cokit-cli 1.0.8 → 1.2.0

package/templates/repo/.github/skills/mcp-management/README.md

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+# MCP Management Skill
+
+Intelligent management and execution of Model Context Protocol (MCP) servers.
+
+## Overview
+
+This skill enables Claude to discover, analyze, and execute MCP server capabilities without polluting the main context window. Perfect for context-efficient MCP integration using subagent-based architecture.
+
+## Features
+
+- **Multi-Server Management**: Connect to multiple MCP servers from single config
+- **Intelligent Tool Discovery**: Analyze which tools are relevant for specific tasks
+- **Progressive Disclosure**: Load only necessary tool definitions
+- **Execution Engine**: Call MCP tools with proper parameter handling
+- **Context Efficiency**: Delegate MCP operations to `mcp-manager` subagent
+
+## Quick Start
+
+### 1. Install Dependencies
+
+```bash
+cd $HOME/.copilot/skills/mcp-management/scripts
+npm install
+```
+
+### 2. Configure MCP Servers
+
+Create `$HOME/.copilot/.mcp.json`:
+
+```json
+{
+  "mcpServers": {
+    "memory": {
+      "command": "npx",
+      "args": ["-y", "@modelcontextprotocol/server-memory"]
+    },
+    "filesystem": {
+      "command": "npx",
+      "args": ["-y", "@modelcontextprotocol/server-filesystem", "/allowed/path"]
+    }
+  }
+}
+```
+
+See `$HOME/.copilot/.mcp.json.example` for more examples.
+
+### 3. Test Connection
+
+```bash
+cd $HOME/.copilot/skills/mcp-management/scripts
+npx ts-node cli.ts list-tools
+```
+
+## Usage Patterns
+
+### Pattern 1: Discover Available Tools
+
+```bash
+npx ts-node scripts/cli.ts list-tools
+npx ts-node scripts/cli.ts list-prompts
+npx ts-node scripts/cli.ts list-resources
+```
+
+### Pattern 2: LLM-Driven Tool Selection
+
+The LLM reads `assets/tools.json` and intelligently selects tools. No separate analysis command needed - the LLM's understanding of context and intent is superior to keyword matching.
+
+### Pattern 3: Execute MCP Tools
+
+```bash
+npx ts-node scripts/cli.ts call-tool memory add '{"key":"name","value":"Alice"}'
+```
+
+### Pattern 4: Use with Subagent
+
+In main Claude conversation:
+
+```
+User: "I need to search the web and save results"
+Main Agent: [Spawns mcp-manager subagent]
+mcp-manager: Discovers brave-search + memory tools, reports back
+Main Agent: Uses recommended tools for implementation
+```
+
+## Architecture
+
+```
+Main Agent (Claude)
+    ↓ (delegates MCP tasks)
+mcp-manager Subagent
+    ↓ (uses skill)
+mcp-management Skill
+    ↓ (connects via)
+MCP Servers (memory, filesystem, etc.)
+```
+
+**Benefits**:
+- Main agent context stays clean
+- MCP discovery happens in isolated subagent context
+- Only relevant tool definitions loaded when needed
+- Reduced token usage
+
+## File Structure
+
+```
+mcp-management/
+├── SKILL.md                    # Skill definition
+├── README.md                   # This file
+├── scripts/
+│   ├── mcp-client.ts          # Core MCP client manager
+│   ├── analyze-tools.ts       # Intelligent tool selection
+│   ├── cli.ts                 # Command-line interface
+│   ├── package.json           # Dependencies
+│   ├── tsconfig.json          # TypeScript config
+│   └── .env.example           # Environment template
+└── references/
+    ├── mcp-protocol.md        # MCP protocol reference
+    └── configuration.md       # Config guide
+```
+
+## Scripts Reference
+
+### mcp-client.ts
+
+Core client manager class:
+- Load config from `$HOME/.copilot/.mcp.json`
+- Connect to multiple MCP servers
+- List/execute tools, prompts, resources
+- Lifecycle management
+
+### cli.ts
+
+Command-line interface:
+- `list-tools` - Show all tools and save to assets/tools.json
+- `list-prompts` - Show all prompts
+- `list-resources` - Show all resources
+- `call-tool <server> <tool> <json>` - Execute tool
+
+**Note**: Tool analysis is performed by the LLM reading `assets/tools.json`, which provides better context understanding than algorithmic matching.
