Claude-Code-Workflow/.codex/prompts/clean.md

description, argument-hint

description	argument-hint
Intelligent code cleanup with mainline detection, stale artifact discovery, and safe execution. Supports targeted cleanup and confirmation.	[--dry-run] [--focus=<area>] [--target=sessions|documents|dead-code] [--confirm]

Workflow Clean Command

Overview

Evidence-based intelligent cleanup command. Systematically identifies stale artifacts through mainline analysis, discovers drift, and safely removes unused sessions, documents, and dead code.

Core workflow: Detect Mainline → Discover Drift → Confirm → Stage → Execute

Target Cleanup

Focus area: $FOCUS (or entire project if not specified) Mode: $ARGUMENTS

• --dry-run: Preview cleanup without executing
• --focus: Focus area (module or path)
• --target: Cleanup target (sessions|documents|dead-code)
• --confirm: Skip confirmation, execute directly

Execution Process

Phase 0: Initialization
   ├─ Parse arguments (--dry-run, FOCUS)
   ├─ Setup session folder
   └─ Initialize utility functions

Phase 1: Mainline Detection
   ├─ Analyze git history (30 days)
   ├─ Identify core modules (high commit frequency)
   ├─ Map active vs stale branches
   └─ Build mainline profile

Phase 2: Drift Discovery (Subagent)
   ├─ spawn_agent with cli-explore-agent role
   ├─ Scan workflow sessions for orphaned artifacts
   ├─ Identify documents drifted from mainline
   ├─ Detect dead code and unused exports
   └─ Generate cleanup manifest

Phase 3: Confirmation
   ├─ Validate manifest schema
   ├─ Display cleanup summary by category
   ├─ AskUser: Select categories and risk level
   └─ Dry-run exit if --dry-run

Phase 4: Execution
   ├─ Validate paths (security check)
   ├─ Stage deletion (move to .trash)
   ├─ Update manifests
   ├─ Permanent deletion
   └─ Report results

Implementation

Phase 0: Initialization

const getUtc8ISOString = () => new Date(Date.now() + 8 * 60 * 60 * 1000).toISOString()

// Parse arguments
const args = "$ARGUMENTS"
const isDryRun = args.includes('--dry-run')
const focusMatch = args.match(/FOCUS="([^"]+)"/)
const focusArea = focusMatch ? focusMatch[1] : "$FOCUS" !== "$" + "FOCUS" ? "$FOCUS" : null

// Session setup
const dateStr = getUtc8ISOString().substring(0, 10)
const sessionId = `clean-${dateStr}`
const sessionFolder = `.workflow/.clean/${sessionId}`
const trashFolder = `${sessionFolder}/.trash`
const projectRoot = process.cwd()

bash(`mkdir -p ${sessionFolder}`)
bash(`mkdir -p ${trashFolder}`)

// Utility functions
function fileExists(p) {
  try { return bash(`test -f "${p}" && echo "yes"`).includes('yes') } catch { return false }
}

function dirExists(p) {
  try { return bash(`test -d "${p}" && echo "yes"`).includes('yes') } catch { return false }
}

function validatePath(targetPath) {
  if (targetPath.includes('..')) return { valid: false, reason: 'Path traversal' }

  const allowed = ['.workflow/', '.claude/rules/tech/', 'src/']
  const dangerous = [/^\//, /^C:\\Windows/i, /node_modules/, /\.git$/]

  if (!allowed.some(p => targetPath.startsWith(p))) {
    return { valid: false, reason: 'Outside allowed directories' }
  }
  if (dangerous.some(p => p.test(targetPath))) {
    return { valid: false, reason: 'Dangerous pattern' }
  }
  return { valid: true }
}

---

Phase 1: Mainline Detection

// Check git repository
const isGitRepo = bash('git rev-parse --git-dir 2>/dev/null && echo "yes"').includes('yes')

let mainlineProfile = {
  coreModules: [],
  activeFiles: [],
  activeBranches: [],
  staleThreshold: { sessions: 7, branches: 30, documents: 14 },
  isGitRepo,
  timestamp: getUtc8ISOString()
}

if (isGitRepo) {
  // Commit frequency by directory (last 30 days)
  const freq = bash('git log --since="30 days ago" --name-only --pretty=format: | grep -v "^$" | cut -d/ -f1-2 | sort | uniq -c | sort -rn | head -20')

