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Glama

🩺 This is the Public Health & Epidemiology edition

Metis_PH ships with a pre-loaded public-health knowledge layer — WHO guidance, global-health reports, and epidemiology/methods references — so you can ask grounded, cited questions on day one without building a corpus first. The domain-agnostic base shell (SVerITG/Metis) is identical in every other way; it ships empty and builds your field's knowledge layer through the setup questionnaire.


See it in action


Related MCP server: RecallForge

Why researchers trust it

  • 📚 It cites your own sources. Knowledge answers are anchored in your indexed library, with document- and page-level citations — not the model's guesses. Your library grounds the answer; it doesn't fence it in. Metis still brings in recent literature, guidelines and wider knowledge where they matter, and tells you which is which — so anything worth citing that you don't have yet becomes a paper you can add.

  • 🔗 It connects everything you know. Every paper, meeting transcript, idea, note, journal entry and task is linked to the rest of your work. The grant you write today surfaces a method paper from last year and a meeting note from March — you never go looking; Metis brings it to you.

  • 🧠 It routes to the right expert. Ask in plain language, and Metis hands the work to the right one of 30+ specialist skills — Librarian, Methods Coach, Writing Partner, Meeting Memory, Epidemiologist, Course Builder, and more.

  • 🔁 It improves itself. After every task it logs what worked and what fell short; each week it drafts improvements to its own behaviour and waits for your approval. Most MCP servers are static — Metis gets sharper the longer you use it.

  • 🚫 It refuses to invent. Ask about something that isn't in your library and Metis tells you so, instead of fabricating a plausible-sounding answer. (This grounding behaviour is covered by an automated test.)

  • 🔒 It stays on your machine. Local embeddings, local database, local files. Your papers, patient-adjacent data, and unpublished work never leave your computer.

🎥 See it in action above — the dashboard, a tour of the tabs, the silent layer into Claude Desktop, and Metis improving its own work.

Easiest way to try it: install Claude Desktop and run the 3-step setup — a demo workspace is pre-loaded, so you start with something to explore instead of a blank screen.


Who is this for?

🔬 I'm a researcher

No programming background needed. Install in minutes, start working immediately. Everything Metis does is explained in plain language.

Get started (3 steps)

⚙️ I'm a developer

Open-source, extensible, well-architected. Build domain packs, add agents, extend the MCP server, or deploy for your institution.

Explore the architecture


What is Metis?

Metis is a research companion built on top of Claude that keeps your data on your own machine. It gives every AI conversation a persistent memory of your domain, your papers, your projects, and your working history. It routes your requests to the right specialist, does the work, records the result, and returns a plain answer — without requiring you to prompt or configure anything.

The app runs on your machine and your data stays there — your documents, notes, embeddings and memory never leave it. The reasoning is powered by Claude, so the text you choose to send for analysis goes to the Anthropic API; everything else is local. (See Data Protection for exactly what leaves your machine, and when.)

The short version: imagine an AI that already knew your field and your literature, connected every paper, meeting, idea and note you've captured, sent each request to the right specialist — and got sharper about your work, and about itself, the longer you used it. That's Metis.


How it works

Metis is not a separate app you log into. It's a small service that runs quietly in the background and connects Claude to your research — your papers, your memory, your projects.

  1. A background service (the "MCP server") starts with your computer. It's the bridge between Claude and your files — you never interact with it directly.

  2. You talk to Metis through Claude, two ways:

    • Claude Desktop (easiest): open it and pick a Metis prompt (e.g. Metis, Metis Doctor) from the prompt menu — or just ask.

    • Claude Code (terminal): type /metis followed by your request.

  3. You ask in plain language. Metis works out which of its 30+ specialists should handle it, does the work using your library and memory, and answers — citing sources.

That's it. There's nothing to learn before you start; the dashboard is optional visibility on top of all this.


Design Philosophy

Every AI conversation starts from zero. You spend ten minutes re-explaining your context, and when the session ends, it's gone. Generic AI tools are powerful but stateless — they know everything about the world and nothing about you.

Metis is built on one idea: the AI should know you. And it should keep getting better — on its own.

Not just your name — your domain, your literature, your projects, your preferred working style, your open questions, your meeting notes from last month, and the paper you added to your library yesterday. The longer you use Metis, the better every response gets. Not because the AI changes — because Metis knows you better.

You don't need to follow developments in AI. Metis does that for you. Every week, Metis reviews its own performance across all your sessions, identifies where it could have done better, drafts improvements to its own behaviour, and waits for your approval before applying them. As better methods and models become available, those improvements are folded in the same way — always proposed for your approval, never applied behind your back. As a researcher, you focus on your research. Metis handles keeping itself sharp.

The core mechanism is cross-pollination. Every time you capture an idea, add a paper, record a meeting, or complete a task, Metis connects it to everything else in your research universe. A paper you indexed a year ago surfaces when you're writing a grant today. A meeting note from March links to the idea you captured this morning. An open question from six months ago connects to a new paper that just came out. These connections happen automatically, in the background, without you having to search for them. This is what makes Metis a research companion rather than a search tool — it thinks across your entire body of work so you don't have to hold it all in your head.

This is genuinely new ground. The individual components — local language models, retrieval-augmented generation, agent routing, vector search — all exist independently. What Metis presents is a coherent integration of all of them, purpose-built for the specific demands of research work: long timelines, sensitive data, deep literature, and knowledge that accumulates over years. A system that grows with you, and surfaces connections for you — rather than starting from zero every session. To our knowledge, nothing quite like this exists as a unified, locally-running, researcher-facing system.

Three levels — choose your entry point

Level

What it is

Best for

☁️ MCP server only

A background service that runs alongside Claude. Persistent memory, session awareness, 30+ specialist agents — no dashboard, no visible app.

Researchers who use Claude already and want it to know their work

📊 With the dashboard

Full visibility across your research life — papers, ideas, meetings, tasks, projects, all connected. Built for cross-pollination (ideas linking to literature) and brain off-loading (tracking leaving your head, entering the system).

Researchers who want a complete research operating environment

🌐 Metis OS

Connects to email, calendar, data systems, and institutional infrastructure — a unified intelligence layer for your entire working environment.

The longer vision. Still in development.

Where things stand today: The MCP server, 30+ agents, and the 9-tab dashboard are fully operational and used daily. The one-click installer and the pre-loaded domain knowledge layer are still being refined. This is a working system — not vaporware — but it is also not finished. If something breaks, please open an issue. That feedback shapes what gets built next.


For Researchers

No programming background needed. Everything below is point-and-click or copy-paste.


How Metis is powered — you choose (you won't burn API tokens just by using it)

Metis runs two ways, and you pick:

  • On your Claude subscriptionno API key, no per-token bills. This is the everyday path: you talk to Metis through Claude Desktop or Claude Code, and the dashboard's "✦ Update with Claude" / brainstorm buttons open Claude Desktop on your subscription. Most people use Metis entirely this way.

  • With an Anthropic API key — only needed for things that run while you're not there: the scheduled morning scan and automated brief generation. Pay-per-token, typically a few cents a day.

  • With a local model (Ollama) — optional, for fully-offline helper tasks (e.g. the data assistant).

The installer asks for an API key so automation can run, but you can skip it and use Metis on your subscription alone. Nothing in the interactive experience requires the API.


Install in 3 steps

Step 1 — (Optional) Get an Anthropic API key — only for unattended automation (free, 2 minutes)

  1. Go to console.anthropic.com and create an account.

  2. Click API Keys → Create Key. Copy the key (it starts with sk-ant-…).

  3. Keep that tab open — the installer will ask for it once.

The key stays on your computer. It is never uploaded or shared.


Windows

⬇ Download MetisSetup.exe

Double-click the installer. The wizard walks you through:

  1. Full or AI only — Full gives you the AI assistant + 9-tab research dashboard (~15 min). AI only is faster (~5 min) and you can add the dashboard later.

  2. Your projects — Tell Metis what you're working on. It creates a tracking record for each project, writes a context file into the project folder, and registers it in Claude Desktop automatically.

  3. Demo workspace — Pre-loads realistic example projects, meetings, literature, and tasks so you can explore every feature immediately. Recommended for first-time users.

  4. API key — Paste it once.

Everything else is automatic. Claude Desktop opens at the end with Metis ready to go.

Requirements: Windows 10 or 11 · Internet connection · API key


macOS or Linux

Open Terminal and paste:

bash <(curl -fsSL https://raw.githubusercontent.com/SVerITG/Metis_PH/main/system/mcp-server/setup-mcp.sh)

The script asks two questions (Full or AI only, demo workspace) and does the rest. Registers Metis with Claude Desktop and Claude Code automatically. Works on Ubuntu 20/22/24, Debian, and macOS.

Requirements: Python 3.10–3.13. The installer prefers uv (which downloads its own Python 3.12 — no system packages needed). If uv isn't available it falls back to your system Python; on a bare system you may need sudo apt install python3-venv. Very new Python (3.14+) isn't supported yet — some packages don't publish wheels for it. If you hit "ensurepip is not available", install uv (the line above) or python3-venv and re-run.


After installation — API key and updating

API key (optional): Copy system/.env.example to system/.env and add your key, or the installer will prompt you. The key enables automated features (morning briefs, scheduled scans); interactive use through Claude works without it.

Updating after git pull: The MCP server runs from a local copy of the source (not the repo directly). After pulling new code, re-sync with:

bash system/mcp-server/setup-mcp.sh --update

This re-copies the source, reinstalls the package, and applies migrations — without re-running the full wizard.

Moved the Metis folder? Update the marker file at ~/.local/share/metis-mcp/.metis-rc-root with the new path, or re-run the installer.


MCP client configuration

The installer registers Metis with Claude Desktop and Claude Code automatically — you normally don't need to edit any config by hand. The blocks below are for reference (and for MCP directories): they show how the metis-rc server is wired in.

Metis is not a one-line npx/uvx server. Run the installer first — it builds the local virtual environment, initialises the database, and generates the launch script (run.sh) the configs below point to.

Step 0 — install (builds the venv + DB, generates run.sh):

bash system/mcp-server/setup-mcp.sh

Claude Code (any OS) — done for you by the installer, or add it manually:

claude mcp add metis-rc ~/.local/share/metis-mcp/run.sh

Claude Desktop — macOS — in ~/Library/Application Support/Claude/claude_desktop_config.json:

{
  "mcpServers": {
    "metis-rc": {
      "command": "bash",
      "args": ["/Users/<you>/.local/share/metis-mcp/run.sh"]
    }
  }
}

Claude Desktop — Linux (native) — in ~/.config/Claude/claude_desktop_config.json:

{
  "mcpServers": {
    "metis-rc": {
      "command": "bash",
      "args": ["/home/<you>/.local/share/metis-mcp/run.sh"]
    }
  }
}

Claude Desktop — Windows + WSL — in %APPDATA%\Claude\claude_desktop_config.json:

{
  "mcpServers": {
    "metis-rc": {
      "command": "wsl",
      "args": ["-e", "/home/<you>/.local/share/metis-mcp/run.sh"]
    }
  }
}

Replace <you> with your username. The generated run.sh resolves METIS_RC_ROOT from a marker file at runtime — no hardcoded paths. No API key is required to run the server itself.


What you get on day one

Feature

What it does

30+ specialist agents

Librarian, Epidemiologist, Methods Coach, Writing Partner, Meeting Memory, Course Builder, Career Coach, Critic, and more — each an expert in their domain

Grounded answers

Every knowledge question is automatically answered from your own indexed document library with page-level citations — not AI guesses

Library management

Import PDFs, sync Zotero or Mendeley, ask "what do my papers say about X?" — cited answers from your own library

Morning intelligence brief

Every morning: new papers on your exact research topics, field news, surveillance alerts, and a focus recommendation — fully personalised

Live meeting assistant

Follow along in real time, or paste a transcript — get structured notes, action items, and project cross-references automatically

Project tracking

Every project gets a tracking record, a context file in its folder, and integration with Claude Desktop. The Update button scans all your project folders for activity.

