ontology-atlas: Skill for Claude Code

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

ontology-extract is a skill for Claude Code, Codex from wlsdks/ontology-atlas. It costs 37 tokens per session (1,068 once invoked), scanned A, original, MIT.

A tool for extracting possible concepts and relationships from supplied prose and comparing them with an existing knowledge vault. An ontology is an organised map of the important concepts in a domain and how they relate.

In plain words
What is it for?
Use it with meeting notes, research plans, RFCs, pull requests, or chat text to propose a small set of vault nodes and links.
Why use it?
It helps avoid creating duplicate concepts and keeps new entries tied to evidence and human approval.

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-extract/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-extract

README.md
[![agentmods](https://agentmods.dev/badge/skills/wlsdks/ontology-atlas/ontology-extract/github.svg)](https://agentmods.dev/skills/wlsdks/ontology-atlas/ontology-extract)
Your own site
<a href="https://agentmods.dev/skills/wlsdks/ontology-atlas/ontology-extract"><img src="https://agentmods.dev/badge/skills/wlsdks/ontology-atlas/ontology-extract/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-extract

Your own site · 80×15
<a href="https://agentmods.dev/skills/wlsdks/ontology-atlas/ontology-extract"><img src="https://agentmods.dev/badge/skills/wlsdks/ontology-atlas/ontology-extract.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 37 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 1,068 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 warn 7 Sept 2026
SkillSpector: 2 findings, up to medium

These are SkillSpector’s own severities. On a checked sample its high-severity flags on skills were ~96% false positives — a documented command, a public API, a “never do X” rule — so we show them as a caution to read, not a verdict. Why →

  • medium Excessive Agency · line 58
    Skill enables autonomous high-impact decisions without human-in-the-loop verification. Critical operations (destructive commands, financial transactions, data deletion) should require explicit user confirmation.
    Fix: Add human-in-the-loop confirmation for destructive, irreversible, or high-impact operations. Never auto-execute commands that modify files, send data, or alter system state.
  • medium Excessive Agency · line 73
    Skill enables autonomous high-impact decisions without human-in-the-loop verification. Critical operations (destructive commands, financial transactions, data deletion) should require explicit user confirmation.
    Fix: Add human-in-the-loop confirmation for destructive, irreversible, or high-impact operations. Never auto-execute commands that modify files, send data, or alter system state.
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 $0.00037 $0.01068
Opus 5 $0.00018 $0.00534
Sonnet 5 $0.00007 $0.00214
Haiku 4.5 $0.00004 $0.00107

Measured 6d ago against content hash 533f2155abbd, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-12, from the pricing page.

Security

Grade A, and why

ontology-extract 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.

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-extract/SKILL.md · 122 lines

How it starts

The opening of the file, as written. The whole thing — 122 lines — stays where its author put it; the contents beside it link to each section on GitHub.

Extract ontology from prose

/ontology-sync follows code changes. This skill follows human prose: meeting notes, RFCs, pull-request descriptions, chat logs, or pasted wiki paragraphs. The vault is the Markdown folder whose files and typed frontmatter form the graph.

Run when

  • the user explicitly asks to turn supplied prose into ontology;
  • the user requests extraction from an RFC, meeting note, PR, wiki, or chat that states a codebase concept.

Pasted prose alone is not an extraction request; follow the requested task.

Skip personal notes without domain/capability/element concepts, summary-only requests, and prose already living inside the target vault node.

1. Read prose and the existing vault together

list_kinds
find_evidence(title)
query_ontology({ operation: "similar_nodes", candidateSlug, title })

Extract candidate nouns and verb phrases, then search before proposing. The most common failure is creating “user login” beside an existing auth-login node. A similarity score at or above 0.3 is a prompt to consider patching the existing node; lower scores support a new candidate but do not decide it automatically.

2. Classify a small candidate set

One paragraph normally yields zero to three candidates. More than five means the input is too broad or the extraction is too eager.

Prose shape Likely kind Example
a new user ability capability “members can reset a password” → capabilities/password-reset
a library, file, runtime unit, or implementation role element “send an OTP” → elements/otp-sender
a stable responsibility area domain “separate billing” → domains/billing
opinion, status, or motivation only skip do not turn commentary into a node

For each candidate record slug, title, parent domain where relevant, the exact source phrase, and whether it is new or a patch candidate.

3. Stop before writing

Reuse an explicit approval already given in this session only when the exact candidate content, relations, source evidence, and conditions are unchanged. A general request to extract meaning is not approval of unseen candidates. If no existing explicit approval covers the exact current candidates, show one short numbered table and ask the user to choose. Otherwise, proceed to step 4 without asking again. With zero candidates, report that result without requesting approval or writing anything:

Read the full file on GitHub · 122 lines

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 · +8 lines 533f2155abbd
  2. 12d ago First seen · 114 lines · 37 tokens per session scan A 33c65428f2ec

Subscribe to this mod's changes

ontology-extract is a skill published in the GitHub repository wlsdks/ontology-atlas (104 stars, last pushed today), licensed MIT. It adds 37 tokens to every session and 1,068 once invoked, about $0.0002 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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