feat: Add Sequential Thinking to Code Review + Frontend Validation

Enhanced code review and frontend validation with intelligent triggers: Code Review Agent Enhancement: - Added Sequential Thinking MCP integration for complex issues - Triggers on 2+ rejections or 3+ critical issues - New escalation format with root cause analysis - Comprehensive solution strategies with trade-off evaluation - Educational feedback to break rejection cycles - Files: .claude/agents/code-review.md (+308 lines) - Docs: CODE_REVIEW_ST_ENHANCEMENT.md, CODE_REVIEW_ST_TESTING.md Frontend Design Skill Enhancement: - Automatic invocation for ANY UI change - Comprehensive validation checklist (200+ checkpoints) - 8 validation categories (visual, interactive, responsive, a11y, etc.) - 3 validation levels (quick, standard, comprehensive) - Integration with code review workflow - Files: .claude/skills/frontend-design/SKILL.md (+120 lines) - Docs: UI_VALIDATION_CHECKLIST.md (462 lines), AUTOMATIC_VALIDATION_ENHANCEMENT.md (587 lines) Settings Optimization: - Repaired .claude/settings.local.json (fixed m365 pattern) - Reduced permissions from 49 to 33 (33% reduction) - Removed duplicates, sorted alphabetically - Created SETTINGS_PERMISSIONS.md documentation Checkpoint Command Enhancement: - Dual checkpoint system (git + database) - Saves session context to API for cross-machine recall - Includes git metadata in database context - Files: .claude/commands/checkpoint.md (+139 lines) Decision Rationale: - Sequential Thinking MCP breaks rejection cycles by identifying root causes - Automatic frontend validation catches UI issues before code review - Dual checkpoints enable complete project memory across machines - Settings optimization improves maintainability Total: 1,200+ lines of documentation and enhancements Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
2026-01-17 16:23:52 -07:00
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+# MCP Servers Configuration for ClaudeTools
+
+**Last Updated:** 2026-01-17
+**Status:** Configured and Ready for Testing
+**Phase:** Phase 1 - Core MCP Servers
+
+---
+
+## Overview
+
+This document describes the Model Context Protocol (MCP) servers configured for the ClaudeTools project. MCP servers extend Claude Code's capabilities by providing specialized tools and integrations.
+
+**What is MCP?**
+Model Context Protocol (MCP) is an open protocol that standardizes how applications provide context to LLMs, allowing AI applications to connect with various data sources and tools in a consistent manner.
+
+**Official Resources:**
+- MCP Registry: https://registry.modelcontextprotocol.io/
+- Official GitHub: https://github.com/modelcontextprotocol/servers
+- Documentation: https://modelcontextprotocol.io/
+- Claude Code MCP Docs: https://code.claude.com/docs/en/mcp
+
+---
+
+## Installed MCP Servers
+
+### 1. GitHub MCP Server
+
+**Package:** `@modelcontextprotocol/server-github`
+**Purpose:** Repository management, PR operations, and GitHub API integration
+**Status:** Configured (requires GitHub Personal Access Token)
+
+**Capabilities:**
+- Repository management (create, clone, fork)
+- File operations (read, write, push)
+- Branch management (create, list, switch)
+- Git operations (commit, push, pull)
+- Issues handling (create, list, update, close)
+- Pull request management (create, review, merge)
+- Search functionality (code, issues, repositories)
+
+**Configuration:**
+```json
+{
+  "github": {
+    "command": "npx",
+    "args": ["-y", "@modelcontextprotocol/server-github"],
+    "env": {
+      "GITHUB_PERSONAL_ACCESS_TOKEN": "<YOUR_TOKEN_HERE>"
+    }
+  }
+}
+```
+
+**Setup Steps:**
+
+1. **Generate GitHub Personal Access Token:**
+   - Go to: https://github.com/settings/tokens
+   - Click "Generate new token (classic)"
+   - Select scopes: `repo`, `workflow`, `read:org`, `read:user`
+   - Copy the generated token
+
+2. **Add Token to Configuration:**
+   - Edit `D:\ClaudeTools\.mcp.json`
+   - Replace `<YOUR_TOKEN_HERE>` with your actual token
+   - **IMPORTANT:** Do NOT commit the token to version control