Voice capture

Record anywhere, transcribe locally (no API, no upload), route to ideas, journal, or notes

9-tab dashboard

Today · News · Knowledge · Meetings · Learning · Work · Thinking · Teach · Metis — all live, all local

Data protection

Six security layers + the /safe-analysis workflow. Sensitive data is detected and held back before it reaches the AI, and the recommended pattern keeps raw data on your machine entirely — you share only derived metadata.

Cross-pollination

Every idea, paper, meeting, and task is automatically connected to everything else in your research universe. Metis surfaces links across time — a paper from last year, a meeting note from March, a question you logged at a conference — without you searching for any of it.

Token tracking

Every agent run shows exactly what it cost — which specialist was used, how many tokens, what model. The dashboard Today tab has a live token pulse so you always know your daily usage. Most daily tasks stay under a few cents.

Tool subset loading

Metis registers 210+ MCP tools, but exposing all of them to Claude on every session wastes context. By default, ~80 everyday tools load immediately; the rest are retrieved on demand via find_tools() / load_tool_group() (progressive disclosure). Each tool definition costs tokens; loading fewer means more room for actual work and lower per-session cost. Disable with METIS_TOOL_SEARCH=0 to load all tools.

Metis evolves — you don't have to

Every week, Metis reviews its own session logs, identifies where it underperformed, and drafts behaviour improvements. You approve or reject them — nothing changes without your sign-off. New capabilities are folded in the same way. You focus on your research; Metis keeps itself sharp.

Grows with you

Every agent run adds to your profile. A question asked after six months of use gets a meaningfully better answer than the same question on day one — not because the AI changed, but because Metis knows you better.


Key Workflows


Morning

Wake up
  └─ Metis scanned overnight
       ├─ New papers on your configured research topics
       ├─ Surveillance alerts and field news
       ├─ Tasks due today, overdue items
       └─ Suggested daily focus based on your open projects
           └─ Open dashboard → read morning brief → start work

Literature

New paper (PDF / DOI / Zotero / Mendeley import)
  └─ Librarian indexes it
       ├─ Added to knowledge graph
       ├─ Cross-pollinated with existing papers, past ideas, meeting notes
       └─ Available for cited semantic search immediately
           └─ Ask: "What do my papers say about X?"
                └─ Answered with inline citations from your own library

Meetings

Meeting ends
  ├─ Paste transcript (Teams / Zoom / any audio file)
  └─ Meeting Memory agent processes it
       ├─ Structured notes with context
       ├─ Action items: who does what, by when
       ├─ Cross-references to your projects and open questions
       └─ Follow-up tasks auto-added to Work tab

Ideas and writing

Idea surfaces
  └─ Ctrl+K → capture instantly (i: idea · n: note · t: task · q: question)
       └─ Metis cross-pollinates immediately
            └─ Related papers + past ideas surfaced automatically
                 └─ Writing Partner → draft · Librarian → sources · Methods Coach → check argument

Teaching and courses

Course topic defined
  └─ Course Builder
       ├─ Generates lessons, slides, assessments, question banks
       ├─ Flags new papers relevant to your course automatically
       ├─ Gap analysis against current literature
       └─ Spaced repetition for your own knowledge maintenance

The Dashboard

The 9-tab dashboard runs locally at http://127.0.0.1:8080. No account, no cloud, no subscription.

Metis dashboard — Today tab

The Today tab — morning briefing, active project, progress, news radar, and quick stats. Everything personalised to your research domain.


Tab

What it does

Today

Morning brief, priority task queue, news rail, quick capture (Ctrl+K)

News

Field news, surveillance alerts and RSS signals relevant to your work

Knowledge

Semantic PDF search, literature cards, knowledge graph, coverage gap analysis

Meetings

Live assistant, transcript import, action items, cross-references

Learning

Course progress, spaced repetition, competency map

Work

Tasks, project cards, activity tracking, one-click open in VS Code / RStudio / Claude — with a Board view (week ahead · intentions · project pipeline)

Thinking

Idea capture, cross-pollination, brainstorm launcher, open questions tracker

Teach

Course Builder, literature alerts, lesson generation, student-facing content

Metis

Agent run history, self-improvement proposals, system health, identity card


How Metis Knows You

When you first install Metis, a setup wizard walks you through your profile:

research domain · specific interests · active projects · working style · tools you use · data sensitivity level

This creates your identity card — a living profile that every agent reads before responding to you. It grows over time. Every session adds context. Every idea you capture tells Metis what you're thinking about.

A question asked after six months of use gets a meaningfully better answer than the same question on day one — not because the AI changed, but because Metis knows you better.


Data Protection

Researchers handle sensitive data. Most AI tools don't take that seriously.

Patient data, embargoed results, unpublished findings — these should never leave your machine. Metis was designed with this in mind from the start.

What leaves your machine (and when):

Service

What

When

Optional?

Anthropic Claude API

Text you send for analysis

On demand

Required for AI

PubMed / OpenAlex

Your research search keywords

Daily morning scan

Yes

Zotero

Library metadata (titles, abstracts, tags)

Daily sync

Yes

CrossRef

DOI queries

On demand

Yes

HuggingFace

Model name only — downloads embedding models

First run

Yes

Everything else — your documents, voice recordings, PDF text, meeting notes, patient-adjacent data — stays on disk.

Security layers:

Layer

What it does

Pre-tool hook

Checks every tool call for injection attempts and restricted paths; peeks at a data file's header locally before it's read and asks you to confirm before individual-level data is loaded into the conversation

PII detection

11 checks, 4-level classification. Sensitive data is classified and refused at pipeline entry

Injection probe

Detects prompt injection in external content (papers, transcripts)

Constitution

14 machine-readable rules applied to every deep agent run

Red lines

5 non-overridable rules enforced at code level — no override possible

AES-256 encryption

All backups encrypted at rest

The recommended pattern for sensitive data: send code, not data.

The strongest protection isn't a scanner — it's never putting the raw data in a prompt at all. Metis is built for this. Ask it for an analysis script (R or Python); you run it on your own machine against your real data; and only the derived outputs — variable names, value counts, summary tables, model coefficients, a data dictionary — come back to Metis. Claude reasons over the shape of your data, never the records.

Your real dataset (patient rows)         ── stays on your machine, never sent ──┐
        │ you run Metis's R/Python script locally                               │
        ▼                                                                       │
Derived metadata (column names, unique values, Table 1, model summary) ── safe to share ──► Metis
        │                                                                       │
        ▼                                                                       │
Metis builds the dashboard / writes the methods / interprets the model ◄────────┘

This is exactly how the dashboards and analyses in our own work were built: the raw surveillance data never left the machine, yet Metis could profile it, name every variable, list unique values, and generate a full dashboard.

Just run /safe-analysis (Claude Code or Claude Desktop) and Metis walks you through it end-to-end — it proposes the local script, tells you exactly which metadata to paste back, and never asks for raw rows. Two backstops sit underneath: the pre-tool hook peeks at a data file's header locally and asks before any individual-level data is read into the conversation, and the Data Guardian (PII scan + 4-level classification at pipeline entry) catches sensitive content that slips into a prompt anyway. With the pattern above, neither usually has to fire.


How Metis Stays Current — So You Don't Have To

AI is moving fast. New models, new capabilities, new research tools appear every month. Most researchers don't have time to follow it. Metis is designed to handle this for you.

After every agent run, Metis logs a reflexion — what went well, what fell short, what context was missing. Every week it aggregates these into themes. Every week it drafts behaviour improvements with a clear rationale. You review the proposals in the Metis tab — one click to approve, reject, or edit — and the approved changes are written to disk.

This means Metis gets better at working with you specifically, week after week. It also means that as new AI developments become available and get integrated into Metis, you receive the improvements without having to do anything. Your job is your research. Metis's job is to stay sharp.

The self-improvement loop in detail:

  1. After every agent run — reflexion logged: what went well, what could improve, what was missing

  2. Weekly — themes extracted across all sessions; patterns identified

  3. Proposal drafted — a concrete proposed change to agent behaviour, with reasoning

  4. You review in the Metis tab — approve, reject, or edit before anything applies

  5. Applied with backup — the update is written with a timestamped rollback point

No change to Metis's behaviour ever happens without your explicit approval. The system proposes; you decide.


For Developers

This section assumes familiarity with Python, Git, and the command line.


Architecture

flowchart LR
    U([Researcher])
    subgraph Harness["AI Harness (Claude Code / Desktop)"]
        METIS[Metis\nrouter agent]
        AGENTS[Specialist agents\n30+ agents]
        WATCHERS{{Watchers\nData Guardian · Cybersecurity}}
    end
    subgraph Platform
        MCP[MCP Server\n210+ tools\nFastMCP]
        DASH[Dashboard\nFastAPI + HTMX]
        DB[(SQLite\nWAL mode)]
    end
    subgraph Memory
        EPIS[Episodic]
        SEM[Semantic\nvector search]
        REFLEX[Reflexion log]
    end
    Skills[/CLI Skills\n/metis · /librarian · …/]

    U -->|asks| METIS
    U -->|clicks| DASH
    METIS -->|routes to| AGENTS
    AGENTS -->|uses| MCP
    MCP --- DB
    DASH --- DB
    WATCHERS -.guards.-> AGENTS
    AGENTS -->|writes| REFLEX
    REFLEX -->|proposes edits to| AGENTS
    MCP --- Memory
    Skills --> METIS

    style WATCHERS fill:#fff4e6,stroke:#9a7b3c
    style REFLEX fill:#eef4f1,stroke:#2d4a3a,stroke-dasharray:3 3

Stack

Layer

Technology

AI harness

Claude Code, Claude Desktop (primary); Gemini (experimental)

MCP server

Python 3.10+, FastMCP, runs in local venv

Dashboard

FastAPI + HTMX + Jinja2 — no JavaScript framework

Database

SQLite WAL mode, 65 tables

Vector memory

sqlite-vec + nomic-embed-text-v1.5-Q (768 dims, local ONNX)

Semantic PDF search

sqlite-vec — local PDF chunk index, no external API

Host OS

Windows + WSL2 (Ubuntu 20/22/24) · macOS · Linux


Memory — 5 layers

Layer

What it stores

Episodic

Session events and observations (discovery · decision · implementation · issue)

Semantic

Vector-indexed content (sqlite-vec + nomic-embed-text-v1.5-Q, 768 dims)

Procedural

Skill files and agent contracts — the agent's persistent behaviour

Working

Active session context and current project focus

Reflexive

Reflexion log and improvement proposals


Knowledge Layer & Grounded Answers (RAG)

When you ask a knowledge-intensive question, Metis retrieves relevant passages from your indexed document library before the specialist agent answers. The agent grounds its response in what it can read from your library — not only what it was trained to recall.

You ask Methods Coach:
"Which variance estimator should I use for my Poisson MLM with overdispersion?"

Metis retrieves before routing:
  → Leyland (2020) Multilevel Modelling for Public Health, p.142 — score 0.87
  → Bates lme4 vignette, p.28 — score 0.71

Methods Coach answers grounded in those passages, citing both sources.

Component

Details

Embedding model

nomic-embed-text-v1.5-Q — 768-dim, ONNX, fully local

Vector store

sqlite-vec virtual table inside Metis SQLite database

Chunking

3,200-character chunks, 400-character overlap

Score threshold

Chunks below 0.4 similarity dropped before injection

Build your field's knowledge layer. On first setup, the wizard's research-background questionnaire briefs the Background Maker, which harvests, scrubs, and indexes your discipline's literature into the local RAG store — so every agent answers from your corpus, cited. Grow it anytime with /background build <topic>.

