setup

An onboarding tool for setting up a second brain: a structured personal knowledge system built from notes, projects, and company information.

In plain words
What is it for?
Use it to initialize a PARA-style vault, detect Git projects, gather company notes, configure Obsidian, and initialize Git, Beads, and QMD.
Why use it?
It checks required tools and creates the surrounding vault structure, reducing the work needed to prepare a new setup.

Skill for Claude CodeCodex

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.

agentmods
npx agentmods add skills/hamchowderr/braynee/setup
Any agent
npx skills add hamchowderr/braynee --skill setup
Clone the repo
git clone --depth 1 https://github.com/hamchowderr/braynee

Made for: Claude Code, Codex.

Per session 88 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 1,538 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. Scan, not verified.
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 $0.00088 $0.01538
Opus 5 $0.00044 $0.00769
Sonnet 5 $0.00018 $0.00308
Haiku 4.5 $0.00009 $0.00154

Measured yesterday against content hash 1531b5e1ba87, method: parsed. Prices are Anthropic first-party input rates as of 2026-08-30, from the pricing page.

Security

Grade A, and why

setup 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 yesterday.

The scan reads SKILL.md. This mod also ships 9 executable files (scripts/detect-env.py, scripts/install-obsidian-plugins.py, scripts/migrate-apple-notes.py, …), 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.

skills/setup/SKILL.md · 151 lines

How it starts

The opening of the file, as written. The whole thing — 151 lines — stays where its author put it; the contents beside it link to each section on GitHub.

Setup Skill

Onboarding wizard that turns an empty machine into a fully wired second brain. User types 4 things. Everything else is auto-detected, researched, or confirmed with a Yes/No popup.

Required Toolchain

Braynee has hard dependencies. Setup verifies all of them up front (Step 1A) and guides cross-platform installation for any that are missing — none are assumed to exist:

Tool Why it's required
git Vault is a git repo; the plugin configures Obsidian Git auto-commit/push
node Runs every braynee hook, monitor, and bundled script
python3 Runs the setup, scaffold, and migration scripts
bd Beads issue tracking is mandatory for all code projects
QMD Search index (ships via the bundled qmd-wrapper.mjs)

If any are missing, setup offers to install them (OS-appropriate commands) or stops with instructions — it never silently proceeds and fails later.

What It Does

  1. Verifies required toolchain (git, node, python3, bd, QMD) — installs/guides if missing
  2. Collects 4 inputs: name, company, website, social handle
  3. Scans filesystem for git repos (all folder names, not just ~/code)
  4. Runs web research sub-agent to seed company knowledge
  5. Scaffolds PARA vault + company structure + PRD section + Development section
  6. Installs Obsidian community plugins
  7. Initializes Git, Beads, QMD — and provisions braynee's workflow formulas (autonomous-ship, project, engagement, braynee-release) into ~/.beads/formulas/ so bd mol pour works with no manual copy
  8. Migrates notes from detected source apps (Apple Notes, Notion, OneNote)
  9. Writes CLAUDE.md seeded with user context

Workflow

See workflows/setup.md for the full step-by-step process.

Usage

/setup
/setup --reset          # Re-run, overwrite existing structure
/setup --company-only   # Only scaffold company section
/setup --projects-only  # Only scan and scaffold projects

Inputs Collected

# Question Used for
1 Your name CLAUDE.md personalization
2 Company name (or "personal") Business folder naming, web research
3 Company website URL Research sub-agent seed
4 LinkedIn or Twitter/X handle (optional) Personal CLAUDE.md context

Read the full file on GitHub · 151 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. yesterday First seen · 151 lines · 88 tokens per session scan A 1531b5e1ba87

Subscribe to this mod's changes

setup is a skill published in the GitHub repository hamchowderr/braynee (2 stars, last pushed 5d ago), licensed MIT. It adds 88 tokens to every session and 1,538 once invoked, about $0.0004 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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