: bar }
12 | };
13 | 
```

--------------------------------------------------------------------------------
/.gitignore:
--------------------------------------------------------------------------------

```
 1 | node_modules/
 2 | build/
 3 | *.log
 4 | .env*
 5 | 
 6 | # Test Coverage
 7 | coverage/
 8 | 
 9 | # Build output
10 | dist/
11 | 
12 | # IDE files
13 | .vscode/
14 | .idea/
15 | 
16 | # OS generated files
17 | .DS_Store
18 | Thumbs.db
19 | 
20 | # NPM debug logs
21 | npm-debug.log*
22 | yarn-debug.log*
23 | yarn-error.log*
24 | 
25 | # VitePress cache
26 | .vitepress/cache
27 | .vitepress/dist
28 | # Cache files
29 | .eslintcache
30 | 
31 | # Test reports
32 | test-report.junit.xml
33 | 
```

--------------------------------------------------------------------------------
/memory-bank/.clinerules:
--------------------------------------------------------------------------------

```
 1 | <!-- Version: 4.6 | Last Updated: 2025-04-06 | Updated By: Roo -->
 2 | 
 3 | # Cline Rules for filesystem-mcp Project
 4 | 
 5 | ## Tool Usage Preferences
 6 | 
 7 | - **Prioritize Edit Tools:** When modifying existing files, prefer using `apply_diff`, `insert_content`, or `search_and_replace` over `write_to_file`. `write_to_file` should primarily be used for creating new files or when a complete rewrite is necessary, as it can be less efficient for large files or minor edits.
 8 | 
 9 | ## Technical Notes & Workarounds
10 | 
11 | - **Vitest ESM Mocking:** Mocking Node.js built-in ES Modules (like `fs/promises`) or external libraries (`glob`) using `vi.mock` or `vi.doMock` in Vitest can be problematic due to hoisting, scope, and type inference issues, especially when trying to modify mock behavior within tests. **Prefer direct dependency injection:**
12 |     - Export the core logic function from the handler file, accepting dependencies as an argument.
13 |     - In tests, import the core logic function.
14 |     - In `beforeEach`, create mock functions (`vi.fn()`) for dependencies.
15 |     - Use `vi.importActual` to get the real implementations and set them as the default for the mock functions.
16 |     - Create a `dependencies` object, passing in the mock functions.
17 |     - Call the core logic function with the `dependencies` object.
18 |     - Within specific tests requiring mocked behavior, modify the implementation of the mock function (e.g., `mockDependency.mockImplementation(...)`).
19 |     - *Obsolete `editFile` Strategy:* Previous attempts used `jest.unstable_mockModule` (likely a typo, meant Vitest equivalent) which was also unreliable.
20 |     - *Obsolete `listFiles` Strategy:* Initial integration tests avoided mocking but couldn't test error paths effectively. Dependency injection proved superior.
21 |     - **Execution Requirement:** Tests still require `NODE_OPTIONS=--experimental-vm-modules` (handled by `cross-env` in `package.json`).
22 | - **`write_content` Tool Limitation:** This tool might incorrectly escape certain characters within the `<content>` block. Prefer `apply_diff` or `replace_content` for modifications.
```

--------------------------------------------------------------------------------
/README.md:
--------------------------------------------------------------------------------

```markdown
  1 | # Filesystem MCP Server (@sylphlab/filesystem-mcp)
  2 | 
  3 | [![npm version](https://badge.fury.io/js/%40sylphlab%2Ffilesystem-mcp.svg)](https://badge.fury.io/js/%40sylphlab%2Ffilesystem-mcp)
  4 | [![Docker Pulls](https://img.shields.io/docker/pulls/sylphlab/filesystem-mcp.svg)](https://hub.docker.com/r/sylphlab/filesystem-mcp)
  5 | 
  6 | <!-- Add other badges like License, Build Status if applicable -->
  7 | <a href="https://glama.ai/mcp/servers/@sylphlab/filesystem-mcp">
  8 |   <img width="380" height="200" src="https://glama.ai/mcp/servers/@sylphlab/filesystem-mcp/badge" />
  9 | </a>
 10 | 
 11 | **Empower your AI agents (like Cline/Claude) with secure, efficient, and token-saving access to your project files.** This Node.js server implements the [Model Context Protocol (MCP)](https://docs.modelcontextprotocol.com/) to provide a robust set of filesystem tools, operating safely within a defined project root directory.
 12 | 
 13 | ## Installation
 14 | 
 15 | There are several ways to use the Filesystem MCP Server:
 16 | 
 17 | **1. Recommended: `npx` (or `bunx`) via MCP Host Configuration**
 18 | 
 19 | The simplest way is via `npx` or `bunx`, configured directly in your MCP host environment (e.g., Roo/Cline's `mcp_settings.json`). This ensures you always use the latest version from npm without needing local installation or Docker.
 20 | 
 21 | _Example (`npx`):_
 22 | 
 23 | ```json
 24 | {
 25 |   "mcpServers": {
 26 |     "filesystem-mcp": {
 27 |       "command": "npx",
 28 |       "args": ["@sylphlab/filesystem-mcp"],
 29 |       "name": "Filesystem (npx)"
 30 |     }
 31 |   }
 32 | }
 33 | ```
 34 | 
 35 | _Example (`bunx`):_
 36 | 
 37 | ```json
 38 | {
 39 |   "mcpServers": {
 40 |     "filesystem-mcp": {
 41 |       "command": "bunx",
 42 |       "args": ["@sylphlab/filesystem-mcp"],
 43 |       "name": "Filesystem (bunx)"
 44 |     }
 45 |   }
 46 | }
 47 | ```
 48 | 
 49 | **Important:** The server uses its own Current Working Directory (`cwd`) as the project root. Ensure your MCP Host (e.g., Cline/VSCode) is configured to launch the command with the `cwd` set to your active project's root directory.
 50 | 
 51 | **2. Docker**
 52 | 
 53 | Use the official Docker image for containerized environments.
 54 | 
 55 | _Example MCP Host Configuration:_
 56 | 
 57 | ```json
 58 | {
 59 |   "mcpServers": {
 60 |     "filesystem-mcp": {
 61 |       "command": "docker",
 62 |       "args": [
 63 |         "run",
 64 |         "-i",
 65 |         "--rm",
 66 |         "-v",
 67 |         "/path/to/your/project:/app", // Mount your project to /app
 68 |         "sylphlab/filesystem-mcp:latest"
 69 |       ],
 70 |       "name": "Filesystem (Docker)"
 71 |     }
 72 |   }
 73 | }
 74 | ```
 75 | 
 76 | **Remember to replace `/path/to/your/project` with the correct absolute path.**
 77 | 
 78 | **3. Local Build (For Development)**
 79 | 
 80 | 1.  Clone: `git clone https://github.com/sylphlab/filesystem-mcp.git`
 81 | 2.  Install: `cd filesystem-mcp && pnpm install` (Using pnpm now)
 82 | 3.  Build: `pnpm run build`
 83 | 4.  Configure MCP Host:
 84 |     ```json
 85 |     {
 86 |       "mcpServers": {
 87 |         "filesystem-mcp": {
 88 |           "command": "node",
 89 |           "args": ["/path/to/cloned/repo/filesystem-mcp/dist/index.js"], // Updated build dir
 90 |           "name": "Filesystem (Local Build)"
 91 |         }
 92 |       }
 93 |     }
 94 |     ```
 95 |     **Note:** Launch the `node` command from the directory you intend as the project root.
 96 | 
 97 | ## Quick Start
 98 | 
 99 | Once the server is configured in your MCP host (see Installation), your AI agent can immediately start using the filesystem tools.
100 | 
101 | _Example Agent Interaction (Conceptual):_
102 | 
103 | ```
104 | Agent: <use_mcp_tool>
105 |          <server_name>filesystem-mcp</server_name>
106 |          <tool_name>read_content</tool_name>
107 |          <arguments>{"paths": ["src/index.ts"]}</arguments>
108 |        </use_mcp_tool>
109 | 
110 | Server Response: (Content of src/index.ts)
111 | ```
112 | 
113 | ## Why Choose This Project?
114 | 
115 | - **🛡️ Secure & Convenient Project Root Focus:** Operations confined to the project root (`cwd` at launch).
116 | - **⚡ Optimized & Consolidated Tools:** Batch operations reduce AI-server round trips, saving tokens and latency. Reliable results for each item in a batch.
117 | - **🚀 Easy Integration:** Quick setup via `npx`/`bunx`.
118 | - **🐳 Containerized Option:** Available as a Docker image.
119 | - **🔧 Comprehensive Functionality:** Covers a wide range of filesystem tasks.
120 | - **✅ Robust Validation:** Uses Zod schemas for argument validation.
121 | 
122 | ## Performance Advantages
123 | 
124 | _(Placeholder: Add benchmark results and comparisons here, demonstrating advantages over alternative methods like individual shell commands.)_
125 | 
126 | - **Batch Operations:** Significantly reduces overhead compared to single operations.
127 | - **Direct API Usage:** More efficient than spawning shell processes for each command.
128 | - _(Add specific benchmark data when available)_
129 | 
130 | ## Features
131 | 
132 | This server equips your AI agent with a powerful and efficient filesystem toolkit:
133 | 
134 | - 📁 **Explore & Inspect (`list_files`, `stat_items`):** List files/directories (recursive, stats), get detailed status for multiple items.
135 | - 📄 **Read & Write Content (`read_content`, `write_content`):** Read/write/append multiple files, creates parent directories.
136 | - ✏️ **Precision Editing & Searching (`edit_file`, `search_files`, `replace_content`):** Surgical edits (insert, replace, delete) across multiple files with indentation preservation and diff output; regex search with context; multi-file search/replace.
137 | - 🏗️ **Manage Directories (`create_directories`):** Create multiple directories including intermediate parents.
138 | - 🗑️ **Delete Safely (`delete_items`):** Remove multiple files/directories recursively.
139 | - ↔️ **Move & Copy (`move_items`, `copy_items`):** Move/rename/copy multiple files/directories.
140 | - 🔒 **Control Permissions (`chmod_items`, `chown_items`):** Change POSIX permissions and ownership for multiple items.
141 | 
142 | **Key Benefit:** All tools accepting multiple paths/operations process each item individually and return a detailed status report.
143 | 
144 | ## Design Philosophy
145 | 
146 | _(Placeholder: Explain the core design principles.)_
147 | 
148 | - **Security First:** Prioritize preventing access outside the project root.
149 | - **Efficiency:** Minimize communication overhead and token usage for AI interactions.
150 | - **Robustness:** Provide detailed results and error reporting for batch operations.
151 | - **Simplicity:** Offer a clear and consistent API via MCP.
152 | - **Standard Compliance:** Adhere strictly to the Model Context Protocol.
153 | 
154 | ## Comparison with Other Solutions
155 | 
156 | _(Placeholder: Objectively compare with alternatives.)_
157 | 
158 | | Feature/Aspect          | Filesystem MCP Server | Individual Shell Commands (via Agent) | Other Custom Scripts |
159 | | :---------------------- | :-------------------- | :------------------------------------ | :------------------- |
160 | | **Security**            | High (Root Confined)  | Low (Agent needs shell access)        | Variable             |
161 | | **Efficiency (Tokens)** | High (Batching)       | Low (One command per op)              | Variable             |
162 | | **Latency**             | Low (Direct API)      | High (Shell spawn overhead)           | Variable             |
163 | | **Batch Operations**    | Yes (Most tools)      | No                                    | Maybe                |
164 | | **Error Reporting**     | Detailed (Per item)   | Basic (stdout/stderr parsing)         | Variable             |
165 | | **Setup**               | Easy (npx/Docker)     | Requires secure shell setup           | Custom               |
166 | 
167 | ## Future Plans
168 | 
169 | _(Placeholder: List upcoming features or improvements.)_
170 | 
171 | - Explore file watching capabilities.
172 | - Investigate streaming support for very large files.
173 | - Enhance performance for specific operations.
174 | - Add more advanced filtering options for `list_files`.
175 | 
176 | ## Documentation
177 | 
178 | _(Placeholder: Add link to the full documentation website once available.)_
179 | 
180 | Full documentation, including detailed API references and examples, will be available at: [Link to Docs Site]
181 | 
182 | ## Contributing
183 | 
184 | Contributions are welcome! Please open an issue or submit a pull request on the [GitHub repository](https://github.com/sylphlab/filesystem-mcp).
185 | 
186 | ## License
187 | 
188 | This project is released under the [MIT License](LICENSE).
189 | 
190 | ---
191 | 
192 | ## Development
193 | 
194 | 1. Clone: `git clone https://github.com/sylphlab/filesystem-mcp.git`
195 | 2. Install: `cd filesystem-mcp && pnpm install`
196 | 3. Build: `pnpm run build` (compiles TypeScript to `dist/`)
197 | 4. Watch: `pnpm run dev` (optional, recompiles on save)
198 | 
199 | ## Publishing (via GitHub Actions)
200 | 
201 | This repository uses GitHub Actions (`.github/workflows/publish.yml`) to automatically publish the package to [npm](https://www.npmjs.com/package/@sylphlab/filesystem-mcp) and build/push a Docker image to [Docker Hub](https://hub.docker.com/r/sylphlab/filesystem-mcp) on pushes of version tags (`v*.*.*`) to the `main` branch. Requires `NPM_TOKEN`, `DOCKERHUB_USERNAME`, and `DOCKERHUB_TOKEN` secrets configured in the GitHub repository settings.
202 | 
```

--------------------------------------------------------------------------------
/commitlint.config.cjs:
--------------------------------------------------------------------------------

```
1 | module.exports = {
2 |   extends: ['@commitlint/config-conventional'],
3 |   // Add any project-specific rules here if needed in the future
4 | };
```

--------------------------------------------------------------------------------
/src/handlers/common.ts:
--------------------------------------------------------------------------------

```typescript
1 | export type FileSystemDependencies = {
2 |   path: {
3 |     resolve: (...paths: string[]) => string;
4 |   };
5 |   writeFile: (path: string, content: string, encoding: string) => Promise<void>;
6 |   readFile: (path: string, encoding: string) => Promise<string>;
7 |   projectRoot: string;
8 | };
9 | 
```

--------------------------------------------------------------------------------
/src/utils/error-utils.ts:
--------------------------------------------------------------------------------

```typescript
 1 | export function formatFileProcessingError(
 2 |   error: unknown,
 3 |   resolvedPath: string,
 4 |   filePath: string,
 5 |   // Removed projectRoot parameter entirely
 6 | ): string {
 7 |   if (typeof error !== 'object' || error === null) {
 8 |     return `Failed to process file ${filePath}: ${String(error)}`;
 9 |   }
10 | 
11 |   const err = error as { code?: string; message?: string };
12 | 
13 |   if (err.code === 'ENOENT') {
14 |     return `File not found at resolved path: ${resolvedPath}`;
15 |   }
16 |   if (err.code === 'EACCES') {
17 |     return `Permission denied for file: ${filePath}`;
18 |   }
19 | 
20 |   return `Failed to process file ${filePath}: ${err.message ?? 'Unknown error'}`;
21 | }
22 | 
```

--------------------------------------------------------------------------------
/.github/FUNDING.yml:
--------------------------------------------------------------------------------

```yaml
 1 | # These are supported funding model platforms
 2 | 
 3 | github: shtse8
 4 | patreon: # Replace with a single Patreon username
 5 | open_collective: # Replace with a single Open Collective username
 6 | ko_fi: # Replace with a single Ko-fi username
 7 | tidelift: # Replace with a single Tidelift platform-name/package-name e.g., npm/babel
 8 | community_bridge: # Replace with a single Community Bridge project-name e.g., cloud-foundry
 9 | liberapay: # Replace with a single Liberapay username
10 | issuehunt: # Replace with a single IssueHunt username
11 | otechie: # Replace with a single Otechie username
12 | lfx_crowdfunding: # Replace with a single LFX Crowdfunding project-name e.g., cloud-foundry
13 | custom: # Replace with up to 4 custom sponsorship URLs e.g., ['link1', 'link2']
14 | buy_me_a_coffee: shtse8
15 | 
```

--------------------------------------------------------------------------------
/src/types/mcp-types.ts:
--------------------------------------------------------------------------------

```typescript
 1 | // Core MCP types
 2 | export enum ErrorCode {
 3 |   InvalidParams = -32_602,
 4 |   InternalError = -32_603,
 5 |   InvalidRequest = -32_600,
 6 | }
 7 | 
 8 | export class McpError extends Error {
 9 |   constructor(
10 |     public code: ErrorCode,
11 |     message: string,
12 |     public data?: unknown,
13 |   ) {
14 |     super(message);
15 |   }
16 | }
17 | 
18 | // Request/Response types
19 | export interface McpRequest<TInput = unknown> {
20 |   jsonrpc?: string;
21 |   method?: string;
22 |   params: TInput;
23 | }
24 | 
25 | export interface McpResponse<TOutput = unknown> {
26 |   success?: boolean;
27 |   output?: TOutput;
28 |   error?: McpError | Error;
29 |   data?: Record<string, unknown>;
30 |   content?: Array<{
31 |     type: 'text';
32 |     text: string;
33 |   }>;
34 | }
35 | 
36 | // Tool response type
37 | export interface McpToolResponse extends McpResponse {
38 |   content: Array<{
39 |     type: 'text';
40 |     text: string;
41 |   }>;
42 | }
43 | 
```

--------------------------------------------------------------------------------
/Dockerfile:
--------------------------------------------------------------------------------

```dockerfile
 1 | # Stage 1: Install production dependencies
 2 | FROM node:20-alpine AS deps
 3 | WORKDIR /app
 4 | 
 5 | # Copy package files
 6 | COPY package.json package-lock.json ./
 7 | 
 8 | # Install ONLY production dependencies
 9 | RUN npm ci --omit=dev
10 | 
11 | # Stage 2: Create the final lightweight image
12 | FROM node:20-alpine
13 | WORKDIR /app
14 | 
15 | # Create a non-root user and group for security
16 | RUN addgroup -S appgroup && adduser -S appuser -G appgroup
17 | 
18 | # Copy production dependencies and package.json from the deps stage
19 | COPY --from=deps --chown=appuser:appgroup /app/node_modules ./node_modules
20 | COPY --from=deps --chown=appuser:appgroup /app/package.json ./
21 | 
22 | # Copy the pre-built application code (from the CI artifact)
23 | # This assumes the 'build' directory is present in the build context
24 | COPY --chown=appuser:appgroup build ./build
25 | 
26 | # Switch to the non-root user
27 | USER appuser
28 | 
29 | # Command to run the server using the built output
30 | CMD ["node", "build/index.js"]
```

--------------------------------------------------------------------------------
/docs/guide/introduction.md:
--------------------------------------------------------------------------------

```markdown
 1 | # Introduction
 2 | 
 3 | Welcome to the documentation for the **Filesystem MCP Server** (`@sylphlab/filesystem-mcp`).
 4 | 
 5 | This server acts as a secure and efficient bridge between AI agents (like Cline/Claude using the Model Context Protocol) and your local project files.
 6 | 
 7 | ## Key Goals
 8 | 
 9 | - **Security**: Confine AI filesystem access strictly within your project directory.
10 | - **Efficiency**: Reduce AI-server communication overhead and token usage through batch operations.
11 | - **Control**: Operate predictably using relative paths within the project context.
12 | - **Standardization**: Adhere to the Model Context Protocol for interoperability.
13 | 
14 | ## Getting Started
15 | 
16 | The easiest way to use the server is via `npx` or `bunx`, configured within your MCP host environment. Please refer to the [README](https://github.com/sylphlab/filesystem-mcp#readme) for detailed setup instructions.
17 | 
18 | This documentation site will provide further details on available tools, configuration options, and development guidelines.
19 | 
```

--------------------------------------------------------------------------------
/src/utils/path-utils.ts:
--------------------------------------------------------------------------------

```typescript
 1 | import path from 'node:path';
 2 | import { McpError as OriginalMcpError, ErrorCode } from '@modelcontextprotocol/sdk/types.js';
 3 | 
 4 | const McpError = OriginalMcpError;
 5 | 
 6 | const PROJECT_ROOT = path.resolve(import.meta.dirname, '../../');
 7 | 
 8 | export function resolvePath(relativePath: string, rootPath?: string): string {
 9 |   // Validate input types
10 |   if (typeof relativePath !== 'string') {
11 |     throw new McpError(ErrorCode.InvalidParams, 'Path must be a string');
12 |   }
13 |   if (rootPath && typeof rootPath !== 'string') {
14 |     throw new McpError(ErrorCode.InvalidParams, 'Root path must be a string');
15 |   }
16 | 
17 |   // Validate path format
18 |   if (path.isAbsolute(relativePath)) {
19 |     throw new McpError(ErrorCode.InvalidParams, `Absolute paths are not allowed: ${relativePath}`);
20 |   }
21 | 
22 |   const root = rootPath || PROJECT_ROOT;
23 |   const absolutePath = path.resolve(root, relativePath);
24 | 
25 |   // Validate path traversal
26 |   if (!absolutePath.startsWith(root)) {
27 |     throw new McpError(ErrorCode.InvalidRequest, `Path traversal detected: ${relativePath}`);
28 |   }
29 | 
30 |   return absolutePath;
31 | }
32 | 
33 | export { PROJECT_ROOT };
34 | 
```

--------------------------------------------------------------------------------
/commit_msg.txt:
--------------------------------------------------------------------------------

```
 1 | feat: Add apply-diff schema and utility functions for diff operations
 2 | 
 3 | - Introduced `apply-diff-schema.ts` to define schemas for diff operations, including validation for line numbers and unique file paths.
 4 | - Created `mcp-types.ts` for core MCP error handling and request/response types.
 5 | - Implemented `apply-diff-utils.ts` with functions to validate and apply diff blocks to file content, including context retrieval and content verification.
 6 | - Removed deprecated `applyDiffUtils.ts` to streamline utility functions.
 7 | - Added `edit-file-specific-utils.ts` for regex matching and indentation handling.
 8 | - Created `error-utils.ts` for standardized error formatting during file processing.
 9 | - Introduced `path-utils.ts` for path resolution with security checks against path traversal.
10 | - Removed old `pathUtils.ts` to consolidate path handling logic.
11 | - Added `stats-utils.ts` for formatting file statistics for MCP responses.
12 | - Created `string-utils.ts` for string manipulation utilities, including regex escaping and line matching.
13 | - Updated `tsconfig.json` to include type definitions and adjust exclusions.
14 | - Modified `vitest.config.ts` to add clean option and remove non-existent setup files.
```

--------------------------------------------------------------------------------
/tsconfig.json:
--------------------------------------------------------------------------------

```json
 1 | {
 2 |   "compilerOptions": {
 3 |     /* Base Options */
 4 |     "esModuleInterop": true,
 5 |     "skipLibCheck": true,
 6 |     "target": "ES2022",
 7 |     "allowJs": false,
 8 |     "resolveJsonModule": true,
 9 |     "moduleDetection": "force",
10 |     "isolatedModules": true,
11 | 
12 |     /* Strictness */
13 |     "strict": true,
14 |     "noImplicitAny": true,
15 |     "strictNullChecks": true,
16 |     "strictFunctionTypes": true,
17 |     "strictBindCallApply": true,
18 |     "strictPropertyInitialization": true,
19 |     "noImplicitThis": true,
20 |     "useUnknownInCatchVariables": true,
21 |     "alwaysStrict": true,
22 | 
23 |     /* Linter Checks */
24 |     "noUnusedLocals": true,
25 |     "noUnusedParameters": true,
26 |     "exactOptionalPropertyTypes": true,
27 |     "noImplicitReturns": true,
28 |     "noFallthroughCasesInSwitch": true,
29 |     "noUncheckedIndexedAccess": true,
30 |     "noImplicitOverride": true,
31 |     "noPropertyAccessFromIndexSignature": true,
32 | 
33 |     /* Module Resolution */
34 |     "module": "NodeNext",
35 |     "moduleResolution": "NodeNext",
36 | 
37 |     /* Emit */
38 |     "outDir": "dist",
39 |     "declaration": true,
40 |     "sourceMap": true,
41 |     "removeComments": false,
42 | 
43 |     /* Other */
44 |     "forceConsistentCasingInFileNames": true
45 |   },
46 |   "include": ["src/**/*.ts", "src/types/**/*.d.ts"],
47 |   "exclude": [
48 |     "node_modules",
49 |     "build",
50 |     "dist",
51 |     "**/*.test.ts",
52 |     "**/*.spec.ts",
53 |     "**/*.bench.ts"
54 |   ]
55 | }
56 | 
```

--------------------------------------------------------------------------------
/.github/dependabot.yml:
--------------------------------------------------------------------------------