Pre-loaded knowledge layers (this edition):

Layer

Documents

Covers

Public Health Background

34

WHO guidelines, global health reports, social determinants, NCDs, maternal & child health

Epidemiology & Methods

10

STROBE, WHO Basic Epi, Leyland MLM, Bates lme4, PRISMA 2020, SaTScan, CIFOR


Security Layers (detail)

  1. pre-tool-use.mjs — 13 injection patterns, domain allowlist, path restrictions (every tool call)

  2. guardrails.py — injection probe on all external content (papers, web, transcripts)

  3. safety.py — 11 PII checks, 4-level classification, sensitive data refused at pipeline entry

  4. constitution.md — 14 machine-readable rules for deep and chained agent runs

  5. red-lines.md — 5 non-overridable rules enforced at code level


Token Efficiency

  • Model routing — Haiku for triage/summaries, Sonnet for most work, Opus only for deep reasoning; most daily usage never touches Opus

  • Surgical context assembly — each agent gets only the context relevant to its task, not full history

  • Max-turns guardrail — stops at 20 turns, prompts /clear

  • Session handoff — under 3 KB state capture at session end; no re-paying for context already established

  • Token pulse widget — real-time usage visible in the dashboard


Cross-AI Support

Harness

Status

Claude Code

✅ Primary — full MCP + skills + hooks

Claude Desktop

✅ Primary — full MCP + memory; no CLI skills

Gemini 2.0+

🔬 Experimental

OpenAI / Cursor

🟡 Partial — MCP tools only


Installation Options


Option 1 — Single command (Linux, macOS, WSL)

bash <(curl -fsSL https://raw.githubusercontent.com/SVerITG/Metis_PH/main/system/mcp-server/setup-mcp.sh)

Detects Ubuntu 20/22/24, Debian, macOS Homebrew. Creates venv, installs all dependencies, registers with Claude Code and Claude Desktop. Idempotent — safe to re-run.

# Profile overrides (skip the interactive menu):
METIS_PROFILE=light    bash <(curl -fsSL ...)   # MCP server only (~5 min)
METIS_PROFILE=standard bash <(curl -fsSL ...)   # MCP + dashboard (~15 min)
METIS_PROFILE=full     bash <(curl -fsSL ...)   # Standard + scheduler (~25 min)

Option 2 — Clone and install (any platform)

git clone https://github.com/SVerITG/Metis_PH.git
cd Metis_PH/system/mcp-server
bash setup-mcp.sh

Option 3 — Manual

git clone https://github.com/SVerITG/Metis_PH.git
cd Metis_PH/system/mcp-server
python3 -m venv .venv && source .venv/bin/activate
pip install -e "."

export METIS_RC_ROOT="$(pwd)/../.."
export ANTHROPIC_API_KEY="sk-ant-..."

python -m metis_mcp.server          # MCP server
cd ../app-py && bash run.sh         # Dashboard → http://127.0.0.1:8080

Option 4 — Docker (platform test matrix)

# Full platform test — Ubuntu 24/22 + Debian in parallel
docker compose -f system/install/docker/docker-compose.test.yml up --build

# Production stack
docker compose -f system/install/docker/docker-compose.yml up -d

Register with Claude Code

~/.claude/settings.json:

{
  "mcpServers": {
    "metis-rc": {
      "command": "/home/<username>/.local/share/metis-mcp/run.sh"
    }
  }
}

Register with Claude Desktop (Windows + WSL)

%APPDATA%\Claude\claude_desktop_config.json:

{
  "mcpServers": {
    "metis-rc": {
      "command": "wsl.exe",
      "args": ["-e", "bash", "/home/<username>/.local/share/metis-mcp/run.sh"]
    }
  }
}

Configuration

File

Controls

system/config/user-config.yaml

Domain, interests, style — generated by setup wizard

system/config/constitution.md

14 rules applied to every deep/chain run

system/config/red-lines.md

5 non-overridable rules

system/config/token-guardrails.md

Model routing, handoff thresholds

agents/<name>/skill.md

Behavioural contract per agent — directly editable

.claude/hooks/pre-tool-use.mjs

Security gate on all tool calls


Dependencies

Package

Purpose

mcp, fastmcp

MCP protocol

fastapi, uvicorn, starlette

Dashboard

sqlite-vec

Local vector search

onnxruntime, tokenizers

Local embeddings (no API)

feedparser

RSS feed parsing

pyyaml

User config

httpx

Async HTTP

pandas, openpyxl, pyreadstat

Data analyst tools

cryptography

AES-256-GCM backup encryption

pyzotero

Zotero sync

bibtexparser

Mendeley BibTeX import

anthropic

Claude API


Editions and Roadmap

Metis ships in distinct editions — a domain-agnostic base shell, and domain packs that add field-specific content on top.

Repository

Status

What it is

Metis

✅ Live (v1.0)

Domain-agnostic base shell. Full architecture, no domain content. Clone this to build your own edition.

Metis_PH

✅ Live (v1.0, this repo)

Public Health & Epidemiology — MCP server, 30+ agents, dashboard, knowledge layer

Metis_BM

🧬 Planned

Biomedical Sciences

Metis_CL

🏥 Planned

Clinical Sciences

Metis [Community]

🌍 Open

Domain packs for other research fields — contributions welcome

Metis Institute Edition

🏛 Future

Multi-user, shared knowledge base, institutional deployment

What's in each domain edition: pre-configured journals + RSS feeds · specialist agents · domain ontology · curated background knowledge library

Want to build a domain pack? Fork Metis, add your field's knowledge library, agents, and RSS feeds, and open a PR.

Course Packages (Coming Soon)

Standalone course packages you can drop into any Metis installation:

Package

What it covers

Sampling Strategies

Probability and non-probability sampling, sample size, complex survey designs, weighted estimation

Spatial Epidemiology

Spatial autocorrelation, kernel density, SaTScan, LISA, disease mapping in R and GeoDa

Genomic Surveillance

Pathogen sequencing in public health, phylogenetics, WGS pipelines, Nextstrain

Open an issue with label course-package to pilot or contribute.

Development Status

Area

Status

MCP server (210+ tools)

✅ Operational, used daily

30+ specialist agents

✅ Operational, used daily

9-tab dashboard

✅ Operational, some features in active development

Windows .exe installer

🔧 In refinement

Docker images

✅ Test matrix working

Domain knowledge layer (Metis_PH)

🔧 Actively being expanded

Automated daily tasks (APScheduler)

📋 Next

Test suite

📋 Next

Telegram capture bot

📋 Planned

Metis OS (calendar, email integration)

🌐 Future vision


Contributing

Metis is designed to grow beyond one domain and one researcher. Contributions are welcome — especially from researchers who use it and know what's missing.

See CONTRIBUTING.md for detailed guidelines.

Most Wanted

Domain packs — the most impactful contribution. A domain pack adds: key journals + RSS feeds · specialist agents · a domain ontology · a curated background library

Domain

Status

Public Health & Epidemiology

✅ Included

Social Sciences

🔬 Planned

Biomedical / Clinical Research

🔬 Planned

Environmental Science

🔬 Planned

Economics and Development

🔬 Planned

Psychology and Behavioural Sciences

🔬 Planned

Education Research

🔬 Planned

Nursing and Allied Health

🔬 Planned

Other high-impact contributions:

  • Translations — the wizard and skill files are English-only; translations into French, Dutch, Spanish, German would open Metis to many more researchers

  • Installer testing — Windows .exe and PowerShell on managed machines, corporate environments, and varied hardware; reports of what works and what breaks are valuable

  • New agents and skills — specialist agents for use cases not yet covered

  • Security verification — independent review of the data-stays-local guarantees (what's kept on the machine vs. sent to the Claude API), PII detection, hook behaviour, and constitution enforcement; if you find a gap, open a private issue

  • Multi-AI support — better Gemini and local model (Ollama) support, especially for offline research environments

  • Bug reports and UX feedback — if something doesn't work for your workflow, say so


Changelog

Metis is under active development — see the latest below. (Recent: a routing brain that learns who should answer, a personalization layer that remembers how you like to work, and a security pass.)

Late June 2026

What changed

Learnable agent routing — which specialist answers a request now comes from a routing database, not a hardcoded list: it reaches 21 of the specialist agents (was 10), matches on word boundaries (so a stray word can't drag a request to the wrong expert), and learns — when something has no obvious owner, Metis can ask "should I always send this to the Epidemiologist, or just this once?" and remember your answer.

Personalization layer (it grows with you) — Metis now keeps a record of your standing preferences and decisions — coding style, citation format, methodology defaults, the papers and datasets you keep returning to — and applies them on every request instead of asking again. Tell it once ("always use tidyverse style"), and it threads that into the context every time.

Living request loop — every /metis request is now routed through the layers — persona · your memory · your preferences · the right agent + tools — and the answer is checked against them before it comes back, so Metis gets a little more yours with each use.

Security pass — closed a reflected-XSS hole in search; broadened PII detection (international phone formats, household-precision GPS) and prompt-injection detection (more attack phrasings); all backed by repeatable probes.

Today surface — editorial redesign — the morning view was rebuilt as a briefing, not a dashboard: an always-open morning paragraph, your warmest active threads, three customizable focus items, and notes from the assistant.

Post-v1.0 — June 2026

What changed

Code Repository — a reproducibility / code-reuse layer: register scripts, data dictionaries (variable names, types, unique values) and dataset treatments, then scaffold_script rebuilds a new script from your previous work — same names, paths, packages. Fills itself silently as the code-producing agents work.

Projects in the registry + cross-pollination — project listing now reads the project registry (every project, not just folders on disk); brainstorms and cross-pollination now draw on your registered projects and notes, not only library/news.

Brainstorm + brief upgrades — a brainstorm creativity dial (Grounded/Balanced/Bold) and a scoped menu (this work · a topic · mindmap · cluster) that hand off to Claude Desktop primed with your work; a Daily ↔ Weekly morning-brief toggle; an idea mindmap on the Reflection tab; and an "Improve Metis (OODA)" button on the Metis tab.

Sensitive-data workflow (/safe-analysis) — a first-class "send code, not data" workflow: Metis writes a local analysis script, you run it on your machine, and only derived metadata (schema, value counts, summaries, model output) comes back. Available in Claude Code and Claude Desktop.

Data Guardian hardening — the pipeline PII scanner now runs all 11 patterns (names, DOB, passport, medical record numbers, national ID numbers, case/registry identifiers, + the original five) through one shared scanner used by both the tool and the pipeline, so they can't drift; covered by a unit-test suite.

Pre-tool data-file guard — before a Read/read_file, the security hook peeks at the file's header locally and asks for confirmation before individual-level data is loaded into the conversation.

Honest positioning — dropped the "local-first/local AI" framing (reasoning runs on the Claude API); copy now states plainly that your data stays on your machine while reasoning uses Claude.

Desktop project-tracking + file-tracking fixes — the Desktop router now registers tracked projects; repaired a recursion bug that had broken file tracking.

Post-v1.0 — May 2026

What changed

Unified project intelligence system — unlimited projects with categories and folder paths in all installer paths; CLAUDE.md written to each project folder; Claude Desktop auto-registration; activity scanner detects git commits, modified files, and todo completions; Claude Code stop hook reports active project to dashboard

Three-path intelligent setup wizard — browser wizard (unlimited projects, categories), terminal wizard (Linux/macOS), and Inno Setup wizard (Windows .exe) all backed by Claude API persona generation

Docker test matrix — Ubuntu 24/22 + Debian + light profile running in parallel; mandatory pre-release gate in Release Coordinator

Today surface restructure — session handoff strip, 7-metric ledger, three-tier priority queue, 2×2 research quadrant layout, time-of-day adaptive morning brief

Metis real subagent orchestration — Metis spawns real isolated subagents via the Agent tool, with independent token tracking

Release Coordinator — proactive git guardian with status / commit / push / audit / test-containers commands

Scheduler fix — library index job corrected (scan_literature_folder in content_scan module)

Knowledge surface — unified search, coverage gap analysis, knowledge layer browser

v1.0 — May 2026

First stable release. See system/config/release-notes-v1.0.md for full details.