+   - Consider using environment variables or secrets management
+
+3. **Restart Claude Code** to load the new configuration
+
+**Gitea Integration Notes:**
+- The official GitHub MCP server is designed for GitHub.com
+- For self-hosted Gitea integration, you may need:
+  - Custom MCP server or adapter
+  - Gitea API endpoint configuration
+  - Alternative authentication method
+- See "Future Gitea Integration" section below
+
+---
+
+### 2. Filesystem MCP Server
+
+**Package:** `@modelcontextprotocol/server-filesystem`
+**Purpose:** Enhanced file system operations with safety controls
+**Status:** Configured and Ready
+
+**Capabilities:**
+- Read files with proper permissions
+- Write files with safety checks
+- Directory management (create, list, delete)
+- File metadata access (size, modified time, permissions)
+- Search files and directories
+- Move and copy operations
+- Sandboxed directory access
+
+**Configuration:**
+```json
+{
+  "filesystem": {
+    "command": "npx",
+    "args": [
+      "-y",
+      "@modelcontextprotocol/server-filesystem",
+      "D:\\ClaudeTools"
+    ]
+  }
+}
+```
+
+**Access Control:**
+- Currently restricted to: `D:\ClaudeTools`
+- Add additional directories by appending paths to `args` array
+- Example for multiple directories:
+  ```json
+  "args": [
+    "-y",
+    "@modelcontextprotocol/server-filesystem",
+    "D:\\ClaudeTools",
+    "D:\\Projects",
+    "C:\\Users\\YourUser\\Documents"
+  ]
+  ```
+
+**Safety Features:**
+- Directory access control (only specified directories)
+- Permission validation before operations
+- Read-only mode available (mount with `:ro` flag in Docker)
+- Prevents accidental system file modifications
+
+**Usage Examples:**
+- Read project files with context awareness
+- Safe file modifications with backups
+- Directory structure analysis
+- File search across allowed directories
+
+---
+
+### 3. Sequential Thinking MCP Server
+
+**Package:** `@modelcontextprotocol/server-sequential-thinking`
+**Purpose:** Structured problem-solving and step-by-step analysis
+**Status:** Configured and Ready
+
+**Capabilities:**
+- Step-by-step thinking process
+- Problem decomposition
+- Logical reasoning chains
+- Complex analysis structuring
+- Decision tree navigation
+- Multi-step task planning
+
+**Configuration:**
+```json
+{
+  "sequential-thinking": {
+    "command": "npx",
+    "args": [
+      "-y",
+      "@modelcontextprotocol/server-sequential-thinking"
+    ]
+  }
+}
+```
+
+**Optional Configuration:**
+- Disable thought logging: Set environment variable `DISABLE_THOUGHT_LOGGING=true`
+- Example:
+  ```json
+  "sequential-thinking": {
+    "command": "npx",
+    "args": ["-y", "@modelcontextprotocol/server-sequential-thinking"],
+    "env": {
+      "DISABLE_THOUGHT_LOGGING": "true"
+    }
+  }
+  ```
+
+**Usage Scenarios:**
+- Complex debugging sessions
+- Architecture design decisions
+- Multi-step refactoring plans
+- Problem diagnosis
+- Performance optimization planning
+
+---
+
+## Installation Details
+
+### Prerequisites
+
+- **Node.js:** v24.11.0 (installed)
+- **npm/npx:** Included with Node.js
+- **Claude Code:** Latest version with MCP support
+
+### Installation Method
+
+All three MCP servers use **npx** for installation, which:
+- Downloads packages on-demand (no manual npm install needed)
+- Automatically updates to latest versions
+- Runs in isolated environments
+- Requires no global installations
+
+### Configuration File Location
+
+**Project-Scoped Configuration:**
+- File: `D:\ClaudeTools\.mcp.json`
+- Scope: ClaudeTools project only
+- Version Control: Can be committed (without secrets)
+- Team Sharing: Configuration shared across team
+
+**User-Scoped Configuration:**
+- File: `~/.claude.json` (C:\Users\YourUser\.claude.json on Windows)
+- Scope: All Claude Code projects for current user
+- Not shared: User-specific settings
+
+**Recommendation:** Use project-scoped `.mcp.json` for team consistency, but store sensitive tokens in user-scoped config or environment variables.