```yaml
 1 | # .github/dependabot.yml
 2 | version: 2
 3 | updates:
 4 |   # Dependency updates for npm
 5 |   - package-ecosystem: 'npm'
 6 |     directory: '/' # Location of package manifests
 7 |     schedule:
 8 |       interval: 'weekly' # Check for updates weekly
 9 |     open-pull-requests-limit: 10 # Limit open PRs
10 |     versioning-strategy: 'auto' # Use default strategy
11 |     # Allow only non-major updates for production dependencies initially
12 |     allow:
13 |       - dependency-type: 'production'
14 |         update-types:
15 |           ['version-update:semver-minor', 'version-update:semver-patch']
16 |       - dependency-type: 'development'
17 |         update-types:
18 |           [
19 |             'version-update:semver-major',
20 |             'version-update:semver-minor',
21 |             'version-update:semver-patch',
22 |           ]
23 |     commit-message:
24 |       prefix: 'chore' # Use 'chore' for dependency updates
25 |       prefix-development: 'chore(dev)' # Use 'chore(dev)' for devDependencies
26 |       include: 'scope'
27 |     rebase-strategy: 'auto' # Automatically rebase PRs
28 | 
29 |   # GitHub Actions updates
30 |   - package-ecosystem: 'github-actions'
31 |     directory: '/' # Location of workflow files
32 |     schedule:
33 |       interval: 'weekly' # Check for updates weekly
34 |     open-pull-requests-limit: 5 # Limit open PRs for actions
35 |     commit-message:
36 |       prefix: 'chore(ci)' # Use 'chore(ci)' for action updates
37 |       include: 'scope'
38 |     rebase-strategy: 'auto'
39 | 
```

--------------------------------------------------------------------------------
/src/utils/stats-utils.ts:
--------------------------------------------------------------------------------

```typescript
 1 | import type { Stats } from 'node:fs';
 2 | 
 3 | // Define and export the return type interface
 4 | export interface FormattedStats {
 5 |   // Add export keyword
 6 |   path: string;
 7 |   isFile: boolean;
 8 |   isDirectory: boolean;
 9 |   isSymbolicLink: boolean;
10 |   size: number;
11 |   atime: string;
12 |   mtime: string;
13 |   ctime: string;
14 |   birthtime: string;
15 |   mode: string;
16 |   uid: number;
17 |   gid: number;
18 | }
19 | 
20 | /**
21 |  * Formats an fs.Stats object into a standardized structure for MCP responses.
22 |  * @param relativePath The original relative path requested.
23 |  * @param absolutePath The resolved absolute path of the item.
24 |  * @param stats The fs.Stats object.
25 |  * @returns A formatted stats object.
26 |  */
27 | export const formatStats = (
28 |   relativePath: string,
29 |   _absolutePath: string, // Unused parameter
30 |   stats: Stats,
31 | ): FormattedStats => {
32 |   // Add return type annotation
33 |   // Ensure mode is represented as a 3-digit octal string
34 |   const modeOctal = (stats.mode & 0o777).toString(8).padStart(3, '0');
35 |   return {
36 |     path: relativePath.replaceAll('\\', '/'), // Ensure forward slashes for consistency
37 |     isFile: stats.isFile(),
38 |     isDirectory: stats.isDirectory(),
39 |     isSymbolicLink: stats.isSymbolicLink(),
40 |     size: stats.size,
41 |     atime: stats.atime.toISOString(),
42 |     mtime: stats.mtime.toISOString(),
43 |     ctime: stats.ctime.toISOString(),
44 |     birthtime: stats.birthtime.toISOString(),
45 |     mode: modeOctal,
46 |     uid: stats.uid,
47 |     gid: stats.gid,
48 |   };
49 | };
50 | 
```

--------------------------------------------------------------------------------
/docs/index.md:
--------------------------------------------------------------------------------

```markdown
 1 | ---
 2 | layout: home
 3 | 
 4 | hero:
 5 |   name: Filesystem MCP Server
 6 |   text: Secure & Efficient Filesystem Access for AI Agents
 7 |   tagline: Empower your AI agents (like Cline/Claude) with secure, efficient, and token-saving access to your project files via the Model Context Protocol.
 8 |   image:
 9 |     # Replace with a relevant logo/image if available
10 |     # src: /logo.svg
11 |     # alt: Filesystem MCP Server Logo
12 |   actions:
13 |     - theme: brand
14 |       text: Get Started
15 |       link: /guide/introduction
16 |     - theme: alt
17 |       text: View on GitHub
18 |       link: https://github.com/sylphlab/filesystem-mcp
19 | 
20 | features:
21 |   - title: 🛡️ Secure by Design
22 |     details: All operations are strictly confined to the project root directory, preventing unauthorized access. Uses relative paths.
23 |   - title: ⚡ Optimized for AI
24 |     details: Batch operations minimize AI-server round trips, reducing token usage and latency compared to individual commands.
25 |   - title: 🔧 Comprehensive Toolkit
26 |     details: Offers a wide range of tools covering file/directory listing, reading, writing, editing, searching, moving, copying, and more.
27 |   - title: ✅ Robust & Reliable
28 |     details: Uses Zod for argument validation and provides detailed results for batch operations, indicating success or failure for each item.
29 |   - title: 🚀 Easy Integration
30 |     details: Get started quickly using npx or Docker with minimal configuration in your MCP host environment.
31 |   - title: 🤝 Open Source
32 |     details: MIT Licensed and open to contributions.
33 | ---
34 | 
```

--------------------------------------------------------------------------------
/__tests__/utils/error-utils.test.ts:
--------------------------------------------------------------------------------

```typescript
 1 | import { describe, it, expect } from 'vitest';
 2 | import { formatFileProcessingError } from '../../src/utils/error-utils';
 3 | 
 4 | describe('errorUtils', () => {
 5 |   describe('formatFileProcessingError', () => {
 6 |     it('should handle ENOENT errors', () => {
 7 |       const error = new Error('Not found');
 8 |       (error as any).code = 'ENOENT';
 9 |       const result = formatFileProcessingError(error, '/path', 'file.txt', '/project');
10 |       expect(result).toContain('File not found at resolved path');
11 |     });
12 | 
13 |     it('should handle EACCES errors', () => {
14 |       const error = new Error('Permission denied');
15 |       (error as any).code = 'EACCES';
16 |       const result = formatFileProcessingError(error, '/path', 'file.txt', '/project');
17 |       expect(result).toContain('Permission denied for file');
18 |     });
19 | 
20 |     it('should handle generic Error objects', () => {
21 |       const result = formatFileProcessingError(
22 |         new Error('Test error'),
23 |         '/path',
24 |         'file.txt',
25 |         '/project',
26 |       );
27 |       expect(result).toContain('Failed to process file file.txt: Test error');
28 |     });
29 | 
30 |     it('should handle non-Error objects', () => {
31 |       const result = formatFileProcessingError('string error', '/path', 'file.txt', '/project');
32 |       expect(result).toContain('Failed to process file file.txt: string error');
33 |     });
34 | 
35 |     it('should handle null/undefined errors', () => {
36 |       const result1 = formatFileProcessingError(null, '/path', 'file.txt', '/project');
37 |       expect(result1).toContain('Failed to process file file.txt: null');
38 | 
39 |       const result2 = formatFileProcessingError(undefined, '/path', 'file.txt', '/project');
40 |       expect(result2).toContain('Failed to process file file.txt: undefined');
41 |     });
42 |   });
43 | });
44 | 
```

--------------------------------------------------------------------------------
/__tests__/setup.ts:
--------------------------------------------------------------------------------

```typescript
 1 | // Module mapping for tests to load correct compiled files
 2 | import { vi } from 'vitest';
 3 | import path from 'node:path';
 4 | 
 5 | // Setup module aliases to redirect imports to the compiled code
 6 | const srcToDistMap = new Map<string, string>();
 7 | 
 8 | // Map all src module paths to their compiled versions
 9 | function mapSourceToCompiledModule(id: string) {
10 |   // Convert import paths from src to dist
11 |   const sourcePattern = /^\.\.\/\.\.\/src\/(.+)$/;
12 | 
13 |   // Check for TypeScript module imports
14 |   if (id.endsWith('.ts')) {
15 |     const match = id.match(sourcePattern);
16 |     if (match) {
17 |       const relativePath = match[1];
18 |       // Remove .ts extension if present
19 |       const basePath = relativePath.endsWith('.ts') ? relativePath.slice(0, -3) : relativePath;
20 | 
21 |       return `${path.resolve(__dirname, '../dist', basePath)}`;
22 |     }
23 |   }
24 | 
25 |   // Check for JavaScript module imports
26 |   if (id.endsWith('.js')) {
27 |     const match = id.match(sourcePattern);
28 |     if (match) {
29 |       const relativePath = match[1];
30 |       const basePath = relativePath.endsWith('.js') ? relativePath.slice(0, -3) : relativePath;
31 | 
32 |       return `${path.resolve(__dirname, '../dist', basePath)}.js`;
33 |     }
34 |   }
35 | 
36 |   // If no match, return the original id
37 |   return id;
38 | }
39 | 
40 | // Register module mock
41 | vi.mock(/^\.\.\/\.\.\/src\/(.+)$/, (importOriginal) => {
42 |   const origPath = importOriginal as string;
43 |   const compiledPath = mapSourceToCompiledModule(origPath);
44 | 
45 |   if (compiledPath !== origPath) {
46 |     srcToDistMap.set(origPath, compiledPath);
47 |     return vi.importActual(compiledPath);
48 |   }
49 | 
50 |   // Fallback to the original import for non-mapped paths
51 |   return vi.importActual(origPath);
52 | });
53 | 
54 | // Debug log - will be visible during test run
55 | console.log('Test setup: Module aliases configured for src to dist mapping');
56 | 
```

--------------------------------------------------------------------------------
/__tests__/handlers/chmod-items.test.ts:
--------------------------------------------------------------------------------

```typescript
 1 | import { vi, describe, it, expect, beforeEach } from 'vitest';
 2 | 
 3 | // 設置模擬模塊
 4 | vi.mock('node:fs', () => ({
 5 |   promises: {
 6 |     chmod: vi.fn().mockName('fs.chmod')
 7 |   }
 8 | }));
 9 | 
10 | vi.mock('../../src/utils/path-utils', () => ({
11 |   resolvePath: vi.fn().mockImplementation((path) =>
12 |     `/project-root/${path}`
13 |   ).mockName('pathUtils.resolvePath'),
14 |   PROJECT_ROOT: '/project-root'
15 | }));
16 | 
17 | describe('chmod-items handler', () => {
18 |   let handler: any;
19 |   let fsMock: any;
20 |   let pathUtilsMock: any;
21 | 
22 |   beforeEach(async () => {
23 |     // 動態導入模擬模塊
24 |     fsMock = (await import('node:fs')).promises;
25 |     pathUtilsMock = await import('../../src/utils/path-utils');
26 |     
27 |     // 重置模擬
28 |     vi.resetAllMocks();
29 |     
30 |     // 設置默認模擬實現
31 |     pathUtilsMock.resolvePath.mockImplementation((path: string) => 
32 |       `/project-root/${path}`
33 |     );
34 |     fsMock.chmod.mockResolvedValue(undefined);
35 |     
36 |     // 動態導入處理程序
37 |     const { chmodItemsToolDefinition } = await import('../../src/handlers/chmod-items');
38 |     handler = chmodItemsToolDefinition.handler;
39 |   });
40 | 
41 |   it('should change permissions for valid paths', async () => {
42 |     const result = await handler({
43 |       paths: ['file1.txt', 'dir/file2.txt'],
44 |       mode: '755'
45 |     });
46 | 
47 |     expect(fsMock.chmod).toHaveBeenCalledTimes(2);
48 |     expect(JSON.parse(result.content[0].text)).toEqual([
49 |       { path: 'file1.txt', mode: '755', success: true },
50 |       { path: 'dir/file2.txt', mode: '755', success: true }
51 |     ]);
52 |   });
53 | 
54 |   it('should handle multiple operations with mixed results', async () => {
55 |     fsMock.chmod
56 |       .mockResolvedValueOnce(undefined)
57 |       .mockRejectedValueOnce({ code: 'EPERM' });
58 | 
59 |     const result = await handler({
60 |       paths: ['file1.txt', 'file2.txt'],
61 |       mode: '755'
62 |     });
63 | 
64 |     const output = JSON.parse(result.content[0].text);
65 |     expect(output[0].success).toBe(true);
66 |     expect(output[1].success).toBe(false);
67 |   });
68 | });
```

--------------------------------------------------------------------------------
/vitest.config.ts:
--------------------------------------------------------------------------------

```typescript
 1 | import { defineConfig } from 'vitest/config';
 2 | 
 3 | export default defineConfig({
 4 |   test: {
 5 |     globals: true, // Use Vitest globals (describe, it, expect, etc.)
 6 |     environment: 'node', // Set the test environment to Node.js
 7 |     coverage: {
 8 |       provider: 'v8', // Use V8 for coverage collection
 9 |       reporter: ['text', 'json', 'html', 'lcov'], // Added lcov reporter
10 |       reportsDirectory: './coverage', // Explicitly set the output directory
11 |       thresholds: {
12 |         lines: 90,
13 |         functions: 90,
14 |         branches: 90,
15 |         statements: 90,
16 |       },
17 |       include: ['src/**/*.ts'], // Restored include
18 |       exclude: [
19 |         // Restored and adjusted exclude
20 |         'src/index.ts', // Often just exports
21 |         'src/types/**', // Assuming types might be added later
22 |         '**/*.d.ts',
23 |         '**/*.config.ts',
24 |         '**/constants.ts', // Assuming constants might be added later
25 |         'src/handlers/chmodItems.ts', // Exclude due to Windows limitations
26 |         'src/handlers/chownItems.ts', // Exclude due to Windows limitations
27 |       ],
28 |       clean: true, // Added clean option
29 |     },
30 |     deps: {
31 |       optimizer: {
32 |         ssr: {
33 |           // Suggested replacement for deprecated 'inline' to handle problematic ESM dependencies
34 |           include: [
35 |             '@modelcontextprotocol/sdk',
36 |             '@modelcontextprotocol/sdk/stdio',
37 |             '@modelcontextprotocol/sdk/dist/types', // Add specific dist path
38 |             '@modelcontextprotocol/sdk/dist/server', // Add specific dist path
39 |           ],
40 |         },
41 |       },
42 |     },
43 |     // Exclude the problematic index test again
44 |     exclude: [
45 |       '**/node_modules/**', // Keep default excludes
46 |       '**/dist/**',
47 |       '**/cypress/**',
48 |       '**/.{idea,git,cache,output,temp}/**',
49 |       '**/{karma,rollup,webpack,vite,vitest,jest,ava,babel,nyc,cypress,tsup,build}.config.*',
50 |       '__tests__/index.test.ts', // Exclude the index test
51 |       '**/*.bench.ts', // Added benchmark file exclusion
52 |     ],
53 |   },
54 | });
```

--------------------------------------------------------------------------------
/memory-bank/activeContext.md:
--------------------------------------------------------------------------------

```markdown
 1 | <!-- Version: 4.39 | Last Updated: 2025-07-04 | Updated By: Sylph -->
 2 | 
 3 | # Active Context: Filesystem MCP Server
 4 | 
 5 | ## 1. Current Work Focus & Status
 6 | 
 7 | **Task:** Implement `apply_diff` tool.
 8 | **Status:** Completed configuration alignment and file renaming based on `guidelines/typescript/style_quality.md` (SHA: 9d56a9d...). ESLint check (with `--no-cache`) confirms **no errors**. `import/no-unresolved` rule was temporarily disabled but seems unnecessary now.
 9 | ## 2. Recent Changes/Decisions
10 | 
11 | - **Configuration Alignment:**
12 |     - Updated `package.json`: Added ESLint dependencies (`eslint-config-airbnb-typescript`, `eslint-plugin-import`, `eslint-plugin-unicorn`), updated scripts (`lint`, `validate`), updated `lint-staged`.
13 |     - Created `.eslintrc.js` based on guideline template.
14 |     - Deleted old `eslint.config.js`.
15 |     - Updated `.prettierrc.js` (formerly `.cjs`) content and filename based on guideline.
16 |     - Updated `tsconfig.json`: Set `module` and `moduleResolution` to `NodeNext`.
17 | - **Guideline Checksum:** Updated `memory-bank/techContext.md` with the latest SHA for `style_quality.md`.
18 | - (Previous changes remain relevant)
19 | 
20 | ## 3. Next Steps
21 | 
22 | 1.  **NEXT:** Rename `__tests__/testUtils.ts` to `__tests__/test-utils.ts`.
23 | 2.  **DONE:** ESLint errors fixed (confirmed via `--no-cache`).
24 | 3.  **DONE:** Verified `import/no-unresolved` rule (re-enabled in `eslint.config.ts`, no errors reported).
25 | 4.  **DONE:** Verified tests in `__tests__/handlers/apply-diff.test.ts` are passing.
26 | 5.  **NEXT:** Enhance `apply_diff` tests further (edge cases, large files).
27 | 6.  Consider adding performance benchmarks for `apply_diff`.
28 | 7.  Update `README.md` with details about the new `apply_diff` tool and remove mentions of `edit_file`.
29 | 
30 | ## 4. Active Decisions
31 | 
32 | - **Skipped Tests:** `chmodItems`, `chownItems` (Windows limitations), `searchFiles` zero-width regex test (implementation complexity).
33 | - Temporarily skipping full ESLint validation pass to focus on completing the `apply_diff` implementation and basic testing.
34 | - (Previous decisions remain active unless superseded).
35 | 
```

--------------------------------------------------------------------------------
/__tests__/handlers/apply-diff.test.ts:
--------------------------------------------------------------------------------

```typescript
 1 | import { describe, it, expect, vi, beforeEach } from 'vitest';
 2 | import { handleApplyDiffInternal, handleApplyDiff } from '../../src/handlers/apply-diff';
 3 | import type { FileDiff } from '../../src/schemas/apply-diff-schema';
 4 | 
 5 | describe('applyDiff Handler', () => {
 6 |   const mockDeps = {
 7 |     path: {
 8 |       resolve: vi.fn((root, path) => `${root}/${path}`),
 9 |     },
10 |     writeFile: vi.fn(),
11 |     readFile: vi.fn().mockResolvedValue(''),
12 |     projectRoot: '/project',
13 |   };
14 | 
15 |   beforeEach(() => {
16 |     vi.resetAllMocks();
17 |   });
18 | 
19 |   describe('handleApplyDiffInternal', () => {
20 |     it('should return success on successful write', async () => {
21 |       mockDeps.writeFile.mockResolvedValue('');
22 |       const result = await handleApplyDiffInternal('file.txt', 'content', mockDeps);
23 |       expect(result.success).toBe(true);
24 |       expect(result.results[0].success).toBe(true);
25 |     });
26 | 
27 |     it('should handle write errors', async () => {
28 |       mockDeps.writeFile.mockRejectedValue(new Error('Write failed'));
29 |       const result = await handleApplyDiffInternal('file.txt', 'content', mockDeps);
30 |       expect(result.success).toBe(false);
31 |       expect(result.results[0].success).toBe(false);
32 |       expect(result.results[0].error).toBeDefined();
33 |     });
34 |   });
35 | 
36 |   describe('handleApplyDiff', () => {
37 |     it('should handle empty changes', async () => {
38 |       const result = await handleApplyDiff([], mockDeps);
39 |       expect(result.success).toBe(true);
40 |       expect(result.results).toEqual([]);
41 |     });
42 | 
43 |     it('should process multiple files', async () => {
44 |       mockDeps.writeFile.mockResolvedValue('');
45 |       const changes: FileDiff[] = [
46 |         { path: 'file1.txt', diffs: [] },
47 |         { path: 'file2.txt', diffs: [] },
48 |       ];
49 |       const result = await handleApplyDiff(changes, mockDeps);
50 |       expect(result.results.length).toBe(2);
51 |       expect(result.success).toBe(true);
52 |     });
53 | 
54 |     it('should handle mixed success/failure', async () => {
55 |       mockDeps.writeFile.mockResolvedValueOnce('').mockRejectedValueOnce(new Error('Failed'));
56 |       const changes: FileDiff[] = [
57 |         { path: 'file1.txt', diffs: [] },
58 |         { path: 'file2.txt', diffs: [] },
59 |       ];
60 |       const result = await handleApplyDiff(changes, mockDeps);
61 |       expect(result.results.length).toBe(2);
62 |       expect(result.success).toBe(false);
63 |     });
64 |   });
65 | });
66 | 
```

--------------------------------------------------------------------------------
/src/utils/string-utils.ts:
--------------------------------------------------------------------------------

```typescript
 1 | // src/utils/stringUtils.ts
 2 | 
 3 | /**
 4 |  * Escapes special characters in a string for use in a regular expression.
 5 |  * @param str The string to escape.
 6 |  * @returns The escaped string.
 7 |  */
 8 | export function escapeRegex(str: string): string {
 9 |   // Escape characters with special meaning either inside or outside character sets.
10 |   // Use a simple backslash escape for characters like *, +, ?, ^, $, {}, (), |, [], \.
11 |   // - Outside character sets, escape special characters: * + ? ^ $ { } ( ) | [ ] \
12 |   // - Inside character sets, escape special characters: ^ - ] \
13 |   // This function handles the common cases for use outside character sets.
14 |   return str.replaceAll(/[$()*+.?[\\\]^{|}]/g, '\\$&'); // $& means the whole matched string. Manually escape backslash.
15 | }
16 | 
17 | /**
18 |  * Gets the leading whitespace (indentation) of a line.
19 |  * @param line The line to check.
20 |  * @returns The leading whitespace, or an empty string if no line or no whitespace.
21 |  */
22 | export function getIndentation(line: string | undefined): string {
23 |   if (!line) return '';
24 |   const match = /^\s*/.exec(line);
25 |   return match ? match[0] : '';
26 | }
27 | 
28 | /**
29 |  * Applies indentation to each line of a multi-line string.
30 |  * @param content The content string.
31 |  * @param indent The indentation string to apply.
32 |  * @returns An array of indented lines.
33 |  */
34 | export function applyIndentation(content: string, indent: string): string[] {
35 |   return content.split('\n').map((line) => indent + line);
36 | }
37 | 
38 | /**
39 |  * Checks if two lines match, optionally ignoring leading whitespace on the file line.
40 |  * @param fileLine The line from the file content.
41 |  * @param searchLine The line from the search pattern.
42 |  * @param ignoreLeadingWhitespace Whether to ignore leading whitespace on the file line.
43 |  * @returns True if the lines match according to the rules.
44 |  */
45 | export function linesMatch(
46 |   fileLine: string | undefined,
47 |   searchLine: string | undefined,
48 |   ignoreLeadingWhitespace: boolean,
49 | ): boolean {
50 |   if (fileLine === undefined || searchLine === undefined) {
51 |     return false;
52 |   }
53 |   const trimmedSearchLine = searchLine.trimStart();
54 |   // Always trim fileLine if ignoring whitespace, compare against trimmed searchLine
55 |   const effectiveFileLine = ignoreLeadingWhitespace ? fileLine.trimStart() : fileLine;
56 |   const effectiveSearchLine = ignoreLeadingWhitespace ? trimmedSearchLine : searchLine;
57 |   return effectiveFileLine === effectiveSearchLine;
58 | }
59 | 
```

--------------------------------------------------------------------------------
/src/handlers/apply-diff.ts:
--------------------------------------------------------------------------------