What shipped

FastAPI + HTMX dashboard — 9 tabs

34 specialist agents

MCP server — 170+ registered tools

Windows installer (Inno Setup)

Statistics for Epidemiology course — 12 lessons with spaced repetition

Startup eval suite + news freshness check

Auto-handoff brief at 80% context

AGPL-3.0 license

Earlier development (Phases 0–9b)

Phase

What shipped

0–5

MCP server, 34 agents, CLI skills, config wizard, SQLite (46 tables), 5-layer memory, knowledge graph, Zotero/Mendeley sync

6–7

FastAPI + HTMX dashboard — 9 tabs, live partials

8

Morning brief, news rail, meeting assistant, voice capture, PaperQA2 PDF search, cross-pollination, token guardrails

9

CSS design overhaul — editorial layout, responsive grid, animation

9b

Self-improvement loop — reflexion aggregation, proposal drafting, approval flow

M

Conversation memory — session summaries in episodic memory, semantic search across past sessions


License

AGPL-3.0 for the codebase — use, modify, and fork freely, but any version you run as a service or distribute must also be open-source under AGPL-3.0.

CC-BY-SA 4.0 for course content and learning materials.

Available Tools

187 tools
add_glossary_termA

Add a glossary term, or update its definition if it already exists.

Maintains a personal glossary of field-specific terms and acronyms so
Metis can give consistent definitions across sessions. Upserts on the
term (an existing term keeps its created_at but takes the new definition).
Retrieve entries with get_glossary.

Args:
    term: The term, acronym, or phrase to define; serves as the unique key,
        so reusing an existing term overwrites its definition.
    definition: The definition text to store for this term.

Returns:
    A confirmation message naming the term that was added or updated.
ParametersJSON Schema
NameRequiredDescriptionDefault
termYes
definitionYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, description discloses upsert semantics (created_at preserved, definition overwritten) and return value. Adequate for a simple mutating tool; could mention idempotency or side effects but sufficient.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Concise, front-loaded with core purpose, efficient use of sentences, structured with Args section. No fluff.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Complete for a two-param tool with output schema: covers purpose, behavior, parameters, return, and sibling relation (get_glossary). No gaps.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Adds significant meaning beyond schema: explains term is unique key (reuse overwrites definition) and definition is the text. Schema coverage 0% so description compensates fully.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description states specific verb 'Add or update' and resource 'glossary term', clearly distinguishing from sibling 'add' tools like add_journal_entry by focusing on glossary terms and mentioning retrieval via get_glossary.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Provides context for when to use (maintain consistent definitions across sessions) and mentions alternative retrieval tool (get_glossary). Lacks explicit when-not-to-use or exclusions, but guidance is clear.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

add_journal_entryA

Store a journal entry with auto-extracted mood and energy.

Args:
    content: The journal entry text.
    image_path: Optional path to an associated image.
ParametersJSON Schema
NameRequiredDescriptionDefault
contentYes
image_pathNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.9/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Mentions auto-extraction of mood and energy, but does not describe behavioral traits like whether it overwrites existing entries, permissions needed, or side effects. With no annotations, more detail would be warranted.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Extremely concise: two lines of prose plus parameter descriptions. Every sentence adds information without redundancy. Front-loaded with the core purpose.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple two-parameter tool with an output schema, the description covers the essential functionality and parameter meaning. Minor omission: does not explain what happens during auto-extraction or error handling.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Provides clear, human-readable explanations for both parameters (content and image_path), which the input schema lacks. This adds significant meaning beyond the schema's property titles.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Clearly states the tool stores a journal entry and highlights the key feature of auto-extracting mood and energy. This distinguishes it from sibling tools like add_memory_entry.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No guidance on when to use this tool versus alternatives such as add_memory_entry. The description only states functionality without context for selection.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

add_memory_entryA

Add a new memory entry to the memory palace.

Use this for a human-curated 'memory palace' note (title + summary + topics,
optionally saved as a markdown file). For machine/agent event logging use
store_episodic_memory; for a distilled concept/definition use
store_semantic_memory.

Inserts into the memory_entries table. If detail is provided, also writes
a markdown file under journal/{entry_type}s/.

Args:
    title: Short title for the entry.
    summary: One-paragraph summary, stored in the DB and shown in search.
    topics: Comma-separated topic tags, e.g. "metis-setup,mcp-server".
    entry_type: One of "session", "journal", "idea", "decision", or "topic".
    detail: Full markdown content for the optional .md file.
    computer: Hostname of the computer this entry is from (optional).

Returns:
    A single TextContent confirming the saved entry (title, generated ID,
    type, topics, and the markdown file path if one was written), or an
    error message if the database is missing or the write fails.
ParametersJSON Schema
NameRequiredDescriptionDefault
titleYes
summaryYes
topicsYes
entry_typeNojournal
detailNo
computerNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.8/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so the description must carry the full burden. It discloses that it inserts into the memory_entries table and optionally writes a markdown file, and describes the return value (confirmation or error). It lacks details on idempotency, concurrent access, or specific error conditions, but covers the main behavioral aspects adequately.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured: a concise purpose statement, usage guidance, a brief internal description, then clearly labeled parameter explanations, and the return value. It is front-loaded with essential information and every sentence earns its place without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the 6 parameters (3 required), no schema descriptions, and the presence of an output schema, the description provides comprehensive coverage. It explains all parameters, the underlying database operation, file creation, and the return type. No gaps are evident for an agent to correctly invoke the tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has 0% description coverage, but the description's Args section provides clear, meaningful explanations for each parameter (e.g., summary: 'One-paragraph summary, stored in the DB and shown in search'). This fully compensates for the schema gap and adds value beyond parameter names.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool adds a memory entry to the memory palace, specifies it's for human-curated notes with title, summary, and topics, and distinguishes it from store_episodic_memory and store_semantic_memory for machine logging or distilled concepts. The purpose is specific and well-differentiated from siblings.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly tells when to use this tool ('human-curated memory palace note') and provides direct alternatives: store_episodic_memory for machine logging, store_semantic_memory for concepts. This gives clear context and helps the agent choose correctly.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

add_specialist_contextA

Add a specialist context to the user profile, or update it if it exists.

Specialist contexts tell Metis which domains the user works in so routing
and search can be tailored. This appends to specialist_contexts in
user-config.yaml (creating the file with defaults if absent); if a context
with the same name already exists, its description is updated instead of
duplicated. Related tools: toggle_context, list_contexts.

Args:
    name: Short label for the context, e.g. "Epidemiological dashboards";
        also the key used to detect and update an existing context.
    description: One or two sentences describing what this context covers.
    active_by_default: If True (default), the context is added to
        active_contexts immediately; if False, it is stored but left
        inactive (and removed from active_contexts if already present).

Returns:
    A confirmation message stating whether the context was added (and
    activated) or an existing one was updated.
ParametersJSON Schema
NameRequiredDescriptionDefault
nameYes
descriptionYes
active_by_defaultNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description fully carries the burden. It details the mechanism (appends to user-config.yaml, creates file if absent, updates existing contexts by name), the effect of the active_by_default parameter, and the return value. This is comprehensive disclosure.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is somewhat lengthy but well-structured with a clear opening, implementation details, related tools, and parameter definitions. It could be slightly more concise without losing clarity, but it remains focused and effective.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the presence of an output schema, return values are adequately covered. The description explains the tool's effect on the user config and active contexts. It could mention error handling, but overall it is complete enough for a mutation tool with three parameters.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, but the description adds rich meaning to all three parameters: explains name as a key for updates, description as text, and active_by_default as controlling immediate activation. This far exceeds what the schema alone provides.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool adds or updates a specialist context to the user profile. It specifies the resource and action, and distinguishes itself from sibling tools like toggle_context and list_contexts by naming them.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains when to use this tool: to inform Metis about user domains for tailored routing and search. It mentions related tools (toggle_context, list_contexts) but doesn't explicitly define when not to use it. This provides adequate but not exhaustive guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

add_tracked_fileA

Add a single file to the tracked-files list and start watching it.

Registers one file so Metis notices when it changes and can read it later
via read_file; tracked files surface on the dashboard's Planning tab. The
file's current modification time is recorded and watch is set on. Re-adding
an existing path updates it (and keeps the old label unless a new one is
given). To register a whole project at once, use connect_project_folder.

Args:
    path: Absolute path to the file to track; the file must exist or an
        error is returned.
    label: Optional category label for the file (default empty string);
        on re-add, an empty label leaves the existing label unchanged.

Returns:
    A confirmation message naming the tracked file (and its label, if any),
    or a "file not found" / error message.
ParametersJSON Schema
NameRequiredDescriptionDefault
pathYes
labelNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.7/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, but the description fully discloses behaviors: it records modification time, sets watch, updates on re-add, and the effect of empty label on re-add. Could mention permissions but overall sufficient.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Well-structured with a brief lead, behavioral explanation, args section, and returns. Information dense but not overly long; every sentence contributes value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (2 params, no annotations, has output schema), the description covers all necessary information: purpose, usage, parameters, behavior, return value, and related tool. Fully adequate for agent use.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema has 0% description coverage, so description adds all parameter meaning: path must be absolute and exist, label optional with default and special re-add behavior. Essential details for correct invocation.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Clearly states the tool adds a single file to the tracked-files list and starts watching it. Differentiates from 'connect_project_folder' which registers a whole project, ensuring the agent understands the scope.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly tells when to use (single file) and when to use an alternative (connect_project_folder for a whole project). Also states prerequisites (file must exist) and behavior on re-add.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

add_user_topicA

Add a topic to track for new publications.

Args:
    topic: Topic name (unique).
    description: Optional description of what to look for.
ParametersJSON Schema
NameRequiredDescriptionDefault
topicYes
descriptionNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.6/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Without annotations, the description carries full behavioral disclosure burden but only says 'Add a topic to track for new publications.' It does not mention side effects (e.g., overwrite existing topic), required permissions, rate limits, or any behavioral constraints. The uniqueness hint in the param description is about parameter validation, not tool behavior.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is very concise: two lines of purpose and two parameter lines. It is front-loaded with the primary action, and every sentence adds value. There is no redundant or tangential information.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's relative simplicity and the existence of an output schema (not shown), the description covers the core add operation. However, it omits context like whether topics persist across sessions, any maximum limits, or connection to the publication tracking system. It is adequate but not comprehensive.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has 0% description coverage, so the description fully compensates by explaining each parameter: 'topic' is uniquely named, 'description' is optional for search criteria. This adds meaningful semantics beyond the schema's bare type definitions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool adds a topic to track new publications. It uses a specific verb ('Add') and resource ('topic'), with a clear purpose. The context for new publications distinguishes it from other 'add_' sibling tools like add_glossary_term or add_journal_entry.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description does not provide explicit guidance on when to use this tool versus alternatives. It lacks any mention of prerequisites, when not to use it, or comparison to sibling tools that might also manage tracked items.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

aggregate_reflexions_toolB

Theme recent reflexions per agent (Phase 9b).

Reads ``reflexion_log`` entries from the last ``days`` days (default 14)
and returns the top recurring 'could improve', 'missing context', and
'tool wishes' themes, ordered by busiest agent.

Pass ``agent_slug`` to limit the scope; leave blank for all agents.
ParametersJSON Schema
NameRequiredDescriptionDefault
agent_slugNo
daysNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

B3.4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, description carries full burden. It states it reads reflexion_log entries, aggregates themes, and returns ordering by busiest agent. It does not disclose modification status (implied read-only), performance implications, or error handling. Sufficient for overview but lacks depth.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two sentences with a code block for the parameter list. Purpose is front-loaded. Minimal waste, though '(Phase 9b)' may be noise. Overall concise and well-structured.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given simple parameters and existence of output schema, description is fairly complete. It explains what is returned (themes, ordering). Lacks detail on what 'top recurring' means or number of themes. Adequate for a focused tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters3/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema has 0% description coverage, so description must add value. It explains agent_slug limits scope (leave blank for all agents) and days defaults to 14. This adds meaning beyond schema defaults, but does not specify format or constraints on agent_slug. Adequate for two simple parameters.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states the tool themes recent reflexions per agent, reading from reflexion_log and returning specific themes. It is specific about verb (theme), resource (reflexions), and scope (per agent). However, it does not explicitly distinguish from sibling 'consolidate_reflexions_tool', so not a 5.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Description explains when to pass agent_slug to limit scope (leave blank for all agents), which implies usage context. However, it does not provide explicit when-not-to-use or compare with alternatives like consolidate_reflexions_tool. Guidance is implied but incomplete.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

anonymize_textA

Scrub PII from text and return anonymized version + replacement map.

