@berthojoris/mcp-mysql-server 1.9.0 → 1.9.1

package/CHANGELOG.md

@@ -5,6 +5,102 @@ All notable changes to the MySQL MCP Server will be documented in this file.
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
+## [1.9.1] - 2025-11-24
+
+### Added
+- **OpenAI Codex Integration** - Full support for OpenAI Codex CLI and VS Code Extension
+  - Added Codex configuration examples to README.md
+  - Added comprehensive Codex Integration section to DOCUMENTATIONS.md
+  - TOML configuration format (`~/.codex/config.toml`)
+  - CLI setup via `codex mcp add` command
+  - Environment variables configuration
+  - Multiple database configurations (prod/dev)
+  - Advanced options (timeouts, tool filtering)
+  - Codex MCP management commands reference
+  - Troubleshooting section for Codex-specific issues
+
+### Changed
+- Updated package.json keywords to include "codex" and "openai-codex"
+- Updated feature list to include OpenAI Codex as supported AI agent
+
+### Documentation
+- README.md: Added OpenAI Codex CLI & VS Code Extension configuration section
+- DOCUMENTATIONS.md: Added new section "OpenAI Codex Integration" with:
+  - Configuration overview table
+  - Quick setup via CLI
+  - Manual TOML configuration examples
+  - Configuration options reference table
+  - Advanced configurations (prod+dev, tool filtering, custom timeouts)
+  - VS Code Extension setup steps
+  - Verification instructions
+  - Common TOML syntax errors
+  - Permission sets for common use cases
+
+## [1.9.0] - 2025-11-24
+
+### Added
+- **Schema Versioning & Migrations** - Complete database migration management system with 9 new tools:
+  - `initMigrationsTable` - Initialize the migrations tracking table (`_schema_migrations`)
+  - `createMigration` - Create new migration files with up/down SQL and automatic versioning
+  - `applyMigrations` - Apply pending migrations with dry-run support and transaction safety
+  - `rollbackMigration` - Rollback migrations with automatic down SQL execution
+  - `getMigrationStatus` - Get detailed status of all migrations
+  - `getSchemaVersion` - Get current schema version quickly
+  - `validateMigrations` - Validate migration checksums and detect tampering
+  - `resetFailedMigration` - Reset failed migrations for retry
+  - `generateMigrationFromDiff` - Auto-generate migrations by comparing table structures
+
+### Changed
+- **README.md Restructured** - Complete overhaul of MCP integration documentation
+  - Changed "Claude Desktop" references to "Claude Code"
+  - Added configuration examples for 12 AI tools/IDEs:
+    - Claude Code (CLI) - `.mcp.json`
+    - Cursor - `.cursor/mcp.json`
+    - Windsurf - `~/.codeium/windsurf/mcp_config.json`
+    - Cline (VS Code Extension)
+    - Gemini CLI - `~/.gemini/settings.json`
+    - Trae AI
+    - Qwen Code
+    - Droid CLI
+    - Zed IDE - `~/.config/zed/settings.json`
+    - Kilo Code (VS Code Extension)
+    - Roo Code (VS Code Extension)
+    - Continue (VS Code Extension)
+
+### Documentation
+- Added comprehensive Schema Versioning documentation to DOCUMENTATIONS.md
+- Includes tool overview, permission requirements, best practices
+- Common migration patterns with real-world examples
+- Updated roadmap to mark Schema Versioning as COMPLETED
+
+### Technical Details
+- Migration tracking table stores: version, name, description, up_sql, down_sql, checksum, execution_time, status
+- MD5 checksum validation prevents migration tampering
+- Multi-statement SQL support for complex migrations
+- Dry-run mode for safe migration testing
+- Automatic version generation using timestamp format (YYYYMMDDHHMMSS)
+
+---
+
+## [1.8.0] - 2025-11-24
+
+### Added
+- **Data Migration Tools** - Tools for data import/export and database transfer:
+  - Data import/export functionality
+  - Cross-database migration support
+
+---
+
+## [1.7.0] - 2025-11-24
+
+### Added
+- **Database Backup/Restore** - Complete backup and restore functionality:
+  - Database backup tools
+  - Database restore tools
+  - Data import/export tools
+
+---
+
 ## [1.6.3] - 2025-11-23
 