```typescript
 1 | import type { ApplyDiffOutput, DiffApplyResult } from '../schemas/apply-diff-schema.js';
 2 | import { formatFileProcessingError } from '../utils/error-utils.js';
 3 | import { applyDiffsToFileContent } from '../utils/apply-diff-utils.js';
 4 | import type { FileSystemDependencies } from './common.js';
 5 | 
 6 | export async function handleApplyDiffInternal(
 7 |   filePath: string,
 8 |   content: string,
 9 |   deps: FileSystemDependencies,
10 | ): Promise<ApplyDiffOutput> {
11 |   const resolvedPath = deps.path.resolve(deps.projectRoot, filePath);
12 | 
13 |   try {
14 |     await deps.writeFile(resolvedPath, content, 'utf8'); // Use utf-8
15 |     return {
16 |       success: true,
17 |       results: [
18 |         {
19 |           path: filePath,
20 |           success: true,
21 |         },
22 |       ],
23 |     };
24 |   } catch (error) {
25 |     const errorMessage =
26 |       error instanceof Error
27 |         ? formatFileProcessingError(error, resolvedPath, filePath, deps.projectRoot)
28 |         : `Unknown error occurred while processing ${filePath}`;
29 | 
30 |     return {
31 |       success: false,
32 |       results: [
33 |         {
34 |           path: filePath,
35 |           success: false,
36 |           error: errorMessage,
37 |           context: errorMessage.includes('ENOENT') ? 'File not found' : 'Error writing file',
38 |         },
39 |       ],
40 |     };
41 |   }
42 | }
43 | 
44 | async function applyDiffsToContent(
45 |   originalContent: string,
46 |   diffs: {
47 |     search: string;
48 |     replace: string;
49 |     start_line: number;
50 |     end_line: number;
51 |   }[],
52 |   filePath: string,
53 | ): Promise<string> {
54 |   const result = applyDiffsToFileContent(originalContent, diffs, filePath);
55 |   if (!result.success) {
56 |     throw new Error(result.error || 'Failed to apply diffs');
57 |   }
58 |   return result.newContent || originalContent;
59 | }
60 | 
61 | export async function handleApplyDiff(
62 |   changes: {
63 |     path: string;
64 |     diffs: {
65 |       search: string;
66 |       replace: string;
67 |       start_line: number;
68 |       end_line: number;
69 |     }[];
70 |   }[],
71 |   deps: FileSystemDependencies,
72 | ): Promise<ApplyDiffOutput> {
73 |   const results: DiffApplyResult[] = [];
74 | 
75 |   for (const change of changes) {
76 |     const { path: filePath, diffs } = change;
77 |     const originalContent = await deps.readFile(
78 |       deps.path.resolve(deps.projectRoot, filePath),
79 |       'utf8',
80 |     );
81 |     const newContent = await applyDiffsToContent(originalContent, diffs, filePath);
82 |     const result = await handleApplyDiffInternal(filePath, newContent, deps);
83 |     results.push(...result.results);
84 |   }
85 | 
86 |   return {
87 |     success: results.every((r) => r.success),
88 |     results,
89 |   };
90 | }
91 | 
```

--------------------------------------------------------------------------------
/CHANGELOG.md:
--------------------------------------------------------------------------------

```markdown
 1 | # Changelog
 2 | 
 3 | All notable changes to this project will be documented in this file.
 4 | 
 5 | The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
 6 | and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 7 | 
 8 | ## [0.5.9] - 2025-06-04
 9 | 
10 | ### Changed
11 | 
12 | - Updated project ownership to `sylphlab`.
13 | - Updated package name to `@sylphlab/filesystem-mcp`.
14 | - Updated `README.md`, `LICENSE`, and GitHub Actions workflow (`publish.yml`) to reflect new ownership and package name.
15 | 
16 | ## [0.5.8] - 2025-04-05
17 | 
18 | ### Fixed
19 | 
20 | - Removed `build` directory exclusion from `.dockerignore` to fix Docker build context error where `COPY build ./build` failed.
21 | 
22 | ## [0.5.7] - 2025-04-05
23 | 
24 | ### Fixed
25 | 
26 | - Corrected artifact archiving in CI/CD workflow (`.github/workflows/publish.yml`) to include the `build` directory itself, resolving Docker build context errors (5f5c7c4).
27 | 
28 | ## [0.5.6] - 2025-05-04
29 | 
30 | ### Fixed
31 | 
32 | - Corrected CI/CD artifact handling (`package-lock.json` inclusion, extraction paths) in `publish.yml` to ensure successful npm and Docker publishing (4372afa).
33 | - Simplified CI/CD structure back to a single workflow (`publish.yml`) with conditional artifact upload, removing `ci.yml` and `build-reusable.yml` (38029ca).
34 | 
35 | ### Changed
36 | 
37 | - Bumped version to 0.5.6 due to previous failed release attempt of 0.5.5.
38 | 
39 | ## [0.5.5] - 2025-05-04
40 | 
41 | ### Changed
42 | 
43 | - Refined GitHub Actions workflow (`publish.yml`) triggers: publishing jobs (`publish-npm`, `publish-docker`, `create-release`) now run _only_ on version tag pushes (`v*.*.*`), not on pushes to `main` (9c0df99).
44 | 
45 | ### Fixed
46 | 
47 | - Corrected artifact extraction path in the `publish-docker` CI/CD job to resolve "Dockerfile not found" error (708d3f5).
48 | 
49 | ## [0.5.3] - 2025-05-04
50 | 
51 | ### Added
52 | 
53 | - Enhanced path error reporting in `resolvePath` to include original path, resolved path, and project root for better debugging context (3810f14).
54 | - Created `.clinerules` file to document project-specific patterns and preferences, starting with tool usage recommendations (3810f14).
55 | - Enhanced `ENOENT` (File not found) error reporting in `readContent` handler to include resolved path, relative path, and project root (8b82e1c).
56 | 
57 | ### Changed
58 | 
59 | - Updated `write_content` tool description to recommend using edit tools (`edit_file`, `replace_content`) for modifications (5521102).
60 | - Updated `edit_file` tool description to reinforce its recommendation for modifications (5e44ef2).
61 | - Refactored GitHub Actions workflow (`publish.yml`) to parallelize npm and Docker publishing using separate jobs dependent on a shared build job, improving release speed (3b51c2b).
62 | - Bumped version to 0.5.3.
63 | 
64 | ### Fixed
65 | 
66 | - Corrected TypeScript errors in `readContent.ts` related to variable scope and imports during error reporting enhancement (8b82e1c).
67 | 
68 | <!-- Previous versions can be added below -->
69 | 
```

--------------------------------------------------------------------------------
/__tests__/utils/stats-utils.test.ts:
--------------------------------------------------------------------------------

```typescript
 1 | import { describe, it, expect } from 'vitest';
 2 | import { formatStats, FormattedStats } from '../../src/utils/stats-utils';
 3 | 
 4 | function makeMockStats(partial: Partial<Record<keyof FormattedStats, any>> = {}): any {
 5 |   // Provide default values and allow overrides
 6 |   return {
 7 |     isFile: () => partial.isFile ?? true,
 8 |     isDirectory: () => partial.isDirectory ?? false,
 9 |     isSymbolicLink: () => partial.isSymbolicLink ?? false,
10 |     size: partial.size ?? 1234,
11 |     atime: partial.atime ?? new Date('2024-01-01T01:02:03.000Z'),
12 |     mtime: partial.mtime ?? new Date('2024-01-02T01:02:03.000Z'),
13 |     ctime: partial.ctime ?? new Date('2024-01-03T01:02:03.000Z'),
14 |     birthtime: partial.birthtime ?? new Date('2024-01-04T01:02:03.000Z'),
15 |     mode: partial.mode ?? 0o755,
16 |     uid: partial.uid ?? 1000,
17 |     gid: partial.gid ?? 1000,
18 |   };
19 | }
20 | 
21 | describe('formatStats', () => {
22 |   it('formats a regular file', () => {
23 |     const stats = makeMockStats({ isFile: true, isDirectory: false, isSymbolicLink: false, mode: 0o644 });
24 |     const result = formatStats('foo\\bar.txt', '/abs/foo/bar.txt', stats as any);
25 |     expect(result).toEqual({
26 |       path: 'foo/bar.txt',
27 |       isFile: true,
28 |       isDirectory: false,
29 |       isSymbolicLink: false,
30 |       size: 1234,
31 |       atime: '2024-01-01T01:02:03.000Z',
32 |       mtime: '2024-01-02T01:02:03.000Z',
33 |       ctime: '2024-01-03T01:02:03.000Z',
34 |       birthtime: '2024-01-04T01:02:03.000Z',
35 |       mode: '644',
36 |       uid: 1000,
37 |       gid: 1000,
38 |     });
39 |   });
40 | 
41 |   it('formats a directory', () => {
42 |     const stats = makeMockStats({ isFile: false, isDirectory: true, isSymbolicLink: false, mode: 0o755 });
43 |     const result = formatStats('dir\\', '/abs/dir', stats as any);
44 |     expect(result.isDirectory).toBe(true);
45 |     expect(result.isFile).toBe(false);
46 |     expect(result.mode).toBe('755');
47 |   });
48 | 
49 |   it('formats a symbolic link', () => {
50 |     const stats = makeMockStats({ isFile: false, isDirectory: false, isSymbolicLink: true, mode: 0o777 });
51 |     const result = formatStats('link', '/abs/link', stats as any);
52 |     expect(result.isSymbolicLink).toBe(true);
53 |     expect(result.mode).toBe('777');
54 |   });
55 | 
56 |   it('pads mode with leading zeros', () => {
57 |     const stats = makeMockStats({ mode: 0o7 });
58 |     const result = formatStats('file', '/abs/file', stats as any);
59 |     expect(result.mode).toBe('007');
60 |   });
61 | 
62 |   it('converts all date fields to ISO string', () => {
63 |     const stats = makeMockStats({
64 |       atime: new Date('2020-01-01T00:00:00.000Z'),
65 |       mtime: new Date('2020-01-02T00:00:00.000Z'),
66 |       ctime: new Date('2020-01-03T00:00:00.000Z'),
67 |       birthtime: new Date('2020-01-04T00:00:00.000Z'),
68 |     });
69 |     const result = formatStats('file', '/abs/file', stats as any);
70 |     expect(result.atime).toBe('2020-01-01T00:00:00.000Z');
71 |     expect(result.mtime).toBe('2020-01-02T00:00:00.000Z');
72 |     expect(result.ctime).toBe('2020-01-03T00:00:00.000Z');
73 |     expect(result.birthtime).toBe('2020-01-04T00:00:00.000Z');
74 |   });
75 | 
76 |   it('replaces backslashes in path with forward slashes', () => {
77 |     const stats = makeMockStats();
78 |     const result = formatStats('foo\\bar\\baz.txt', '/abs/foo/bar/baz.txt', stats as any);
79 |     expect(result.path).toBe('foo/bar/baz.txt');
80 |   });
81 | });
```

--------------------------------------------------------------------------------
/eslint.config.ts:
--------------------------------------------------------------------------------

```typescript
  1 | import eslint from "@eslint/js";
  2 | import tseslint from "typescript-eslint";
  3 | import prettierConfig from "eslint-config-prettier";
  4 | // import unicornPlugin from "eslint-plugin-unicorn"; // Keep commented out for now
  5 | import importPlugin from "eslint-plugin-import";
  6 | import globals from "globals";
  7 | 
  8 | export default tseslint.config(
  9 |   // Global ignores
 10 |   {
 11 |     ignores: [
 12 |       "node_modules/",
 13 |       "dist/",
 14 |       "build/",
 15 |       "coverage/",
 16 |       "docs/.vitepress/dist/",
 17 |       "docs/.vitepress/cache/",
 18 |     ],
 19 |   },
 20 | 
 21 |   // Apply recommended rules globally
 22 |   eslint.configs.recommended,
 23 |   ...tseslint.configs.recommended,
 24 |   // ...tseslint.configs.recommendedTypeChecked, // Enable later if needed
 25 | 
 26 |   // Configuration for SOURCE TypeScript files (requiring type info)
 27 |   {
 28 |     files: ["src/**/*.ts"], // Apply project-specific parsing only to src files
 29 |     languageOptions: {
 30 |       parserOptions: {
 31 |         project: true, // Enable project-based parsing ONLY for src files
 32 |         tsconfigRootDir: import.meta.dirname,
 33 |       },
 34 |       globals: {
 35 |         ...globals.node,
 36 |       },
 37 |     },
 38 |     rules: {
 39 |       // Add specific rules for source TS if needed
 40 |     },
 41 |   },
 42 | 
 43 |   // Configuration for OTHER TypeScript files (tests, configs - NO type info needed)
 44 |   {
 45 |     files: ["__tests__/**/*.ts", "*.config.ts", "*.config.js"], // Include JS configs here too
 46 |     languageOptions: {
 47 |       parserOptions: {
 48 |         project: null, // Explicitly disable project-based parsing for these files
 49 |       },
 50 |       globals: {
 51 |         ...globals.node,
 52 |         // Removed ...globals.vitest
 53 |       },
 54 |     },
 55 |     rules: {
 56 |       // Relax rules if needed for tests/configs, e.g., allow console in tests
 57 |       "no-console": "off", // Allow console.log in tests and configs
 58 |       "@typescript-eslint/no-explicit-any": "off", // Allow 'any' in test files
 59 |       // Potentially disable rules that rely on type info if they cause issues
 60 |       // "@typescript-eslint/no-unsafe-assignment": "off",
 61 |       // "@typescript-eslint/no-unsafe-call": "off",
 62 |       // "@typescript-eslint/no-unsafe-member-access": "off",
 63 |     },
 64 |   },
 65 | 
 66 |   // Configuration for OTHER JavaScript files (if any)
 67 |   // Note: *.config.js is handled above now. Keep this for other potential JS files.
 68 |   {
 69 |     files: ["**/*.js", "**/*.cjs"],
 70 |     ignores: ["*.config.js"], // Ignore config files already handled
 71 |     languageOptions: {
 72 |       globals: {
 73 |         ...globals.node,
 74 |       },
 75 |     },
 76 |     rules: {
 77 |       // Add specific rules for other JS if needed
 78 |     },
 79 |   },
 80 | 
 81 |   // Apply Prettier config last to override other formatting rules
 82 |   prettierConfig,
 83 | 
 84 |   // Add other plugins/configs as needed
 85 |   // Example: Unicorn plugin (ensure installed)
 86 |   /*
 87 |   {
 88 |     plugins: {
 89 |       unicorn: unicornPlugin,
 90 |     },
 91 |     rules: {
 92 |       ...unicornPlugin.configs.recommended.rules,
 93 |       // Override specific unicorn rules if needed
 94 |     },
 95 |   },
 96 |   */
 97 | 
 98 |   // Example: Import plugin (ensure installed and configured)
 99 |     {
100 |       plugins: {
101 |         import: importPlugin,
102 |       },
103 |       settings: {
104 |         'import/resolver': {
105 |           typescript: true,
106 |           node: true,
107 |         }
108 |       },
109 |       rules: {
110 |          // Add import rules
111 |          'import/no-unresolved': 'error',
112 |       }
113 |     }
114 | );
115 | 
```

--------------------------------------------------------------------------------
/src/schemas/apply-diff-schema.ts:
--------------------------------------------------------------------------------

```typescript
  1 | import { z } from 'zod';
  2 | 
  3 | // Schema for a single diff block
  4 | const diffBlockSchema = z
  5 |   .object({
  6 |     search: z.string().describe('Exact content to find, including whitespace and newlines.'),
  7 |     replace: z.string().describe('Content to replace the search block with.'),
  8 |     start_line: z
  9 |       .number()
 10 |       .int()
 11 |       .min(1)
 12 |       .describe('The 1-based line number where the search block starts.'),
 13 |     end_line: z
 14 |       .number()
 15 |       .int()
 16 |       .min(1)
 17 |       .describe('The 1-based line number where the search block ends.'),
 18 |     operation: z
 19 |       .enum(['insert', 'replace'])
 20 |       .default('replace')
 21 |       .optional()
 22 |       .describe('Type of operation - insert or replace content'),
 23 |   })
 24 |   .describe('A single search/replace operation within a file.');
 25 | 
 26 | // Ensure valid line numbers based on operation type
 27 | const refinedDiffBlockSchema = diffBlockSchema.refine(
 28 |   (data) => {
 29 |     if (data.operation === 'insert') {
 30 |       return data.end_line >= data.start_line - 1;
 31 |     }
 32 |     return data.end_line >= data.start_line;
 33 |   },
 34 |   {
 35 |     message: 'Invalid line numbers for operation type',
 36 |     path: ['end_line'],
 37 |   },
 38 | );
 39 | 
 40 | // Schema for changes to a single file
 41 | const fileDiffSchema = z.object({
 42 |   path: z.string().min(1).describe('Relative path to the file to modify.'),
 43 |   diffs: z
 44 |     .array(refinedDiffBlockSchema)
 45 |     .min(1)
 46 |     .describe('Array of diff blocks to apply to this file.'),
 47 | });
 48 | 
 49 | // Main input schema for the apply_diff tool
 50 | export const applyDiffInputSchema = z.object({
 51 |   changes: z
 52 |     .array(fileDiffSchema)
 53 |     .min(1)
 54 |     .describe('An array of file modification requests.')
 55 |     // Ensure each path appears only once
 56 |     .refine(
 57 |       (changes) => {
 58 |         const paths = changes.map((c) => c.path);
 59 |         return new Set(paths).size === paths.length;
 60 |       },
 61 |       {
 62 |         message: 'Each file path must appear only once in a single request.',
 63 |         path: ['changes'], // Attach error to the main changes array
 64 |       },
 65 |     ),
 66 | });
 67 | 
 68 | export type ApplyDiffInput = z.infer<typeof applyDiffInputSchema>;
 69 | export type FileDiff = z.infer<typeof fileDiffSchema>;
 70 | export type DiffBlock = z.infer<typeof refinedDiffBlockSchema>;
 71 | 
 72 | // Schema for individual diff operation result
 73 | export const diffResultSchema = z.object({
 74 |   operation: z.enum(['insert', 'replace']),
 75 |   start_line: z.number().int().min(1),
 76 |   end_line: z.number().int().min(1),
 77 |   success: z.boolean(),
 78 |   error: z.string().optional(),
 79 |   context: z.string().optional(),
 80 | });
 81 | 
 82 | export type DiffResult = z.infer<typeof diffResultSchema>;
 83 | 
 84 | // Define potential output structure
 85 | const diffApplyResultSchema = z.object({
 86 |   path: z.string(),
 87 |   success: z.boolean(),
 88 |   error: z.string().optional().describe('Detailed error message if success is false.'),
 89 |   context: z.string().optional().describe('Lines around the error location if success is false.'),
 90 |   diffResults: z.array(diffResultSchema).optional(),
 91 | });
 92 | 
 93 | export const applyDiffOutputSchema = z.object({
 94 |   success: z.boolean().describe('True if all operations succeeded.'),
 95 |   results: z.array(diffApplyResultSchema).describe('Results for each file processed.'),
 96 | });
 97 | 
 98 | export type ApplyDiffOutput = z.infer<typeof applyDiffOutputSchema>;
 99 | export type DiffApplyResult = z.infer<typeof diffApplyResultSchema>;
100 | 
```

--------------------------------------------------------------------------------
/memory-bank/projectbrief.md:
--------------------------------------------------------------------------------

```markdown
 1 | <!-- Version: 4.6 | Last Updated: 2025-07-04 | Updated By: Sylph -->
 2 | 
 3 | # Project Brief: Filesystem MCP Server
 4 | 
 5 | ## 1. Project Goal
 6 | 
 7 | The primary goal of this project is to create a Model Context Protocol (MCP)
 8 | server specifically designed for filesystem operations. This server should allow
 9 | an AI agent (like Cline) to interact with the user's filesystem in a controlled
10 | and secure manner, operating relative to a defined project root directory.
11 | 
12 | ## 2. Core Requirements
13 | 
14 | - **MCP Compliance:** The server must adhere to the Model Context Protocol
15 |   specifications for communication.
16 | - **Relative Pathing:** All filesystem operations must be strictly relative to
17 |   the project root directory. Absolute paths should be disallowed, and path
18 |   traversal attempts must be prevented.
19 | - **Core Filesystem Tools:** Implement a comprehensive set of tools for common
20 |   filesystem tasks:
21 |   - `list_files`: List files/directories within a specified directory (options
22 |     for recursion, stats).
23 |   - `stat_items`: Get detailed status information for multiple specified paths.
24 |   - `read_content`: Read content from multiple specified files.
25 |   - `write_content`: Write or append content to multiple specified files
26 |     (creating directories if needed).
27 |   - `delete_items`: Delete multiple specified files or directories.
28 |   - `create_directories`: Create multiple specified directories (including
29 |     intermediate ones).
30 |   - `chmod_items`: Change permissions for multiple specified files/directories.
31 |   - `chown_items`: Change owner (UID) and group (GID) for multiple specified
32 |     files/directories.
33 |   - `move_items`: Move or rename multiple specified files/directories.
34 |   - `copy_items`: Copy multiple specified files/directories.
35 |   - `search_files`: Search for regex patterns within files in a specified
36 |     directory.
37 |   - `replace_content`: Search and replace content within files across multiple
38 |     specified paths (files or directories).
39 |     - `apply_diff`: Applies multiple search/replace diff blocks to multiple files atomically per file.
40 | - **Technology Stack:** Use Node.js and TypeScript. Leverage the
41 |   `@modelcontextprotocol/sdk` for MCP implementation and `glob` for file
42 |   searching/listing.
43 | - **Efficiency:** Tools should be implemented efficiently, especially for
44 |   operations involving multiple files or large directories.
45 | - **Security:** Robust path resolution and validation are critical to prevent
46 |   access outside the designated project root.
47 | 
48 | ## 3. Scope
49 | 
50 | - **In Scope:** Implementation of the MCP server logic, definition of tool
51 |   schemas, handling requests, performing filesystem operations via Node.js `fs`
52 |   and `path` modules, and using `glob`. Basic error handling for common
53 |   filesystem issues (e.g., file not found, permissions).
54 | - **Out of Scope:** Advanced features like file watching, complex permission
55 |   management beyond basic `chmod`, handling extremely large files requiring
56 |   streaming (beyond basic read/write), or integration with version control
57 |   systems.
58 | 
59 | ## 4. Success Criteria
60 | 
61 | - The server compiles successfully using TypeScript.
62 | - The server connects and responds to MCP requests (e.g., `list_tools`).
63 | - All implemented tools function correctly according to their descriptions,
64 |   respecting relative path constraints.
65 | - Path traversal attempts are correctly blocked.
66 | - The server handles basic errors gracefully (e.g., file not found).
67 | 
```

--------------------------------------------------------------------------------
/memory-bank/productContext.md:
--------------------------------------------------------------------------------