Replaces:
  - Patient/case IDs        → [PARTICIPANT_001]
  - GPS coordinates         → [GPS_001]
  - Belgian national IDs    → [NID_001]
  - Email addresses         → [EMAIL_001]
  - Phone numbers           → [PHONE_001]
  - Name-like tokens (opt.) → [NAME_001]

Args:
    content:        Text to anonymize.
    mode:           'full' — replace; 'preview' — mark without replacing.
    replace_names:  Also replace CAPITALIZED name-like tokens (heuristic).

Returns JSON with keys 'anonymized' (str) and 'replacements' (dict).
ParametersJSON Schema
NameRequiredDescriptionDefault
contentYes
modeNofull
replace_namesNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description fully covers behavioral traits: it lists the patterns replaced, explains the effect of modes and the 'replace_names' option, and specifies the return format (JSON with 'anonymized' and 'replacements' keys).

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a brief intro, bulleted list of replacements, and clear parameter explanations. Every sentence adds value, and the format is easy to parse.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Despite having only 3 parameters and no annotations, the description covers all necessary context: input, configuration, return format, and behavioral details. The presence of an output schema is acknowledged but the description already specifies the return keys.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The description adds significant meaning beyond the input schema: it explains that 'content' is the text to anonymize, 'mode' accepts 'full' or 'preview' (enum values not in schema), and 'replace_names' is a boolean flag for heuristic name replacement. This compensates for the 0% schema description coverage.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool scrubs PII from text and returns an anonymized version with a replacement map. It lists specific replacements (patient IDs, GPS, etc.) and distinguishes its function from siblings like 'diff_anonymization' by focusing on anonymization rather than comparison.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains what the tool does and its modes ('full' vs 'preview'), but it does not explicitly state when to use this tool over alternatives or provide usage constraints like required permissions or privacy considerations.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

apply_proposal_toolA

Apply a self-improvement proposal: writes the proposed change to disk.

The previous skill.md content is backed up alongside as
``skill.md.bak.<timestamp>`` so a revert is always possible. Updates the
proposal row to status='applied' with the applied_at timestamp and the
backup path.

Args:
    proposal_id: the id from skill_improvement_proposals.
ParametersJSON Schema
NameRequiredDescriptionDefault
proposal_idYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.1/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

The description discloses key behavioral traits: it modifies disk content, creates a timestamped backup for revertibility, and updates the proposal database record. No annotations exist, so the description carries the full burden; it does so adequately with clear side effects.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise (three sentences plus Args) and front-loaded with the main action. It is well-structured but could be slightly more streamlined by removing the redundant 'writes the proposed change to disk' phrasing.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the simple one-parameter tool and the presence of an output schema, the description covers the main behavior and side effects. However, it omits potential failure cases or dependencies (e.g., proposal must exist and be in a valid state), which would improve completeness.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The parameter proposal_id is described as 'the id from skill_improvement_proposals', adding crucial context beyond the schema's simple integer type. Despite 0% schema coverage, the description compensates well by explaining the parameter's provenance.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description explicitly states 'Apply a self-improvement proposal' and details the action: writes proposed change to disk, backs up the previous skill.md, and updates the proposal row. This clearly distinguishes it from sibling tools like 'propose_skill_improvement' or 'reject_proposal'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage when a proposal is ready to be applied, but it does not explicitly state when to use this tool versus alternatives (e.g., approve_proposal, reject_proposal). No when-not-to-use or prerequisite conditions are provided.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

approve_proposalA

Approve a pending skill improvement proposal and apply it.

Writes the proposed content to the agent's skill.md file and marks
the proposal as approved. Creates a backup of the current skill file first.

Args:
    proposal_id: The numeric ID from get_pending_proposals()
ParametersJSON Schema
NameRequiredDescriptionDefault
proposal_idYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description discloses key behaviors: writing to skill.md, creating a backup first, and marking the proposal as approved. It does not mention edge cases like double-approval, but the main effects are covered.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Three sentences plus an args line—every sentence is essential. No fluff, front-loaded with the main verb and resource.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a one-parameter tool with an output schema, the description covers the purpose, input, and side effects. It could mention the return value but an output schema exists.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%; the description adds meaning: 'The numeric ID from get_pending_proposals()' tells the agent the source and type, beyond the schema's integer definition.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the action: approve a pending skill improvement proposal and apply it by writing to skill.md. It names the resource (skill.md) and distinguishes from siblings like reject_proposal and get_pending_proposals.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

It tells the agent that proposal_id comes from get_pending_proposals(), implying the tool is used after retrieving pending proposals. While it doesn't explicitly exclude other contexts, the purpose is clear.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

archive_library_itemA

Archive a library item (mark as no longer active but keep in DB).

Sets status='archived' in library_seeded table. Item stays available
for search and cross-pollination but disappears from default view.

Args:
    relative_path: The relative_path primary key in library_seeded table.
ParametersJSON Schema
NameRequiredDescriptionDefault
relative_pathYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description effectively discloses the mutation behavior (status update), that the item is kept in DB, searchable, and hidden from default view. It does not cover permissions or idempotency, but overall provides sufficient behavioral context.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, with three sentences: a one-line summary, a line explaining the effect, and an Args section. Front-loaded with the main purpose, no wasted words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple tool with one parameter and an output schema (presumably returning success/failure), the description covers the effect, the parameter, and persistence behavior. No additional information is needed.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The single parameter `relative_path` is described as 'the relative_path primary key in library_seeded table', adding critical context beyond the schema's type-only definition (string). This fully compensates for the 0% schema description coverage.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: archive a library item by setting status to 'archived'. It distinguishes from hard deletion and from archival of other resources like projects. The verb 'archive' and resource 'library item' are specific and unambiguous.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for items that should be kept but hidden from default view, but it does not explicitly state when to use this tool over alternatives like `remove_library_item`. No prerequisites or exclusions are mentioned.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

archive_projectA

Archive a project — marks it inactive but keeps all data.

Sets status='archived' in projects table. Project disappears from
active view but remains available for brainstorm context and search.

Args:
    project_id: The project_id to archive.
ParametersJSON Schema
NameRequiredDescriptionDefault
project_idYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.9/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries full transparency burden. It discloses key behaviors: marks inactive, keeps data, sets status='archived', project disappears from active view but remains available for brainstorm context and search. This is thorough, though it omits details on reversibility (inferred from sibling) and permissions.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is highly concise: 4 sentences. The first explains the core action and effect, the second technical implementation detail, and the third/arg list. No redundant or unnecessary words. Front-loaded with purpose, well-structured.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the moderate complexity and presence of an output schema, the description covers the essential behavioral effects and usage context. It lacks mention of prerequisites (e.g., existence of project_id) or explicit note about reversibility (unarchive_project exists), but overall is sufficient for an agent to use the tool correctly.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters2/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0% (no descriptions in input schema). The description provides only 'project_id: The project_id to archive.' This adds little beyond the schema's parameter name and type; it does not specify format, source, or constraints. For a single required parameter, this is minimal added meaning.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose with a specific verb ('Archive a project') and resource ('project'), and explains the effect: marks inactive, keeps data, disappears from active view but remains for context and search. It distinguishes from destructive alternatives like delete/remove, and sibling 'unarchive_project' exists.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for making a project inactive while preserving data, but does not explicitly state when to use this tool versus siblings like 'remove_project', 'delete_task', or conditions/alternatives. The guideline is implicit in the effect description but lacks explicit 'use when' / 'use instead' clarity.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

ask_libraryA

Answer a question using the user's indexed PDF library via PaperQA2.

Searches the pre-built index (see index_library_pdfs()) and returns
a synthesised answer with citations from the source papers.

Args:
    question: Natural language question to answer from the library.
    top_k: Number of source passages to retrieve before synthesis (default 5).
    scope: Which index to query. "default" = full library. "ph_library" = PH background only.
           Build the index first with index_library_pdfs(scope=<scope>).
ParametersJSON Schema
NameRequiredDescriptionDefault
questionYes
top_kNo
scopeNodefault

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

The description explains that the tool searches a pre-built index and returns a synthesized answer with citations. It implies read-only behavior, but since no annotations are provided, the description could explicitly state that no modifications occur. Nonetheless, it offers sufficient behavioral context.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a brief overview followed by an Args section. It is mostly concise, though the repetition of 'see index_library_pdfs()' could be tightened. Overall, it is efficient and front-loaded.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the presence of an output schema (not shown but indicated), the description covers prerequisites (index must be built), parameter details, and the core behavior. It is complete for a query tool without requiring additional context.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With schema description coverage at 0%, the description fully compensates by explaining each parameter in natural language: question ('Natural language question to answer from the library'), top_k (purpose and default), and scope (enumerated values with a note about building the index). This adds substantial meaning beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: 'Answer a question using the user's indexed PDF library via PaperQA2.' It specifies the verb (Answer), resource (indexed PDF library), and method (PaperQA2). This distinguishes it from sibling tools like search_library, which likely performs raw searches without synthesis.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides guidance on when to use the tool: after building the index via index_library_pdfs(). It mentions the index must be pre-built and references the appropriate sibling tool. However, it does not explicitly state when not to use it or compare to alternatives like search_library.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

assemble_brainstorm_contextB

Assemble context from multiple sources for brainstorming.

Gathers recent content from selected sources, respecting an 8000 char
limit per source. Returns assembled context string with source labels.

Args:
    sources: List of sources to include: "library", "meetings", "news", "ideas", "journal".
    date_filters: Optional dict with source-specific date filters, e.g. {"ideas": "2026-03-01"}.
ParametersJSON Schema
NameRequiredDescriptionDefault
sourcesYes
date_filtersNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

B3.4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Discloses the 8000 char limit per source and that output includes source labels. However, it does not mention truncation behavior, ordering, or freshness of content. No annotations exist to supplement, so the description provides moderate transparency.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is mostly concise, with three short paragraphs. The Args section repeats some information but overall structure is clear and efficient.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Despite moderate complexity and having an output schema, the description covers core functionality, constraints, and parameters. It is sufficient for basic usage, though edge cases are missing.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema coverage, the description adds significant meaning: it lists valid source values and explains the date_filters with an example. Both parameters are well-addressed.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it assembles context from multiple sources for brainstorming, listing specific source types. This is a clear verb+resource pairing, but it does not explicitly distinguish from sibling tools like 'get_context' or 'surface_relevant_context'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No guidance on when to use this tool versus alternatives. There are multiple context-retrieval tools among siblings, but the description provides no context for selection.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

backup_dbA

Create a timestamped backup of the Metis SQLite database.

Uses SQLite's Online Backup API — safe to run while the database is live.

Args:
    destination:       Directory path to write the backup into.
                       Defaults to metis/system/backups/.
    label:             Optional label appended to the filename, e.g. 'pre-upgrade'.
    extra_destination: Optional second directory for off-site / secondary copy.

Returns JSON with backup_path, size_kb, checksum (SHA-256), and elapsed_ms.
ParametersJSON Schema
NameRequiredDescriptionDefault
destinationNo
labelNo
extra_destinationNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries the full burden. It explains the tool is non-destructive (safe while live), details the return JSON fields (backup_path, size_kb, checksum, elapsed_ms), and mentions the API used. This gives good behavioral insight.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise and well-structured: a single-sentence purpose, a safety note, a bulleted argument list, and a return format summary. Every sentence adds value, and the core purpose is front-loaded.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a backup tool with 3 optional parameters and a defined output format, the description covers all necessary aspects: what it does, how it works (live-safe), parameter details, and return structure. No gaps remain.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has 0% description coverage (no descriptions in schema), so the description must compensate fully. It does so by explaining each parameter: destination with default path, label for filename suffix, extra_destination for secondary copy. This adds significant meaning beyond the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool creates a timestamped backup of the Metis SQLite database, using a specific verb and resource. It distinguishes from sibling tools like restore_db, list_backups, verify_backup.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description mentions the tool uses SQLite's Online Backup API and is safe to run while the database is live, providing useful usage context. However, it does not explicitly state when to use this tool vs alternatives like restore_db or encrypt_backup.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

brainstorm_turnA

Run one turn of a brainstorm session, returning relevant context.