+
+## Configuration
+
+### Environment Variables
+
+Scripts check for variables in this order:
+
+1. `process.env` (runtime)
+2. `$HOME/.copilot/skills/mcp-management/.env`
+3. `$HOME/.copilot/skills/.env`
+4. `$HOME/.copilot/.env`
+
+### MCP Config Format
+
+```json
+{
+  "mcpServers": {
+    "server-name": {
+      "command": "executable",          // Required
+      "args": ["arg1", "arg2"],        // Required
+      "env": {                          // Optional
+        "VAR": "value",
+        "API_KEY": "${ENV_VAR}"        // Reference env vars
+      }
+    }
+  }
+}
+```
+
+## Common MCP Servers
+
+Install with `npx`:
+
+- `@modelcontextprotocol/server-memory` - Key-value storage
+- `@modelcontextprotocol/server-filesystem` - File operations
+- `@modelcontextprotocol/server-brave-search` - Web search
+- `@modelcontextprotocol/server-puppeteer` - Browser automation
+- `@modelcontextprotocol/server-fetch` - HTTP requests
+
+## Integration with mcp-manager Agent
+
+The `mcp-manager` agent (`$HOME/.copilot/agents/mcp-manager.md`) uses this skill to:
+
+1. **Discover**: Connect to MCP servers, list capabilities
+2. **Analyze**: Filter relevant tools for tasks
+3. **Execute**: Call MCP tools on behalf of main agent
+4. **Report**: Send concise results back to main agent
+
+This architecture keeps main context clean and enables efficient MCP integration.
+
+## Troubleshooting
+
+### "Config not found"
+
+Ensure `$HOME/.copilot/.mcp.json` exists and is valid JSON.
+
+### "Server connection failed"
+
+Check:
+- Server command is installed (`npx` packages installed?)
+- Server args are correct
+- Environment variables are set
+
+### "Tool not found"
+
+List available tools first:
+```bash
+npx ts-node scripts/cli.ts list-tools
+```
+
+## Resources
+
+- [MCP Specification](https://modelcontextprotocol.io/specification/latest)
+- [MCP TypeScript SDK](https://github.com/modelcontextprotocol/typescript-sdk)
+- [Official MCP Servers](https://github.com/modelcontextprotocol/servers)
+- [Skill References](./references/)
+
+## License
+
+MIT

package/templates/repo/.github/skills/mcp-management/SKILL.md

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+---
+name: mcp-management
+description: Manage MCP servers - discover, analyze, execute tools/prompts/resources. Use for MCP integrations, intelligent tool selection, multi-server management, context-efficient capability discovery.
+---
+
+# MCP Management
+
+Skill for managing and interacting with Model Context Protocol (MCP) servers.
+
+## Overview
+
+MCP is an open protocol enabling AI agents to connect to external tools and data sources. This skill provides scripts and utilities to discover, analyze, and execute MCP capabilities from configured servers without polluting the main context window.
+
+**Key Benefits**:
+- Progressive disclosure of MCP capabilities (load only what's needed)
+- Intelligent tool/prompt/resource selection based on task requirements
+- Multi-server management from single config file
+- Context-efficient: subagents handle MCP discovery and execution
+- Persistent tool catalog: automatically saves discovered tools to JSON for fast reference
+
+## When to Use This Skill
+
+Use this skill when:
+1. **Discovering MCP Capabilities**: Need to list available tools/prompts/resources from configured servers
+2. **Task-Based Tool Selection**: Analyzing which MCP tools are relevant for a specific task
+3. **Executing MCP Tools**: Calling MCP tools programmatically with proper parameter handling
+4. **MCP Integration**: Building or debugging MCP client implementations
+5. **Context Management**: Avoiding context pollution by delegating MCP operations to subagents
+
+## Core Capabilities
+
+### 1. Configuration Management
+
+MCP servers configured in `$HOME/.copilot/.mcp.json`.
+
+**Gemini CLI Integration** (recommended): Create symlink to `.gemini/settings.json`:
+```bash
+mkdir -p .gemini && ln -sf $HOME/.copilot/.mcp.json .gemini/settings.json
+```
+
+See [references/configuration.md](references/configuration.md) and [references/gemini-cli-integration.md](references/gemini-cli-integration.md).