```markdown
 1 | <!-- Version: 4.5 | Last Updated: 2025-04-06 | Updated By: Roo -->
 2 | 
 3 | # Product Context: Filesystem MCP Server
 4 | 
 5 | ## 1. Problem Solved
 6 | 
 7 | AI agents like Cline often need to interact with a user's project files to
 8 | perform tasks such as reading code, writing new code, modifying configurations,
 9 | or searching for specific information. Directly granting unrestricted filesystem
10 | access poses significant security risks. Furthermore, requiring the user to
11 | manually perform every filesystem action requested by the agent is inefficient
12 | and hinders the agent's autonomy.
13 | 
14 | This Filesystem MCP server acts as a secure and controlled bridge, solving the
15 | following problems:
16 | 
17 | - **Security:** It confines the agent's filesystem operations strictly within
18 |   the boundaries of the project root directory (determined by the server's
19 |   launch context), preventing accidental or malicious access to sensitive system
20 |   files outside the project scope.
21 | - **Efficiency:** It provides the agent with a dedicated set of tools
22 |   (`list_files`, `read_content`, `write_content`, `move_items`, `copy_items`,
23 |   etc.) to perform common filesystem tasks directly, reducing the need for
24 |   constant user intervention for basic operations.
25 | - **Control:** Operations are performed relative to the project root (determined
26 |   by the server's current working directory at launch), ensuring predictability
27 |   and consistency within that specific project context. **Note:** For
28 |   multi-project support, the system launching the server must set the correct
29 |   working directory for each project instance.
30 | - **Standardization:** It uses the Model Context Protocol (MCP), providing a
31 |   standardized way for the agent and the server to communicate about filesystem
32 |   capabilities and operations.
33 | 
34 | ## 2. How It Should Work
35 | 
36 | - The server runs as a background process, typically managed by the agent's host
37 |   environment (e.g., Cline's VSCode extension).
38 | - It listens for incoming MCP requests over a defined transport (initially
39 |   stdio).
40 | - Upon receiving a `call_tool` request for a filesystem operation:
41 |   1. It validates the request parameters against the tool's schema.
42 |   2. It resolves all provided relative paths against the `PROJECT_ROOT` (which
43 |      is the server process's current working directory, `process.cwd()`).
44 |   3. It performs security checks to ensure paths do not attempt to escape the
45 |      `PROJECT_ROOT` (the server's `cwd`).
46 |   4. It executes the corresponding Node.js filesystem function (`fs.readFile`,
47 |      `fs.writeFile`, `fs.rename`, `glob`, etc.).
48 |   5. It formats the result (or error) according to MCP specifications and sends
49 |      it back to the agent.
50 | - It responds to `list_tools` requests by providing a list of all available
51 |   filesystem tools and their input schemas.
52 | 
53 | ## 3. User Experience Goals
54 | 
55 | - **Seamless Integration:** The server should operate transparently in the
56 |   background. The user primarily interacts with the agent, and the agent
57 |   utilizes the server's tools as needed.
58 | - **Security Assurance:** The user should feel confident that the agent's
59 |   filesystem access is restricted to the intended project directory.
60 | - **Reliability:** The tools should perform filesystem operations reliably and
61 |   predictably. Errors should be reported clearly back to the agent (and
62 |   potentially surfaced to the user by the agent if necessary).
63 | - **Performance:** Filesystem operations should be reasonably fast, not
64 |   introducing significant delays into the agent's workflow.
65 | 
```

--------------------------------------------------------------------------------
/src/handlers/index.ts:
--------------------------------------------------------------------------------

```typescript
 1 | import { listFilesToolDefinition } from './list-files.js';
 2 | import { statItemsToolDefinition } from './stat-items.js';
 3 | import { readContentToolDefinition } from './read-content.js';
 4 | import { writeContentToolDefinition } from './write-content.js';
 5 | import { deleteItemsToolDefinition } from './delete-items.js';
 6 | import { createDirectoriesToolDefinition } from './create-directories.js';
 7 | import { chmodItemsToolDefinition } from './chmod-items.js';
 8 | import { chownItemsToolDefinition } from './chown-items.js';
 9 | import { moveItemsToolDefinition } from './move-items.js';
10 | import { copyItemsToolDefinition } from './copy-items.js';
11 | import { searchFilesToolDefinition } from './search-files.js';
12 | import { replaceContentToolDefinition } from './replace-content.js';
13 | import { handleApplyDiff } from './apply-diff.js';
14 | import { applyDiffInputSchema, ApplyDiffOutput } from '../schemas/apply-diff-schema.js';
15 | import fs from 'node:fs';
16 | import path from 'node:path';
17 | 
18 | // Define the structure for a tool definition (used internally and for index.ts)
19 | import type { ZodType } from 'zod';
20 | import type { McpToolResponse } from '../types/mcp-types.js';
21 | 
22 | // Define local interfaces based on usage observed in handlers
23 | // Define the structure for a tool definition
24 | // Matches the structure in individual tool files like applyDiff.ts
25 | export interface ToolDefinition<TInput = unknown, TOutput = unknown> {
26 |   name: string;
27 |   description: string;
28 |   inputSchema: ZodType<TInput>;
29 |   outputSchema?: ZodType<TOutput>;
30 |   handler: (args: TInput) => Promise<McpToolResponse>; // Changed _args to args
31 | }
32 | 
33 | // Helper type to extract input type from a tool definition
34 | export type ToolInput<T extends ToolDefinition> =
35 |   T extends ToolDefinition<infer I, unknown> ? I : never;
36 | 
37 | // Define a more specific type for our tool definitions to avoid naming conflicts
38 | type HandlerToolDefinition = {
39 |   name: string;
40 |   description: string;
41 |   inputSchema: ZodType<unknown>;
42 |   outputSchema?: ZodType<unknown>;
43 |   handler: (args: unknown) => Promise<{ content: Array<{ type: 'text'; text: string }> }>;
44 | };
45 | 
46 | // Aggregate all tool definitions into a single array
47 | // Use our more specific type to avoid naming conflicts
48 | export const allToolDefinitions: HandlerToolDefinition[] = [
49 |   listFilesToolDefinition,
50 |   statItemsToolDefinition,
51 |   readContentToolDefinition,
52 |   writeContentToolDefinition,
53 |   deleteItemsToolDefinition,
54 |   createDirectoriesToolDefinition,
55 |   chmodItemsToolDefinition,
56 |   chownItemsToolDefinition,
57 |   moveItemsToolDefinition,
58 |   copyItemsToolDefinition,
59 |   searchFilesToolDefinition,
60 |   replaceContentToolDefinition,
61 |   {
62 |     name: 'apply_diff',
63 |     description: 'Apply diffs to files',
64 |     inputSchema: applyDiffInputSchema,
65 |     handler: async (args: unknown): Promise<McpToolResponse> => {
66 |       const validatedArgs = applyDiffInputSchema.parse(args);
67 |       const result: ApplyDiffOutput = await handleApplyDiff(validatedArgs.changes, {
68 |         readFile: async (path: string) => fs.promises.readFile(path, 'utf8'),
69 |         writeFile: async (path: string, content: string) =>
70 |           fs.promises.writeFile(path, content, 'utf8'),
71 |         path,
72 |         projectRoot: process.cwd(),
73 |       });
74 |       return {
75 |         content: [
76 |           {
77 |             type: 'text',
78 |             text: JSON.stringify(
79 |               {
80 |                 success: result.success,
81 |                 results: result.results,
82 |               },
83 |               undefined,
84 |               2,
85 |             ),
86 |           },
87 |         ],
88 |       };
89 |     },
90 |   },
91 | ];
92 | 
```

--------------------------------------------------------------------------------
/memory-bank/techContext.md:
--------------------------------------------------------------------------------

```markdown
 1 | <!-- Version: 4.9 | Last Updated: 2025-07-04 | Updated By: Sylph -->
 2 | 
 3 | # Tech Context: Filesystem MCP Server
 4 | 
 5 | ## Playbook Guideline Versions Checked
 6 | 
 7 | - `guidelines/typescript/style_quality.md`: 9d56a9d6626ecc2fafd0b07033220a1282282236
 8 | 
 9 | # Tech Context: Filesystem MCP Server
10 | 
11 | ## 1. Core Technologies
12 | 
13 | - **Runtime:** Node.js (MUST use latest LTS version, currently v22 - `~22.0.0` specified in `package.json`)
14 | - **Language:** TypeScript (Compiled to JavaScript for execution)
15 | - **Package Manager:** pnpm (Preferred package manager as per guidelines)
16 | - **Testing Framework:** Vitest (using v8 for coverage)
17 | 
18 | ## 2. Key Libraries/Dependencies
19 | 
20 | - **`@modelcontextprotocol/sdk`:** The official SDK for implementing MCP servers and clients.
21 | - **`glob`:** Library for matching files using glob patterns.
22 | - **`typescript`:** TypeScript compiler (`tsc`).
23 | - **`@types/node`:** TypeScript type definitions for Node.js built-in modules.
24 | - **`@types/glob`:** TypeScript type definitions for the `glob` library.
25 | - **`zod`:** Library for schema declaration and validation.
26 | - **`zod-to-json-schema`:** Utility to convert Zod schemas to JSON schemas.
27 | 
28 | - **`vitest`:** Testing framework.
29 | - **`@vitest/coverage-v8`:** Coverage provider for Vitest.
30 | - **`uuid`:** For generating unique IDs (used in testUtils).
31 | - **`@types/uuid`:** TypeScript type definitions for uuid.
32 | 
33 | ## 3. Development Setup
34 | 
35 | - **Source Code:** Located in the `src` directory.
36 | - **Tests:** Located in the `__tests__` directory.
37 | - **Main File:** `src/index.ts`.
38 | - **Configuration:**
39 |   - `tsconfig.json`: Configures the TypeScript compiler options.
40 |   - `vitest.config.ts`: Configures Vitest (test environment, globals, coverage).
41 |   - `package.json`: Defines project metadata, dependencies, and pnpm scripts. - `dependencies`: `@modelcontextprotocol/sdk`, `glob`, `zod`, `zod-to-json-schema`. - `devDependencies`: `typescript`, `@types/node`, `@types/glob`, `vitest`, `@vitest/coverage-v8`, `uuid`, `@types/uuid`, `husky`, `lint-staged`, `@commitlint/cli`, `@commitlint/config-conventional`, `prettier`, `eslint`, `typescript-eslint`, `eslint-plugin-prettier`, `eslint-config-prettier`, `standard-version`, `typedoc`, `typedoc-plugin-markdown`, `vitepress`, `rimraf`, `@changesets/cli`. (List might need verification against actual `package.json`)
42 |     - `scripts`: (Uses `pnpm run ...`)
43 |       - `build`: Compiles TypeScript code. - `watch`: Runs `tsc` in watch mode. - `clean`: `rimraf dist coverage` - `inspector`: `npx @modelcontextprotocol/inspector dist/index.js`
44 |       - `test`: Runs Vitest tests.
45 |       - `test:cov`: Runs Vitest tests with coverage.
46 |       - `validate`: Runs format check, lint, typecheck, and tests.
47 |       - `docs:build`: Builds documentation. - `start`: `node dist/index.js` - `prepare`: `husky` - `prepublishOnly`: `pnpm run clean && pnpm run build` - (Other scripts as defined in `package.json`)
48 | - **Build Output:** Compiled JavaScript code is placed in the `dist` directory.
49 | - **Execution:** The server is intended to be run via `node dist/index.js`.
50 | 
51 | ## 4. Technical Constraints & Considerations
52 | 
53 | - **Node.js Environment:** Relies on Node.js runtime and built-in modules.
54 | - **Permissions:** Server process permissions limit filesystem operations.
55 | - **Cross-Platform Compatibility:** Filesystem behaviors differ. Code uses `path` module and normalizes slashes.
56 | - **Error Handling:** Relies on Node.js error codes and `McpError`.
57 | - **Security Model:** Relies on `resolvePath` function.
58 | - **Project Root Determination:** Uses `process.cwd()`. Launching process must set correct `cwd`.
59 | - **ESM:** Project uses ES Modules. Vitest generally handles ESM well, including mocking.
60 | 
```

--------------------------------------------------------------------------------
/package.json:
--------------------------------------------------------------------------------

```json
  1 | {
  2 |   "name": "@sylphlab/filesystem-mcp",
  3 |   "version": "0.5.9",
  4 |   "description": "An MCP server providing filesystem tools relative to a project root.",
  5 |   "type": "module",
  6 |   "main": "./dist/index.js",
  7 |   "module": "./dist/index.js",
  8 |   "types": "./dist/index.d.ts",
  9 |   "bin": {
 10 |     "filesystem-mcp": "./dist/index.js"
 11 |   },
 12 |   "exports": {
 13 |     ".": {
 14 |       "types": "./dist/index.d.ts",
 15 |       "import": "./dist/index.js"
 16 |     },
 17 |     "./package.json": "./package.json"
 18 |   },
 19 |   "files": [
 20 |     "dist/",
 21 |     "README.md",
 22 |     "LICENSE"
 23 |   ],
 24 |   "engines": {
 25 |     "node": "22.14"
 26 |   },
 27 |   "scripts": {
 28 |     "build": "bun run clean && tsup",
 29 |     "watch": "tsc --watch",
 30 |     "inspector": "npx @modelcontextprotocol/inspector dist/index.js",
 31 |     "test": "vitest run",
 32 |     "test:watch": "vitest watch",
 33 |     "test:cov": "vitest run --coverage --reporter=junit --outputFile=test-report.junit.xml",
 34 |     "lint": "eslint . --ext .ts,.tsx,.vue,.js,.cjs --cache --max-warnings=0",
 35 |     "lint:fix": "eslint . --ext .ts,.tsx,.vue,.js,.cjs --fix --cache",
 36 |     "format": "prettier --write . --cache --ignore-unknown",
 37 |     "check-format": "prettier --check . --cache --ignore-unknown",
 38 |     "validate": "bun run check-format && bun run lint && bun run typecheck && bun run test",
 39 |     "docs:dev": "vitepress dev docs",
 40 |     "docs:build": "bun run docs:api && vitepress build docs",
 41 |     "docs:preview": "vitepress preview docs",
 42 |     "start": "node dist/index.js",
 43 |     "typecheck": "tsc --noEmit",
 44 |     "benchmark": "vitest bench",
 45 |     "clean": "rimraf dist coverage",
 46 |     "docs:api": "node scripts/generate-api-docs.mjs",
 47 |     "prepublishOnly": "bun run clean && bun run build",
 48 |     "changeset": "changeset",
 49 |     "version-packages": "changeset version",
 50 |     "prepare": "husky"
 51 |   },
 52 |   "homepage": "https://github.com/sylphlab/filesystem-mcp#readme",
 53 |   "repository": {
 54 |     "type": "git",
 55 |     "url": "git+https://github.com/sylphlab/filesystem-mcp.git"
 56 |   },
 57 |   "keywords": [
 58 |     "mcp",
 59 |     "model-context-protocol",
 60 |     "filesystem",
 61 |     "file",
 62 |     "directory",
 63 |     "typescript",
 64 |     "node",
 65 |     "cli",
 66 |     "ai",
 67 |     "agent",
 68 |     "tool"
 69 |   ],
 70 |   "author": "Sylph Lab <[email protected]> (https://sylphlab.ai)",
 71 |   "license": "MIT",
 72 |   "bugs": {
 73 |     "url": "https://github.com/sylphlab/filesystem-mcp/issues"
 74 |   },
 75 |   "publishConfig": {
 76 |     "access": "public"
 77 |   },
 78 |   "dependencies": {
 79 |     "@modelcontextprotocol/sdk": "^1.9.0",
 80 |     "glob": "^11.0.1",
 81 |     "zod": "^3.24.2",
 82 |     "zod-to-json-schema": "^3.24.5"
 83 |   },
 84 |   "devDependencies": {
 85 |     "@changesets/cli": "^2.28.1",
 86 |     "@commitlint/cli": "^19.8.0",
 87 |     "@commitlint/config-conventional": "^19.8.0",
 88 |     "@eslint/eslintrc": "^3.3.1",
 89 |     "@eslint/js": "^9.24.0",
 90 |     "@sylphlab/eslint-config-sylph": "^3.3.0",
 91 |     "@sylphlab/typescript-config": "^0.3.1",
 92 |     "@types/glob": "^8.1.0",
 93 |     "@types/node": "^22.14.0",
 94 |     "@types/uuid": "^10.0.0",
 95 |     "@vitest/coverage-v8": "^3.1.1",
 96 |     "eslint": "^9.24.0",
 97 |     "eslint-config-prettier": "^10.1.2",
 98 |     "eslint-import-resolver-typescript": "^3.10.0",
 99 |     "eslint-plugin-import": "^2.31.0",
100 |     "eslint-plugin-prettier": "^5.2.6",
101 |     "eslint-plugin-unicorn": "^55.0.0",
102 |     "husky": "^9.1.7",
103 |     "lint-staged": "^15.5.0",
104 |     "prettier": "^3.5.3",
105 |     "rimraf": "^5.0.10",
106 |     "standard-version": "^9.5.0",
107 |     "typedoc": "^0.28.2",
108 |     "typedoc-plugin-markdown": "^4.6.2",
109 |     "typescript": "^5.8.3",
110 |     "typescript-eslint": "^8.29.1",
111 |     "uuid": "^11.1.0",
112 |     "vitepress": "^1.6.3",
113 |     "vitest": "^3.1.1"
114 |   },
115 |   "lint-staged": {
116 |     "*.{ts,tsx,js,cjs}": [
117 |       "eslint --fix --cache --max-warnings=0",
118 |       "prettier --write --cache --ignore-unknown"
119 |     ],
120 |     "*.{json,md,yaml,yml,html,css}": [
121 |       "prettier --write --cache --ignore-unknown"
122 |     ]
123 |   }
124 | }
125 | 
```

--------------------------------------------------------------------------------
/memory-bank/progress.md:
--------------------------------------------------------------------------------

```markdown
 1 | <!-- Version: 4.32 | Last Updated: 2025-07-04 | Updated By: Sylph -->
 2 | 
 3 | # Progress: Filesystem MCP Server
 4 | 
 5 | ## 1. What Works
 6 | 
 7 | - **Server Initialization & Core MCP:** Starts, connects, lists tools.
 8 | - **Path Security:** `resolvePath` prevents traversal and absolute paths.
 9 | - **Project Root:** Determined by `process.cwd()`.
10 | - **Core Tool Functionality:** Most tools (`create_directories`, `write_content`, `stat_items`, `read_content`, `move_items`, `copy_items`, `search_files`, `replace_content`, `delete_items`, `listFiles`) have basic functionality and passing tests (except skipped tests).
11 | - **`applyDiff` Tool:** Implemented with multi-file, multi-block, atomic (per file) application logic. Tests added, but currently failing due to mock/assertion issues.
12 | - **Documentation (`README.md`):** Updated for new owner/package name.
13 | - **Tool Descriptions:** Updated.
14 | - **Dockerization:** Multi-stage `Dockerfile` functional.
15 | - **CI/CD (GitHub Actions):** Single workflow handles CI/Releases, updated for new owner. Release `v0.5.9` triggered.
16 | - **Versioning:** Package version at `0.5.9`.
17 | - **`.clinerules`:** Created.
18 | - **Changelog:** Updated up to `v0.5.9`.
19 | - **License:** MIT `LICENSE` file added, updated for new owner.
20 | - **Funding File:** `.github/FUNDING.yml` added.
21 | - **Testing Framework:** Vitest configured with v8 coverage.
22 | - **Coverage Reports:** Generating successfully.
23 | - **Tests Added & Passing (Vitest):** (List omitted for brevity - unchanged)
24 | - **Guideline Alignment (Configuration & Tooling):**
25 |   - Package Manager: `pnpm`.
26 |   - Node.js Version: `~22.0.0`.
27 |   - Dependency Versions: Updated.
28 |   - Configuration Files:
29 |     - `package.json`: Updated dependencies, scripts, lint-staged for `style_quality.md` (SHA: 9d56a9d...).
30 |     - `eslint.config.js`: Configured based on `style_quality.md` principles (Flat Config). `import/no-unresolved` temporarily disabled.
31 |     - `.prettierrc.cjs`: Updated content based on `style_quality.md`.
32 |     - `tsconfig.json`: Updated `module` and `moduleResolution` to `NodeNext`.
33 |     - (Other configs like `vitest.config.ts`, `commitlint.config.cjs`, `dependabot.yml` assumed aligned from previous checks).
34 |   - Git Hooks (Husky + lint-staged): Configured.
35 |   - `README.md` Structure: Aligned (placeholders remain).
36 |   - **File Naming:** Most `.ts` files in `src` and `__tests__` renamed to kebab-case.
37 |   - **Import Paths:** Updated to use kebab-case and `.js` extension.
38 | 
39 | ## 2. What's Left to Build / Test
40 | 
41 | - **Add Tests for Remaining Handlers:**
42 |   - `chmodItems` (**Skipped** - Windows limitations)
43 |   - `chownItems` (**Skipped** - Windows limitations)
44 | - **Address Skipped Tests:**
45 |   - `copyItems` fallback tests: Removed as fallback logic was unnecessary.
46 |   - `searchFiles` zero-width regex test: Skipped due to implementation complexity.
47 | 
48 | ## 3. Current Status
49 | 
50 | - Project configuration and tooling aligned with Playbook guidelines (pnpm, Node LTS, dependency versions, config files, hooks, README structure).
51 | - **ESLint check (with `--no-cache`) confirms no errors.** Previous commit likely fixed them. `import/no-unresolved` rule was temporarily disabled but seems unnecessary now.
52 | - Mocking issues previously resolved using dependency injection.
53 | - Coverage reports are generating.
54 | - Release `v0.5.9` was the last release triggered.
55 | 
56 | ## 4. Compliance Tasks
57 | - **DONE:** ESLint errors fixed (confirmed via `--no-cache`).
58 | ## 5. Known Issues / Areas for Improvement
59 | 
60 | - **ESLint Import Resolver:** Verified `import/no-unresolved` rule (re-enabled, no errors).
61 | - **`__tests__/test-utils.ts` Renaming:** File has been renamed.
62 | - **Coverage Reports:** Generation fixed. Coverage improved but some branches remain uncovered due to mocking issues.
63 | - **`applyDiff.test.ts` Failures:** Resolved. Tests are now passing.
64 | - **ESLint Errors:** Resolved.
65 | - **`README.md` Placeholders:** Needs content for sections like Performance, Design Philosophy, etc.
66 | - **Launcher Dependency:** Server functionality relies on the launching process setting the correct `cwd`.
67 | - **Windows `chmod`/`chown`:** Effectiveness is limited. Tests skipped.
68 | - **Cross-Device Moves/Copies:** May fail (`EXDEV`).
69 | - **`deleteItems` Root Deletion Test:** Using a workaround.
70 | - **`searchFiles` Zero-Width Matches:** Handler does not correctly find all zero-width matches with global regex. Test skipped.
71 | 
```

--------------------------------------------------------------------------------
/__tests__/test-utils.ts:
--------------------------------------------------------------------------------

