ontology-atlas: Skill for Claude Code

.agents/skills/ontology-bootstrap/SKILL.md

ontology-bootstrap is a skill for Claude Code, Codex from wlsdks/ontology-atlas. It costs 129 tokens per session (7,981 once invoked), scanned A, original, MIT.

A process for building an ontology—a structured model of the important concepts and relationships in a codebase—from an empty or nearly empty Atlas vault. It uses evidence from Atlas and separates observed facts from unsupported guesses.

In plain words
What is it for?
Use it to analyze an unfamiliar repository, fill an ontology vault, extract product meaning, and create source-backed concepts and relationships.
Why use it?
It helps an agent understand what a software project means, not just where its files and folders are. Evidence and approval steps reduce the risk of turning guesses into documented concepts.

Skill for Claude CodeCodex

Written for no agent in particular: nothing here depends on one. Also seen: installed under .agents/ (shared by several agents).

This is wlsdks/ontology-atlas's own configuration. It tells Claude Code and Codex how to work on ontology-atlas itself, so it is not a mod to install elsewhere. Copy it as a starting point and replace the rules that are about this project. Everything ontology-atlas configures →

Reuse

Borrowing it

Nothing to install: this file belongs to wlsdks/ontology-atlas. Take a copy, put it at the same path in your own repository, and replace the rules that are about this project with yours.

Copy the file
curl -O https://raw.githubusercontent.com/wlsdks/ontology-atlas/main/.agents/skills/ontology-bootstrap/SKILL.md
Clone the repo
git clone --depth 1 https://github.com/wlsdks/ontology-atlas

Made for: Claude Code, Codex.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

agentmods badge for ontology-bootstrap

README.md
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Your own site
<a href="https://agentmods.dev/skills/wlsdks/ontology-atlas/ontology-bootstrap"><img src="https://agentmods.dev/badge/skills/wlsdks/ontology-atlas/ontology-bootstrap/github.svg" alt="Measured on agentmods" height="20"></a>

Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.

agentmods 80×15 button for ontology-bootstrap

Your own site · 80×15
<a href="https://agentmods.dev/skills/wlsdks/ontology-atlas/ontology-bootstrap"><img src="https://agentmods.dev/badge/skills/wlsdks/ontology-atlas/ontology-bootstrap.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 129 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 7,981 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe. Third-party audits
  • NVIDIA SkillSpector pass 7 Sept 2026
How audits are shown
Origin original No closer match found in the catalogue.
Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

ModelPer sessionOnce invoked
Fable 5.1 $0.00129 $0.07981
Opus 5 $0.00064 $0.03991
Sonnet 5 $0.00026 $0.01596
Haiku 4.5 $0.00013 $0.00798

Measured 6d ago against content hash 4188bcf781be, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-12, from the pricing page.

Security

Grade A, and why

ontology-bootstrap scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 6d ago.

The scan reads SKILL.md. This mod also ships 4 executable files (scripts/qualification-handoff.mjs, scripts/qualification-handoff.test.mjs, scripts/rooted-mcp-read.mjs, …), listed below but not scanned — reading those needs a real analyzer, not pattern matching.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Nothing flagged

None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.

.agents/skills/ontology-bootstrap/SKILL.md · 710 lines

How it starts

The opening of the file, as written. The whole thing — 710 lines — stays where its author put it; the contents beside it link to each section on GitHub.

Bootstrap a trustworthy ontology

Create a shared meaning model, not a labeled file tree. Treat repository structure as implementation evidence. Never promote a folder, package, README heading, or model-generated phrase into a business concept without a definition and source-backed justification.

Use only ontology-atlas MCP tools for the core workflow. Do not depend on CodeGraph, another skill, shell search, or an AST index. Those may exist, but a plain agent connected only to Atlas must still succeed at the meaning model. The optional, bounded task-navigation enrichment below is the sole exception: after meaning selects a stable element, a source-aware builder may use an available local source reader to verify exact coordinates that Atlas then checks again. Navigation may remain unknown without blocking the core model.

Meaning contract

The normative five-kind discriminator, relation support matrix, direct is_a test, and inference/standards boundary live only in the Atlas meta-model specification. This skill owns the bootstrap sequence and evidence/approval states; it does not redefine the model. If the linked file is unavailable, use the compact meta-model boundary supplied by the connected Atlas MCP instructions.

Keep these epistemic states separate:

  • observed: directly present in a returned source excerpt, path, package, or import.
  • proposed: an interpretation supported by observed evidence but not yet accepted by the user.
  • shared: a user-approved concept persisted in the vault.

Before extracting concepts, read guides/meaning-extraction.md. Apply its definition, boundary, evidence, naming, relation, and self-audit rules.

Workflow

1. Confirm cold-start scope

Call:

connection_info({})
list_kinds({})

Compare both roots returned by connection_info with the intended absolute vault and repository before calling list_kinds or reading project evidence. On any mismatch, stop that process immediately; do not send a harmless-looking read to learn whether the wrong server might still work. A source checkout that already exposes its own dogfood MCP is especially easy to mistake for the new vault.

Read the full file on GitHub · 710 lines

Files

What ships with it

5 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

  1. 6d ago Changed · +13 lines 4188bcf781be
  2. 8d ago Changed · +24 lines c4a19a4c9ea0
  3. 13d ago First seen · 673 lines · 129 tokens per session scan A 790bf18b1d8c

Subscribe to this mod's changes

ontology-bootstrap is a skill published in the GitHub repository wlsdks/ontology-atlas (104 stars, last pushed today), licensed MIT. It adds 129 tokens to every session and 7,981 once invoked, about $0.0006 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.

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