  // Parse core modules (>5 commits)
  mainlineProfile.coreModules = freq.trim().split('\n')
    .map(l => l.trim().match(/^(\d+)\s+(.+)$/))
    .filter(m => m && parseInt(m[1]) >= 5)
    .map(m => m[2])

  // Recent branches
  const branches = bash('git for-each-ref --sort=-committerdate refs/heads/ --format="%(refname:short)" | head -10')
  mainlineProfile.activeBranches = branches.trim().split('\n').filter(Boolean)
}

Write(`${sessionFolder}/mainline-profile.json`, JSON.stringify(mainlineProfile, null, 2))

---

Phase 2: Drift Discovery

let exploreAgent = null

try {
  // Launch cli-explore-agent
  exploreAgent = spawn_agent({
    message: `
## TASK ASSIGNMENT

### MANDATORY FIRST STEPS
1. Read: ~/.codex/agents/cli-explore-agent.md
2. Read: .workflow/project-tech.json (if exists)

## Task Objective
Discover stale artifacts for cleanup.

## Context
- Session: ${sessionFolder}
- Focus: ${focusArea || 'entire project'}

## Discovery Categories

### 1. Stale Workflow Sessions
Scan: .workflow/active/WFS-*, .workflow/archives/WFS-*, .workflow/.lite-plan/*, .workflow/.debug/DBG-*
Criteria: No modification >7 days + no related git commits

### 2. Drifted Documents
Scan: .claude/rules/tech/*, .workflow/.scratchpad/*
Criteria: >30% broken references to non-existent files

### 3. Dead Code
Scan: Unused exports, orphan files (not imported anywhere)
Criteria: No importers in import graph

## Output
Write to: ${sessionFolder}/cleanup-manifest.json

Format:
{
  "generated_at": "ISO",
  "discoveries": {
    "stale_sessions": [{ "path": "...", "age_days": N, "reason": "...", "risk": "low|medium|high" }],
    "drifted_documents": [{ "path": "...", "drift_percentage": N, "reason": "...", "risk": "..." }],
    "dead_code": [{ "path": "...", "type": "orphan_file", "reason": "...", "risk": "..." }]
  },
  "summary": { "total_items": N, "by_category": {...}, "by_risk": {...} }
}
`
  })

  // Wait with timeout handling
  let result = wait({ ids: [exploreAgent], timeout_ms: 600000 })

  if (result.timed_out) {
    send_input({ id: exploreAgent, message: 'Complete now and write cleanup-manifest.json.' })
    result = wait({ ids: [exploreAgent], timeout_ms: 300000 })
    if (result.timed_out) throw new Error('Agent timeout')
  }

  if (!fileExists(`${sessionFolder}/cleanup-manifest.json`)) {
    throw new Error('Manifest not generated')
  }

} finally {
  if (exploreAgent) close_agent({ id: exploreAgent })
}

---

Phase 3: Confirmation

// Load and validate manifest
const manifest = JSON.parse(Read(`${sessionFolder}/cleanup-manifest.json`))

// Display summary
console.log(`
## Cleanup Discovery Report

| Category | Count | Risk |
|----------|-------|------|
| Sessions | ${manifest.summary.by_category.stale_sessions} | ${getRiskSummary('sessions')} |
| Documents | ${manifest.summary.by_category.drifted_documents} | ${getRiskSummary('documents')} |
| Dead Code | ${manifest.summary.by_category.dead_code} | ${getRiskSummary('code')} |

**Total**: ${manifest.summary.total_items} items
`)

// Dry-run exit
if (isDryRun) {
  console.log(`
**Dry-run mode**: No changes made.
Manifest: ${sessionFolder}/cleanup-manifest.json
  `)
  return
}

// User confirmation
const selection = AskUser({
  questions: [
    {
      question: "Which categories to clean?",
      header: "Categories",
      multiSelect: true,
      options: [
        { label: "Sessions", description: `${manifest.summary.by_category.stale_sessions} stale sessions` },
        { label: "Documents", description: `${manifest.summary.by_category.drifted_documents} drifted docs` },
        { label: "Dead Code", description: `${manifest.summary.by_category.dead_code} unused files` }
      ]
    },
    {
      question: "Risk level?",
      header: "Risk",
      options: [
        { label: "Low only", description: "Safest (Recommended)" },
        { label: "Low + Medium", description: "Includes likely unused" },
        { label: "All", description: "Aggressive" }
      ]
    }
  ]
})