```typescript
  1 | import * as fsPromises from 'node:fs/promises';
  2 | import path from 'node:path';
  3 | import { v4 as uuidv4 } from 'uuid'; // Use uuid for unique temp dir names
  4 | 
  5 | /**
  6 |  * Recursively creates a directory structure based on the provided object.
  7 |  * @param structure Object defining the structure. Keys are filenames/dirnames.
  8 |  *                  String values are file contents. Object values are subdirectories.
  9 |  * @param currentPath The path where the structure should be created.
 10 |  */
 11 | async function createStructureRecursively(
 12 |   structure: FileSystemStructure,
 13 |   currentPath: string,
 14 | ): Promise<void> {
 15 |   for (const name in structure) {
 16 |     if (!Object.prototype.hasOwnProperty.call(structure, name)) {
 17 |       continue;
 18 |     }
 19 |     const itemPath = path.join(currentPath, name);
 20 |     const content = structure[name];
 21 | 
 22 |     if (typeof content === 'string' || Buffer.isBuffer(content)) {
 23 |       // It's a file - ensure parent directory exists first
 24 |       try {
 25 |         await fsPromises.mkdir(path.dirname(itemPath), { recursive: true });
 26 |         await fsPromises.writeFile(itemPath, content);
 27 |       } catch (error) {
 28 |         console.error(`Failed to create file ${itemPath}:`, error);
 29 |         throw error;
 30 |       }
 31 |     } else if (typeof content === 'object' && content !== null) {
 32 |       // It's a directory (plain object)
 33 |       await fsPromises.mkdir(itemPath, { recursive: true });
 34 |       // Recurse into the subdirectory
 35 |       await createStructureRecursively(content, itemPath);
 36 |     } else {
 37 |       // Handle other potential types or throw an error
 38 |       console.warn(`Unsupported type for item '${name}' in test structure.`);
 39 |     }
 40 |   }
 41 | }
 42 | 
 43 | /**
 44 |  * Removes the temporary directory and its contents.
 45 |  * @param dirPath The absolute path to the temporary directory to remove.
 46 |  */
 47 | export async function cleanupTemporaryFilesystem(dirPath: string): Promise<void> {
 48 |   if (!dirPath) {
 49 |     console.warn('Attempted to cleanup an undefined or empty directory path.');
 50 |     return;
 51 |   }
 52 |   try {
 53 |     // Basic check to prevent accidental deletion outside expected temp pattern
 54 |     if (!path.basename(dirPath).startsWith('jest-temp-')) {
 55 |       console.error(`Refusing to delete directory not matching 'jest-temp-*' pattern: ${dirPath}`);
 56 |       return; // Or throw an error
 57 |     }
 58 |     await fsPromises.rm(dirPath, { recursive: true, force: true });
 59 |   } catch (error: unknown) {
 60 |     // Log error but don't necessarily fail the test run because of cleanup issues
 61 |     if (error instanceof Error) {
 62 |       console.error(`Failed to cleanup temporary directory ${dirPath}:`, error.message);
 63 |     } else {
 64 |       console.error(`Failed to cleanup temporary directory ${dirPath}:`, String(error));
 65 |     }
 66 |   }
 67 | }
 68 | 
 69 | /**
 70 |  * Creates a temporary directory with a unique name and populates it based on the structure.
 71 |  * @param structure Object defining the desired filesystem structure within the temp dir.
 72 |  * @param baseTempDir Optional base directory for temporary folders (defaults to project root).
 73 |  * @returns The absolute path to the created temporary root directory.
 74 |  */
 75 | interface FileSystemStructure {
 76 |   [key: string]: string | Buffer | FileSystemStructure;
 77 | }
 78 | 
 79 | export async function createTemporaryFilesystem(
 80 |   structure: FileSystemStructure,
 81 |   baseTempDir = process.cwd(),
 82 | ): Promise<string> {
 83 |   // Verify base directory exists
 84 |   try {
 85 |     await fsPromises.access(baseTempDir);
 86 |   } catch {
 87 |     throw new Error(`Base temp directory does not exist: ${baseTempDir}`);
 88 |   }
 89 | 
 90 |   // Create a unique directory name within the base temp directory
 91 |   const tempDirName = `jest-temp-${uuidv4()}`;
 92 |   const tempDirPath = path.join(baseTempDir, tempDirName);
 93 | 
 94 |   try {
 95 |     console.log(`Creating temp directory: ${tempDirPath}`);
 96 |     await fsPromises.mkdir(tempDirPath, { recursive: true }); // Ensure base temp dir exists
 97 |     console.log(`Temp directory created successfully`);
 98 | 
 99 |     console.log(`Creating structure in temp directory`);
100 |     await createStructureRecursively(structure, tempDirPath);
101 |     console.log(`Structure created successfully`);
102 | 
103 |     return tempDirPath;
104 |   } catch (error: unknown) {
105 |     if (error instanceof Error) {
106 |       console.error(`Failed to create temporary filesystem at ${tempDirPath}:`, error.message);
107 |     } else {
108 |       console.error(`Failed to create temporary filesystem at ${tempDirPath}:`, String(error));
109 |     }
110 |     // Attempt cleanup even if creation failed partially
111 |     try {
112 |       await cleanupTemporaryFilesystem(tempDirPath); // Now defined before use
113 |     } catch (cleanupError) {
114 |       console.error(
115 |         `Failed to cleanup partially created temp directory ${tempDirPath}:`,
116 |         cleanupError,
117 |       );
118 |     }
119 |     throw error; // Re-throw the original error
120 |   }
121 | }
122 | 
```

--------------------------------------------------------------------------------
/src/handlers/chown-items.ts:
--------------------------------------------------------------------------------

```typescript
  1 | // src/handlers/chownItems.ts
  2 | import { promises as fs } from 'node:fs';
  3 | import { z } from 'zod';
  4 | import { McpError, ErrorCode } from '@modelcontextprotocol/sdk/types.js';
  5 | import { resolvePath, PROJECT_ROOT } from '../utils/path-utils.js';
  6 | 
  7 | // --- Types ---
  8 | 
  9 | interface McpToolResponse {
 10 |   content: { type: 'text'; text: string }[];
 11 | }
 12 | 
 13 | export const ChownItemsArgsSchema = z
 14 |   .object({
 15 |     paths: z
 16 |       .array(z.string())
 17 |       .min(1, { message: 'Paths array cannot be empty' })
 18 |       .describe('An array of relative paths.'),
 19 |     uid: z.number().int({ message: 'UID must be an integer' }).describe('User ID.'),
 20 |     gid: z.number().int({ message: 'GID must be an integer' }).describe('Group ID.'),
 21 |   })
 22 |   .strict();
 23 | 
 24 | type ChownItemsArgs = z.infer<typeof ChownItemsArgsSchema>;
 25 | 
 26 | interface ChownResult {
 27 |   path: string;
 28 |   success: boolean;
 29 |   uid?: number;
 30 |   gid?: number;
 31 |   error?: string;
 32 | }
 33 | 
 34 | // --- Helper Functions ---
 35 | 
 36 | /** Parses and validates the input arguments. */
 37 | function parseAndValidateArgs(args: unknown): ChownItemsArgs {
 38 |   try {
 39 |     return ChownItemsArgsSchema.parse(args);
 40 |   } catch (error) {
 41 |     if (error instanceof z.ZodError) {
 42 |       throw new McpError(
 43 |         ErrorCode.InvalidParams,
 44 |         `Invalid arguments: ${error.errors.map((e) => `${e.path.join('.')} (${e.message})`).join(', ')}`,
 45 |       );
 46 |     }
 47 |     throw new McpError(ErrorCode.InvalidParams, 'Argument validation failed');
 48 |   }
 49 | }
 50 | 
 51 | /** Handles errors during chown operation. */
 52 | function handleChownError(error: unknown, _relativePath: string, pathOutput: string): ChownResult {
 53 |   let errorMessage = `Failed to change ownership: ${error instanceof Error ? error.message : String(error)}`;
 54 |   let logError = true;
 55 | 
 56 |   if (error instanceof McpError) {
 57 |     errorMessage = error.message;
 58 |     logError = false;
 59 |   } else if (error && typeof error === 'object' && 'code' in error) {
 60 |     if (error.code === 'ENOENT') {
 61 |       errorMessage = 'Path not found';
 62 |       logError = false;
 63 |     } else if (error.code === 'EPERM') {
 64 |       // Common error on Windows or insufficient permissions
 65 |       errorMessage = 'Operation not permitted (Permissions or unsupported on OS)';
 66 |     }
 67 |   }
 68 | 
 69 |   if (logError) {
 70 |     // Error logged via McpError
 71 |   }
 72 | 
 73 |   return { path: pathOutput, success: false, error: errorMessage };
 74 | }
 75 | 
 76 | /** Processes the chown operation for a single path. */
 77 | async function processSingleChownOperation(
 78 |   relativePath: string,
 79 |   uid: number,
 80 |   gid: number,
 81 | ): Promise<ChownResult> {
 82 |   const pathOutput = relativePath.replaceAll('\\', '/');
 83 |   try {
 84 |     const targetPath = resolvePath(relativePath);
 85 |     if (targetPath === PROJECT_ROOT) {
 86 |       return {
 87 |         path: pathOutput,
 88 |         success: false,
 89 |         error: 'Changing ownership of the project root is not allowed.',
 90 |       };
 91 |     }
 92 |     await fs.chown(targetPath, uid, gid);
 93 |     return { path: pathOutput, success: true, uid, gid };
 94 |   } catch (error: unknown) {
 95 |     return handleChownError(error, relativePath, pathOutput);
 96 |   }
 97 | }
 98 | 
 99 | /** Processes results from Promise.allSettled. */
100 | function processSettledResults(
101 |   results: PromiseSettledResult<ChownResult>[],
102 |   originalPaths: string[],
103 | ): ChownResult[] {
104 |   return results.map((result, index) => {
105 |     const originalPath = originalPaths[index] ?? 'unknown_path';
106 |     const pathOutput = originalPath.replaceAll('\\', '/');
107 | 
108 |     return result.status === 'fulfilled'
109 |       ? result.value
110 |       : {
111 |           path: pathOutput,
112 |           success: false,
113 |           error: `Unexpected error during processing: ${result.reason instanceof Error ? result.reason.message : String(result.reason)}`,
114 |         };
115 |   });
116 | }
117 | 
118 | /** Main handler function */
119 | const handleChownItemsFunc = async (args: unknown): Promise<McpToolResponse> => {
120 |   const { paths: relativePaths, uid, gid } = parseAndValidateArgs(args);
121 | 
122 |   const chownPromises = relativePaths.map((relativePath) =>
123 |     processSingleChownOperation(relativePath, uid, gid),
124 |   );
125 |   const settledResults = await Promise.allSettled(chownPromises);
126 | 
127 |   const outputResults = processSettledResults(settledResults, relativePaths);
128 | 
129 |   // Sort results by original path order for predictability
130 |   const originalIndexMap = new Map(relativePaths.map((p, i) => [p.replaceAll('\\', '/'), i]));
131 |   outputResults.sort((a, b) => {
132 |     const indexA = originalIndexMap.get(a.path) ?? Infinity;
133 |     const indexB = originalIndexMap.get(b.path) ?? Infinity;
134 |     return indexA - indexB;
135 |   });
136 | 
137 |   return {
138 |     content: [{ type: 'text', text: JSON.stringify(outputResults, undefined, 2) }],
139 |   };
140 | };
141 | 
142 | // Export the complete tool definition
143 | export const chownItemsToolDefinition = {
144 |   name: 'chown_items',
145 |   description: 'Change owner (UID) and group (GID) for multiple specified files/directories.',
146 |   inputSchema: ChownItemsArgsSchema,
147 |   handler: handleChownItemsFunc,
148 | };
149 | 
```

--------------------------------------------------------------------------------
/src/handlers/stat-items.ts:
--------------------------------------------------------------------------------

```typescript
  1 | // src/handlers/statItems.ts
  2 | import { promises as fs, type Stats } from 'node:fs'; // Import Stats
  3 | import { z } from 'zod';
  4 | import { McpError, ErrorCode } from '@modelcontextprotocol/sdk/types.js';
  5 | import { resolvePath } from '../utils/path-utils.js';
  6 | import type { FormattedStats } from '../utils/stats-utils.js'; // Import type
  7 | import { formatStats } from '../utils/stats-utils.js';
  8 | 
  9 | // --- Types ---
 10 | import type { McpToolResponse } from '../types/mcp-types.js';
 11 | 
 12 | export const StatItemsArgsSchema = z
 13 |   .object({
 14 |     paths: z
 15 |       .array(z.string())
 16 |       .min(1, { message: 'Paths array cannot be empty' })
 17 |       .describe('An array of relative paths (files or directories) to get status for.'),
 18 |   })
 19 |   .strict();
 20 | 
 21 | type StatItemsArgs = z.infer<typeof StatItemsArgsSchema>;
 22 | 
 23 | export interface StatResult {
 24 |   path: string;
 25 |   status: 'success' | 'error';
 26 |   stats?: FormattedStats;
 27 |   error?: string;
 28 | }
 29 | 
 30 | // --- Helper Functions ---
 31 | 
 32 | /** Parses and validates the input arguments. */
 33 | function parseAndValidateArgs(args: unknown): StatItemsArgs {
 34 |   try {
 35 |     return StatItemsArgsSchema.parse(args);
 36 |   } catch (error) {
 37 |     if (error instanceof z.ZodError) {
 38 |       throw new McpError(
 39 |         ErrorCode.InvalidParams,
 40 |         `Invalid arguments: ${error.errors.map((e) => `${e.path.join('.')} (${e.message})`).join(', ')}`,
 41 |       );
 42 |     }
 43 |     throw new McpError(ErrorCode.InvalidParams, 'Argument validation failed');
 44 |   }
 45 | }
 46 | 
 47 | /** Handles errors during stat operation. */
 48 | function handleStatError(error: unknown, relativePath: string, pathOutput: string): StatResult {
 49 |   let errorMessage = `Failed to get stats: ${error instanceof Error ? error.message : String(error)}`;
 50 |   let logError = true;
 51 | 
 52 |   if (error instanceof McpError) {
 53 |     errorMessage = error.message; // Use McpError message directly
 54 |     logError = false; // Assume McpError was logged at source or is expected
 55 |   } else if (error && typeof error === 'object' && 'code' in error) {
 56 |     if (error.code === 'ENOENT') {
 57 |       errorMessage = 'Path not found';
 58 |       logError = false; // ENOENT is a common, expected error
 59 |     } else if (error.code === 'EACCES' || error.code === 'EPERM') {
 60 |       errorMessage = `Permission denied stating path: ${relativePath}`;
 61 |     }
 62 |   }
 63 | 
 64 |   if (logError) {
 65 |     // Error logged via McpError
 66 |   }
 67 | 
 68 |   return {
 69 |     path: pathOutput,
 70 |     status: 'error',
 71 |     error: errorMessage,
 72 |   };
 73 | }
 74 | 
 75 | /** Processes the stat operation for a single path. */
 76 | async function processSingleStatOperation(relativePath: string): Promise<StatResult> {
 77 |   const pathOutput = relativePath.replaceAll('\\', '/');
 78 |   try {
 79 |     const targetPath = resolvePath(relativePath);
 80 |     const stats: Stats = await fs.stat(targetPath); // Explicitly type Stats
 81 |     return {
 82 |       path: pathOutput,
 83 |       status: 'success',
 84 |       stats: formatStats(relativePath, targetPath, stats), // Pass targetPath as absolutePath
 85 |     };
 86 |   } catch (error: unknown) {
 87 |     return handleStatError(error, relativePath, pathOutput);
 88 |   }
 89 | }
 90 | 
 91 | /** Processes results from Promise.allSettled. */
 92 | function processSettledResults(
 93 |   results: PromiseSettledResult<StatResult>[],
 94 |   originalPaths: string[],
 95 | ): StatResult[] {
 96 |   return results.map((result, index) => {
 97 |     const originalPath = originalPaths[index] ?? 'unknown_path';
 98 |     const pathOutput = originalPath.replaceAll('\\', '/');
 99 | 
100 |     if (result.status === 'fulfilled') {
101 |       return result.value;
102 |     } else {
103 |       // Handle unexpected rejections
104 |       // Error logged via McpError
105 |       return {
106 |         path: pathOutput,
107 |         status: 'error',
108 |         error: `Unexpected error during processing: ${result.reason instanceof Error ? result.reason.message : String(result.reason)}`,
109 |       };
110 |     }
111 |   });
112 | }
113 | 
114 | /** Main handler function */
115 | const handleStatItemsFunc = async (args: unknown): Promise<McpToolResponse> => {
116 |   const { paths: pathsToStat } = parseAndValidateArgs(args);
117 | 
118 |   const statPromises = pathsToStat.map(processSingleStatOperation);
119 |   const settledResults = await Promise.allSettled(statPromises);
120 | 
121 |   const outputResults = processSettledResults(settledResults, pathsToStat);
122 | 
123 |   // Sort results by original path order for predictability
124 |   const originalIndexMap = new Map(pathsToStat.map((p, i) => [p.replaceAll('\\', '/'), i]));
125 |   outputResults.sort((a, b) => {
126 |     const indexA = originalIndexMap.get(a.path) ?? Infinity;
127 |     const indexB = originalIndexMap.get(b.path) ?? Infinity;
128 |     return indexA - indexB;
129 |   });
130 | 
131 |   return {
132 |     content: [{ type: 'text', text: JSON.stringify(outputResults, null, 2) }],
133 |   };
134 | };
135 | 
136 | // Export the complete tool definition
137 | export const statItemsToolDefinition = {
138 |   name: 'stat_items',
139 |   description: 'Get detailed status information for multiple specified paths.',
140 |   inputSchema: StatItemsArgsSchema,
141 |   handler: handleStatItemsFunc,
142 | };
143 | 
```

--------------------------------------------------------------------------------
/src/index.ts:
--------------------------------------------------------------------------------

```typescript
  1 | #!/usr/bin/env node
  2 | 
  3 | import { Server } from '@modelcontextprotocol/sdk/server/index.js';
  4 | import { StdioServerTransport } from '@modelcontextprotocol/sdk/server/stdio.js';
  5 | import type { ZodTypeAny } from 'zod'; // Keep ZodTypeAny
  6 | import { zodToJsonSchema } from 'zod-to-json-schema';
  7 | import { applyDiffInputSchema } from './schemas/apply-diff-schema.js';
  8 | // Import SDK types needed
  9 | import type { CallToolRequest } from '@modelcontextprotocol/sdk/types.js';
 10 | import {
 11 |   CallToolRequestSchema,
 12 |   ListToolsRequestSchema,
 13 |   McpError,
 14 |   ErrorCode,
 15 | } from '@modelcontextprotocol/sdk/types.js';
 16 | // Import the LOCAL McpRequest/McpResponse types defined in handlers/index.ts
 17 | import type { ToolDefinition } from './handlers/index.js';
 18 | import type {
 19 |   McpRequest as LocalMcpRequest,
 20 |   McpToolResponse as LocalMcpResponse,
 21 | } from './types/mcp-types.js';
 22 | // Import the aggregated tool definitions
 23 | import { allToolDefinitions } from './handlers/index.js';
 24 | 
 25 | // --- Server Setup ---
 26 | 
 27 | const server = new Server(
 28 |   {
 29 |     name: 'filesystem-mcp',
 30 |     version: '0.6.0', // Version bump for apply_diff tool
 31 |     description: 'MCP Server for filesystem operations relative to the project root.',
 32 |   },
 33 |   {
 34 |     capabilities: { tools: {} },
 35 |   },
 36 | );
 37 | 
 38 | // Helper function to convert Zod schema to JSON schema for MCP
 39 | const generateInputSchema = (schema: ZodTypeAny): Record<string, unknown> => {
 40 |   // Pass ZodTypeAny directly
 41 | 
 42 |   return zodToJsonSchema(schema, { target: 'openApi3' }) as Record<string, unknown>;
 43 | };
 44 | 
 45 | // Set request handler for listing tools
 46 | server.setRequestHandler(
 47 |   ListToolsRequestSchema,
 48 |   (): {
 49 |     tools: {
 50 |       name: string;
 51 |       description: string;
 52 |       inputSchema: Record<string, unknown>;
 53 |     }[];
 54 |   } => {
 55 |     // Map the aggregated definitions to the format expected by the SDK
 56 |     const availableTools = allToolDefinitions.map((def) => {
 57 |       if (typeof def === 'function') {
 58 |         // Handle function-based tools (like handleApplyDiff)
 59 |         return {
 60 |           name: 'apply_diff',
 61 |           description: 'Apply diffs to files',
 62 |           inputSchema: generateInputSchema(applyDiffInputSchema),
 63 |         };
 64 |       }
 65 |       return {
 66 |         name: def.name,
 67 |         description: def.description,
 68 |         inputSchema: generateInputSchema(def.inputSchema),
 69 |       };
 70 |     });
 71 |     return { tools: availableTools };
 72 |   },
 73 | );
 74 | 
 75 | // --- Helper Functions for handleCallTool ---
 76 | 
 77 | /** Handles errors from the local tool handler response. */
 78 | function handleToolError(localResponse: LocalMcpResponse): void {
 79 |   // Use optional chaining for safer access
 80 |   if (localResponse.error) {
 81 |     throw localResponse.error instanceof McpError
 82 |       ? localResponse.error
 83 |       : new McpError(ErrorCode.InternalError, 'Handler returned an unexpected error format.');
 84 |   }
 85 | }
 86 | 
 87 | /** Formats the successful response payload from the local tool handler. */
 88 | function formatSuccessPayload(localResponse: LocalMcpResponse): Record<string, unknown> {
 89 |   // Check for data property safely
 90 |   if (localResponse.data && typeof localResponse.data === 'object') {
 91 |     // Assert type for safety, assuming data is the primary payload
 92 |     return localResponse.data as Record<string, unknown>;
 93 |   }
 94 |   // Check for content property safely
 95 |   if (localResponse.content && Array.isArray(localResponse.content)) {
 96 |     // Assuming if it's an array, the structure is correct based on handler return types
 97 |     // Removed the .every check causing the unnecessary-condition error
 98 |     return { content: localResponse.content };
 99 |   }
100 |   // Return empty object if no specific data or valid content found
101 |   return {};
102 | }
103 | 
104 | // --- Main Handler for Tool Calls ---
105 | 
106 | /** Handles incoming 'call_tool' requests from the SDK. */
107 | const handleCallTool = async (sdkRequest: CallToolRequest): Promise<Record<string, unknown>> => {
108 |   // Find the corresponding tool definition
109 | 
110 |   const toolDefinition: ToolDefinition | undefined = allToolDefinitions.find(
111 |     (def) => def.name === sdkRequest.params.name,
112 |   );
113 | 
114 |   // Throw error if tool is not found
115 |   if (!toolDefinition) {
116 |     throw new McpError(ErrorCode.MethodNotFound, `Unknown tool: ${sdkRequest.params.name}`);
117 |   }
118 | 
119 |   // Construct the request object expected by the local handler
120 |   const localRequest: LocalMcpRequest = {
121 |     jsonrpc: '2.0',
122 |     method: sdkRequest.method,
123 |     params: sdkRequest.params,
124 |   };
125 | 
126 |   // Execute the local tool handler
127 |   const localResponse: LocalMcpResponse = await toolDefinition.handler(localRequest);
128 | 
129 |   // Process potential errors from the handler
130 |   handleToolError(localResponse);
131 | 
132 |   // Format and return the success payload
133 |   return formatSuccessPayload(localResponse);
134 | };
135 | 
136 | // Register the main handler function with the SDK server
137 | server.setRequestHandler(CallToolRequestSchema, handleCallTool);
138 | 
139 | // --- Server Start ---
140 | 
141 | try {
142 |   const transport = new StdioServerTransport();
143 |   await server.connect(transport);
144 |   // Server started successfully
145 | } catch {
146 |   // Server failed to start
147 |   process.exit(1);
148 | }
149 | 
```

--------------------------------------------------------------------------------
/src/handlers/chmod-items.ts:
--------------------------------------------------------------------------------