+
+**GEMINI.md Response Format**: Project root contains `GEMINI.md` that Gemini CLI auto-loads, enforcing structured JSON responses:
+```json
+{"server":"name","tool":"name","success":true,"result":<data>,"error":null}
+```
+
+This ensures parseable, consistent output instead of unpredictable natural language. The file defines:
+- Mandatory JSON-only response format (no markdown, no explanations)
+- Maximum 500 character responses
+- Error handling structure
+- Available MCP servers reference
+
+**Benefits**: Programmatically parseable output, consistent error reporting, DRY configuration (format defined once), context-efficient (auto-loaded by Gemini CLI).
+
+### 2. Capability Discovery
+
+```bash
+npx tsx scripts/cli.ts list-tools  # Saves to assets/tools.json
+npx tsx scripts/cli.ts list-prompts
+npx tsx scripts/cli.ts list-resources
+```
+
+Aggregates capabilities from multiple servers with server identification.
+
+### 3. Intelligent Tool Analysis
+
+LLM analyzes `assets/tools.json` directly - better than keyword matching algorithms.
+
+### 4. Tool Execution
+
+**Primary: Gemini CLI** (if available)
+```bash
+# IMPORTANT: Use stdin piping, NOT -p flag (deprecated, skips MCP init)
+echo "Take a screenshot of https://example.com" | gemini -y -m <gemini.model>
+```
+
+**Secondary: Direct Scripts**
+```bash
+npx tsx scripts/cli.ts call-tool memory create_entities '{"entities":[...]}'
+```
+
+**Fallback: mcp-manager Subagent**
+
+See [references/gemini-cli-integration.md](references/gemini-cli-integration.md) for complete examples.
+
+## Implementation Patterns
+
+### Pattern 1: Gemini CLI Auto-Execution (Primary)
+
+Use Gemini CLI for automatic tool discovery and execution. Gemini CLI auto-loads `GEMINI.md` from project root to enforce structured JSON responses.
+
+**Quick Example**:
+```bash
+# IMPORTANT: Use stdin piping, NOT -p flag (deprecated, skips MCP init)
+# Add "Return JSON only per GEMINI.md instructions" to enforce structured output
+echo "Take a screenshot of https://example.com. Return JSON only per GEMINI.md instructions." | gemini -y -m <gemini.model>
+```
+
+**Expected Output**:
+```json
+{"server":"puppeteer","tool":"screenshot","success":true,"result":"screenshot.png","error":null}
+```
+
+**Benefits**:
+- Automatic tool discovery
+- Structured JSON responses (parseable by Claude)
+- GEMINI.md auto-loaded for consistent formatting
+- Faster than subagent orchestration
+- No natural language ambiguity
+
+See [references/gemini-cli-integration.md](references/gemini-cli-integration.md) for complete guide.
+
+### Pattern 2: Subagent-Based Execution (Fallback)
+
+Use `mcp-manager` agent when Gemini CLI unavailable. Subagent discovers tools, selects relevant ones, executes tasks, reports back.
+
+**Benefit**: Main context stays clean, only relevant tool definitions loaded when needed.
+
+### Pattern 3: LLM-Driven Tool Selection
+
+LLM reads `assets/tools.json`, intelligently selects relevant tools using context understanding, synonyms, and intent recognition.
+
+### Pattern 4: Multi-Server Orchestration
+
+Coordinate tools across multiple servers. Each tool knows its source server for proper routing.
+
+## Scripts Reference
+
+### scripts/mcp-client.ts
+
+Core MCP client manager class. Handles:
+- Config loading from `$HOME/.copilot/.mcp.json`
+- Connecting to multiple MCP servers
+- Listing tools/prompts/resources across all servers
+- Executing tools with proper error handling
+- Connection lifecycle management
+
+### scripts/cli.ts
+
+Command-line interface for MCP operations. Commands:
+- `list-tools` - Display all tools and save to `assets/tools.json`
+- `list-prompts` - Display all prompts
+- `list-resources` - Display all resources
+- `call-tool <server> <tool> <json>` - Execute a tool
+
+**Note**: `list-tools` persists complete tool catalog to `assets/tools.json` with full schemas for fast reference, offline browsing, and version control.
