// Initialize sync coordination swarm
mcp__claude-flow__swarm_init { topology: "hierarchical", maxAgents: 5 }
mcp__claude-flow__agent_spawn { type: "coordinator", name: "Sync Coordinator" }
mcp__claude-flow__agent_spawn { type: "analyst", name: "Dependency Analyzer" }
mcp__claude-flow__agent_spawn { type: "coder", name: "Integration Developer" }
mcp__claude-flow__agent_spawn { type: "tester", name: "Validation Engineer" }

// Analyze current package states
Read("$workspaces$ruv-FANN$claude-code-flow$claude-code-flow$package.json")
Read("$workspaces$ruv-FANN$ruv-swarm$npm$package.json")

// Synchronize versions and dependencies using gh CLI
// First create branch
Bash("gh api repos/:owner/:repo$git$refs -f ref='refs$heads$sync$package-alignment' -f sha=$(gh api repos/:owner/:repo$git$refs$heads$main --jq '.object.sha')")

// Update file using gh CLI
Bash(`gh api repos/:owner/:repo$contents$claude-code-flow$claude-code-flow$package.json \
  --method PUT \
  -f message="feat: Align Node.js version requirements across packages" \
  -f branch="sync$package-alignment" \
  -f content="$(echo '{ updated package.json with aligned versions }' | base64)" \
  -f sha="$(gh api repos/:owner/:repo$contents$claude-code-flow$claude-code-flow$package.json?ref=sync$package-alignment --jq '.sha')")`)

// Orchestrate validation
mcp__claude-flow__task_orchestrate {
  task: "Validate package synchronization and run integration tests",
  strategy: "parallel",
  priority: "high"
}

// Synchronize CLAUDE.md files across packages using gh CLI
// Get file contents
CLAUDE_CONTENT=$(Bash("gh api repos/:owner/:repo$contents$ruv-swarm$docs/CLAUDE.md --jq '.content' | base64 -d"))

// Update claude-code-flow CLAUDE.md to match using gh CLI
// Create or update branch
Bash("gh api repos/:owner/:repo$git$refs -f ref='refs$heads$sync$documentation' -f sha=$(gh api repos/:owner/:repo$git$refs$heads$main --jq '.object.sha') 2>$dev$null || gh api repos/:owner/:repo$git$refs$heads$sync$documentation --method PATCH -f sha=$(gh api repos/:owner/:repo$git$refs$heads$main --jq '.object.sha')")

// Update file
Bash(`gh api repos/:owner/:repo$contents$claude-code-flow$claude-code-flow/CLAUDE.md \
  --method PUT \
  -f message="docs: Synchronize CLAUDE.md with ruv-swarm integration patterns" \
  -f branch="sync$documentation" \
  -f content="$(echo '# Claude Code Configuration for ruv-swarm\n\n[synchronized content]' | base64)" \
  -f sha="$(gh api repos/:owner/:repo$contents$claude-code-flow$claude-code-flow/CLAUDE.md?ref=sync$documentation --jq '.sha' 2>$dev$null || echo '')")`)

// Store sync state in memory
mcp__claude-flow__memory_usage {
  action: "store",
  key: "sync$documentation$status",
  value: { timestamp: Date.now(), status: "synchronized", files: ["CLAUDE.md"] }
}

// Coordinate feature implementation across packages
mcp__github__push_files {
  owner: "ruvnet",
  repo: "ruv-FANN",
  branch: "feature$github-commands",
  files: [
    {
      path: "claude-code-flow$claude-code-flow/.claude$commands$github$github-modes.md",
      content: "[GitHub modes documentation]"
    },
    {
      path: "claude-code-flow$claude-code-flow/.claude$commands$github$pr-manager.md", 
      content: "[PR manager documentation]"
    },
    {
      path: "ruv-swarm$npm$src$github-coordinator$claude-hooks.js",
      content: "[GitHub coordination hooks]"
    }
  ],
  message: "feat: Add comprehensive GitHub workflow integration"
}

// Create coordinated pull request using gh CLI
Bash(`gh pr create \
  --repo :owner/:repo \
  --title "Feature: GitHub Workflow Integration with Swarm Coordination" \
  --head "feature$github-commands" \
  --base "main" \
  --body "## 🚀 GitHub Workflow Integration