Call this at the start of a brainstorm and after each steering action.
The tool fetches relevant ideas, notes, questions, and library notes so
you (the AI) can surface connections the user may not have considered.

Steering modes:
  expand    — broaden; surface tangential connections
  focus     — narrow; find the most relevant threads
  challenge — find counter-arguments and weaknesses
  synthesize — identify themes; propose a unifying framework
  connect   — explicit cross-domain connections to library/literature

Args:
    topic:        The brainstorm topic or question.
    steering:     One of expand|focus|challenge|synthesize|connect.
    session_uuid: Pass the UUID from the previous turn to continue a session.
                  Omit to start a new session.
    turn_notes:   Optional free-text notes from the previous turn to log.

Returns JSON with: session_uuid, turn_number, context (ideas/notes/
questions/library), steering_prompts, and instructions for the AI.
ParametersJSON Schema
NameRequiredDescriptionDefault
topicYes
steeringNoexpand
session_uuidNo
turn_notesNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so description carries full burden. It describes the return format and steering behavior, but doesn't disclose side effects like session mutation, auth requirements, or rate limits. Adequate but not exhaustive.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Well-structured with purpose, usage, steering modes, then args. Front-loads the key action and context. Every sentence delivers necessary information without fluff.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a 4-parameter tool with an output schema, the description covers all essential aspects: what, when, how, steering options, parameter details, and return fields. No gaps for typical use.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema has 0% description coverage, but the description's 'Args' section fully explains each parameter's purpose, steering values, session continuation, and optional notes. Completely compensates for the schema gap.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states 'Run one turn of a brainstorm session' and explains steering modes. It doesn't explicitly differentiate from sibling brainstorming tools like get_brainstorm_session or assemble_brainstorm_context, but the single-turn focus is clear.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly says 'Call this at the start of a brainstorm and after each steering action', and describes each steering mode's purpose. Lacks explicit when-not-to-use or alternative tool names, but provides strong situational guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

build_pdf_knowledge_dbA

Index a knowledge database layer from PDFs into the semantic knowledge base.

Uses local nomic-embed-text-v1.5-Q (fastembed, ONNX) — no API key required.
Each database is a named layer: 'ph-background', 'hat-specialist', 'epi-methods',
or any custom database slug created via create_knowledge_database().

Args:
    database:      Slug of the knowledge database to build (default: 'ph-background').
    force_rebuild: Re-index even files already indexed in this database.
ParametersJSON Schema
NameRequiredDescriptionDefault
databaseNoph-background
force_rebuildNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.8/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so description carries full burden. It mentions local model and no API key, but does not disclose side effects like whether existing data is overwritten, performance implications, or error cases. The force_rebuild parameter hints at behavior but lacks detail.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is fairly concise with a logical structure: purpose, model info, database convention, then parameter descriptions. It could be slightly shorter by removing the model details if not critical, but overall efficient.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given an output schema exists (not shown), description need not explain returns. However, it lacks details on prerequisites (database must exist), error handling, or success indicators. For a tool with no annotations, more completeness is needed.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so description must add value. It explains 'database' is a slug with examples and 'force_rebuild' means re-indexing already indexed files. This provides useful context beyond the schema definitions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool indexes PDFs into a semantic knowledge base using a specific model. It distinguishes itself from siblings like 'create_knowledge_database' which creates the layer, and 'search_pdf_knowledge' which queries. Examples of database slugs further clarify the purpose.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies the database must exist (created via create_knowledge_database()), but gives no explicit guidance on when to use this tool vs alternatives like index_library_pdfs. No mention of prerequisites or when to set force_rebuild.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

capture_ideaA

Store an idea in the SQLite ideas table.

Auto-extracts tags from content. Links to domains/projects if keywords match.
Unless `auto_cross_pollinate=False`, automatically surfaces up to 5 cross-
pollination matches from library / meetings / news / older ideas in the same
response — so the user sees connections without a second tool call.

Args:
    content: The idea text.
    source: Where the idea came from (default "manual").
    image_path: Optional path to an associated image.
    auto_cross_pollinate: When True (default), include connection matches in the response.
ParametersJSON Schema
NameRequiredDescriptionDefault
contentYes
sourceNomanual
image_pathNo
auto_cross_pollinateNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries full burden and discloses key behaviors: auto-tagging, linking to domains/projects, and auto cross-pollination. However, it omits details on idempotency, potential destructive actions, or permission requirements, which are important for a write operation.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Description is efficient: a few sentences summarizing behavior followed by a clear args list. Front-loaded main purpose. Could be slightly more streamlined, but overall well-structured and without waste.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given 4 parameters (1 required), no annotations, and a write operation, the description covers primary behaviors but lacks error handling, return value details (though output schema exists), and prerequisites. It is adequate for basic use but not comprehensive.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters3/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description must add meaning. It provides minimal explanations for each parameter (content, source, image_path, auto_cross_pollinate) but lacks depth (e.g., valid values for source, path format). This partially compensates but is insufficient for low-coverage scenario.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool stores an idea in the SQLite ideas table, using specific verb ('Store') and resource ('idea in SQLite ideas table'). It distinguishes from sibling tools like 'get_ideas' (retrieval) and 'capture_observation' (different domain).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains default behavior (auto-cross-pollinate) and the effect of setting auto_cross_pollinate=False. It gives context on when extra connections are provided, but does not explicitly tell when to use this tool vs alternatives like 'capture_observation' or when not to use it.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

capture_observationA

Record a typed observation during an agent run.

Use this throughout a run to capture what you are learning so it can be
recalled in future sessions without re-reading history.

Args:
    observation_type: One of: discovery, decision, implementation, issue, note.
      - discovery:      something new you found out
      - decision:       a choice made and the reasoning behind it
      - implementation: what was built or changed
      - issue:          a bug, blocker, or failure found
      - note:           a general observation that doesn't fit above
    content:        The observation in 1–3 sentences.
    agent_slug:     Which agent is recording (e.g. 'librarian').
    session_id:     Current pipeline session ID (optional).
    concepts:       Comma-separated concept tags — auto-extracted if blank.
    related_files:  Comma-separated file paths this observation relates to.
ParametersJSON Schema
NameRequiredDescriptionDefault
observation_typeYes
contentYes
agent_slugNo
session_idNo
conceptsNo
related_filesNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.7/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description explains the purpose and parameter roles but does not disclose side effects, reversibility, authorization needs, or other behavioral traits beyond persistence.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is brief, front-loaded with purpose, and every sentence adds value. The parameter list is organized and free of fluff.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the six parameters and no annotations, the description covers inputs thoroughly and explains usage. It omits the return value, but an output schema exists, so this is acceptable.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the tool description provides detailed explanations for all six parameters, including examples and auto-extraction notes for concepts, adding significant meaning beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool records observations during an agent run and mentions it helps recall in future sessions. However, it does not explicitly distinguish from similar sibling tools like add_journal_entry or capture_idea.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

It instructs to use the tool 'throughout a run' to capture learning, providing clear context. But it lacks explicit exclusions or alternatives, leaving usage boundaries implied.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

check_data_safetyA

Scan content for PII patterns and classify sensitivity level.

Returns safety status, classification, and specific warnings.

Args:
    content: Text content to scan.
    file_path: Optional file path for context-based classification.
ParametersJSON Schema
NameRequiredDescriptionDefault
contentYes
file_pathNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.7/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description must convey behavioral traits. It mentions returning status, classification, warnings, but does not state if it modifies state, stores data, or requires permissions. As a scanning tool, it's likely read-only, but this is not explicit.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Extremely concise with a clear purpose sentence and structured docstring. No wasted words; front-loaded with the high-level function.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the presence of an output schema (not shown) and low complexity (2 params), the description sufficiently conveys what the tool does and returns. No further information needed for a scanning tool of this nature.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description adds meaning beyond schema by defining 'content: Text content to scan' and 'file_path: Optional file path for context-based classification'. This compensates for the lack of schema descriptions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states it scans content for PII patterns and classifies sensitivity level, distinguishing it from siblings like anonymize_text (which transforms) and scanning tools (which search for terms). Specific verb+resource.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No explicit guidance on when to use or when not to use this tool versus alternatives. It only describes what it does without context for selection.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

clean_datasetA

Apply cleaning operations to a dataset and write a new file.

NEVER modifies the original file. Always writes to output_path.

Supported operations:
  - "drop_duplicates"                    — remove exact duplicate rows
  - "drop_columns:[col1:col2:...]"       — remove specified columns
  - "fill_na:[col:value]"                — fill nulls in col with value
  - "rename_column:[old_name:new_name]"  — rename a column
  - "strip_whitespace"                   — strip leading/trailing spaces from all string columns
  - "standardize_dates:[col:format]"     — parse col as date (format: 'auto' or strftime)
  - "drop_na_rows:[col]"                 — drop rows where col is null
  - "drop_na_rows_any"                   — drop rows with ANY null value

Args:
    path:         Absolute local path to the source dataset.
    operations:   List of operation strings (see above).
    output_path:  Where to write the cleaned file. If empty, appends '_cleaned'
                  before the extension (e.g. data.csv → data_cleaned.csv).

Returns JSON with: output_path, original_shape, cleaned_shape, row_delta,
col_delta, operations_applied, operations_skipped.
ParametersJSON Schema
NameRequiredDescriptionDefault
pathYes
operationsYes
output_pathNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so description carries full burden. It explicitly states NEVER modifies original file, always writes to output_path, default naming convention, and describes the return JSON structure. This fully discloses behavioral traits.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Well-structured: first line purpose, then immutability note, then bulleted operation list with syntax, then parameter descriptions, then return value. Every sentence adds value without wordiness.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Despite 0% schema description coverage and no annotations, the description is fully complete. It explains all operations with syntax, parameters with defaults, and return JSON. Output schema provides additional structure but description suffices.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so description compensates completely. It explains path as absolute local path, operations as list of operation strings with examples, and output_path with default behavior. Adds full meaning beyond schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it applies cleaning operations to a dataset and writes a new file. It lists all supported operations and explicitly states it never modifies the original file. This effectively distinguishes it from sibling tools like 'suggest_cleaning' or 'profile_dataset'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains when to use (cleaning a dataset) but does not explicitly mention alternatives or when not to use. While it implies immutability, it does not contrast with other data manipulation tools among siblings.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

commit_session_decisionsA

Commit key decisions from this session to permanent memory.

This is the mandatory recording checkpoint — call it at the end of every
agent-routed session, before delivering the final result to the user.
Unlike save_session_summary (which accepts any summary), this tool enforces
that at least one concrete decision is captured, and writes each decision
separately to episodic_memory for future retrieval.

Args:
    decisions: 1-5 plain-English decisions made this session. Be specific:
        "Chose logistic regression over mixed model due to data sparsity in
        Zone de Santé X" not "made a modelling decision".
    summary: 1-3 sentence summary of the session context (optional but useful).
    key_topics: Topic tags e.g. ["DHIS2", "domain surveillance", "tracker design"].
    session_id: Optional session identifier.
ParametersJSON Schema
NameRequiredDescriptionDefault
decisionsYes
summaryNo
key_topicsNo
session_idNo

TDQS

A4.7/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, description carries full burden. Discloses mandatory recording checkpoint, enforcement of at least one decision, and separate writes to episodic_memory. Could add details on idempotency or overwrites, but sufficient for safe use.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Efficient structure: summary sentence, usage context paragraph, then bulleted args. Every sentence adds value. No redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a 4-param tool with no output schema and no annotations, description covers all parameters, usage timing, sibling differentiation, and behavioral expectations. No gaps for correct invocation.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema has 0% description coverage; description compensates with rich guidance: decisions must be 1-5 plain-English with example, summary optional but structured, key_topics with example tags, session_id optional. Adds meaning beyond schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Starts with a clear verb+resource: 'Commit key decisions from this session to permanent memory.' Explicitly differentiates from sibling tool save_session_summary by noting this tool enforces decisions and writes to episodic_memory, making purpose distinct.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Directly states when to use: 'call it at the end of every agent-routed session, before delivering the final result to the user.' Contrasts with save_session_summary, providing clear alternative. No guessing needed.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

compare_profilesA

Compare two dataset profiles and produce a side-by-side diff.

