research-automation: Instructions file for Claude Code

CLAUDE.md

research-automation CLAUDE.md is an instructions file for Claude Code from lucafusarbassini/research-automation. It costs 904 tokens per session, scanned A, original, MIT.

Development instructions for ricet, a research automation framework for scientific work. The framework covers literature searches, experiment records, reproducibility, paper writing, and a searchable long-term knowledge file.

In plain words
What is it for?
Use it when changing ricet to organize research files, store or retrieve accumulated knowledge, coordinate work across several files, and maintain reproducible research outputs.
Why use it?
It helps coding agents keep research knowledge between sessions and follow a consistent workflow instead of losing decisions or repeating searches.

Instructions file for Claude Code

Written for Claude Code: the file is CLAUDE.md. Also seen: mentions subagents; built for gstack.

This is lucafusarbassini/research-automation's own configuration. It tells Claude Code how to work on research-automation 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 research-automation configures →

Reuse

Borrowing it

Nothing to install: this file belongs to lucafusarbassini/research-automation. 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/lucafusarbassini/research-automation/master/CLAUDE.md
Clone the repo
git clone --depth 1 https://github.com/lucafusarbassini/research-automation

Made for: Claude Code.

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Per session 904 This file is loaded in full into every session.
When invoked 904 The same file — it is already loaded in full.
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 $0.00904 $0.00904
Opus 5 $0.00452 $0.00452
Sonnet 5 $0.00181 $0.00181
Haiku 4.5 $0.00090 $0.00090

Measured 10d ago against content hash fad86301a070, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-10, from the pricing page.

Security

Grade A, and why

research-automation CLAUDE.md 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 10d 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.

CLAUDE.md · 67 lines

How it starts

The opening of the file, as written. The whole thing — 67 lines — stays where its author put it; the contents beside it link to each section on GitHub.

ricet - Research Automation Framework

Project overview

ricet automates the full lifecycle of scientific research: literature search, experiment tracking, reproducibility, paper generation, and knowledge accumulation. The central innovation is the persistent Encyclopedia (knowledge/ENCYCLOPEDIA.md) with vector search -- insights compound across sessions instead of being lost.

Documentation: https://lucafusarbassini.github.io/research-automation/

claude-flow MCP

claude-flow (ruflo) is available as an MCP server (claude-flow in claude mcp list). Use its tools via mcp__claude-flow__* for:

  • Memory -- memory_store, memory_search, memory_retrieve, memory_list Store and retrieve patterns, solutions, decisions across sessions with HNSW vector search.
  • Sessions -- session_save, session_restore, session_list Persist and restore conversation state.
  • Swarm coordination -- swarm_init, swarm_status, agent_spawn, agent_list Multi-agent orchestration when tasks touch 3+ files or need parallel work.

Use these tools naturally when relevant. For simple tasks, just work directly.

Workflow habits

  • Before starting non-trivial work, search memory: mcp__claude-flow__memory_search for relevant past patterns.
  • After solving something tricky, store it: mcp__claude-flow__memory_store with namespace "patterns".
  • For complex multi-file tasks, spawn background agents via the Agent tool with run_in_background: true, all in one message. Tell the user what's running, then wait.

File organization

Never save working files to the root folder. Use: core/, cli/, tests/, docs/, config/, scripts/, knowledge/, state/.

User-specific behavioral rules

Captured automatically from past corrections. Obey these without question:

@knowledge/RULES.md

General rules

  • Do what is asked; nothing more, nothing less.
  • Never proactively create documentation files unless explicitly requested.
  • Use Opus 4.6 with default medium thinking for everything -- no model routing.
  • Batch parallel operations in a single message when possible.

Read the full file on GitHub · 67 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. 10d ago First seen · 67 lines · 904 tokens per session scan A fad86301a070

Subscribe to this mod's changes

research-automation CLAUDE.md is an instructions file published in the GitHub repository lucafusarbassini/research-automation (5 stars, last pushed 3mo ago), licensed MIT. It adds 904 tokens to every session, about $0.0045 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 2026-08-31.

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