### Features Added
- ✅ Comprehensive GitHub command modes
- ✅ Swarm-coordinated PR management  
- ✅ Automated issue tracking
- ✅ Cross-package synchronization

### Integration Points
- Claude-code-flow: GitHub command modes in .claude$commands$github/
- ruv-swarm: GitHub coordination hooks and utilities
- Documentation: Synchronized CLAUDE.md instructions

### Testing
- [x] Package dependency verification
- [x] Integration test suite
- [x] Documentation validation
- [x] Cross-package compatibility

### Swarm Coordination
This integration uses ruv-swarm agents for:
- Multi-agent GitHub workflow management
- Automated testing and validation
- Progress tracking and coordination
- Memory-based state management

---
🤖 Generated with Claude Code using ruv-swarm coordination`
}

[Single Message - Complete Synchronization]:
  // Initialize comprehensive sync swarm
  mcp__claude-flow__swarm_init { topology: "mesh", maxAgents: 6 }
  mcp__claude-flow__agent_spawn { type: "coordinator", name: "Master Sync Coordinator" }
  mcp__claude-flow__agent_spawn { type: "analyst", name: "Package Analyzer" }
  mcp__claude-flow__agent_spawn { type: "coder", name: "Integration Coder" }
  mcp__claude-flow__agent_spawn { type: "tester", name: "Validation Tester" }
  mcp__claude-flow__agent_spawn { type: "reviewer", name: "Quality Reviewer" }
  
  // Read current state of both packages
  Read("$workspaces$ruv-FANN$claude-code-flow$claude-code-flow$package.json")
  Read("$workspaces$ruv-FANN$ruv-swarm$npm$package.json")
  Read("$workspaces$ruv-FANN$claude-code-flow$claude-code-flow/CLAUDE.md")
  Read("$workspaces$ruv-FANN$ruv-swarm$docs/CLAUDE.md")
  
  // Synchronize multiple files simultaneously
  mcp__github__push_files {
    branch: "sync$complete-integration",
    files: [
      { path: "claude-code-flow$claude-code-flow$package.json", content: "[aligned package.json]" },
      { path: "claude-code-flow$claude-code-flow/CLAUDE.md", content: "[synchronized CLAUDE.md]" },
      { path: "claude-code-flow$claude-code-flow/.claude$commands$github$github-modes.md", content: "[GitHub modes]" }
    ],
    message: "feat: Complete package synchronization with GitHub integration"
  }
  
  // Run validation tests
  Bash("cd $workspaces$ruv-FANN$claude-code-flow$claude-code-flow && npm install")
  Bash("cd $workspaces$ruv-FANN$claude-code-flow$claude-code-flow && npm test")
  Bash("cd $workspaces$ruv-FANN$ruv-swarm$npm && npm test")
  
  // Track synchronization progress
  TodoWrite { todos: [
    { id: "sync-deps", content: "Synchronize package dependencies", status: "completed", priority: "high" },
    { id: "sync-docs", content: "Align documentation", status: "completed", priority: "medium" },
    { id: "sync-github", content: "Add GitHub command integration", status: "completed", priority: "high" },
    { id: "sync-test", content: "Validate synchronization", status: "completed", priority: "medium" },
    { id: "sync-pr", content: "Create integration PR", status: "pending", priority: "high" }
  ]}
  
  // Store comprehensive sync state
  mcp__claude-flow__memory_usage {
    action: "store",
    key: "sync$complete$status",
    value: {
      timestamp: Date.now(),
      packages_synced: ["claude-code-flow", "ruv-swarm"],
      version_alignment: "completed",
      documentation_sync: "completed",
      github_integration: "completed",
      validation_status: "passed"
    }
  }

// Intelligent version synchronization
const syncStrategy = {
  nodeVersion: ">=20.0.0",  // Align to highest requirement
  dependencies: {
    "better-sqlite3": "^12.2.0",  // Use latest stable
    "ws": "^8.14.2"  // Maintain compatibility
  },
  engines: {
    aligned: true,
    strategy: "highest_common"
  }
}

// Keep documentation consistent across packages
const docSyncPattern = {
  sourceOfTruth: "ruv-swarm$docs/CLAUDE.md",
  targets: [
    "claude-code-flow$claude-code-flow/CLAUDE.md",
    "CLAUDE.md"  // Root level
  ],
  customSections: {
    "claude-code-flow": "GitHub Commands Integration",
    "ruv-swarm": "MCP Tools Reference"
  }
}

