PhD-Zero: Skill for Codex

.agents/skills/human-checkpoint/SKILL.md

human-checkpoint is a skill for Codex from TenureAI/PhD-Zero. It costs 74 tokens per session (732 once invoked), scanned A, original, MIT.

A procedure for asking a person to decide when work involves major safety, cost, data, or irreversible risks. It presents choices, tradeoffs, and a recommendation through the available question channel.

In plain words
What is it for?
Use it before destructive data operations, expensive computing, publishing shared knowledge, major safety decisions, or other blockers that require human authorization.
Why use it?
It prevents an agent from making high-impact decisions without approval and avoids interrupting people for routine confirmations.

Skill for Codex

Written for Codex: agents/openai.yaml present. Also seen: installed under .agents/ (shared by several agents).

This is TenureAI/PhD-Zero's own configuration. It tells Codex how to work on PhD-Zero 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 PhD-Zero configures →

Reuse

Borrowing it

Nothing to install: this file belongs to TenureAI/PhD-Zero. 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/TenureAI/PhD-Zero/main/.agents/skills/human-checkpoint/SKILL.md
Clone the repo
git clone --depth 1 https://github.com/TenureAI/PhD-Zero

Made for: 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 human-checkpoint

README.md
[![agentmods](https://agentmods.dev/badge/skills/tenureai/phd-zero/human-checkpoint/github.svg)](https://agentmods.dev/skills/tenureai/phd-zero/human-checkpoint)
Your own site
<a href="https://agentmods.dev/skills/tenureai/phd-zero/human-checkpoint"><img src="https://agentmods.dev/badge/skills/tenureai/phd-zero/human-checkpoint/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 human-checkpoint

Your own site · 80×15
<a href="https://agentmods.dev/skills/tenureai/phd-zero/human-checkpoint"><img src="https://agentmods.dev/badge/skills/tenureai/phd-zero/human-checkpoint.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 74 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 732 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.
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 $0.00074 $0.00732
Opus 5.5 $0.00030 $0.00293
Sonnet 5.5 $0.00015 $0.00146
Haiku 4.5 $0.00007 $0.00073

Measured 1mo ago against content hash 7a398508e610, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

Grade A, and why

human-checkpoint 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 1mo 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/human-checkpoint/SKILL.md · 101 lines

How it starts

The opening of the file, as written. The whole thing — 101 lines — stays where its author put it; the contents beside it link to each section on GitHub.

Human Checkpoint

Mission

Request human decisions only at meaningful risk or decision points, using executable options.

Interaction Channel Policy

For checkpoints that require user input, choose interaction channel in this order:

  1. In moderate or detailed, prefer built-in user-question tool (request_user_input) for all required user interactions.
  2. If the built-in tool is unavailable in the current runtime, degrade to concise plain-text questions in chat.
  3. In full-auto, avoid non-essential questions and trigger checkpoints only by mode policy.
  4. Never silently skip a required checkpoint because the preferred channel is unavailable.

Mode-Aware Trigger Policy

  1. full-auto
    • Trigger only for hard blockers or major safety risks.
  2. moderate
    • Trigger for plan-finalization confirmations.
    • Trigger before high-resource actions.
    • Trigger for major safety risks.
    • Trigger for required intake clarification and parameter confirmations.
    • Trigger for replan confirmations when route changes materially.
  3. detailed
    • Trigger when path is unclear.
    • Trigger before high-resource actions.
    • Trigger for major safety risks.
    • Trigger for required intake clarification and parameter confirmations.
    • Trigger for replan confirmations when route changes materially.

Always trigger for shared-memory publication.

Major Safety Risk Examples

Treat these as major risks:

  1. potential large-scale file deletion
  2. likely secret leakage
  3. destructive remote/shared resource mutation
  4. actions with clear financial or operational damage potential

In all modes, checkpoint is required for major risks.

Request Format

Use this structure:

  1. Decision Needed
  2. Context
  3. Options
  4. Recommendation
  5. If Approved
  6. If Rejected

When using request_user_input, map the same structure into 1-3 short option-based questions. When using plain-text fallback, ask one concise direct question at a time.

Required Option Set for Risky Actions

Read the full file on GitHub · 101 lines

Files

What ships with it

1 file 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. 1mo ago First seen · 101 lines · 74 tokens per session scan A 7a398508e610

Subscribe to this mod's changes

human-checkpoint is a skill published in the GitHub repository TenureAI/PhD-Zero (53 stars, last pushed 7mo ago), licensed MIT. It adds 74 tokens to every session and 732 once invoked, about $0.0003 per session on Opus 5.5. 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.

Related

Other skills, from other repositories

auto-paper-improvement-loop

An automated loop for improving a generated research paper through repeated review, editing, and recompilation. Recompiling rebuilds the paper so changes can be checked in the final document.

AI4Scientist/nano-scientist · 67 tokens

proof-checker

A rigorous proof-checking and repair skill for LaTeX mathematics. LaTeX is a text format commonly used to write mathematical documents.

AI4Scientist/nano-scientist · 90 tokens

citation-audit

Zero-context verification that every bibliographic entry in the paper is real, correctly attributed, and used in a context the cited paper actually supports. Uses a fresh cross-model reviewer with web/DBLP/arXiv lookup to catch hallucinated authors, wrong years, fabricated venues, version mismatches, and wrong-context…

AI4Scientist/nano-scientist · 114 tokens

grant-proposal

A grant-writing workflow that turns research ideas and related literature into structured funding proposals for named national and international grant formats.

AI4Scientist/nano-scientist · 131 tokens

paper-illustration

A tool for creating academic-paper illustrations such as architecture diagrams and method figures with Gemini image generation and Claude-guided revisions.

AI4Scientist/nano-scientist · 67 tokens

paper-navigator

Find and read academic papers: disambiguate queries, discover papers (search, citation traversal, recommendations, arXiv monitoring, trending, GitHub search), evaluate (TLDR, citations, code, SOTA), and read with structured analysis (3-level strategy). Use when: finding papers, reading a paper, related work, citation…

AI4Scientist/nano-scientist · 141 tokens