# Ecosystem Integrity Scanner

> Deeply analyzes Agent Studio framework structural health: catching phantom require() references, wrong module depth paths, missing skill/agent dependencies, bloated configurations, archived references in active code, stale catalog counts, and empty tool/skill directories.

- Skill: `oimiragieo/ecosystem-integrity-scanner` (Agent Skill, multi-file: 10 files)
- Install (CLI): `npx skillmds@latest add oimiragieo/ecosystem-integrity-scanner`
- Raw SKILL.md: https://api.skillmd.com/api/skills/oimiragieo/ecosystem-integrity-scanner/raw
- Safety review: pending
- Works with: Claude Code, Claude.ai, OpenAI Codex
- Category: AI & ML
- Author: oimiragieo (https://skillmd.com/u/oimiragieo)
- Updated: 2026-09-10
- Page: https://skillmd.com/skills/oimiragieo/ecosystem-integrity-scanner

---


# Ecosystem Integrity Scanner

## Overview

Automated structural integrity scanner for the entire Agent Studio framework.
Catches issues that silently break agent workflows: wrong `require()` paths that
crash at runtime, phantom skills referenced in agent frontmatter that don't exist
on disk, stale agent registry counts, archived references still active in
production code, UTF-16 encoding that breaks parsers, and bloated agent configs.

**Core principle:** Framework structural issues are pre-production bugs. A phantom
skill reference means an agent will fail silently. A broken `require()` means a hook
crashes at the wrong moment. The scanner enforces zero-tolerance for these.

## When to Invoke

```javascript
Skill({ skill: 'ecosystem-integrity-scanner' });
```

Invoke proactively after:

- Bulk framework changes (batch skill/agent/hook creation or archiving)
- Refactoring module paths or directory structure
- Running a major audit or cleanup pass
- Suspecting phantom references or broken require() chains
- Before finalizing any CI sanity gate

## Mandatory Skills

Invoke before starting this skill:

| Skill                            | Purpose                        | When                 |
| -------------------------------- | ------------------------------ | -------------------- |
| `task-management-protocol`       | Track scan progress            | Always               |
| `ripgrep`                        | Fast targeted code search      | When investigating   |
| `code-semantic-search`           | Concept discovery              | When pattern hunting |
| `context-compressor`             | Compress large audit results   | When output is large |
| `verification-before-completion` | Gate completion on zero errors | Before marking done  |
| `memory-search`                  | Check prior audit patterns     | At start             |

## Iron Laws

1. **Always run from project root.** `validate-ecosystem-integrity.cjs` resolves all
   paths relative to `process.cwd()`. Running from a subdirectory corrupts all path
   resolution. Never invoke from a non-root directory.

2. **Never ignore PHANTOM_REQUIRE errors.** A `[PHANTOM_REQUIRE]` error means a hook
   or script will throw `MODULE_NOT_FOUND` at runtime. These always represent real
   breakage — no false positives once the scanner is properly calibrated.

3. **Never mark scan complete while errors > 0.** Warnings are advisory; errors are
   blocking. Report path and severity but do not call the pipeline done until errors
   reach zero or are explicitly accepted as known exceptions with owner annotation.

4. **Always route HIGH errors to specialist agents.** Phantom skills → `qa` agent.
   Broken require() → `developer` agent. Archive refs in production → `developer`.
   Never attempt to remediate complex structural failures inline without delegation.

5. **Always save the audit report before completing.** Write the categorized findings
   to `.claude/context/reports/qa/ecosystem-integrity-report-{ISO-date}.md` before
   calling `TaskUpdate(completed)`. Evidence must persist across context resets.

