init-deep

# /init-deep

Generate hierarchical AGENTS.md files. Root + complexity-scored subdirectories.

## Usage

```
/init-deep                      # Update mode: modify existing + create new where warranted
/init-deep --create-new         # Read existing → remove all → regenerate from scratch
/init-deep --max-depth=2        # Limit directory depth (default: 3)
```

---

## Workflow (High-Level)

1. **Discovery + Analysis** (concurrent)
   - Fire background explore agents immediately
   - Main session: bash structure + LSP/codegraph code map + read existing AGENTS.md
2. **Score & Decide** - Determine AGENTS.md locations from merged findings
3. **Generate** - Root first, then subdirs in parallel
4. **Review** - Deduplicate, trim, validate

<critical>
**TodoWrite ALL phases. Mark in_progress → completed in real-time.**
```
TodoWrite([
  { id: "discovery", content: "Fire explore agents + LSP/codegraph map + read existing", status: "pending", priority: "high" },
  { id: "scoring", content: "Score directories, determine locations", status: "pending", priority: "high" },
  { id: "generate", content: "Generate AGENTS.md files (root + subdirs)", status: "pending", priority: "high" },
  { id: "review", content: "Deduplicate, validate, trim", status: "pending", priority: "medium" }
])
```
</critical>

---

## Phase 1: Discovery + Analysis (Concurrent)

**Mark "discovery" as in_progress.**

### Fire Background Explore Agents IMMEDIATELY

Don't wait-these run async while main session works. **Equip every agent with the code graph**: any task touching structure, entry points, dependencies, or hotspots MUST query `codegraph_*` (explore/search/callers/callees/impact) and `lsp_symbols` when present, and ground its claims in that data instead of guessing from conventions. Richer real-graph context per agent = a more accurate project map.

```
// Fire all at once, collect results later
task(subagent_type="explore", load_skills=[], description="Explore project structure", run_in_background=true, prompt="Project structure: map real layout via codegraph_explore/codegraph_files → REPORT deviations from standard patterns")
task(subagent_type="explore", load_skills=[], description="Find entry points", run_in_background=true, prompt="Entry points: FIND main files, trace reach via codegraph_callees + lsp_symbols → REPORT non-standard organization")
task(subagent_type="explore", load_skills=[], description="Find conventions", run_in_background=true, prompt="Conventions: FIND config files (.eslintrc, pyproject.toml, .editorconfig) → REPORT project-specific rules")
task(subagent_type="explore", load_skills=[], description="Find anti-patterns", run_in_background=true, prompt="Anti-patterns: FIND 'DO NOT', 'NEVER', 'ALWAYS', 'DEPRECATED' comments → LIST forbidden patterns")
task(subagent_type="explore", load_skills=[], description="Explore build/CI", run_in_background=true, prompt="Build/CI: FIND .github/workflows, Makefile → REPORT non-standard patterns")
task(subagent_type="explore", load_skills=[], description="Find test patterns", run_in_background=true, prompt="Test patterns: FIND test configs/structure; codegraph_callers on core modules to see what is covered → REPORT unique conventions")
```

<dynamic-agents>
**DYNAMIC AGENT SPAWNING**: After bash analysis, spawn ADDITIONAL explore agents based on project scale:

| Factor | Threshold | Additional Agents |
|--------|-----------|-------------------|
| **Total files** | >100 | +1 per 100 files |
| **Total lines** | >10k | +1 per 10k lines |
| **Directory depth** | ≥4 | +2 for deep exploration |
| **Large files (>500 lines)** | >10 files | +1 for complexity hotspots |
| **Monorepo** | detected | +1 per package/workspace |
| **Multiple languages** | >1 | +1 per language |

```bash
# Measure project scale first
total_files=$(find . -type f -not -path '*/node_modules/*' -not -path '*/.git/*' | wc -l)
total_lines=$(find . -type f \\( -name "*.ts" -o -name "*.py" -o -name "*.go" \\) -not -path '*/node_modules/*' -exec wc -l {} + 2>/dev/null | tail -1 | awk '{print $1}')
large_files=$(find . -type f \\( -name "*.ts" -o -name "*.py" \\) -not -path '*/node_modules/*' -exec wc -l {} + 2>/dev/null | awk '$1 > 500 {count++} END {print count+0}')
max_depth=$(find . -type d -not -path '*/node_modules/*' -not -path '*/.git/*' | awk -F/ '{print NF}' | sort -rn | head -1)
```

Example spawning:
```
// 500 files, 50k lines, depth 6, 15 large files → spawn 5+5+2+1 = 13 additional agents
task(subagent_type="explore", load_skills=[], description="Analyze large files", run_in_background=true, prompt="Large file analysis: FIND files >500 lines, REPORT complexity hotspots")
task(subagent_type="explore", load_skills=[], description="Explore deep modules", run_in_background=true, prompt="Deep modules at depth 4+: FIND hidden patterns, internal conventions")
task(subagent_type="explore", load_skills=[], description="Find shared utilities", run_in_background=true, prompt="Cross-cutting concerns: FIND shared utilities across directories")
// ... more based on calculation
```
</dynamic-agents>

### Main Session: Concurrent Analysis

**While background agents run**, main session does:

#### 1. Bash Structural Analysis
```bash
# Directory depth + file counts
find . -type d -not -path '*/\\.*' -not -path '*/node_modules/*' -not -path '*/venv/*' -not -path '*/dist/*' -not -path '*/build/*' | awk -F/ '{print NF-1}' | sort -n | uniq -c

# Files per directory (top 30)
find . -type f -not -path '*/\\.*' -not -path '*/node_modules/*' | sed 's|/[^/]*$||' | sort | uniq -c | sort -rn | head -30

# Code concentration by extension
find . -type f \\( -name "*.py" -o -name "*.ts" -o -name "*.tsx" -o -name "*.js" -o -name "*.go" -o -name "*.rs" \\) -not -path '*/node_modules/*' | sed 's|/[^/]*$||' | sort | uniq -c | sort -rn | head -20

# Existing AGENTS.md / CLAUDE.md
find . -type f \\( -name "AGENTS.md" -o -name "CLAUDE.md" \\) -not -path '*/node_modules/*' 2>/dev/null
```

#### 2. Read Existing AGENTS.md
```
For e