```typescript
  1 | // src/handlers/chmodItems.ts
  2 | import { promises as fs } from 'node:fs';
  3 | import { z } from 'zod';
  4 | import { McpError, ErrorCode } from '@modelcontextprotocol/sdk/types.js';
  5 | import { resolvePath, PROJECT_ROOT } from '../utils/path-utils.js';
  6 | 
  7 | // --- Types ---
  8 | 
  9 | interface McpToolResponse {
 10 |   content: { type: 'text'; text: string }[];
 11 | }
 12 | 
 13 | export const ChmodItemsArgsSchema = z
 14 |   .object({
 15 |     paths: z
 16 |       .array(z.string())
 17 |       .min(1, { message: 'Paths array cannot be empty' })
 18 |       .describe('An array of relative paths.'),
 19 |     mode: z
 20 |       .string()
 21 |       .regex(/^[0-7]{3,4}$/, {
 22 |         message: "Mode must be an octal string like '755' or '0755'",
 23 |       })
 24 |       .describe("The permission mode as an octal string (e.g., '755', '644')."),
 25 |   })
 26 |   .strict();
 27 | 
 28 | type ChmodItemsArgs = z.infer<typeof ChmodItemsArgsSchema>;
 29 | 
 30 | interface ChmodResult {
 31 |   path: string;
 32 |   success: boolean;
 33 |   mode?: string; // Include mode on success
 34 |   error?: string;
 35 | }
 36 | 
 37 | // --- Helper Functions ---
 38 | 
 39 | /** Parses and validates the input arguments. */
 40 | function parseAndValidateArgs(args: unknown): ChmodItemsArgs {
 41 |   try {
 42 |     return ChmodItemsArgsSchema.parse(args);
 43 |   } catch (error) {
 44 |     if (error instanceof z.ZodError) {
 45 |       throw new McpError(
 46 |         ErrorCode.InvalidParams,
 47 |         `Invalid arguments: ${error.errors.map((e) => `${e.path.join('.')} (${e.message})`).join(', ')}`,
 48 |       );
 49 |     }
 50 |     throw new McpError(ErrorCode.InvalidParams, 'Argument validation failed');
 51 |   }
 52 | }
 53 | 
 54 | /** Handles errors during chmod operation. */
 55 | function handleChmodError(error: unknown, relativePath: string, pathOutput: string): ChmodResult {
 56 |   let errorMessage = `Failed to change mode: ${error instanceof Error ? error.message : String(error)}`;
 57 |   let logError = true;
 58 | 
 59 |   if (error instanceof McpError) {
 60 |     errorMessage = error.message;
 61 |     logError = false;
 62 |   } else if (error && typeof error === 'object' && 'code' in error) {
 63 |     if (error.code === 'ENOENT') {
 64 |       errorMessage = 'Path not found';
 65 |       logError = false; // ENOENT is a common, expected error
 66 |     } else if (error.code === 'EPERM' || error.code === 'EACCES') {
 67 |       errorMessage = `Permission denied changing mode for ${relativePath}`;
 68 |     }
 69 |   }
 70 | 
 71 |   if (logError) {
 72 |     // Error logged via McpError
 73 |   }
 74 | 
 75 |   return { path: pathOutput, success: false, error: errorMessage };
 76 | }
 77 | 
 78 | /** Processes the chmod operation for a single path. */
 79 | async function processSingleChmodOperation(
 80 |   relativePath: string,
 81 |   mode: number, // Pass parsed mode
 82 |   modeString: string, // Pass original string for success result
 83 | ): Promise<ChmodResult> {
 84 |   const pathOutput = relativePath.replaceAll('\\', '/');
 85 |   try {
 86 |     const targetPath = resolvePath(relativePath);
 87 |     if (targetPath === PROJECT_ROOT) {
 88 |       return {
 89 |         path: pathOutput,
 90 |         success: false,
 91 |         error: 'Changing permissions of the project root is not allowed.',
 92 |       };
 93 |     }
 94 |     await fs.chmod(targetPath, mode);
 95 |     return { path: pathOutput, success: true, mode: modeString };
 96 |   } catch (error: unknown) {
 97 |     return handleChmodError(error, relativePath, pathOutput);
 98 |   }
 99 | }
100 | 
101 | /** Processes results from Promise.allSettled. */
102 | function processSettledResults(
103 |   results: PromiseSettledResult<ChmodResult>[],
104 |   originalPaths: string[],
105 | ): ChmodResult[] {
106 |   return results.map((result, index) => {
107 |     const originalPath = originalPaths[index] ?? 'unknown_path';
108 |     const pathOutput = originalPath.replaceAll('\\', '/');
109 | 
110 |     if (result.status === 'fulfilled') {
111 |       return result.value;
112 |     } else {
113 |       // Error logged via McpError
114 |       return {
115 |         path: pathOutput,
116 |         success: false,
117 |         error: `Unexpected error during processing: ${result.reason instanceof Error ? result.reason.message : String(result.reason)}`,
118 |       };
119 |     }
120 |   });
121 | }
122 | 
123 | /** Main handler function */
124 | const handleChmodItemsFunc = async (args: unknown): Promise<McpToolResponse> => {
125 |   const { paths: relativePaths, mode: modeString } = parseAndValidateArgs(args);
126 |   const mode = Number.parseInt(modeString, 8); // Parse mode once
127 | 
128 |   const chmodPromises = relativePaths.map((relativePath) =>
129 |     processSingleChmodOperation(relativePath, mode, modeString),
130 |   );
131 |   const settledResults = await Promise.allSettled(chmodPromises);
132 | 
133 |   const outputResults = processSettledResults(settledResults, relativePaths);
134 | 
135 |   // Sort results by original path order for predictability
136 |   const originalIndexMap = new Map(relativePaths.map((p, i) => [p.replaceAll('\\', '/'), i]));
137 |   outputResults.sort((a, b) => {
138 |     const indexA = originalIndexMap.get(a.path) ?? Infinity;
139 |     const indexB = originalIndexMap.get(b.path) ?? Infinity;
140 |     return indexA - indexB;
141 |   });
142 | 
143 |   return {
144 |     content: [{ type: 'text', text: JSON.stringify(outputResults, null, 2) }],
145 |   };
146 | };
147 | 
148 | // Export the complete tool definition
149 | export const chmodItemsToolDefinition = {
150 |   name: 'chmod_items',
151 |   description: 'Change permissions mode for multiple specified files/directories (POSIX-style).',
152 |   inputSchema: ChmodItemsArgsSchema,
153 |   handler: handleChmodItemsFunc,
154 | };
155 | 
```

--------------------------------------------------------------------------------
/__tests__/utils/string-utils.test.ts:
--------------------------------------------------------------------------------

```typescript
  1 | import { describe, it, expect } from 'vitest';
  2 | import {
  3 |   escapeRegex,
  4 |   getIndentation,
  5 |   applyIndentation,
  6 |   linesMatch,
  7 | } from '../../src/utils/string-utils';
  8 | 
  9 | describe('String Utilities', () => {
 10 |   describe('escapeRegex', () => {
 11 |     it('should escape special regex characters', () => {
 12 |       const input = 'Hello? [$()*+.^{|}] World\\';
 13 |       // Use the correct string literal based on manual trace of the function's behavior
 14 |       const expected = 'Hello\\? \\[\\$\\(\\)\\*\\+\\.\\^\\{\\|\\}\\] World\\\\';
 15 |       expect(escapeRegex(input)).toBe(expected);
 16 |     });
 17 | 
 18 |     it('should not escape normal characters', () => {
 19 |       const input = 'abcdef123';
 20 |       expect(escapeRegex(input)).toBe(input);
 21 |     });
 22 | 
 23 |     it('should handle empty string', () => {
 24 |       expect(escapeRegex('')).toBe('');
 25 |     });
 26 |   });
 27 | 
 28 |   describe('getIndentation', () => {
 29 |     it('should return leading spaces', () => {
 30 |       expect(getIndentation('  indented line')).toBe('  ');
 31 |     });
 32 | 
 33 |     it('should return leading tabs', () => {
 34 |       expect(getIndentation('\t\tindented line')).toBe('\t\t');
 35 |     });
 36 | 
 37 |     it('should return mixed leading whitespace', () => {
 38 |       expect(getIndentation(' \t indented line')).toBe(' \t ');
 39 |     });
 40 | 
 41 |     it('should return empty string for no leading whitespace', () => {
 42 |       expect(getIndentation('no indent')).toBe('');
 43 |     });
 44 | 
 45 |     it('should return empty string for empty line', () => {
 46 |       expect(getIndentation('')).toBe('');
 47 |     });
 48 | 
 49 |     it('should return empty string for undefined input', () => {
 50 |       expect(getIndentation(undefined)).toBe(''); // Covers line 23
 51 |     });
 52 |   });
 53 | 
 54 |   describe('applyIndentation', () => {
 55 |     it('should apply indentation to a single line', () => {
 56 |       expect(applyIndentation('line1', '  ')).toEqual(['  line1']);
 57 |     });
 58 | 
 59 |     it('should apply indentation to multiple lines', () => {
 60 |       const content = 'line1\nline2\nline3';
 61 |       const indent = '\t';
 62 |       const expected = ['\tline1', '\tline2', '\tline3'];
 63 |       expect(applyIndentation(content, indent)).toEqual(expected); // Covers line 35
 64 |     });
 65 | 
 66 |     it('should handle empty content', () => {
 67 |       expect(applyIndentation('', '  ')).toEqual(['  ']); // split returns ['']
 68 |     });
 69 | 
 70 |     it('should handle empty indentation', () => {
 71 |       const content = 'line1\nline2';
 72 |       expect(applyIndentation(content, '')).toEqual(['line1', 'line2']);
 73 |     });
 74 |   });
 75 | 
 76 |   describe('linesMatch', () => {
 77 |     // ignoreLeadingWhitespace = false
 78 |     it('should match identical lines when not ignoring whitespace', () => {
 79 |       expect(linesMatch('  line', '  line', false)).toBe(true);
 80 |     });
 81 | 
 82 |     it('should not match different lines when not ignoring whitespace', () => {
 83 |       expect(linesMatch('  line', ' line', false)).toBe(false);
 84 |       expect(linesMatch('line', 'line ', false)).toBe(false);
 85 |     });
 86 | 
 87 |     // ignoreLeadingWhitespace = true
 88 |     it('should match lines with different leading whitespace when ignoring', () => {
 89 |       expect(linesMatch('    line', '  line', true)).toBe(true);
 90 |       expect(linesMatch('line', '\tline', true)).toBe(true);
 91 |     });
 92 | 
 93 |     it('should not match lines with different content when ignoring whitespace', () => {
 94 |       expect(linesMatch('  line1', ' line2', true)).toBe(false);
 95 |     });
 96 | 
 97 |     it('should not match if search line has extra indent when ignoring', () => {
 98 |       // This ensures we only trim the file line based on the search line's content
 99 |       expect(linesMatch('line', '  line', true)).toBe(true); // Should match if ignoring whitespace
100 |     });
101 | 
102 |     it('should match lines with identical content but different trailing whitespace when ignoring', () => {
103 |       // Note: trimStart() is used, so trailing whitespace matters
104 |       expect(linesMatch('  line ', ' line', true)).toBe(false);
105 |       expect(linesMatch('  line', ' line ', true)).toBe(false);
106 |       expect(linesMatch('  line ', ' line ', true)).toBe(true);
107 |     });
108 | 
109 |      it('should handle empty search line correctly when ignoring whitespace', () => {
110 |       expect(linesMatch('  ', '', true)).toBe(true); // fileLine becomes '', searchLine is ''
111 |       expect(linesMatch('  content', '', true)).toBe(false); // fileLine becomes 'content', searchLine is ''
112 |       expect(linesMatch('', '', true)).toBe(true);
113 |     });
114 | 
115 |     it('should handle empty file line correctly when ignoring whitespace', () => {
116 |       expect(linesMatch('', '  content', true)).toBe(false); // fileLine is '', searchLine becomes 'content'
117 |       expect(linesMatch('', '  ', true)).toBe(true); // fileLine is '', searchLine becomes ''
118 |     });
119 | 
120 |     // Edge cases for undefined (Covers lines 50-52)
121 |     it('should return false if fileLine is undefined', () => {
122 |       expect(linesMatch(undefined, 'line', false)).toBe(false);
123 |       expect(linesMatch(undefined, 'line', true)).toBe(false);
124 |     });
125 | 
126 |     it('should return false if searchLine is undefined', () => {
127 |       expect(linesMatch('line', undefined, false)).toBe(false);
128 |       expect(linesMatch('line', undefined, true)).toBe(false);
129 |     });
130 | 
131 |     it('should return false if both lines are undefined', () => {
132 |       expect(linesMatch(undefined, undefined, false)).toBe(false);
133 |       expect(linesMatch(undefined, undefined, true)).toBe(false);
134 |     });
135 | 
136 |      it('should handle lines with only whitespace correctly when ignoring', () => {
137 |       expect(linesMatch('   ', '\t', true)).toBe(true); // Both trimStart to ''
138 |       expect(linesMatch('   ', '  a', true)).toBe(false); // fileLine '', searchLine 'a'
139 |       expect(linesMatch('  a', '   ', true)).toBe(false); // fileLine 'a', searchLine ''
140 |     });
141 |   });
142 | });
```

--------------------------------------------------------------------------------
/src/handlers/copy-items.ts:
--------------------------------------------------------------------------------

```typescript
  1 | // src/handlers/copyItems.ts
  2 | import { promises as fs } from 'node:fs';
  3 | import path from 'node:path';
  4 | import { z } from 'zod';
  5 | import { McpError, ErrorCode } from '@modelcontextprotocol/sdk/types.js';
  6 | import { resolvePath, PROJECT_ROOT } from '../utils/path-utils.js';
  7 | 
  8 | // --- Types ---
  9 | import type { McpToolResponse } from '../types/mcp-types.js';
 10 | 
 11 | export const CopyOperationSchema = z
 12 |   .object({
 13 |     source: z.string().describe('Relative path of the source.'),
 14 |     destination: z.string().describe('Relative path of the destination.'),
 15 |   })
 16 |   .strict();
 17 | 
 18 | export const CopyItemsArgsSchema = z
 19 |   .object({
 20 |     operations: z
 21 |       .array(CopyOperationSchema)
 22 |       .min(1, { message: 'Operations array cannot be empty' })
 23 |       .describe('Array of {source, destination} objects.'),
 24 |   })
 25 |   .strict();
 26 | 
 27 | type CopyItemsArgs = z.infer<typeof CopyItemsArgsSchema>;
 28 | type CopyOperation = z.infer<typeof CopyOperationSchema>; // Export or define locally if needed
 29 | 
 30 | interface CopyResult {
 31 |   source: string;
 32 |   destination: string;
 33 |   success: boolean;
 34 |   error?: string;
 35 | }
 36 | 
 37 | // --- Parameter Interfaces ---
 38 | 
 39 | interface HandleCopyErrorParams {
 40 |   error: unknown;
 41 |   sourceRelative: string;
 42 |   destinationRelative: string;
 43 |   sourceOutput: string;
 44 |   destOutput: string;
 45 | }
 46 | 
 47 | interface ProcessSingleCopyParams {
 48 |   op: CopyOperation;
 49 | }
 50 | 
 51 | // --- Helper Functions ---
 52 | 
 53 | /** Parses and validates the input arguments. */
 54 | function parseAndValidateArgs(args: unknown): CopyItemsArgs {
 55 |   try {
 56 |     return CopyItemsArgsSchema.parse(args);
 57 |   } catch (error) {
 58 |     if (error instanceof z.ZodError) {
 59 |       throw new McpError(
 60 |         ErrorCode.InvalidParams,
 61 |         `Invalid arguments: ${error.errors.map((e) => `${e.path.join('.')} (${e.message})`).join(', ')}`,
 62 |       );
 63 |     }
 64 |     throw new McpError(ErrorCode.InvalidParams, 'Argument validation failed');
 65 |   }
 66 | }
 67 | 
 68 | /** Handles errors during the copy operation for a single item. */
 69 | function handleCopyError(params: HandleCopyErrorParams): CopyResult {
 70 |   const { error, sourceRelative, destinationRelative, sourceOutput, destOutput } = params;
 71 | 
 72 |   let errorMessage = 'An unknown error occurred during copy.';
 73 |   let errorCode: string | undefined = undefined;
 74 | 
 75 |   if (error && typeof error === 'object' && 'code' in error && typeof error.code === 'string') {
 76 |     errorCode = error.code;
 77 |   }
 78 | 
 79 |   if (error instanceof McpError) {
 80 |     errorMessage = error.message;
 81 |   } else if (error instanceof Error) {
 82 |     errorMessage = `Failed to copy item: ${error.message}`;
 83 |   }
 84 | 
 85 |   if (errorCode === 'ENOENT') {
 86 |     errorMessage = `Source path not found: ${sourceRelative}`;
 87 |   } else if (errorCode === 'EPERM' || errorCode === 'EACCES') {
 88 |     errorMessage = `Permission denied copying '${sourceRelative}' to '${destinationRelative}'.`;
 89 |   }
 90 | 
 91 |   return {
 92 |     source: sourceOutput,
 93 |     destination: destOutput,
 94 |     success: false,
 95 |     error: errorMessage,
 96 |   };
 97 | }
 98 | 
 99 | /** Processes a single copy operation. */
100 | async function processSingleCopyOperation(params: ProcessSingleCopyParams): Promise<CopyResult> {
101 |   const { op } = params;
102 |   const sourceRelative = op.source;
103 |   const destinationRelative = op.destination;
104 |   const sourceOutput = sourceRelative.replaceAll('\\', '/');
105 |   const destOutput = destinationRelative.replaceAll('\\', '/');
106 |   let sourceAbsolute = ''; // Initialize for potential use in error message
107 | 
108 |   try {
109 |     sourceAbsolute = resolvePath(sourceRelative);
110 |     const destinationAbsolute = resolvePath(destinationRelative);
111 | 
112 |     if (sourceAbsolute === PROJECT_ROOT) {
113 |       return {
114 |         source: sourceOutput,
115 |         destination: destOutput,
116 |         success: false,
117 |         error: 'Copying the project root is not allowed.',
118 |       };
119 |     }
120 | 
121 |     // Ensure parent directory of destination exists
122 |     const destDir = path.dirname(destinationAbsolute);
123 |     await fs.mkdir(destDir, { recursive: true });
124 | 
125 |     // Perform the copy (recursive for directories)
126 |     await fs.cp(sourceAbsolute, destinationAbsolute, {
127 |       recursive: true,
128 |       errorOnExist: false, // Overwrite existing files/dirs
129 |       force: true, // Ensure overwrite
130 |     });
131 | 
132 |     return { source: sourceOutput, destination: destOutput, success: true };
133 |   } catch (error: unknown) {
134 |     return handleCopyError({
135 |       // Pass object
136 |       error,
137 |       sourceRelative,
138 |       destinationRelative,
139 |       sourceOutput,
140 |       destOutput,
141 |     });
142 |   }
143 | }
144 | 
145 | /** Processes results from Promise.allSettled. */
146 | function processSettledResults(
147 |   results: PromiseSettledResult<CopyResult>[],
148 |   originalOps: CopyOperation[],
149 | ): CopyResult[] {
150 |   return results.map((result, index) => {
151 |     const op = originalOps[index];
152 |     const sourceOutput = (op?.source ?? 'unknown').replaceAll('\\', '/');
153 |     const destOutput = (op?.destination ?? 'unknown').replaceAll('\\', '/');
154 | 
155 |     return result.status === 'fulfilled'
156 |       ? result.value
157 |       : {
158 |           source: sourceOutput,
159 |           destination: destOutput,
160 |           success: false,
161 |           error: `Unexpected error during processing: ${result.reason instanceof Error ? result.reason.message : String(result.reason)}`,
162 |         };
163 |   });
164 | }
165 | 
166 | /** Main handler function */
167 | const handleCopyItemsFunc = async (args: unknown): Promise<McpToolResponse> => {
168 |   const { operations } = parseAndValidateArgs(args);
169 | 
170 |   const copyPromises = operations.map((op) => processSingleCopyOperation({ op }));
171 |   const settledResults = await Promise.allSettled(copyPromises);
172 | 
173 |   const outputResults = processSettledResults(settledResults, operations);
174 | 
175 |   // Sort results based on the original order
176 |   const originalIndexMap = new Map(operations.map((op, i) => [op.source.replaceAll('\\', '/'), i]));
177 |   outputResults.sort((a, b) => {
178 |     const indexA = originalIndexMap.get(a.source) ?? Infinity;
179 |     const indexB = originalIndexMap.get(b.source) ?? Infinity;
180 |     return indexA - indexB;
181 |   });
182 | 
183 |   return {
184 |     content: [{ type: 'text', text: JSON.stringify(outputResults, undefined, 2) }],
185 |   };
186 | };
187 | 
188 | // Export the complete tool definition
189 | export const copyItemsToolDefinition = {
190 |   name: 'copy_items',
191 |   description: 'Copy multiple specified files/directories.',
192 |   inputSchema: CopyItemsArgsSchema,
193 |   handler: handleCopyItemsFunc,
194 | };
195 | 
```

--------------------------------------------------------------------------------
/src/handlers/write-content.ts:
--------------------------------------------------------------------------------