+
+---
+
+## Testing MCP Servers
+
+### Test 1: Sequential Thinking Server
+
+**Test Command:**
+```bash
+npx -y @modelcontextprotocol/server-sequential-thinking --help
+```
+
+**Expected:** Server runs without errors
+
+**In Claude Code:**
+- Ask: "Use sequential thinking to break down the problem of optimizing database queries"
+- Verify: Claude provides step-by-step analysis
+
+---
+
+### Test 2: Filesystem Server
+
+**Test Command:**
+```bash
+npx -y @modelcontextprotocol/server-filesystem --help
+```
+
+**Expected:** Server runs without errors
+
+**In Claude Code:**
+- Ask: "List all Python files in the api directory"
+- Ask: "Read the contents of api/main.py and summarize"
+- Verify: Claude can access files in D:\ClaudeTools
+
+---
+
+### Test 3: GitHub Server
+
+**Test Command:**
+```bash
+npx -y @modelcontextprotocol/server-github --help
+```
+
+**Expected:** Server runs without errors
+
+**In Claude Code (after adding token):**
+- Ask: "List my recent GitHub repositories"
+- Ask: "Show me open pull requests for ClaudeTools"
+- Verify: Claude can access GitHub API
+
+**Note:** Requires valid `GITHUB_PERSONAL_ACCESS_TOKEN` in configuration
+
+---
+
+## Troubleshooting
+
+### Issue: MCP Servers Not Appearing in Claude Code
+
+**Solutions:**
+1. Verify `.mcp.json` syntax (valid JSON)
+2. Restart Claude Code completely (quit and relaunch)
+3. Check Claude Code logs for errors
+4. Verify npx works: `npx --version`
+
+---
+
+### Issue: GitHub MCP Server - Authentication Failed
+
+**Solutions:**
+1. Verify token is correct in `.mcp.json`
+2. Check token scopes include: `repo`, `workflow`, `read:org`
+3. Test token manually:
+   ```bash
+   curl -H "Authorization: token YOUR_TOKEN" https://api.github.com/user
+   ```
+4. Regenerate token if expired
+
+---
+
+### Issue: Filesystem MCP Server - Access Denied
+
+**Solutions:**
+1. Verify directory path in configuration matches actual path
+2. Check Windows path format: `D:\\ClaudeTools` (double backslashes)
+3. Ensure directory exists and is readable
+4. Add additional directories to `args` array if needed
+
+---
+
+### Issue: Sequential Thinking Server - No Output
+
+**Solutions:**
+1. Explicitly ask Claude to "use sequential thinking"
+2. Check if `DISABLE_THOUGHT_LOGGING=true` is set
+3. Try with a complex problem that requires multi-step reasoning
+
+---
+
+## Security Considerations
+
+### GitHub Token Security
+
+**DO:**
+- Use fine-grained tokens with minimal required scopes
+- Store tokens in environment variables or secrets manager
+- Rotate tokens regularly (every 90 days)
+- Use separate tokens for different environments
+
+**DO NOT:**
+- Commit tokens to version control
+- Share tokens in team chat or documentation
+- Use admin-level tokens for routine operations
+- Store tokens in plaintext configuration files (committed to git)
+
+**Best Practice:**
+```json
+{
+  "github": {
+    "command": "npx",
+    "args": ["-y", "@modelcontextprotocol/server-github"],
+    "env": {
+      "GITHUB_PERSONAL_ACCESS_TOKEN": "${GITHUB_TOKEN}"
+    }
+  }
+}
+```
+Then set `GITHUB_TOKEN` environment variable in your shell or user config.
+
+---
+
+### Filesystem Access Control
+
+**Current Configuration:**
+- Access limited to: `D:\ClaudeTools`
+- Prevents accidental system file modifications
+- Safe for automated operations
+
+**Adding Directories:**
+- Only add directories that Claude Code should access
+- Avoid adding system directories (C:\Windows, etc.)
+- Consider read-only access for sensitive directories
+
+---
+
+## Future Gitea Integration
+
+### Current Status
+
+The GitHub MCP server (`@modelcontextprotocol/server-github`) is designed for GitHub.com and may not work directly with self-hosted Gitea instances.