// Comprehensive testing across synchronized packages
const testMatrix = {
  packages: ["claude-code-flow", "ruv-swarm"],
  tests: [
    "unit_tests",
    "integration_tests", 
    "cross_package_tests",
    "mcp_integration_tests",
    "github_workflow_tests"
  ],
  validation: "parallel_execution"
}

# Initialize comprehensive synchronization swarm
mcp__claude-flow__swarm_init { topology: "hierarchical", maxAgents: 10 }
mcp__claude-flow__agent_spawn { type: "coordinator", name: "Master Sync Coordinator" }
mcp__claude-flow__agent_spawn { type: "analyst", name: "Dependency Analyzer" }
mcp__claude-flow__agent_spawn { type: "coder", name: "Integration Developer" }
mcp__claude-flow__agent_spawn { type: "tester", name: "Validation Engineer" }
mcp__claude-flow__agent_spawn { type: "reviewer", name: "Quality Assurance" }
mcp__claude-flow__agent_spawn { type: "monitor", name: "Sync Monitor" }

# Orchestrate complex synchronization workflow
mcp__claude-flow__task_orchestrate {
  task: "Execute comprehensive multi-repository synchronization with validation",
  strategy: "adaptive",
  priority: "critical",
  dependencies: ["version_analysis", "dependency_resolution", "integration_testing"]
}

# Load balance synchronization tasks across agents
mcp__claude-flow__load_balance {
  swarmId: "sync-coordination-swarm",
  tasks: [
    "package_json_sync",
    "documentation_alignment", 
    "version_compatibility_check",
    "integration_test_execution"
  ]
}

// Advanced conflict detection and resolution
const syncConflictResolver = async (conflicts) => {
  // Initialize conflict resolution swarm
  await mcp__claude_flow__swarm_init({ topology: "mesh", maxAgents: 6 });
  
  // Spawn specialized conflict resolution agents
  await mcp__claude_flow__agent_spawn({ type: "analyst", name: "Conflict Analyzer" });
  await mcp__claude_flow__agent_spawn({ type: "coder", name: "Resolution Developer" });
  await mcp__claude_flow__agent_spawn({ type: "reviewer", name: "Solution Validator" });
  
  // Store conflict context in swarm memory
  await mcp__claude_flow__memory_usage({
    action: "store",
    key: "sync$conflicts$current",
    value: {
      conflicts,
      resolution_strategy: "automated_with_validation",
      priority_order: conflicts.sort((a, b) => b.impact - a.impact)
    }
  });
  
  // Coordinate conflict resolution workflow
  return await mcp__claude_flow__task_orchestrate({
    task: "Resolve synchronization conflicts with multi-agent validation",
    strategy: "sequential",
    priority: "high"
  });
};

# Store detailed synchronization metrics
mcp__claude-flow__memory_usage {
  action: "store",
  key: "sync$metrics$session",
  value: {
    packages_synchronized: ["claude-code-flow", "ruv-swarm"],
    version_alignment_score: 98.5,
    dependency_conflicts_resolved: 12,
    documentation_sync_percentage: 100,
    integration_test_success_rate: 96.8,
    total_sync_time: "23.4 minutes",
    agent_efficiency_scores: {
      "Master Sync Coordinator": 9.2,
      "Dependency Analyzer": 8.7,
      "Integration Developer": 9.0,
      "Validation Engineer": 8.9
    }
  }
}

# Initialize error recovery swarm
mcp__claude-flow__swarm_init { topology: "star", maxAgents: 5 }
mcp__claude-flow__agent_spawn { type: "monitor", name: "Error Monitor" }
mcp__claude-flow__agent_spawn { type: "analyst", name: "Failure Analyzer" }
mcp__claude-flow__agent_spawn { type: "coder", name: "Recovery Developer" }

# Coordinate recovery procedures
mcp__claude-flow__coordination_sync { swarmId: "error-recovery-swarm" }

# Store recovery state
mcp__claude-flow__memory_usage {
  action: "store",
  key: "sync$recovery$state",
  value: {
    error_type: "version_conflict",
    recovery_strategy: "incremental_rollback",
    agent_assignments: {
      "conflict_resolution": "Recovery Developer",
      "validation": "Failure Analyzer",
      "monitoring": "Error Monitor"
    }
  }
}