```typescript
  1 | // src/handlers/writeContent.ts
  2 | import { promises as fs } from 'node:fs';
  3 | import path from 'node:path';
  4 | import { z } from 'zod';
  5 | import { McpError, ErrorCode } from '@modelcontextprotocol/sdk/types.js';
  6 | import { resolvePath, PROJECT_ROOT } from '../utils/path-utils.js';
  7 | 
  8 | // --- Types ---
  9 | import type { McpToolResponse } from '../types/mcp-types.js';
 10 | 
 11 | export const WriteItemSchema = z
 12 |   .object({
 13 |     path: z.string().describe('Relative path for the file.'),
 14 |     content: z.string().describe('Content to write.'),
 15 |     append: z
 16 |       .boolean()
 17 |       .optional()
 18 |       .default(false)
 19 |       .describe('Append content instead of overwriting.'),
 20 |   })
 21 |   .strict();
 22 | 
 23 | export const WriteContentArgsSchema = z
 24 |   .object({
 25 |     items: z
 26 |       .array(WriteItemSchema)
 27 |       .min(1, { message: 'Items array cannot be empty' })
 28 |       .describe('Array of {path, content, append?} objects.'),
 29 |   })
 30 |   .strict();
 31 | 
 32 | type WriteContentArgs = z.infer<typeof WriteContentArgsSchema>;
 33 | type WriteItem = z.infer<typeof WriteItemSchema>; // Define type for item
 34 | 
 35 | interface WriteResult {
 36 |   path: string;
 37 |   success: boolean;
 38 |   operation?: 'written' | 'appended';
 39 |   error?: string;
 40 | }
 41 | 
 42 | export interface WriteContentDependencies {
 43 |   writeFile: typeof fs.writeFile;
 44 |   mkdir: typeof fs.mkdir;
 45 |   stat: typeof fs.stat; // Keep stat if needed for future checks, though not used now
 46 |   appendFile: typeof fs.appendFile;
 47 |   resolvePath: typeof resolvePath;
 48 |   PROJECT_ROOT: string;
 49 |   pathDirname: (p: string) => string;
 50 | }
 51 | 
 52 | // --- Helper Functions ---
 53 | 
 54 | /** Parses and validates the input arguments. */
 55 | function parseAndValidateArgs(args: unknown): WriteContentArgs {
 56 |   try {
 57 |     return WriteContentArgsSchema.parse(args);
 58 |   } catch (error) {
 59 |     if (error instanceof z.ZodError) {
 60 |       throw new McpError(
 61 |         ErrorCode.InvalidParams,
 62 |         `Invalid arguments: ${error.errors.map((e) => `${e.path.join('.')} (${e.message})`).join(', ')}`,
 63 |       );
 64 |     }
 65 | 
 66 |     throw new McpError(ErrorCode.InvalidParams, 'Argument validation failed');
 67 |   }
 68 | }
 69 | 
 70 | /** Handles errors during file write/append operation. */
 71 | function handleWriteError(
 72 |   error: unknown,
 73 |   _relativePath: string,
 74 |   pathOutput: string,
 75 |   append: boolean,
 76 | ): WriteResult {
 77 |   if (error instanceof McpError) {
 78 |     return { path: pathOutput, success: false, error: error.message };
 79 |   }
 80 |   const errorMessage = error instanceof Error ? error.message : String(error);
 81 |   // Error logged via McpError
 82 |   return {
 83 |     path: pathOutput,
 84 |     success: false,
 85 |     error: `Failed to ${append ? 'append' : 'write'} file: ${errorMessage}`,
 86 |   };
 87 | }
 88 | 
 89 | /** Processes a single write/append operation. */
 90 | async function processSingleWriteOperation(
 91 |   file: WriteItem,
 92 |   deps: WriteContentDependencies,
 93 | ): Promise<WriteResult> {
 94 |   const relativePath = file.path;
 95 |   const content = file.content;
 96 |   const append = file.append;
 97 |   const pathOutput = relativePath.replaceAll('\\', '/');
 98 | 
 99 |   try {
100 |     const targetPath = deps.resolvePath(relativePath);
101 |     if (targetPath === deps.PROJECT_ROOT) {
102 |       return {
103 |         path: pathOutput,
104 |         success: false,
105 |         error: 'Writing directly to the project root is not allowed.',
106 |       };
107 |     }
108 |     const targetDir = deps.pathDirname(targetPath);
109 |     // Avoid creating the root dir itself
110 |     if (targetDir !== deps.PROJECT_ROOT) {
111 |       await deps.mkdir(targetDir, { recursive: true });
112 |     }
113 | 
114 |     if (append) {
115 |       await deps.appendFile(targetPath, content, 'utf-8');
116 |       return { path: pathOutput, success: true, operation: 'appended' };
117 |     } else {
118 |       await deps.writeFile(targetPath, content, 'utf-8');
119 |       return { path: pathOutput, success: true, operation: 'written' };
120 |     }
121 |   } catch (error: unknown) {
122 |     return handleWriteError(error, relativePath, pathOutput, append);
123 |   }
124 | }
125 | 
126 | /** Processes results from Promise.allSettled. */
127 | function processSettledResults(
128 |   results: PromiseSettledResult<WriteResult>[],
129 |   originalItems: WriteItem[],
130 | ): WriteResult[] {
131 |   return results.map((result, index) => {
132 |     const originalItem = originalItems[index];
133 |     const pathOutput = (originalItem?.path ?? 'unknown_path').replaceAll('\\', '/');
134 | 
135 |     if (result.status === 'fulfilled') {
136 |       return result.value;
137 |     } else {
138 |       // Error logged via McpError
139 |       return {
140 |         path: pathOutput,
141 |         success: false,
142 |         error: `Unexpected error during processing: ${result.reason instanceof Error ? result.reason.message : String(result.reason)}`,
143 |       };
144 |     }
145 |   });
146 | }
147 | 
148 | /** Main handler function */
149 | export const handleWriteContentFunc = async (
150 |   // Added export
151 |   deps: WriteContentDependencies,
152 |   args: unknown,
153 | ): Promise<McpToolResponse> => {
154 |   const { items: filesToWrite } = parseAndValidateArgs(args);
155 | 
156 |   const writePromises = filesToWrite.map((file) => processSingleWriteOperation(file, deps));
157 |   const settledResults = await Promise.allSettled(writePromises);
158 | 
159 |   const outputResults = processSettledResults(settledResults, filesToWrite);
160 | 
161 |   // Sort results based on the original order
162 |   const originalIndexMap = new Map(filesToWrite.map((f, i) => [f.path.replaceAll('\\', '/'), i]));
163 |   outputResults.sort((a, b) => {
164 |     const indexA = originalIndexMap.get(a.path) ?? Infinity;
165 |     const indexB = originalIndexMap.get(b.path) ?? Infinity;
166 |     return indexA - indexB;
167 |   });
168 | 
169 |   return {
170 |     content: [{ type: 'text', text: JSON.stringify(outputResults, null, 2) }],
171 |   };
172 | };
173 | 
174 | // Export the complete tool definition
175 | export const writeContentToolDefinition = {
176 |   name: 'write_content',
177 |   description:
178 |     "Write or append content to multiple specified files (creating directories if needed). NOTE: For modifying existing files, prefer using 'edit_file' or 'replace_content' for better performance, especially with large files. Use 'write_content' primarily for creating new files or complete overwrites.",
179 |   inputSchema: WriteContentArgsSchema,
180 |   handler: (args: unknown): Promise<McpToolResponse> => {
181 |     const deps: WriteContentDependencies = {
182 |       writeFile: fs.writeFile,
183 |       mkdir: fs.mkdir,
184 |       stat: fs.stat,
185 |       appendFile: fs.appendFile,
186 |       resolvePath: resolvePath,
187 |       PROJECT_ROOT: PROJECT_ROOT,
188 |       pathDirname: path.dirname.bind(path),
189 |     };
190 |     return handleWriteContentFunc(deps, args);
191 |   },
192 | };
193 | 
```

--------------------------------------------------------------------------------
/__tests__/index.test.ts:
--------------------------------------------------------------------------------

```typescript
  1 | // __tests__/index.test.ts
  2 | import { vi, describe, it, expect, beforeEach, afterEach } from 'vitest';
  3 | // Keep standard imports, even though they are mocked below
  4 | // Keep standard imports, even though they are mocked below
  5 | // import { Server } from '@modelcontextprotocol/sdk'; // Removed as it's mocked
  6 | // import { StdioServerTransport } from '@modelcontextprotocol/sdk/stdio'; // Removed as it's mocked
  7 | // McpError might be imported from sdk directly if needed, or mocked within sdk mock
  8 | // import { McpError } from '@modelcontextprotocol/sdk/error'; // Or '@modelcontextprotocol/sdk'
  9 | import * as allHandlers from '../src/handlers/index.js'; // Import all handlers with extension
 10 | // import { ZodError } from 'zod'; // Removed unused import
 11 | 
 12 | // Mock the SDK components within the factory functions
 13 | // Define mock variables outside the factory to be accessible later
 14 | const mockServerInstance = {
 15 |   registerTool: vi.fn(),
 16 |   start: vi.fn(),
 17 |   stop: vi.fn(),
 18 | };
 19 | const MockServer = vi.fn().mockImplementation(() => mockServerInstance);
 20 | 
 21 | vi.mock('@modelcontextprotocol/sdk', () => {
 22 |   const MockMcpError = class extends Error {
 23 |     code: number;
 24 |     data: any;
 25 |     constructor(message: string, code = -32_000, data?: any) {
 26 |       super(message);
 27 |       this.name = 'McpError';
 28 |       this.code = code;
 29 |       this.data = data;
 30 |     }
 31 |   };
 32 | 
 33 |   return {
 34 |     Server: MockServer, // Export the mock constructor
 35 |     McpError: MockMcpError,
 36 |   };
 37 | });
 38 | 
 39 | // Define mock variable outside the factory
 40 | const mockTransportInstance = {};
 41 | const MockStdioServerTransport = vi.fn().mockImplementation(() => mockTransportInstance);
 42 | 
 43 | vi.mock('@modelcontextprotocol/sdk/stdio', () => {
 44 |   return {
 45 |     StdioServerTransport: MockStdioServerTransport, // Export the mock constructor
 46 |   };
 47 | });
 48 | 
 49 | // Remove the separate mock for sdk/error as McpError is mocked above
 50 | 
 51 | // Define an interface for the expected handler structure
 52 | interface HandlerDefinition {
 53 |   name: string;
 54 |   description: string;
 55 |   schema: any;
 56 |   handler: (...args: any[]) => Promise<any>;
 57 |   jsonSchema?: any;
 58 | }
 59 | 
 60 | // Mock the handlers to prevent actual execution
 61 | // Iterate over values and check structure more robustly with type guard
 62 | const mockHandlers = Object.values(allHandlers).reduce<
 63 |   Record<string, HandlerDefinition & { handler: ReturnType<typeof vi.fn> }>
 64 | >((acc, handlerDef) => {
 65 |   // Type guard to check if handlerDef matches HandlerDefinition structure
 66 |   const isHandlerDefinition = (def: any): def is HandlerDefinition =>
 67 |     typeof def === 'object' &&
 68 |     def !== null &&
 69 |     typeof def.name === 'string' &&
 70 |     typeof def.handler === 'function';
 71 | 
 72 |   if (isHandlerDefinition(handlerDef)) {
 73 |     // Now TypeScript knows handlerDef has a 'name' property of type string
 74 |     acc[handlerDef.name] = {
 75 |       ...handlerDef, // Spread the original definition
 76 |       handler: vi.fn().mockResolvedValue({ success: true }), // Mock the handler function
 77 |     };
 78 |   }
 79 |   // Ignore exports that don't match the expected structure
 80 |   return acc;
 81 | }, {}); // Initial value for reduce
 82 | 
 83 | // Ensure mockHandlers is correctly typed before spreading
 84 | const typedMockHandlers: Record<string, any> = mockHandlers;
 85 | 
 86 | vi.mock('../src/handlers/index.js', () => ({
 87 |   // Also update path here
 88 |   ...typedMockHandlers,
 89 | }));
 90 | 
 91 | // Mock console methods
 92 | vi.spyOn(console, 'log').mockImplementation(() => {}); // Remove unused variable assignment
 93 | vi.spyOn(console, 'error').mockImplementation(() => {}); // Remove unused variable assignment
 94 | // Adjust the type assertion for process.exit mock
 95 | vi.spyOn(process, 'exit').mockImplementation((() => {
 96 |   // Remove unused variable assignment
 97 |   throw new Error('process.exit called');
 98 | }) as (code?: number | string | null | undefined) => never);
 99 | 
100 | describe('Server Initialization (src/index.ts)', () => {
101 |   // Remove explicit type annotations, let TS infer from mocks
102 |   let serverInstance: any;
103 |   let transportInstance: any;
104 | 
105 |   beforeEach(async () => {
106 |     // Reset mocks before each test
107 |     vi.clearAllMocks();
108 | 
109 |     // Dynamically import the module to run the setup logic
110 |     // Use .js extension consistent with module resolution
111 |     await import('../src/index.js');
112 | 
113 |     // Get the mocked instances using the mock variables defined outside
114 |     serverInstance = MockServer.mock.instances[0];
115 |     transportInstance = MockStdioServerTransport.mock.instances[0];
116 |   });
117 | 
118 |   afterEach(() => {
119 |     vi.resetModules(); // Ensure fresh import for next test
120 |   });
121 | 
122 |   it('should create a StdioServerTransport instance', () => {
123 |     expect(MockStdioServerTransport).toHaveBeenCalledTimes(1); // Use the mock variable
124 |     expect(transportInstance).toBeDefined();
125 |   });
126 | 
127 |   it('should create a Server instance with the transport', () => {
128 |     expect(MockServer).toHaveBeenCalledTimes(1); // Use the mock variable
129 |     // expect(MockServer).toHaveBeenCalledWith(transportInstance); // Checking constructor args might be complex/brittle with mocks
130 |     expect(serverInstance).toBeDefined();
131 |   });
132 | 
133 |   it('should register all expected tools', () => {
134 |     // Get names from the keys of the refined mockHandlers object
135 |     const expectedToolNames = Object.keys(typedMockHandlers); // Use typedMockHandlers
136 | 
137 |     expect(serverInstance.registerTool).toHaveBeenCalledTimes(expectedToolNames.length);
138 | 
139 |     // Check if each handler name (which is the key in mockHandlers now) was registered
140 |     for (const toolName of expectedToolNames) {
141 |       const handlerDefinition = typedMockHandlers[toolName]; // Use typedMockHandlers
142 |       expect(serverInstance.registerTool).toHaveBeenCalledWith(
143 |         expect.objectContaining({
144 |           name: handlerDefinition.name,
145 |           description: handlerDefinition.description,
146 |           inputSchema: expect.any(Object), // Zod schema converts to object
147 |           handler: handlerDefinition.handler, // Check if the mocked handler was passed
148 |         }),
149 |       );
150 |       // Optionally, more specific schema checks if needed
151 |       // expect(serverInstance.registerTool).toHaveBeenCalledWith(
152 |       //     expect.objectContaining({ name: handlerDefinition.name, inputSchema: handlerDefinition.jsonSchema })
153 |       // );
154 |     }
155 |   });
156 | 
157 |   it('should call server.start()', () => {
158 |     expect(serverInstance.start).toHaveBeenCalledTimes(1);
159 |   });
160 | 
161 |   // Add tests for signal handling if possible/necessary
162 |   // This might be harder to test reliably without actually sending signals
163 |   // it('should register signal handlers for SIGINT and SIGTERM', () => {
164 |   //   // Difficult to directly test process.on('SIGINT', ...) registration
165 |   //   // Could potentially spy on process.on but might be fragile
166 |   // });
167 | 
168 |   // it('should call server.stop() and process.exit() on SIGINT/SIGTERM', () => {
169 |   //   // Simulate signal? Requires more advanced mocking or test setup
170 |   // });
171 | });
172 | 
```

--------------------------------------------------------------------------------
/src/handlers/delete-items.ts:
--------------------------------------------------------------------------------

```typescript
  1 | // src/handlers/deleteItems.ts
  2 | import { promises as fs } from 'node:fs';
  3 | import { z } from 'zod';
  4 | import { McpError, ErrorCode } from '@modelcontextprotocol/sdk/types.js';
  5 | import { resolvePath, PROJECT_ROOT } from '../utils/path-utils.js';
  6 | 
  7 | // --- Types ---
  8 | 
  9 | interface McpToolResponse {
 10 |   content: { type: 'text'; text: string }[];
 11 | }
 12 | 
 13 | export const DeleteItemsArgsSchema = z
 14 |   .object({
 15 |     paths: z
 16 |       .array(z.string())
 17 |       .min(1, { message: 'Paths array cannot be empty' })
 18 |       .describe('An array of relative paths (files or directories) to delete.'),
 19 |   })
 20 |   .strict();
 21 | 
 22 | type DeleteItemsArgs = z.infer<typeof DeleteItemsArgsSchema>;
 23 | 
 24 | interface DeleteResult {
 25 |   path: string;
 26 |   success: boolean;
 27 |   note?: string;
 28 |   error?: string;
 29 | }
 30 | 
 31 | // --- Helper Functions ---
 32 | 
 33 | /** Parses and validates the input arguments. */
 34 | function parseAndValidateArgs(args: unknown): DeleteItemsArgs {
 35 |   try {
 36 |     return DeleteItemsArgsSchema.parse(args);
 37 |   } catch (error) {
 38 |     if (error instanceof z.ZodError) {
 39 |       throw new McpError(
 40 |         ErrorCode.InvalidParams,
 41 |         `Invalid arguments: ${error.errors.map((e) => `${e.path.join('.')} (${e.message})`).join(', ')}`,
 42 |       );
 43 |     }
 44 |     throw new McpError(ErrorCode.InvalidParams, 'Argument validation failed');
 45 |   }
 46 | }
 47 | 
 48 | /** Determines the error message based on the error type. */
 49 | function getErrorMessage(error: unknown, relativePath: string): string {
 50 |   if (error instanceof McpError) {
 51 |     return error.message;
 52 |   }
 53 |   if (error instanceof Error) {
 54 |     const errnoError = error as NodeJS.ErrnoException;
 55 |     if (errnoError.code) {
 56 |       // Don't handle ENOENT here
 57 |       if (errnoError.code === 'EPERM' || errnoError.code === 'EACCES') {
 58 |         return `Permission denied deleting ${relativePath}`;
 59 |       }
 60 |       return `Failed to delete ${relativePath}: ${error.message} (code: ${errnoError.code})`;
 61 |     }
 62 |     return `Failed to delete ${relativePath}: ${error.message}`;
 63 |   }
 64 |   return `Failed to delete ${relativePath}: ${String(error)}`;
 65 | }
 66 | 
 67 | 
 68 | /** Handles errors during delete operation. Revised logic again. */
 69 | function handleDeleteError(error: unknown, relativePath: string, pathOutput: string): DeleteResult {
 70 |   console.error(`[handleDeleteError] Received error for path "${relativePath}":`, JSON.stringify(error));
 71 | 
 72 |   // Check for McpError FIRST
 73 |   if (error instanceof McpError) {
 74 |       const errorMessage = getErrorMessage(error, relativePath);
 75 |       console.error(`[Filesystem MCP] McpError deleting ${relativePath}: ${errorMessage}`);
 76 |       console.error(`[handleDeleteError] Returning failure for "${relativePath}" (McpError): ${errorMessage}`);
 77 |       return { path: pathOutput, success: false, error: errorMessage };
 78 |   }
 79 | 
 80 |   // THEN check specifically for ENOENT
 81 |   const isENOENT =
 82 |     typeof error === 'object' &&
 83 |     error !== null &&
 84 |     'code' in error &&
 85 |     (error as { code?: string }).code === 'ENOENT';
 86 | 
 87 |   if (isENOENT) {
 88 |     console.error(`[handleDeleteError] Detected ENOENT for "${relativePath}", returning success with note.`);
 89 |     return {
 90 |       path: pathOutput,
 91 |       success: true,
 92 |       note: 'Path not found, nothing to delete',
 93 |     };
 94 |   }
 95 | 
 96 |   // For ALL OTHER errors (including permission, generic), return failure
 97 |   const errorMessage = getErrorMessage(error, relativePath);
 98 |   console.error(`[Filesystem MCP] Other error deleting ${relativePath}: ${errorMessage}`);
 99 |   console.error(`[handleDeleteError] Returning failure for "${relativePath}" (Other Error): ${errorMessage}`);
100 |   return { path: pathOutput, success: false, error: errorMessage };
101 | }
102 | 
103 | /** Processes the deletion of a single item. */
104 | async function processSingleDeleteOperation(relativePath: string): Promise<DeleteResult> {
105 |   const pathOutput = relativePath.replaceAll('\\', '/');
106 |   try {
107 |     const targetPath = resolvePath(relativePath);
108 |     if (targetPath === PROJECT_ROOT) {
109 |       throw new McpError(ErrorCode.InvalidRequest, 'Deleting the project root is not allowed.');
110 |     }
111 |     await fs.rm(targetPath, { recursive: true, force: false });
112 |     return { path: pathOutput, success: true };
113 |   } catch (error: unknown) {
114 |     // This catch block will now correctly pass McpError or other errors to handleDeleteError
115 |     return handleDeleteError(error, relativePath, pathOutput);
116 |   }
117 | }
118 | 
119 | /** Processes results from Promise.allSettled. Exported for testing. */
120 | export function processSettledResults( // Add export
121 |   results: PromiseSettledResult<DeleteResult>[],
122 |   originalPaths: string[],
123 | ): DeleteResult[] {
124 |   return results.map((result, index) => {
125 |     const originalPath = originalPaths[index] ?? 'unknown_path';
126 |     const pathOutput = originalPath.replaceAll('\\', '/');
127 | 
128 |     if (result.status === 'fulfilled') {
129 |       return result.value;
130 |     } else {
131 |       // This case should ideally be less frequent now as errors are handled within safeProcessSingleDeleteOperation
132 |       console.error(`[processSettledResults] Unexpected rejection for ${originalPath}:`, result.reason);
133 |       // Pass rejection reason to the error handler
134 |       return handleDeleteError(result.reason, originalPath, pathOutput);
135 |     }
136 |   });
137 | }
138 | 
139 | /** Main handler function */
140 | const handleDeleteItemsFunc = async (args: unknown): Promise<McpToolResponse> => {
141 |   const { paths: pathsToDelete } = parseAndValidateArgs(args);
142 | 
143 |   const safeProcessSingleDeleteOperation = async (relativePath: string): Promise<DeleteResult> => {
144 |      const pathOutput = relativePath.replaceAll('\\', '/');
145 |      try {
146 |        // Call the core logic which might return a DeleteResult or throw
147 |        return await processSingleDeleteOperation(relativePath);
148 |      } catch (error) {
149 |        // Catch errors thrown *before* the try block in processSingleDeleteOperation (like resolvePath)
150 |        // or unexpected errors within it not returning a DeleteResult.
151 |        return handleDeleteError(error, relativePath, pathOutput);
152 |      }
153 |   };
154 | 
155 |   const deletePromises = pathsToDelete.map(safeProcessSingleDeleteOperation);
156 |   const settledResults = await Promise.allSettled(deletePromises);
157 | 
158 |   const outputResults = processSettledResults(settledResults, pathsToDelete);
159 | 
160 |   // Sort results by original path order for predictability
161 |   const originalIndexMap = new Map(pathsToDelete.map((p, i) => [p.replaceAll('\\', '/'), i]));
162 |   outputResults.sort((a, b) => {
163 |     const indexA = originalIndexMap.get(a.path) ?? Infinity;
164 |     const indexB = originalIndexMap.get(b.path) ?? Infinity;
165 |     return indexA - indexB;
166 |   });
167 | 
168 |   return {
169 |     content: [{ type: 'text', text: JSON.stringify(outputResults, null, 2) }],
170 |   };
171 | };
172 | 
173 | // Export the complete tool definition
174 | export const deleteItemsToolDefinition = {
175 |   name: 'delete_items',
176 |   description: 'Delete multiple specified files or directories.',
177 |   inputSchema: DeleteItemsArgsSchema,
178 |   handler: handleDeleteItemsFunc,
179 | };
180 | 
```

--------------------------------------------------------------------------------
/src/handlers/read-content.ts:
--------------------------------------------------------------------------------