 ### Fixed
@@ -344,6 +440,12 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ## Version History Summary
 
+- **1.9.0** - Schema Versioning & Migrations (9 new tools), MCP integration for 12 AI tools
+- **1.8.0** - Data Migration Tools
+- **1.7.0** - Database Backup/Restore, Data Import/Export
+- **1.6.3** - Fixed missing tools in toolCategoryMap, security keyword refinement
+- **1.6.2** - Fixed security keyword false positive bug
+- **1.4.16** - Added get_table_size tool to manifest
 - **1.4.4** - Bug fixes: First call failure & execute permission
 - **1.4.3** - Permission error handling improvements
 - **1.4.2** - Dynamic per-project permissions

package/DOCUMENTATIONS.md

@@ -26,9 +26,10 @@ This file contains detailed documentation for all features of the MySQL MCP Serv
 18. [Query Result Caching](#💾-query-result-caching)
 19. [Query Optimization Hints](#🎯-query-optimization-hints)
 20. [Bulk Operations](#🚀-bulk-operations)
-21. [Troubleshooting](#🛠️-troubleshooting)
-22. [License](#📄-license)
-23. [Roadmap](#🗺️-roadmap)
+21. [OpenAI Codex Integration](#🤖-openai-codex-integration) - NEW!
+22. [Troubleshooting](#🛠️-troubleshooting)
+23. [License](#📄-license)
+24. [Roadmap](#🗺️-roadmap)
 
 ---
 
@@ -2741,6 +2742,224 @@ Each bulk operation returns performance metrics:
 