## Anti-Patterns

| Anti-Pattern                                          | Risk                                                           | Correct Approach                                          |
| ----------------------------------------------------- | -------------------------------------------------------------- | --------------------------------------------------------- |
| Treating `[STALE_CATALOG]` as informational noise     | Registry drifts from reality; agents get wrong counts          | Always update agent-registry.json when agent files change |
| Skipping scan after bulk framework batch ops          | Batch ops most commonly create phantom refs                    | Run scan as the FINAL step of every batch operation       |
| Manually patching require() paths without re-scanning | One fix may mask three new breaks                              | Always re-run full scan after patching paths              |
| Running scanner against `_archive/` subtrees          | Archive content has intentionally broken refs; false positives | Scanner skip rules handle this; trust the skip list       |
| Adding to `DYNAMIC_SCRIPT_GENERATORS` without review  | Accidentally suppressing real phantom detections               | Only add files that provably generate child scripts       |

## Step 1: Run the Integrity Audit Engine

```bash
node scripts/validation/validate-ecosystem-integrity.cjs
```

The script performs six targeted checks:

1. **`[PHANTOM_REQUIRE]`** — Broken `require()` / `import` paths that resolve to
   non-existent files (after trying `.js`, `.cjs`, `.mjs`, `.json` extensions).
2. **`[PHANTOM_SKILL]`** — Skills listed in agent frontmatter `skills:` arrays that
   have no corresponding `.claude/skills/{name}/` directory.
3. **`[EMPTY_DIR]`** — Empty directories in `.claude/tools/` or `.claude/skills/`
   that indicate abandoned scaffolding creating registry footprinting issues.
4. **`[ENCODING]`** — Files with UTF-16 BOM (`0xFEFF`/`0xFFFE`) that break JSON/MD
   parsers silently.
5. **`[ARCHIVED_REF]`** — Production `.claude/` code that still references
   `_archive/` or `.claude/archive/` paths — active code pointing at dead modules.
6. **`[STALE_CATALOG]`** — `agent-registry.json` entry count differs from actual
   agent `.md` file count on disk (drift between manifest and reality).

## Step 2: Categorize and Report

Parse outputs into a structured report at
`.claude/context/reports/qa/ecosystem-integrity-report-{ISO-date}.md`:

```markdown
# Ecosystem Integrity Report

<!-- Agent: qa | Task: #{id} | Session: {date} -->

**Date:** YYYY-MM-DD
**Overall Status:** PASS / FAIL
**Errors:** N | **Warnings:** N

## HIGH — Runtime Blocking (must fix before deployment)

- `[PHANTOM_REQUIRE]` — Module resolution failures that crash hooks/scripts
- `[PHANTOM_SKILL]` — Missing skills that break agent workflows silently

## MEDIUM — Structural Integrity (fix in current sprint)

- `[ARCHIVED_REF]` — Active code pointing at archived/dead modules
- `[STALE_CATALOG]` — Registry count mismatch with actual agent files

## LOW — Housekeeping (fix in next maintenance window)

- `[EMPTY_DIR]` — Ghost directories creating registry noise
- `[ENCODING]` — UTF-16 files that may break parsers
```

## Step 3: Trigger Remediations

Delegate fixes to the correct specialist:

| Error Type          | Spawn Agent | Task Description                        |
| ------------------- | ----------- | --------------------------------------- |
| `[PHANTOM_REQUIRE]` | `developer` | Fix broken require() path in `{file}`   |
| `[PHANTOM_SKILL]`   | `qa`        | Remove or create missing skill `{name}` |
| `[ARCHIVED_REF]`    | `developer` | Replace archive reference in `{file}`   |
| `[STALE_CATALOG]`   | `developer` | Regenerate agent-registry.json          |
| `[EMPTY_DIR]`       | `developer` | Remove empty directory `{path}`         |
| `[ENCODING]`        | `developer` | Re-encode `{file}` as UTF-8             |

After fixes, re-run the scanner and verify errors reach zero before completion.

## Memory Protocol (MANDATORY)

**Before starting:**

```bash
cat .claude/context/memory/learnings.md
cat .claude/context/memory/issues.md
```

Review prior audit patterns and known suppressed false positives.

**After completing:**

- Audit pattern → `.claude/context/memory/learnings.md`
- New false-positive suppression rule → `.claude/context/memory/decisions.md`
- Unresolved error requiring owner → `.claude/context/memory/issues.md`

> **Assume interruption:** If the audit report isn't saved to disk, it didn't happen.