Deep Init Skill

Creates comprehensive, hierarchical AGENTS.md documentation across the entire codebase.

Core Concept

AGENTS.md files serve as AI-readable documentation that helps agents understand:

• What each directory contains
• How components relate to each other
• Special instructions for working in that area
• Dependencies and relationships

Hierarchical Tagging System

Every AGENTS.md (except root) includes a parent reference tag:

<!-- Parent: ../AGENTS.md -->

This creates a navigable hierarchy:

/AGENTS.md                          ← Root (no parent tag)
├── src/AGENTS.md                   ← <!-- Parent: ../AGENTS.md -->
│   ├── src/components/AGENTS.md    ← <!-- Parent: ../AGENTS.md -->
│   └── src/utils/AGENTS.md         ← <!-- Parent: ../AGENTS.md -->
└── docs/AGENTS.md                  ← <!-- Parent: ../AGENTS.md -->

AGENTS.md Template

<!-- Parent: {relative_path_to_parent}/AGENTS.md -->
<!-- Generated: {timestamp} | Updated: {timestamp} -->

# {Directory Name}

## Purpose
{One-paragraph description of what this directory contains and its role}

## Key Files
{List each significant file with a one-line description}

| File | Description |
|------|-------------|
| `file.ts` | Brief description of purpose |

## Subdirectories
{List each subdirectory with brief purpose}

| Directory | Purpose |
|-----------|---------|
| `subdir/` | What it contains (see `subdir/AGENTS.md`) |

## For AI Agents

### Working In This Directory
{Special instructions for AI agents modifying files here}

### Testing Requirements
{How to test changes in this directory}

### Common Patterns
{Code patterns or conventions used here}

## Dependencies

### Internal
{References to other parts of the codebase this depends on}

### External
{Key external packages/libraries used}

<!-- MANUAL: Any manually added notes below this line are preserved on regeneration -->

Execution Workflow

Step 1: Map Directory Structure

Task(subagent_type="explore", model="haiku",
  prompt="List all directories recursively. Exclude: node_modules, .git, dist, build, __pycache__, .venv, coverage, .next, .nuxt")

Step 2: Create Work Plan

Generate todo items for each directory, organized by depth level:

Level 0: / (root)
Level 1: /src, /docs, /tests
Level 2: /src/components, /src/utils, /docs/api
...

Step 3: Generate Level by Level

IMPORTANT: Generate parent levels before child levels to ensure parent references are valid.

For each directory:

1. Read all files in the directory
2. Analyze purpose and relationships
3. Generate AGENTS.md content
4. Write file with proper parent reference

Step 4: Compare and Update (if exists)

When AGENTS.md already exists:

1. Read existing content
2. Identify sections:
   • Auto-generated sections (can be updated)
   • Manual sections (<!-- MANUAL --> preserved)
3. Compare:
   • New files added?
   • Files removed?
   • Structure changed?
4. Merge:
   • Update auto-generated content
   • Preserve manual annotations
   • Update timestamp

Step 5: Validate Hierarchy

After generation, run validation checks:

Validation script pattern:

# Find all AGENTS.md files
find . -name "AGENTS.md" -type f

# Check parent references
grep -r "<!-- Parent:" --include="AGENTS.md" .

Smart Delegation

Empty Directory Handling

When encountering empty or near-empty directories:

Example minimal AGENTS.md for directory-only containers:

<!-- Parent: ../AGENTS.md -->
# {Directory Name}

## Purpose
Container directory for organizing related modules.

## Subdirectories
| Directory | Purpose |
|-----------|---------|
| `subdir/` | Description (see `subdir/AGENTS.md`) |

Parallelization Rules

1. Same-level directories: Process in parallel
2. Different levels: Sequential (parent first)
3. Large directories: Spawn dedicated agent per directory
4. Small directories: Batch mult

...