+
+## Quick Start
+
+**Method 1: Gemini CLI** (recommended)
+```bash
+npm install -g gemini-cli
+mkdir -p .gemini && ln -sf $HOME/.copilot/.mcp.json .gemini/settings.json
+# IMPORTANT: Use stdin piping, NOT -p flag (deprecated, skips MCP init)
+# GEMINI.md auto-loads to enforce JSON responses
+echo "Take a screenshot of https://example.com. Return JSON only per GEMINI.md instructions." | gemini -y -m <gemini.model>
+```
+
+Returns structured JSON: `{"server":"puppeteer","tool":"screenshot","success":true,"result":"screenshot.png","error":null}`
+
+**Method 2: Scripts**
+```bash
+cd $HOME/.copilot/skills/mcp-management/scripts && npm install
+npx tsx cli.ts list-tools  # Saves to assets/tools.json
+npx tsx cli.ts call-tool memory create_entities '{"entities":[...]}'
+```
+
+**Method 3: mcp-manager Subagent**
+
+See [references/gemini-cli-integration.md](references/gemini-cli-integration.md) for complete guide.
+
+## Technical Details
+
+See [references/mcp-protocol.md](references/mcp-protocol.md) for:
+- JSON-RPC protocol details
+- Message types and formats
+- Error codes and handling
+- Transport mechanisms (stdio, HTTP+SSE)
+- Best practices
+
+## Integration Strategy
+
+### Execution Priority
+
+1. **Gemini CLI** (Primary): Fast, automatic, intelligent tool selection
+   - Check: `command -v gemini`
+   - Execute: `echo "<task>" | gemini -y -m <gemini.model>`
+   - **IMPORTANT**: Use stdin piping, NOT `-p` flag (deprecated, skips MCP init)
+   - Best for: All tasks when available
+
+2. **Direct CLI Scripts** (Secondary): Manual tool specification
+   - Use when: Need specific tool/server control
+   - Execute: `npx tsx scripts/cli.ts call-tool <server> <tool> <args>`
+
+3. **mcp-manager Subagent** (Fallback): Context-efficient delegation
+   - Use when: Gemini unavailable or failed
+   - Keeps main context clean
+
+### Integration with Agents
+
+The `mcp-manager` agent uses this skill to:
+- Check Gemini CLI availability first
+- Execute via `gemini` command if available
+- Fallback to direct script execution
+- Discover MCP capabilities without loading into main context
+- Report results back to main agent
+
+This keeps main agent context clean and enables efficient MCP integration.

package/templates/repo/.github/skills/mcp-management/references/configuration.md

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+# MCP Configuration Guide
+
+## Configuration File Structure
+
+MCP servers are configured in `$HOME/.copilot/.mcp.json`:
+
+```json
+{
+  "mcpServers": {
+    "server-name": {
+      "command": "executable",
+      "args": ["arg1", "arg2"],
+      "env": {
+        "API_KEY": "value"
+      }
+    }
+  }
+}
+```
+
+## Common Server Configurations
+
+### Memory Server
+
+Store and retrieve key-value data:
+
+```json
+{
+  "memory": {
+    "command": "npx",
+    "args": ["-y", "@modelcontextprotocol/server-memory"]
+  }
+}
+```
+
+### Filesystem Server
+
+File operations with restricted access:
+
+```json
+{
+  "filesystem": {
+    "command": "npx",
+    "args": [
+      "-y",
+      "@modelcontextprotocol/server-filesystem",
+      "/allowed/path"
+    ]
+  }
+}
+```
+
+### Brave Search Server
+
+Web search capabilities:
+
+```json
+{
+  "brave-search": {
+    "command": "npx",
+    "args": ["-y", "@modelcontextprotocol/server-brave-search"],
+    "env": {
+      "BRAVE_API_KEY": "${BRAVE_API_KEY}"
+    }
+  }
+}
+```
+
+### Puppeteer Server
+
+Browser automation:
+
+```json
+{
+  "puppeteer": {
+    "command": "npx",
+    "args": ["-y", "@modelcontextprotocol/server-puppeteer"]
+  }
+}
+```
+
+## Environment Variables
+
+Reference env vars with `${VAR_NAME}` syntax:
+
+```json
+{
+  "api-server": {
+    "command": "node",
+    "args": ["server.js"],
+    "env": {
+      "API_KEY": "${MY_API_KEY}",
+      "BASE_URL": "${API_BASE_URL}"
+    }
+  }
+}
+```
+
+## Configuration Loading Order
+
+Scripts check for config in this order:
+
+1. `process.env` (runtime environment)
+2. `$HOME/.copilot/skills/mcp-management/.env`
+3. `$HOME/.copilot/skills/.env`
+4. `$HOME/.copilot/.env`
+
+## Validation
+
+Config must:
+- Be valid JSON
+- Include `mcpServers` object
+- Each server must have `command` and `args`
+- `env` is optional but must be object if present