 ---
 
+## 🤖 OpenAI Codex Integration
+
+OpenAI Codex CLI and VS Code Extension support MCP servers through a shared TOML configuration file. This section provides detailed setup instructions for integrating the MySQL MCP Server with Codex.
+
+### Configuration Overview
+
+| Feature | Details |
+|---------|---------|
+| **Config File** | `~/.codex/config.toml` |
+| **Shared Config** | CLI and VS Code extension use the same file |
+| **Transport** | STDIO (standard input/output) |
+| **Format** | TOML |
+
+### Quick Setup via CLI
+
+The fastest way to add MySQL MCP to Codex:
+
+```bash
+# Basic setup with connection string
+codex mcp add mysql -- npx -y @berthojoris/mcp-mysql-server mysql://user:password@localhost:3306/database list,read,utility
+
+# With environment variables
+codex mcp add mysql --env DB_HOST=localhost --env DB_PORT=3306 --env DB_USER=root --env DB_PASSWORD=secret --env DB_NAME=mydb --env MCP_PERMISSIONS=list,read,utility -- npx -y @berthojoris/mcp-mysql-server
+```
+
+### Manual TOML Configuration
+
+Edit `~/.codex/config.toml` directly for more control:
+
+#### Basic Configuration
+
+```toml
+[mcp_servers.mysql]
+command = "npx"
+args = ["-y", "@berthojoris/mcp-mysql-server", "mysql://user:password@localhost:3306/database", "list,read,utility"]
+```
+
+#### With Environment Variables
+
+```toml
+[mcp_servers.mysql]
+command = "npx"
+args = ["-y", "@berthojoris/mcp-mysql-server"]
+
+[mcp_servers.mysql.env]
+DB_HOST = "localhost"
+DB_PORT = "3306"
+DB_USER = "root"
+DB_PASSWORD = "your_password"
+DB_NAME = "your_database"
+MCP_PERMISSIONS = "list,read,utility"
+```
+
+#### Local Path Configuration (Development)
+
+```toml
+[mcp_servers.mysql]
+command = "node"
+args = ["C:\\DEKSTOP\\MCP\\mcp_mysql\\bin\\mcp-mysql.js", "mysql://user:pass@localhost:3306/database", "list,read,utility"]
+cwd = "C:\\DEKSTOP\\MCP\\mcp_mysql"
+```
+
+### Configuration Options Reference
+
+| Option | Type | Default | Description |
+|--------|------|---------|-------------|
+| `command` | String | Required | The executable to launch the server |
+| `args` | Array | `[]` | Command-line arguments passed to the server |
+| `env` | Table | `{}` | Environment variables for the server process |
+| `env_vars` | Array | `[]` | Additional env vars to whitelist/forward |
+| `cwd` | String | - | Working directory to launch the server from |
+| `startup_timeout_sec` | Number | `10` | Server startup timeout in seconds |
+| `tool_timeout_sec` | Number | `60` | Per-tool execution timeout in seconds |
+| `enabled` | Boolean | `true` | Set to `false` to disable without deleting |
+| `enabled_tools` | Array | - | Allow-list of tools to expose from server |
+| `disabled_tools` | Array | - | Deny-list of tools to hide |
+
+### Advanced Configurations
+
+#### Production (Read-Only) + Development (Full Access)
+
+```toml
+# Production database - Read Only
+[mcp_servers.mysql-prod]
+command = "npx"
+args = ["-y", "@berthojoris/mcp-mysql-server", "mysql://reader:pass@prod-server:3306/prod_db", "list,read,utility"]
+startup_timeout_sec = 30
+tool_timeout_sec = 120
+
+# Development database - Full Access
+[mcp_servers.mysql-dev]
+command = "npx"
+args = ["-y", "@berthojoris/mcp-mysql-server", "mysql://root:pass@localhost:3306/dev_db", "list,read,create,update,delete,execute,ddl,transaction,utility"]
+```
+
+#### With Tool Filtering (Limit Exposed Tools)
+
+```toml
+[mcp_servers.mysql]
+command = "npx"
+args = ["-y", "@berthojoris/mcp-mysql-server", "mysql://user:pass@localhost:3306/db", "list,read,utility"]
+
+# Only expose specific tools
+enabled_tools = [
+  "list_tables",
+  "read_table_schema",
+  "read_records",
+  "run_query",
+  "test_connection"
+]
+
+# Or hide specific dangerous tools
+# disabled_tools = ["drop_table", "delete_record", "execute_sql"]
+```
+
+#### With Custom Timeouts for Large Operations
+
+```toml
+[mcp_servers.mysql]
+command = "npx"
+args = ["-y", "@berthojoris/mcp-mysql-server", "mysql://user:pass@localhost:3306/db", "list,read,create,update,delete,utility"]
+startup_timeout_sec = 30    # Allow more time for startup
+tool_timeout_sec = 300      # 5 minutes for large bulk operations
+```
+
+### Codex MCP Management Commands
+
+```bash
+# List all configured MCP servers
+codex mcp list
+
+# List with JSON output (for scripting)
+codex mcp list --json
+
+# Get details about a specific server
+codex mcp get mysql
+
+# Remove an MCP server
+codex mcp remove mysql
+
+# Add server with multiple env vars
+codex mcp add mysql --env DB_HOST=localhost --env DB_USER=root -- npx -y @berthojoris/mcp-mysql-server
+```
+
+### VS Code Extension Setup
+
+1. Install the Codex VS Code Extension
+2. Open the extension settings (gear icon in top right)
+3. Click "MCP settings" > "Open config.toml"
+4. Add your MySQL MCP configuration
+5. Save the file - changes apply immediately
+
+### Verifying the Setup
+
+After configuration, test your setup:
+
+```bash
+# In Codex CLI
+codex mcp list
+
+# You should see:
+# mysql: npx -y @berthojoris/mcp-mysql-server ...
+```
+
+Then ask Codex:
+- "What databases are available?"
+- "List all tables in my database"
+- "Show me the structure of the users table"
+
+### Troubleshooting Codex Integration
+
+#### Server Not Starting
+
+1. **Check TOML syntax** - A single syntax error breaks both CLI and VS Code extension
+2. **Verify paths** - Use absolute paths for local installations
+3. **Check startup timeout** - Increase `startup_timeout_sec` if server takes time to initialize
+
+#### Tools Not Appearing
+
+1. Verify server configuration with `codex mcp list --json`
+2. Check that `enabled = true` (or not set, defaults to true)
+3. Ensure `enabled_tools` doesn't accidentally filter out needed tools
+
+#### Connection Errors
+
+1. Test MySQL connection manually: `mysql -u user -p -h host database`
+2. Verify credentials in connection string
+3. Check network connectivity to MySQL server
+
+#### Common TOML Syntax Errors
+
+```toml
+# WRONG - missing quotes around string values
+args = [-y, @berthojoris/mcp-mysql-server]
+
+# CORRECT
+args = ["-y", "@berthojoris/mcp-mysql-server"]
+
+# WRONG - using JSON syntax
+"mcp_servers": { "mysql": { ... } }
+
+# CORRECT - TOML table syntax
+[mcp_servers.mysql]
+command = "npx"
+```
+
+### Permission Sets for Common Use Cases
+
+| Use Case | Permissions |
+|----------|-------------|
+| Read-Only Analysis | `list,read,utility` |
+| Data Entry | `list,read,create,utility` |
+| Full Data Access | `list,read,create,update,delete,utility` |
+| With Transactions | `list,read,create,update,delete,transaction,utility` |
+| Development (Full) | `list,read,create,update,delete,execute,ddl,transaction,procedure,utility` |
+
+---
+
 ## 🛠️ Troubleshooting
 
 ### MCP Server Not Connecting

package/README.md

@@ -1,6 +1,6 @@
 # MySQL MCP Server
 
-A fully-featured **Model Context Protocol (MCP)** server for MySQL database integration with AI agents like Claude Code, Cursor, Windsurf, Zed, Cline, Kilo Code, Roo Code, Gemini CLI, and other MCP-compatible tools.
+A fully-featured **Model Context Protocol (MCP)** server for MySQL database integration with AI agents like Claude Code, Cursor, Windsurf, Zed, Cline, Kilo Code, Roo Code, Gemini CLI, OpenAI Codex, and other MCP-compatible tools.
 