---

Phase 4: Execution

const riskFilter = {
  'Low only': ['low'],
  'Low + Medium': ['low', 'medium'],
  'All': ['low', 'medium', 'high']
}[selection.risk]

// Collect items to clean
const items = []
if (selection.categories.includes('Sessions')) {
  items.push(...manifest.discoveries.stale_sessions.filter(s => riskFilter.includes(s.risk)))
}
if (selection.categories.includes('Documents')) {
  items.push(...manifest.discoveries.drifted_documents.filter(d => riskFilter.includes(d.risk)))
}
if (selection.categories.includes('Dead Code')) {
  items.push(...manifest.discoveries.dead_code.filter(c => riskFilter.includes(c.risk)))
}

const results = { staged: [], deleted: [], failed: [], skipped: [] }

// Validate and stage
for (const item of items) {
  const validation = validatePath(item.path)
  if (!validation.valid) {
    results.skipped.push({ path: item.path, reason: validation.reason })
    continue
  }

  if (!fileExists(item.path) && !dirExists(item.path)) {
    results.skipped.push({ path: item.path, reason: 'Not found' })
    continue
  }

  try {
    const trashTarget = `${trashFolder}/${item.path.replace(/\//g, '_')}`
    bash(`mv "${item.path}" "${trashTarget}"`)
    results.staged.push({ path: item.path, trashPath: trashTarget })
  } catch (e) {
    results.failed.push({ path: item.path, error: e.message })
  }
}

// Permanent deletion
for (const staged of results.staged) {
  try {
    bash(`rm -rf "${staged.trashPath}"`)
    results.deleted.push(staged.path)
  } catch (e) {
    console.error(`Failed: ${staged.path}`)
  }
}

// Cleanup empty trash
bash(`rmdir "${trashFolder}" 2>/dev/null || true`)

// Report
console.log(`
## Cleanup Complete

**Deleted**: ${results.deleted.length}
**Failed**: ${results.failed.length}
**Skipped**: ${results.skipped.length}

### Deleted
${results.deleted.map(p => `- ${p}`).join('\n') || '(none)'}

${results.failed.length > 0 ? `### Failed\n${results.failed.map(f => `- ${f.path}: ${f.error}`).join('\n')}` : ''}

Report: ${sessionFolder}/cleanup-report.json
`)

Write(`${sessionFolder}/cleanup-report.json`, JSON.stringify({
  timestamp: getUtc8ISOString(),
  results,
  summary: {
    deleted: results.deleted.length,
    failed: results.failed.length,
    skipped: results.skipped.length
  }
}, null, 2))

---

Session Folder

.workflow/.clean/clean-{YYYY-MM-DD}/
├── mainline-profile.json     # Git history analysis
├── cleanup-manifest.json     # Discovery results
├── cleanup-report.json       # Execution results
└── .trash/                   # Staging area (temporary)

Risk Levels

Risk	Description	Examples
Low	Safe to delete	Empty sessions, scratchpad files
Medium	Likely unused	Orphan files, old archives
High	May have dependencies	Files with some imports

Security Features

Feature	Protection
Path Validation	Whitelist directories, reject traversal
Staged Deletion	Move to .trash before permanent delete
Dangerous Patterns	Block system dirs, node_modules, .git

Iteration Flow

First Call (/prompts:clean):
   ├─ Detect mainline from git history
   ├─ Discover stale artifacts via subagent
   ├─ Display summary, await user selection
   └─ Execute cleanup with staging

Dry-Run (/prompts:clean --dry-run):
   ├─ All phases except execution
   └─ Manifest saved for review

Focused (/prompts:clean FOCUS="auth"):
   └─ Discovery limited to specified area

Error Handling

Situation	Action
No git repo	Use file timestamps only
Agent timeout	Retry once with prompt, then abort
Path validation fail	Skip item, report reason
Manifest parse error	Abort with error
Empty discovery	Report "codebase is clean"

---

Now execute cleanup workflow with focus: $FOCUS