Pass the JSON strings returned by profile_dataset() for the original
and cleaned files. Returns rows added/removed, columns added/removed,
null count changes per column, type changes, and a human-readable summary.

Args:
    before_profile: JSON string from profile_dataset() on the original file.
    after_profile:  JSON string from profile_dataset() on the cleaned file.

Returns JSON with: row_delta, col_delta, column_diffs (nulls, dtypes),
duplicate_delta, and a human_summary string.
ParametersJSON Schema
NameRequiredDescriptionDefault
before_profileYes
after_profileYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It discloses inputs (two JSON strings), outputs (a JSON with specific fields), and implies a read-only comparison with no side effects. It does not mention authentication or rate limits, but the overview is adequately transparent for a comparison tool.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is a single paragraph but effectively covers purpose, arguments, and returns. It is concise without unnecessary words, though it could benefit from bullet points for improved readability. It earns its place with informative content.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has an output schema (mentioned in context), the description does not need to elaborate on return values but still describes the return structure. The two parameters are well-documented, and the tool fits logically among siblings like profile_dataset. The description is complete for an agent to use effectively.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With schema description coverage at 0%, the description fully explains both parameters: before_profile as a JSON string from profile_dataset() on the original file, and after_profile similarly for the cleaned file. This adds crucial context beyond the schema's basic type definition.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool compares two dataset profiles and produces a side-by-side diff, listing specific outputs (rows/columns added/removed, null count changes, type changes). This distinguishes it from related tools like profile_dataset (which generates a profile) and clean_dataset (which cleans data).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly instructs to pass JSON strings from profile_dataset() for original and cleaned files, implying usage after profiling. It does not provide explicit 'when not to use' or alternatives, but the context is clear and sufficient for selecting this tool among siblings.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

configure_library_providerA

Configure the library provider for this Metis installation.

Call this during setup or when switching reference managers.

Args:
    provider: "zotero" or "mendeley". Mendeley uses BibTeX export.
    api_key: Zotero API key (from https://www.zotero.org/settings/keys).
    user_id: Zotero numeric user ID (shown on the same settings page).
    bibtex_path: For Mendeley: full path to exported .bib file.
ParametersJSON Schema
NameRequiredDescriptionDefault
providerYes
api_keyNo
user_idNo
bibtex_pathNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries full burden. It discloses that Mendeley uses BibTeX export and provides source URLs for Zotero credentials. It does not detail side effects like overwriting existing config or error handling, but the core behavior is clear.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise and well-structured: a one-line purpose, a usage sentence, then parameter details in an easy-to-scan bullet style. Every sentence adds value without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the presence of an output schema (not detailed), the description covers essential aspects: purpose, when to use, and parameter semantics. It lacks mention of return values or failure scenarios, but for a configuration tool, this is adequate.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, and the description fully compensates by explaining each parameter: provider options ('zotero' or 'mendeley'), api_key and user_id for Zotero, bibtex_path for Mendeley. It adds valuable meaning beyond the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: 'Configure the library provider for this Metis installation.' It uses a specific verb (configure) and resource (library provider), and distinguishes from siblings like sync_zotero_library and import_bibtex_library by emphasizing setup and switching.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly says 'Call this during setup or when switching reference managers,' providing clear context for when to use the tool. However, it does not explicitly mention when not to use it or name alternatives, which would improve guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

connect_project_folderA

Register all relevant files in a project folder so Metis can read them.

Walks the folder recursively and adds every file with a recognised extension
(.R, .Rmd, .md, .py, .js, .ts, .sql, .json, .yaml, .qmd, .tex, .csv) to
the tracked_files table. Call this once per project; after that, use
read_file() to read any individual file.

Args:
    folder_path: Absolute path to the project root folder.
    label: Short label for all files from this project (e.g. "MLM Course").
    max_files: Safety limit — stop after registering this many files (default 200).
ParametersJSON Schema
NameRequiredDescriptionDefault
folder_pathYes
labelNo
max_filesNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It discloses recursive walking, recognized extensions, and the max_files safety limit, but does not cover idempotency, error handling, or authentication needs. The description adds value beyond the schema but is not comprehensive for a mutation tool.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, using four well-structured sentences: main purpose, details on recursion and extensions, usage instruction, then parameter list. Every sentence adds value with no redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's complexity (recursive folder walk, extension list, three parameters) and the presence of an output schema (not shown), the description is fairly complete. It explains what the tool does, how to use it, and parameters. Missing details like error handling or idempotency are minor gaps.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, yet the description provides clear explanations for all three parameters: folder_path (absolute path), label (short label), and max_files (safety limit with default). This adds significant meaning beyond the schema's type/default info, compensating for the lack of schema descriptions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool registers all relevant files in a project folder so Metis can read them, specifying the verb 'register', the resource 'project folder', and the outcome 'files added to tracked_files table'. It distinguishes from sibling tools like read_file by providing post-use instructions.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly says 'Call this once per project; after that, use read_file() to read any individual file', providing clear when-to-use and when-not-to-use guidance with an alternative named.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

consolidate_reflexions_toolA

Distil recurring reflexion themes into semantic memory and prune working memory.

Runs the nightly self-improvement consolidation: every theme an agent raised
>= min_count times in the last `days` becomes a searchable semantic-memory
node (deduped), and working_memory older than 7 days is pruned. Idempotent.
ParametersJSON Schema
NameRequiredDescriptionDefault
daysNo
min_countNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the burden. It explicitly states idempotency and details the actions: creating semantic memory nodes with deduplication and pruning working memory older than 7 days, which sufficiently discloses behavioral traits.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is extremely concise, with a front-loaded summary sentence followed by a clarifying paragraph. Every sentence adds value, no fluff.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's moderate complexity and the presence of an output schema, the description covers the core behavior but does not explain prerequisites (e.g., existence of reflexions) or potential return values. The output schema likely covers return info, so it's reasonably complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema description coverage, the description compensates by clearly explaining the parameters: '>= min_count times in the last `days`'. This adds semantic meaning beyond the schema's default values.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description uses specific verbs ('distil' and 'prune') and clearly identifies the resource ('recurring reflexion themes into semantic memory' and 'working memory'). It distinguishes itself from sibling tools like aggregate_reflexions_tool by specifying a nightly consolidation process.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for nightly self-improvement consolidation but does not explicitly state when to use this tool versus alternatives like aggregate_reflexions_tool or consolidate_session_memory. No exclusions or prerequisites are mentioned.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

consolidate_session_memoryA

Scan recent agent runs and write structured memory entries for high-value work.

Reads the n most recent agent_runs, identifies runs with output files and
substantive task summaries, deduplicates against existing memory_entries,
and writes new entries to the DB + markdown files.

Args:
    n_runs: Number of recent agent runs to review (default 20).
    min_quality: 'high' = only runs with output files; 'all' = include run-only entries.
ParametersJSON Schema
NameRequiredDescriptionDefault
n_runsNo
min_qualityNohigh

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so description carries full burden. It discloses deduplication, writing to DB and markdown files, and the filtering logic. However, it does not describe all behavioral traits such as error handling, overwrite behavior, or performance implications. Adds context beyond schema but not exhaustive.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Description is concise and well-structured: a one-sentence summary, followed by an explanatory paragraph, then labeled parameter documentation. No unnecessary words, and front-loaded with purpose.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's complexity (batch operation, dedup, dual output) and presence of an output schema, the description covers key aspects: selection criteria, dedup, and targets. It lacks mention of error conditions or behavior with empty runs, but is mostly complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so description compensates fully. It explains each parameter clearly: n_runs as count of runs to review, min_quality with 'high' vs 'all' distinction. This adds semantic meaning beyond the bare schema types and defaults.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description states a specific verb+resource: 'Scan recent agent runs and write structured memory entries.' It clearly distinguishes itself from siblings like add_memory_entry (individual addition) or search_memory (search) by focusing on bulk consolidation from agent runs.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage context by mentioning 'recent agent runs' and 'high-value work'. It explains the process but does not explicitly state when to use it vs. alternatives like add_memory_entry or when not to use it. Lacks explicit exclusions or direct comparisons.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

create_knowledge_databaseA

Register a new custom knowledge database layer.

After creating, add PDFs to knowledge/library/<your-folder>/ and call
build_pdf_knowledge_db(database='<slug>') to index them.

Args:
    slug:        URL-safe identifier (e.g. 'dhis2-specialist', 'malaria-research').
    name:        Human-readable name (e.g. 'DHIS2 Specialist Knowledge').
    description: What this database covers.
    layer:       Layer number (4+ for custom; built-ins use 1–3).
    folders:     List of library subfolder paths to include
                 (e.g. ['open-access-books/Health Informatics & DHIS2']).
ParametersJSON Schema
NameRequiredDescriptionDefault
slugYes
nameYes
descriptionNo
layerNo
foldersNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description must fully disclose behavior. It explains the creation process and layer constraints but does not mention idempotency, overwrite behavior, or error handling for duplicate slugs. Adequate but not comprehensive.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise and well-structured: a brief purpose statement, a step-by-step usage note, and a clear parameter list. Every sentence adds value without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description covers creation steps and parameter details. An output schema exists, so return values are not needed. However, it does not mention success/failure signals or what the tool returns, leaving slight ambiguity.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the description fully compensates by detailing each parameter: slug (URL-safe identifier), name (human-readable), description (coverage), layer (custom vs built-in), and folders (list of subfolder paths). Examples further clarify usage.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the action: 'Register a new custom knowledge database layer.' It uses a specific verb and resource, and it differs from sibling tools like build_pdf_knowledge_db (indexing) and list_knowledge_databases (listing).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicit steps are provided: after creating, add PDFs and call build_pdf_knowledge_db. It also explains layer numbering (4+ for custom, 1-3 for built-ins), guiding appropriate usage. However, it lacks explicit when-not-to-use scenarios.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

create_projectA

Register a new project in the Metis platform.

Called when a researcher confirms they want a Claude conversation or project
tracked permanently in Metis. Creates the project record in the DB so it
appears in the Work tab and is available for task linking and memory search.

Args:
    title: Human-readable project name, e.g. "Statistics Course".
    description: What this project is about (one sentence).
    domain: Research domain, e.g. "education", "epidemiology". Optional.
    source: Origin — "claude_project" (default), "claude_cowork", or "manual".
ParametersJSON Schema
NameRequiredDescriptionDefault
titleYes
descriptionNo
domainNo
sourceNoclaude_project

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Describes creation of a DB record and its availability for linking and search. No annotations exist, so description carries the burden. It does not mention side effects like duplicate handling, but the behavior is straightforward and non-destructive.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Three short, focused sentences plus a clear bulleted Arglist. Front-loaded with purpose. No redundancy or fluff.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Covers creation logic, DB effect, and parameter meaning. Does not mention the output schema, but since it exists, the description is not required to detail return values. Could be slightly improved by noting authentication requirements, but not crucial for this tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, but the description's Args section adds meaningful explanations for each parameter: examples for title, length hint for description, domain examples, and source options. This fully compensates for the lack of schema descriptions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states the verb 'Register' and the resource 'a new project in the Metis platform', and explains the effect on the DB and UI. It differentiates from siblings like 'create_project_full' by implying this is the standard registration tool.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Provides clear context when to call (when researcher confirms permanent tracking), but does not explicitly mention when not to use or compare with the similar sibling 'create_project_full'. The scenario is specific enough for an agent.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

create_project_fullA

Create a project with full Metis integration: DB record, CLAUDE.md, Claude Desktop.