 [![npm version](https://img.shields.io/npm/v/@berthojoris/mcp-mysql-server)](https://www.npmjs.com/package/@berthojoris/mcp-mysql-server)
 [![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](https://opensource.org/licenses/MIT)
@@ -9,7 +9,7 @@ A fully-featured **Model Context Protocol (MCP)** server for MySQL database inte
 
 ## 🌟 Features
 
-- ✅ **Full MCP Protocol Support** - Works with Claude Code, Cursor, Windsurf, Zed, Cline, Kilo Code, Roo Code, Gemini CLI, and any MCP-compatible AI agent
+- ✅ **Full MCP Protocol Support** - Works with Claude Code, Cursor, Windsurf, Zed, Cline, Kilo Code, Roo Code, Gemini CLI, OpenAI Codex, and any MCP-compatible AI agent
 - 🔐 **Secure by Default** - Parameterized queries, SQL injection protection, permission-based access control
 - 🛠️ **100 Powerful Tools** - Complete database operations (CRUD, DDL, queries, schema inspection, transactions, stored procedures, bulk operations, backup/restore, import/export, data migration)
 - 🎛️ **Dynamic Per-Project Permissions** - Each AI agent can have different access levels
@@ -399,6 +399,85 @@ Zed IDE uses `~/.config/zed/settings.json` for MCP configuration.
 }
 ```
 
+#### OpenAI Codex CLI & VS Code Extension
+
+OpenAI Codex uses `~/.codex/config.toml` for MCP configuration. This configuration is **shared between the CLI and VS Code extension**.
+
+**Option 1: Using the Codex CLI command:**
+
+```bash
+codex mcp add mysql -- npx -y @berthojoris/mcp-mysql-server mysql://user:password@localhost:3306/database list,read,utility
+```
+
+**Option 2: Manual TOML configuration (`~/.codex/config.toml`):**
+
+```toml
+[mcp_servers.mysql]
+command = "npx"
+args = ["-y", "@berthojoris/mcp-mysql-server", "mysql://user:password@localhost:3306/database", "list,read,utility"]
+startup_timeout_sec = 20
+```
+
+**With environment variables:**
+
+```toml
+[mcp_servers.mysql]
+command = "npx"
+args = ["-y", "@berthojoris/mcp-mysql-server"]
+
+[mcp_servers.mysql.env]
+DB_HOST = "localhost"
+DB_PORT = "3306"
+DB_USER = "root"
+DB_PASSWORD = "your_password"
+DB_NAME = "your_database"
+MCP_PERMISSIONS = "list,read,utility"
+```
+
+**Multiple database configurations:**
+
+```toml
+# Production - Read Only
+[mcp_servers.mysql-prod]
+command = "npx"
+args = ["-y", "@berthojoris/mcp-mysql-server", "mysql://reader:pass@prod-server:3306/prod_db", "list,read,utility"]
+startup_timeout_sec = 30
+
+# Development - Full Access
+[mcp_servers.mysql-dev]
+command = "npx"
+args = ["-y", "@berthojoris/mcp-mysql-server", "mysql://root:pass@localhost:3306/dev_db", "list,read,create,update,delete,execute,ddl,utility"]
+```
+
+**Advanced options:**
+
+```toml
+[mcp_servers.mysql]
+command = "npx"
+args = ["-y", "@berthojoris/mcp-mysql-server", "mysql://user:pass@localhost:3306/database", "list,read,utility"]
+startup_timeout_sec = 20        # Server startup timeout (default: 10)
+tool_timeout_sec = 120          # Per-tool execution timeout (default: 60)
+enabled = true                  # Set false to disable without deleting
+# enabled_tools = ["list_tables", "read_records"]  # Optional: limit exposed tools
+# disabled_tools = ["drop_table", "delete_record"] # Optional: hide specific tools
+```
+
+**Codex MCP management commands:**
+
+```bash
+# List all configured MCP servers
+codex mcp list
+
+# List with JSON output
+codex mcp list --json
+
+# Remove an MCP server
+codex mcp remove mysql
+
+# Get details about a specific server
+codex mcp get mysql
+```
+
 #### Kilo Code (VS Code Extension)
 
 Kilo Code is a VS Code extension that supports MCP servers.

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@berthojoris/mcp-mysql-server",
-  "version": "1.9.0",
+  "version": "1.9.1",
   "description": "Model Context Protocol server for MySQL database integration with dynamic per-project permissions, backup/restore, data import/export, and data migration capabilities",
   "main": "dist/index.js",
   "types": "dist/index.d.ts",
@@ -29,6 +29,8 @@
     "claude",
     "cline",
     "windsurf",
+    "codex",
+    "openai-codex",
     "agent",
     "database-tools",
     "sql",