+
+### Integration Options
+
+**Option 1: Custom MCP Server for Gitea**
+- Create custom MCP server using Gitea API
+- Based on MCP Python SDK or TypeScript SDK
+- Full control over authentication and features
+- Effort: High (development required)
+
+**Option 2: GitHub MCP Server with Adapter**
+- Modify GitHub MCP server to support Gitea endpoints
+- Fork `@modelcontextprotocol/server-github`
+- Update API endpoints to point to Gitea instance
+- Effort: Medium (modification required)
+
+**Option 3: Generic Git MCP Server**
+- Use git CLI-based MCP server
+- Works with any git remote (including Gitea)
+- Limited to git operations (no PR/issue management)
+- Effort: Low (may already exist)
+
+### Required Gitea Configuration
+
+For any Gitea integration, you'll need:
+
+1. **Gitea Access Token:**
+   - Generate from: `https://your-gitea-instance.com/user/settings/applications`
+   - Required scopes: `repo`, `user`, `api`
+
+2. **API Endpoint:**
+   - Gitea API: `https://your-gitea-instance.com/api/v1`
+   - Compatible with GitHub API v3 (mostly)
+
+3. **Environment Variables:**
+   ```json
+   "env": {
+     "GITEA_TOKEN": "your-gitea-token",
+     "GITEA_HOST": "https://your-gitea-instance.com",
+     "GITEA_API_URL": "https://your-gitea-instance.com/api/v1"
+   }
+   ```
+
+### Next Steps for Gitea Integration
+
+1. Research existing Gitea MCP servers in registry
+2. Evaluate GitHub MCP compatibility with Gitea API
+3. Consider developing custom Gitea MCP server
+4. Document Gitea-specific configuration
+5. Test with Gitea instance
+
+**Recommendation:** Start with Option 3 (Generic Git MCP) for basic operations, then evaluate custom development for full Gitea API integration.
+
+---
+
+## Additional MCP Servers (Future Consideration)
+
+### Potential Phase 2 Servers
+
+1. **Database MCP Server**
+   - Direct MariaDB/MySQL integration
+   - Query execution and schema inspection
+   - Useful for ClaudeTools database operations
+
+2. **Docker MCP Server**
+   - Container management
+   - Image operations
+   - Useful for deployment automation
+
+3. **Slack MCP Server**
+   - Team notifications
+   - Integration with work tracking
+   - Useful for status updates
+
+4. **Browser Automation MCP**
+   - Playwright/Puppeteer integration
+   - Testing and scraping
+   - Useful for web-based testing
+
+---
+
+## References and Resources
+
+### Official Documentation
+- MCP Specification: https://modelcontextprotocol.io/specification/2025-11-25
+- MCP Registry: https://registry.modelcontextprotocol.io/
+- Claude Code MCP Guide: https://code.claude.com/docs/en/mcp
+
+### Package Documentation
+- GitHub MCP: https://www.npmjs.com/package/@modelcontextprotocol/server-github
+- Filesystem MCP: https://www.npmjs.com/package/@modelcontextprotocol/server-filesystem
+- Sequential Thinking MCP: https://www.npmjs.com/package/@modelcontextprotocol/server-sequential-thinking
+
+### Development Resources
+- MCP Python SDK: https://github.com/modelcontextprotocol/python-sdk
+- MCP TypeScript SDK: https://github.com/modelcontextprotocol/typescript-sdk
+- Example Servers: https://modelcontextprotocol.io/examples
+
+### Community Resources
+- Awesome MCP Servers: https://mcpservers.org/
+- MCP Cursor Directory: https://cursor.directory/mcp/
+- Glama MCP Servers: https://glama.ai/mcp/servers
+
+---
+
+## Maintenance
+
+### Updating MCP Servers
+
+**Automatic Updates:**
+- npx automatically fetches latest versions
+- No manual update required for npx-based installations
+
+**Manual Version Pinning:**
+```json
+"args": [
+  "-y",
+  "@modelcontextprotocol/server-github@1.2.3"
+]
+```
+
+### Monitoring
+
+- Check Claude Code logs for MCP server errors
+- Verify connectivity periodically
+- Review token permissions and expiration dates
+- Update documentation when adding new servers
+
+---
+
+## Support and Issues
+
+**MCP-Related Issues:**
+- Official MCP GitHub: https://github.com/modelcontextprotocol/modelcontextprotocol/issues
+- Claude Code Issues: https://github.com/anthropics/claude-code/issues
+
+**ClaudeTools-Specific Issues:**
+- Project GitHub: (Add your Gitea repository URL)
+- Contact: (Add support contact)
+
+---
+
+**Installation Date:** 2026-01-17
+**Configured By:** Claude Code Agent
+**Next Review:** 2026-02-17 (30 days)