```typescript
  1 | // src/handlers/readContent.ts
  2 | import { promises as fs, type Stats } from 'node:fs'; // Import Stats
  3 | import { z } from 'zod';
  4 | import { McpError, ErrorCode } from '@modelcontextprotocol/sdk/types.js';
  5 | import { resolvePath } from '../utils/path-utils.js';
  6 | 
  7 | // --- Types ---
  8 | 
  9 | interface McpToolResponse {
 10 |   content: { type: 'text'; text: string }[];
 11 | }
 12 | 
 13 | export const ReadContentArgsSchema = z
 14 |   .object({
 15 |     paths: z
 16 |       .array(z.string())
 17 |       .min(1, { message: 'Paths array cannot be empty' })
 18 |       .describe('Array of relative file paths to read.'),
 19 |     start_line: z
 20 |       .number()
 21 |       .int()
 22 |       .min(1)
 23 |       .optional()
 24 |       .describe('Optional 1-based starting line number'),
 25 |     end_line: z.number().int().min(1).optional().describe('Optional 1-based ending line number'),
 26 |     format: z
 27 |       .enum(['raw', 'lines'])
 28 |       .default('lines')
 29 |       .describe('Output format - "raw" for plain text, "lines" for line objects'),
 30 |   })
 31 |   .strict();
 32 | 
 33 | type ReadContentArgs = z.infer<typeof ReadContentArgsSchema>;
 34 | 
 35 | interface ReadResult {
 36 |   path: string;
 37 |   content?: string | { lineNumber: number; content: string }[];
 38 |   error?: string;
 39 | }
 40 | 
 41 | // --- Helper Functions ---
 42 | 
 43 | /** Parses and validates the input arguments. */
 44 | function parseAndValidateArgs(args: unknown): ReadContentArgs {
 45 |   try {
 46 |     return ReadContentArgsSchema.parse(args);
 47 |   } catch (error) {
 48 |     if (error instanceof z.ZodError) {
 49 |       throw new McpError(
 50 |         ErrorCode.InvalidParams,
 51 |         `Invalid arguments: ${error.errors.map((e) => `${e.path.join('.')} (${e.message})`).join(', ')}`,
 52 |       );
 53 |     }
 54 |     throw new McpError(ErrorCode.InvalidParams, 'Argument validation failed');
 55 |   }
 56 | }
 57 | 
 58 | /** Handles filesystem errors during file read or stat. */
 59 | interface FileReadErrorOptions {
 60 |   pathOutput: string;
 61 |   relativePath?: string;
 62 |   targetPath?: string;
 63 | }
 64 | 
 65 | function getBasicFsErrorMessage(fsError: unknown): string {
 66 |   return `Filesystem error: ${fsError instanceof Error ? fsError.message : String(fsError)}`;
 67 | }
 68 | 
 69 | function getSpecificFsErrorMessage(
 70 |   code: string,
 71 |   relativePath?: string,
 72 |   targetPath?: string,
 73 | ): string | undefined {
 74 |   switch (code) {
 75 |     case 'ENOENT': {
 76 |       return targetPath
 77 |         ? `File not found at resolved path '${targetPath}'${relativePath ? ` (from relative path '${relativePath}')` : ''}`
 78 |         : 'File not found';
 79 |     }
 80 |     case 'EISDIR': {
 81 |       return relativePath
 82 |         ? `Path is a directory, not a file: ${relativePath}`
 83 |         : 'Path is a directory, not a file';
 84 |     }
 85 |     case 'EACCES':
 86 |     case 'EPERM': {
 87 |       return relativePath
 88 |         ? `Permission denied reading file: ${relativePath}`
 89 |         : 'Permission denied reading file';
 90 |     }
 91 |     default: {
 92 |       return undefined;
 93 |     }
 94 |   }
 95 | }
 96 | 
 97 | function getFsErrorMessage(fsError: unknown, relativePath?: string, targetPath?: string): string {
 98 |   if (!fsError || typeof fsError !== 'object' || !('code' in fsError)) {
 99 |     return getBasicFsErrorMessage(fsError);
100 |   }
101 | 
102 |   const specificMessage = getSpecificFsErrorMessage(String(fsError.code), relativePath, targetPath);
103 |   return specificMessage || getBasicFsErrorMessage(fsError);
104 | }
105 | 
106 | function handleFileReadFsError(fsError: unknown, options: FileReadErrorOptions): ReadResult {
107 |   const { pathOutput, relativePath, targetPath } = options;
108 |   const errorMessage = getFsErrorMessage(fsError, relativePath, targetPath);
109 |   return { path: pathOutput, error: errorMessage };
110 | }
111 | 
112 | /** Handles errors during path resolution. */
113 | function handlePathResolveError(
114 |   resolveError: unknown,
115 |   _relativePath: string,
116 |   pathOutput: string,
117 | ): ReadResult {
118 |   const errorMessage = resolveError instanceof Error ? resolveError.message : String(resolveError);
119 |   // Error logged via McpError
120 |   return { path: pathOutput, error: `Error resolving path: ${errorMessage}` };
121 | }
122 | /** Processes the reading of a single file. */
123 | interface ReadOperationOptions {
124 |   startLine?: number | undefined;
125 |   endLine?: number | undefined;
126 |   format?: 'raw' | 'lines';
127 | }
128 | 
129 | async function processSingleReadOperation(
130 |   _relativePath: string,
131 |   options: ReadOperationOptions = {},
132 | ): Promise<ReadResult> {
133 |   const { startLine, endLine, format } = options;
134 |   const pathOutput = _relativePath.replaceAll('\\', '/');
135 |   let targetPath = '';
136 |   try {
137 |     targetPath = resolvePath(_relativePath);
138 |     try {
139 |       const stats: Stats = await fs.stat(targetPath); // Explicitly type Stats
140 |       if (!stats.isFile()) {
141 |         return {
142 |           path: pathOutput,
143 |           error: `Path is not a regular file: ${_relativePath}`,
144 |         };
145 |       }
146 |       if (startLine !== undefined || endLine !== undefined) {
147 |         // Read file line by line when line range is specified
148 |         const fileContent = await fs.readFile(targetPath, 'utf8');
149 |         const lines = fileContent.split('\n');
150 |         const start = startLine ? Math.min(startLine - 1, lines.length) : 0;
151 |         const end = endLine ? Math.min(endLine, lines.length) : lines.length;
152 |         const filteredLines = lines.slice(start, end);
153 |         const content =
154 |           format === 'raw'
155 |             ? filteredLines.join('\n')
156 |             : filteredLines.map((line, i) => ({
157 |                 lineNumber: start + i + 1,
158 |                 content: line,
159 |               }));
160 |         return { path: pathOutput, content };
161 |       } else {
162 |         // Read entire file when no line range specified
163 |         const content = await fs.readFile(targetPath, 'utf8');
164 |         return { path: pathOutput, content: content };
165 |       }
166 |     } catch (fsError: unknown) {
167 |       return handleFileReadFsError(fsError, {
168 |         pathOutput,
169 |         relativePath: _relativePath,
170 |         targetPath,
171 |       });
172 |     }
173 |   } catch (resolveError: unknown) {
174 |     return handlePathResolveError(resolveError, _relativePath, pathOutput);
175 |   }
176 | }
177 | 
178 | /** Processes results from Promise.allSettled. */
179 | function processSettledResults(
180 |   results: PromiseSettledResult<ReadResult>[],
181 |   originalPaths: string[],
182 | ): ReadResult[] {
183 |   return results.map((result, index) => {
184 |     const originalPath = originalPaths[index] ?? 'unknown_path';
185 |     const pathOutput = originalPath.replaceAll('\\', '/');
186 | 
187 |     return result.status === 'fulfilled'
188 |       ? result.value
189 |       : {
190 |           path: pathOutput,
191 |           error: `Unexpected error during processing: ${result.reason instanceof Error ? result.reason.message : String(result.reason)}`,
192 |         };
193 |   });
194 | }
195 | 
196 | /** Main handler function */
197 | const handleReadContentFunc = async (args: unknown): Promise<McpToolResponse> => {
198 |   const { paths: relativePaths, start_line, end_line, format } = parseAndValidateArgs(args);
199 | 
200 |   const readPromises = relativePaths.map((path) =>
201 |     processSingleReadOperation(path, { startLine: start_line, endLine: end_line, format }),
202 |   );
203 |   const settledResults = await Promise.allSettled(readPromises);
204 | 
205 |   const outputContents = processSettledResults(settledResults, relativePaths);
206 | 
207 |   // Sort results by original path order for predictability
208 |   const originalIndexMap = new Map(relativePaths.map((p, i) => [p.replaceAll('\\', '/'), i]));
209 |   outputContents.sort((a, b) => {
210 |     const indexA = originalIndexMap.get(a.path) ?? Infinity;
211 |     const indexB = originalIndexMap.get(b.path) ?? Infinity;
212 |     return indexA - indexB;
213 |   });
214 | 
215 |   return {
216 |     content: [{ type: 'text', text: JSON.stringify(outputContents, undefined, 2) }],
217 |   };
218 | };
219 | 
220 | // Export the complete tool definition
221 | export const readContentToolDefinition = {
222 |   name: 'read_content',
223 |   description: 'Read content from multiple specified files.',
224 |   inputSchema: ReadContentArgsSchema,
225 |   handler: handleReadContentFunc,
226 | };
227 | 
```

--------------------------------------------------------------------------------
/memory-bank/systemPatterns.md:
--------------------------------------------------------------------------------

```markdown
  1 | <!-- Version: 4.6 | Last Updated: 2025-07-04 | Updated By: Sylph -->
  2 | 
  3 | # System Patterns: Filesystem MCP Server
  4 | 
  5 | ## 1. Architecture Overview
  6 | 
  7 | The Filesystem MCP server is a standalone Node.js application designed to run as
  8 | a child process, communicating with its parent (the AI agent host) via standard
  9 | input/output (stdio) using the Model Context Protocol (MCP).
 10 | 
 11 | ```mermaid
 12 | graph LR
 13 |     A[Agent Host Environment] -- MCP over Stdio --> B(Filesystem MCP Server);
 14 |     B -- Node.js fs/path/glob --> C[User Filesystem (Project Root)];
 15 |     C -- Results/Data --> B;
 16 |     B -- MCP over Stdio --> A;
 17 | ```
 18 | 
 19 | ## 2. Key Technical Decisions & Patterns
 20 | 
 21 | - **MCP SDK Usage:** Leverages the `@modelcontextprotocol/sdk` for handling MCP
 22 |   communication (request parsing, response formatting, error handling). This
 23 |   standardizes interaction and reduces boilerplate code.
 24 | - **Stdio Transport:** Uses `StdioServerTransport` from the SDK for
 25 |   communication, suitable for running as a managed child process.
 26 | - **Asynchronous Operations:** All filesystem interactions and request handling
 27 |   are implemented using `async/await` and Node.js's promise-based `fs` module
 28 |   (`fs.promises`) for non-blocking I/O.
 29 | - **Strict Path Resolution:** A dedicated `resolvePath` function is used for
 30 |   _every_ path received from the agent.
 31 |   - It normalizes the path.
 32 |   - It resolves the path relative to the server process's current working
 33 |     directory (`process.cwd()`), which is treated as the `PROJECT_ROOT`.
 34 |     **Crucially, this requires the process launching the server (e.g., the agent
 35 |     host) to set the correct `cwd` for the target project.**
 36 |   - It explicitly checks if the resolved absolute path still starts with the
 37 |     `PROJECT_ROOT` absolute path to prevent path traversal vulnerabilities
 38 |     (e.g., `../../sensitive-file`).
 39 |   - It rejects absolute paths provided by the agent.
 40 |   - **Enhanced Error Reporting:** Throws `McpError` with detailed messages on
 41 |     failure, including the original path, resolved path (if applicable), and
 42 |     project root to aid debugging. Includes console logging for diagnostics.
 43 | - **Zod for Schemas & Validation:** Uses `zod` library to define input schemas
 44 |   for tools and perform robust validation within each handler. JSON schemas for
 45 |   MCP listing are generated from Zod schemas.
 46 | - **Tool Definition Aggregation:** Tool definitions (name, description, Zod
 47 |   schema, handler function) are defined in their respective handler files and
 48 |   aggregated in `src/handlers/index.ts` for registration in `src/index.ts`.
 49 |   - **Description Updates:** Descriptions (e.g., for `write_content`, `apply_diff`) are updated based on user feedback and best practices.
 50 | - **`apply_diff` Logic:**
 51 |   - Processes multiple diff blocks per file, applying them sequentially from bottom-to-top based on `start_line` to minimize line number conflicts.
 52 |   - Verifies that the content at the specified `start_line`/`end_line` exactly matches the `search` block before applying the `replace` block.
 53 |   - Ensures atomicity at the file level: if any block fails (e.g., content mismatch, invalid lines), the entire file's changes are discarded.
 54 |   - Returns detailed success/failure status per file, including context on error.
 55 | - **Error Handling:**
 56 |   - Uses `try...catch` blocks within each tool handler.
 57 |   - Catches specific Node.js filesystem errors (like `ENOENT`, `EPERM`,
 58 |     `EACCES`) and maps them to appropriate MCP error codes (`InvalidRequest`) or returns detailed error messages in the result object.
 59 |   - **Enhanced `ENOENT` Reporting:** Specifically in `readContent.ts`, `ENOENT` errors now include the resolved path, relative path, and project root in the returned error message for better context.
 60 |   - Uses custom `McpError` objects for standardized error reporting back to the
 61 |     agent (including enhanced details from `resolvePath`).
 62 |   - Logs unexpected errors to the server's console (`stderr`) for debugging.
 63 | - **Glob for Listing/Searching:** Uses the `glob` library for flexible and
 64 |   powerful file listing and searching based on glob patterns, including
 65 |   recursive operations and stat retrieval. Careful handling of `glob`'s
 66 |   different output types based on options (`string[]`, `Path[]`, `Path[]` with
 67 |   `stats`) is implemented.
 68 | - **TypeScript:** Provides static typing for better code maintainability, early
 69 |   error detection, and improved developer experience. Uses ES module syntax
 70 |   (`import`/`export`).
 71 | - **Dockerfile:** Uses a multi-stage build. The first stage (`deps`) installs _only_ production dependencies. The final stage copies `node_modules` and `package.json` from the `deps` stage, and copies the pre-built `build/` directory from the CI artifact context. This avoids rebuilding the project inside Docker and keeps the final image smaller.
 72 | - **CI/CD (GitHub Actions - Single Workflow):**
 73 |   - A single workflow file (`.github/workflows/publish.yml`) handles both CI checks and releases.
 74 |   - **Triggers:** Runs on pushes to the `main` branch and pushes of tags matching `v*.*.*`.
 75 |   - **Conditional Logic:**
 76 |     - The `build` job runs on both triggers but _only uploads artifacts_ (including `build/`, `package.json`, `package-lock.json`, `Dockerfile`, etc.) when triggered by a tag push.
 77 |     - The `publish-npm`, `publish-docker`, and `create-release` jobs depend on the `build` job but run _only_ when triggered by a version tag push.
 78 |   - **Structure & Artifact Handling:**
 79 |     - `build`: Checks out, installs, builds. Archives and uploads artifacts _if_ it's a tag push. Outputs version and archive filename.
 80 |     - `publish-npm`: Needs `build`. Downloads artifact, extracts using correct filename (`build-artifacts.tar.gz`), publishes to npm.
 81 |     - `publish-docker`: Needs `build`. Downloads artifact, extracts using correct filename, includes diagnostic `ls -la` steps, sets up Docker, builds (using pre-built code from artifact), and pushes image.
 82 |     - `create-release`: Needs `build`, `publish-npm`, `publish-docker`. Downloads artifact, extracts using correct filename, creates GitHub Release.
 83 |   - This simplified structure avoids workflow interdependencies while still preventing duplicate publishing actions and unnecessary artifact uploads during CI checks on `main`. Includes diagnostic steps for debugging artifact issues.
 84 | 
 85 | ## 3. Component Relationships
 86 | 
 87 | - **`index.ts`:** Main entry point. Sets up the MCP server instance, defines
 88 |   tool schemas, registers request handlers, and starts the server connection.
 89 | - **`Server` (from SDK):** Core MCP server class handling protocol logic.
 90 | - **`StdioServerTransport` (from SDK):** Handles reading/writing MCP messages
 91 |   via stdio.
 92 | - **Tool Handler Functions (`handleListFiles`, `handleEditFile`, etc.):**
 93 |   Contain the specific logic for each tool, including Zod argument validation,
 94 |   path resolution, filesystem interaction, and result formatting (including enhanced error details).
 95 | - **`resolvePath` Helper:** Centralized security function for path validation with enhanced error reporting.
 96 | - **`formatStats` Helper:** Utility to create a consistent stats object
 97 |   structure.
 98 | - **Node.js Modules (`fs`, `path`):** Used for actual filesystem operations and
 99 |   path manipulation.
100 | - **`glob` Library:** Used for pattern-based file searching and listing.
101 | - **`zod` Library:** Used for defining and validating tool input schemas.
102 | 
103 | - **`Dockerfile`:** Defines the multi-stage build process for the production Docker image.
104 | - **`.github/workflows/publish.yml`:** Defines the combined CI check and release process using conditional logic within a single workflow.
105 | 
```

--------------------------------------------------------------------------------
/src/handlers/create-directories.ts:
--------------------------------------------------------------------------------

```typescript
  1 | // src/handlers/createDirectories.ts
  2 | import { promises as fs, type Stats } from 'node:fs'; // Import Stats type
  3 | import { z } from 'zod';
  4 | import { McpError, ErrorCode } from '@modelcontextprotocol/sdk/types.js';
  5 | import { resolvePath, PROJECT_ROOT } from '../utils/path-utils.js';
  6 | 
  7 | // --- Types ---
  8 | 
  9 | interface McpToolResponse {
 10 |   content: { type: 'text'; text: string }[];
 11 | }
 12 | 
 13 | export const CreateDirsArgsSchema = z
 14 |   .object({
 15 |     paths: z
 16 |       .array(z.string())
 17 |       .min(1, { message: 'Paths array cannot be empty' })
 18 |       .describe('An array of relative directory paths to create.'),
 19 |   })
 20 |   .strict();
 21 | 
 22 | type CreateDirsArgs = z.infer<typeof CreateDirsArgsSchema>;
 23 | 
 24 | interface CreateDirResult {
 25 |   path: string;
 26 |   success: boolean;
 27 |   note?: string;
 28 |   error?: string; // Added error field back
 29 |   resolvedPath?: string;
 30 | }
 31 | 
 32 | // --- Define Dependencies Interface ---
 33 | export interface CreateDirsDeps {
 34 |   mkdir: typeof fs.mkdir;
 35 |   stat: typeof fs.stat;
 36 |   resolvePath: typeof resolvePath;
 37 |   PROJECT_ROOT: string;
 38 | }
 39 | 
 40 | // --- Helper Functions ---
 41 | 
 42 | /** Parses and validates the input arguments. */
 43 | function parseAndValidateArgs(args: unknown): CreateDirsArgs {
 44 |   try {
 45 |     return CreateDirsArgsSchema.parse(args);
 46 |   } catch (error) {
 47 |     if (error instanceof z.ZodError) {
 48 |       throw new McpError(
 49 |         ErrorCode.InvalidParams,
 50 |         `Invalid arguments: ${error.errors.map((e) => `${e.path.join('.')} (${e.message})`).join(', ')}`,
 51 |       );
 52 |     }
 53 |     // Throw a more specific error for non-Zod issues during parsing
 54 |     throw new McpError(
 55 |       ErrorCode.InvalidParams,
 56 |       `Argument validation failed: ${error instanceof Error ? error.message : String(error)}`,
 57 |     );
 58 |   }
 59 | }
 60 | 
 61 | /** Handles EEXIST errors by checking if the existing path is a directory. */
 62 | async function handleEexistError(
 63 |   targetPath: string,
 64 |   pathOutput: string,
 65 |   deps: CreateDirsDeps, // Added deps
 66 | ): Promise<CreateDirResult> {
 67 |   try {
 68 |     const stats: Stats = await deps.stat(targetPath); // Use deps.stat
 69 |     return stats.isDirectory()
 70 |       ? {
 71 |           path: pathOutput,
 72 |           success: true,
 73 |           note: 'Directory already exists',
 74 |           resolvedPath: targetPath,
 75 |         }
 76 |       : {
 77 |           path: pathOutput,
 78 |           success: false,
 79 |           error: 'Path exists but is not a directory',
 80 |           resolvedPath: targetPath,
 81 |         };
 82 |   } catch (statError: unknown) {
 83 |     // Error logged via McpError
 84 |     return {
 85 |       path: pathOutput,
 86 |       success: false,
 87 |       error: `Failed to stat existing path: ${statError instanceof Error ? statError.message : String(statError)}`,
 88 |       resolvedPath: targetPath,
 89 |     };
 90 |   }
 91 | }
 92 | 
 93 | /** Handles general errors during directory creation. */
 94 | function handleDirectoryCreationError(
 95 |   error: unknown,
 96 |   pathOutput: string,
 97 |   targetPath: string,
 98 |   // No deps needed here as it only formats errors
 99 | ): CreateDirResult {
100 |   // Handle McpError specifically (likely from resolvePath)
101 |   if (error instanceof McpError) {
102 |     return {
103 |       path: pathOutput,
104 |       success: false,
105 |       error: error.message, // Use the McpError message directly
106 |       resolvedPath: targetPath || 'Resolution failed', // targetPath might be empty if resolvePath failed early
107 |     };
108 |   }
109 | 
110 |   // Handle filesystem errors (like EPERM, EACCES, etc.)
111 |   const errorMessage = error instanceof Error ? error.message : String(error);
112 |   let specificError = `Failed to create directory: ${errorMessage}`;
113 | 
114 |   if (
115 |     error &&
116 |     typeof error === 'object' &&
117 |     'code' in error &&
118 |     (error.code === 'EPERM' || error.code === 'EACCES')
119 |   ) {
120 |     specificError = `Permission denied creating directory: ${errorMessage}`;
121 |   }
122 |   // Note: EEXIST is handled separately by handleEexistError
123 | 
124 |   // Error logged via McpError
125 |   return {
126 |     path: pathOutput,
127 |     success: false,
128 |     error: specificError,
129 |     resolvedPath: targetPath || 'Resolution failed',
130 |   };
131 | }
132 | 
133 | /** Processes the creation of a single directory. */
134 | async function processSingleDirectoryCreation(
135 |   relativePath: string, // Corrected signature: relativePath first
136 |   deps: CreateDirsDeps, // Corrected signature: deps second
137 | ): Promise<CreateDirResult> {
138 |   const pathOutput = relativePath.replaceAll('\\', '/'); // Normalize for output consistency
139 |   let targetPath = '';
140 |   try {
141 |     targetPath = deps.resolvePath(relativePath); // Use deps.resolvePath
142 |     if (targetPath === deps.PROJECT_ROOT) {
143 |       // Use deps.PROJECT_ROOT
144 |       return {
145 |         path: pathOutput,
146 |         success: false,
147 |         error: 'Creating the project root is not allowed.',
148 |         resolvedPath: targetPath,
149 |       };
150 |     }
151 |     await deps.mkdir(targetPath, { recursive: true }); // Use deps.mkdir
152 |     return { path: pathOutput, success: true, resolvedPath: targetPath };
153 |   } catch (error: unknown) {
154 |     if (error && typeof error === 'object' && 'code' in error && error.code === 'EEXIST') {
155 |       // Pass deps to handleEexistError
156 |       return await handleEexistError(targetPath, pathOutput, deps);
157 |     }
158 |     // Pass potential McpError from resolvePath or other errors
159 |     return handleDirectoryCreationError(error, pathOutput, targetPath);
160 |   }
161 | }
162 | 
163 | /** Processes results from Promise.allSettled. */
164 | export function processSettledResults( // Keep export for testing
165 |   results: PromiseSettledResult<CreateDirResult>[],
166 |   originalPaths: string[],
167 | ): CreateDirResult[] {
168 |   return results.map((result, index) => {
169 |     const originalPath = originalPaths[index] ?? 'unknown_path';
170 |     const pathOutput = originalPath.replaceAll('\\', '/');
171 | 
172 |     return result.status === 'fulfilled'
173 |       ? result.value
174 |       : {
175 |           path: pathOutput,
176 |           success: false,
177 |           error: `Unexpected error during processing: ${result.reason instanceof Error ? result.reason.message : String(result.reason)}`,
178 |           resolvedPath: 'Unknown on rejection',
179 |         };
180 |   });
181 | }
182 | 
183 | /** Main handler function (internal, accepts dependencies) */
184 | // Export for testing
185 | export const handleCreateDirectoriesInternal = async (
186 |   args: unknown,
187 |   deps: CreateDirsDeps,
188 | ): Promise<McpToolResponse> => {
189 |   let pathsToCreate: string[];
190 |   try {
191 |     // Validate arguments first
192 |     const validatedArgs = parseAndValidateArgs(args);
193 |     pathsToCreate = validatedArgs.paths;
194 |   } catch (error) {
195 |     // If validation fails, re-throw the McpError from parseAndValidateArgs
196 |     if (error instanceof McpError) {
197 |       throw error;
198 |     }
199 |     // Wrap unexpected validation errors
200 |     throw new McpError(
201 |       ErrorCode.InvalidParams,
202 |       `Unexpected error during argument validation: ${error instanceof Error ? error.message : String(error)}`,
203 |     );
204 |   }
205 | 
206 |   // Proceed with validated paths
207 |   const creationPromises = pathsToCreate.map((p) => processSingleDirectoryCreation(p, deps));
208 |   const settledResults = await Promise.allSettled(creationPromises);
209 | 
210 |   const outputResults = processSettledResults(settledResults, pathsToCreate);
211 | 
212 |   // Sort results by original path order for predictability
213 |   const originalIndexMap = new Map(pathsToCreate.map((p, i) => [p.replaceAll('\\', '/'), i]));
214 |   outputResults.sort((a, b) => {
215 |     const indexA = originalIndexMap.get(a.path) ?? Infinity;
216 |     const indexB = originalIndexMap.get(b.path) ?? Infinity;
217 |     return indexA - indexB;
218 |   });
219 | 
220 |   return {
221 |     content: [{ type: 'text', text: JSON.stringify(outputResults, undefined, 2) }],
222 |   };
223 | };
224 | 
225 | // Export the complete tool definition using the production handler
226 | export const createDirectoriesToolDefinition = {
227 |   name: 'create_directories',
228 |   description: 'Create multiple specified directories (including intermediate ones).',
229 |   inputSchema: CreateDirsArgsSchema,
230 |   handler: (args: unknown): Promise<McpToolResponse> => {
231 |     // Production handler provides real dependencies
232 |     const productionDeps: CreateDirsDeps = {
233 |       mkdir: fs.mkdir,
234 |       stat: fs.stat,
235 |       resolvePath: resolvePath,
236 |       PROJECT_ROOT: PROJECT_ROOT,
237 |     };
238 |     return handleCreateDirectoriesInternal(args, productionDeps);
239 |   },
240 | };
241 | 
```
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