protocolsio-integration

protocolsio-integration is a skill for Claude Code, Codex from magic3007/dotfiles. It costs 85 tokens per session (3,146 once invoked), scanned B, a copy of protocolsio-integration, MIT.

A programmatic connection to protocols.io, a website for creating, sharing, and managing detailed scientific experiment procedures.

In plain words
What is it for?
Use it to find, create, edit, publish, organize, discuss, and export scientific protocols and their related files.
Why use it?
It lets software search and maintain laboratory protocols, discussions, workspaces, files, and records instead of requiring manual website work.

Skill for Claude CodeCodex

Written for no agent in particular: nothing here depends on one.

Good fit Use it to find, create, edit, publish, organize, discuss, and export scientific protocols and their related files.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/magic3007/dotfiles/protocolsio-integration
Install

Getting it into your agent

One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.

Any agent
npx skills add magic3007/dotfiles --skill protocolsio-integration
Clone the repo
git clone --depth 1 https://github.com/magic3007/dotfiles

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 protocolsio-integration

README.md
[![agentmods](https://agentmods.dev/badge/skills/magic3007/dotfiles/protocolsio-integration.svg)](https://agentmods.dev/skills/magic3007/dotfiles/protocolsio-integration)
Your own site
<a href="https://agentmods.dev/skills/magic3007/dotfiles/protocolsio-integration"><img src="https://agentmods.dev/badge/skills/magic3007/dotfiles/protocolsio-integration.svg" alt="Measured on agentmods" height="20"></a>
Per session 85 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 3,146 The whole file, excluding the scripts and references it only reads on demand.
Security scan B 2 findings. A grade says what 26 rules found in the file — not that it is safe.
Origin 100% copy Near-identical to another mod 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 $0.00085 $0.03146
Opus 5 $0.00043 $0.01573
Sonnet 5 $0.00017 $0.00629
Haiku 4.5 $0.00009 $0.00315

Measured 4d ago against content hash 982d40b7e1c8, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-08, from the pricing page.

Security

Grade B, and why

protocolsio-integration scanned grade B with 2 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 4d 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.

Sends data to an external URLmediumData exfiltration

A POST to an outside endpoint may be telemetry or may be exfiltration; either way the mod talks to somewhere, and you should know where.

response = requests.post( "https://protocols.io/api/v3/protocols",

Makes network callslowCapability

Not a fault in itself. Listed so you know the mod talks to something, and to what.

response = requests.get(
Origin

This is a copy

100% identical to protocolsio-integration — 4 lines differ, which has more behind it and is treated as the original. This page carries a canonical link to it rather than competing with it.

claude/skills/scientific-agent-skills/skills/protocolsio-integration/SKILL.md · 421 lines

How it starts

The opening of the file, as written. The whole thing — 421 lines — stays where its author put it; the contents beside it link to each section on GitHub.

Protocols.io Integration

Overview

Protocols.io is a comprehensive platform for developing, sharing, and managing scientific protocols. This skill provides complete integration with the protocols.io API v3, enabling programmatic access to protocols, workspaces, discussions, file management, and collaboration features.

When to Use This Skill

Use this skill when working with protocols.io in any of the following scenarios:

  • Protocol Discovery: Searching for existing protocols by keywords, DOI, or category
  • Protocol Management: Creating, updating, or publishing scientific protocols
  • Step Management: Adding, editing, or organizing protocol steps and procedures
  • Collaborative Development: Working with team members on shared protocols
  • Workspace Organization: Managing lab or institutional protocol repositories
  • Discussion & Feedback: Adding or responding to protocol comments
  • File Management: Uploading data files, images, or documents to protocols
  • Experiment Tracking: Documenting protocol executions and results
  • Data Export: Backing up or migrating protocol collections
  • Integration Projects: Building tools that interact with protocols.io

Core Capabilities

This skill provides comprehensive guidance across five major capability areas:

1. Authentication & Access

Manage API authentication using access tokens and OAuth flows. Includes both client access tokens (for personal content) and OAuth tokens (for multi-user applications).

Key operations:

  • Generate authorization links for OAuth flow
  • Exchange authorization codes for access tokens
  • Refresh expired tokens
  • Manage rate limits and permissions

Reference: Read references/authentication.md for detailed authentication procedures, OAuth implementation, and security best practices.

2. Protocol Operations

Complete protocol lifecycle management from creation to publication.

Key operations:

  • Search and discover protocols by keywords, filters, or DOI
  • Retrieve detailed protocol information with all steps
  • Create new protocols with metadata and tags
  • Update protocol information and settings
  • Manage protocol steps (create, update, delete, reorder)
  • Handle protocol materials and reagents
  • Publish protocols with DOI issuance
  • Bookmark protocols for quick access
  • Generate protocol PDFs

Read the full file on GitHub · 421 lines

Files

What ships with it

6 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. 4d ago First seen · 421 lines · 85 tokens per session scan B 982d40b7e1c8

Subscribe to this mod's changes

protocolsio-integration is a skill published in the GitHub repository magic3007/dotfiles (11 stars, last pushed today), licensed MIT. It adds 85 tokens to every session and 3,146 once invoked, about $0.0004 per session on Opus 5. A static security scan graded it B with 2 findings (sends data to an external url, makes network calls). It is 100% identical to protocolsio-integration, differing in 4 lines, and is treated as a copy.

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