This is the unified project creation tool used by all installers and the dashboard.

Args:
    title:        Project name.
    folder_path:  Absolute path to the project folder on disk.
    category:     User-defined category (e.g. 'Article', 'Grant', 'Teaching').
    description:  What this project is about. If empty and scan_type != 'none',
                  auto-detected from folder.
    scan_type:    'names' | 'content' | 'none' — how to infer description from folder.
    link_claude_desktop_auto: Write project to Claude Desktop config automatically.
ParametersJSON Schema
NameRequiredDescriptionDefault
titleYes
folder_pathNo
categoryNo
descriptionNo
scan_typeNonames
link_claude_desktop_autoNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries the full burden. It discloses that the tool creates a DB record, CLAUDE.md, and links Claude Desktop, and mentions automatic linking of Claude Desktop config. This provides good behavioral insight, though it could note safety aspects like idempotency or error handling.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is three short paragraphs: purpose, context, parameter list. It is front-loaded with the key action, no redundant sentences, and every sentence contributes to understanding.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given there is an output schema (not shown but noted as present), the description does not need to explain return values. It covers all six parameters sufficiently, though it could mention prerequisites (e.g., folder existence) or error scenarios. Overall, it is complete for a creation tool with this complexity.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description must add value. It provides a bullet list with explanations for each parameter, including behavior like auto-detection of description when scan_type is not 'none'. This adds meaning beyond the schema's bare JSON types and defaults.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description states 'Create a project with full Metis integration: DB record, CLAUDE.md, Claude Desktop.' This is a specific verb+resource+scope, and it distinguishes this tool from siblings like 'create_project' by emphasizing the full integration aspect.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description says 'This is the unified project creation tool used by all installers and the dashboard.' This gives context for when to use it, but it does not explicitly mention when to avoid it or use alternatives like 'create_project'. The guidance is clear but lacks exclusions.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

create_taskB

Create a new task in the SQLite database.

Args:
    title: Short task description.
    project_id: Which project this task belongs to.
    owner: Who is responsible (default "Metis").
    notes: Additional details or context.
    due_date: Optional due date in YYYY-MM-DD format.
    recurrence: Optional repeat — "daily", "weekly", "monthly", or "yearly".
                When a recurring task is completed, the next occurrence is created automatically.
    parent_task_id: Optional parent task — set this to make this a subtask.
ParametersJSON Schema
NameRequiredDescriptionDefault
titleYes
project_idYes
ownerNoMetis
notesNo
due_dateNo
recurrenceNo
parent_task_idNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

B3.3/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so the description carries full burden. It only reveals that recurring tasks auto-create next occurrences, but omits other behavioral traits like side effects, authentication requirements, or what happens on validation failure.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness3/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description uses a clear Args structure but is somewhat verbose. The main purpose is not front-loaded; it starts directly with parameter descriptions. Every line adds value, but conciseness could be improved.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given 7 parameters (2 required) and no annotations, the description covers parameter meanings and recurrence behavior but does not mention output schema or return format. It is adequate but not fully complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema description coverage, the description compensates by explaining each parameter's role (e.g., 'owner: Who is responsible (default "Metis")', 'recurrence: Optional repeat...'). It adds meaning beyond parameter names and types.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description explicitly states 'Create a new task in the SQLite database', with a specific verb and resource. It clearly differentiates from sibling tools like add_glossary_term or update_task.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No guidance is provided on when to use this tool versus alternatives like update_task or add_journal_entry. The description lacks context about prerequisites, when creation is appropriate, or when other tools should be preferred.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

cross_pollinateB

Find cross-domain connections for given text.

Searches library_seeded, meetings, news_briefs, and ideas tables
for related items. Returns top 5 with source type, title, and snippet.

Args:
    content: Text to find cross-domain connections for.
ParametersJSON Schema
NameRequiredDescriptionDefault
contentYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

B3.4/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description must fully disclose behavior. It states the tool searches specific tables and returns top 5 items, but does not mention idempotency, permissions, rate limits, or side effects. It implicitly shows it's a read operation but doesn't confirm.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise at three sentences, front-loading the purpose. It uses bullet-style for the return format and clearly lists the argument. No fluff, though adding structured sections could improve readability.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has an output schema (not shown), the description adequately covers return values. It specifies the tables searched and number of results. However, with no annotations, missing behavioral details slightly reduce completeness.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters2/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Only one parameter 'content' with 0% schema coverage. The description adds minimal meaning ('Text to find cross-domain connections for'), but does not elaborate on format, length, or constraints. With low schema coverage, the description should compensate more.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool finds cross-domain connections for given text, specifies the exact tables searched (library_seeded, meetings, news_briefs, ideas), and describes the return format (top 5 with source type, title, snippet). This distinguishes it from siblings like 'find_connections'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description lists the tables searched but does not provide explicit guidance on when to use this tool versus alternatives (e.g., search_library, search_memory). No when-not-to-use or scenarios are mentioned.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

daily_noteA

Append to (or read) today's daily note — one rolling note per day.

Unlike add_journal_entry (which creates a new row each time), daily_note
keeps a single entry per calendar day and appends timestamped lines to it —
the Reflect/Tana "daily note" pattern for fast, low-friction capture.

Args:
    text: Line to append. Leave empty to just read today's note so far.
ParametersJSON Schema
NameRequiredDescriptionDefault
textNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.8/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Discloses that it appends timestamped lines and keeps a single entry per day. With no annotations, it carries the full burden and does so adequately. Could be improved by noting the return format, but output schema may cover that.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two sentences plus args, front-loaded with purpose, no fluff. Every sentence earns its place.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Complete for a simple append/read tool with one parameter and output schema present. Covers behavior, usage, and parameter semantics.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Adds substantial meaning beyond the schema: 'text' is the line to append; leaving it empty reads the note. This compensates for 0% schema description coverage.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

States exactly what the tool does: append to or read today's daily note. Distinguishes from sibling 'add_journal_entry' by explaining the rolling note vs. new row behavior.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly contrasts with 'add_journal_entry' to clarify when to use this tool (for daily note capture) vs. creating new journal entries. Also explains that leaving text empty reads the note, indicating a dual read/append use case.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

decrypt_backupA

Decrypt a .enc backup produced by encrypt_backup().

Reverses the format [8B magic][16B salt][12B nonce][ciphertext+tag]. Writes the
recovered .sqlite next to the .enc file (dropping the .enc suffix) unless
output_path is given. The passphrase is never stored. This is the counterpart
to encrypt_backup — without it, encrypted backups could not be restored.

Args:
    enc_path:    Path to the .enc encrypted backup.
    passphrase:  The passphrase used at encryption time.
    output_path: Optional explicit destination for the decrypted file.

Returns JSON with out_path and the method used.
ParametersJSON Schema
NameRequiredDescriptionDefault
enc_pathYes
passphraseYes
output_pathNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description covers the binary format, passphrase handling (never stored), default output location, and return value. It lacks details on error conditions but is fairly comprehensive.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is front-loaded with the core action, then provides format details and Args list. Each sentence serves a purpose, no wasted words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given 3 params with no schema descriptions and an output schema, the description fully explains inputs, outputs, behavior, and format. No obvious gaps.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Since schema coverage is 0%, the description's Args section adds meaning by briefly explaining each parameter's role (enc_path, passphrase, output_path). Could be more detailed but adds value.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description explicitly states the tool decrypts .enc backups from encrypt_backup, provides the file format, and explains the output behavior. It clearly identifies the action and resource.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description indicates this is the counterpart to encrypt_backup for restoration, but does not explicitly state when not to use it or compare to other restore tools like restore_db. Clear context without exclusions.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

delete_taskA

Permanently delete a task from the database.

The destructive complement to create_task — removes the task row entirely.
Use this for tasks created in error or no longer relevant; to instead mark
work finished (and continue a recurring series), use update_task with
status="done". Find the task_id with get_tasks. This cannot be undone.

Args:
    task_id: ID of the task to delete (as shown by get_tasks). Required.

Returns:
    A confirmation that the task was deleted, or a note if no task with that
    id exists.
ParametersJSON Schema
NameRequiredDescriptionDefault
task_idYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A5/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description fully discloses the destructive nature ('cannot be undone'), the action (removes row entirely), and the return value (confirmation or note of non-existence).

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Seven sentences, front-loaded with core purpose, no filler. Well-structured: purpose, context, alternatives, prerequisite, return value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple deletion tool with one parameter and an output schema, the description covers everything needed: what it does, when to use, how to find the ID, and what to expect in return.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Despite 0% schema coverage, the description explains the single parameter task_id: 'ID of the task to delete (as shown by get_tasks). Required.' This adds crucial context on how to obtain the ID.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Clearly states 'Permanently delete a task from the database.', specifying the verb and resource. Distinguishes itself from create_task and update_task by describing its destructive complement role.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly tells when to use this tool (for tasks created in error or no longer relevant) and when to use update_task instead (to mark work finished). Also provides prerequisite: find task_id with get_tasks.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

detect_projectsA

Scan a folder for unregistered git repos and article folders.

Useful for onboarding — finds existing project folders that are not yet
tracked in Metis. Call create_project() for each item you want to register.

Args:
    scan_path: Absolute path to scan. Defaults to the parent of METIS_RC_ROOT.
ParametersJSON Schema
NameRequiredDescriptionDefault
scan_pathNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description bears full responsibility. It discloses the default scan path but omits behavioral details such as recursion depth, idempotency, side effects, error handling, or what happens if the scan_path is invalid. More transparency is needed for safe invocation.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is three sentences long, front-loaded with the core purpose, and every sentence adds value. No unnecessary words or repetition.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description is fairly complete given the tool's simplicity (one optional parameter, output schema exists). It covers purpose, usage guidance, and parameter. However, it does not mention the output format (e.g., list of paths), though the output schema presumably handles that. Slight deduction for not addressing potential recursion or performance considerations.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description compensates well by explaining scan_path as 'Absolute path to scan' with a default of 'parent of METIS_RC_ROOT'. This adds meaning beyond the schema, which only has a title and default. Slight deduction for not specifying if relative paths are accepted.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it scans a folder for unregistered git repos and article folders, with a specific verb 'Scan' and resource 'folder'. It distinguishes from sibling tools like 'scan_folder_for_intent' by specifying 'unregistered' and 'not yet tracked in Metis', making its purpose distinct.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly indicates usefulness 'for onboarding' and advises to call 'create_project()' for each discovered item. It provides clear context for when to use, though it does not explicitly mention when not to use or list alternatives.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

dhis2_metadataA

Query DHIS2 metadata with a simplified interface.

Convenience wrapper around dhis2_query() for common metadata lookups.

Args:
    resource: Metadata resource type — e.g. "dataElements", "indicators",
              "organisationUnits", "programs", "dataSets", "trackedEntityTypes".
    filters:  Filter expressions in DHIS2 format, e.g. ["name:ilike:malaria", "valueType:eq:NUMBER"].
    fields:   Comma-separated field list (default: "id,name,shortName").
    paging:   Set True to get only the first page (faster for large resources).

Examples:
    dhis2_metadata("dataElements", ["name:ilike:HAT", "valueType:eq:INTEGER"])
    dhis2_metadata("programs", fields="id,name,programType,trackedEntityType[id,name]")
    dhis2_metadata("organisationUnits", ["level:eq:3"], fields="id,name,level,parent[id,name]")
ParametersJSON Schema
NameRequiredDescriptionDefault
resourceYes
filtersNo
fieldsNoid,name,shortName
pagingNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description must convey all behavioral traits. It explains the paging parameter behavior (default returns all pages, setting True returns only first page). However, it does not explicitly state that the tool is read-only, nor does it discuss side effects, authentication needs, or rate limits. The examples help but leave gaps.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise: a two-line purpose, a bulleted Args section, and three usage examples. Every sentence adds value, and the structure efficiently conveys all necessary information without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's moderate complexity (4 params, 1 required, no enums) and the presence of an output schema, the description covers the key aspects: purpose, parameters, and usage examples. It does not detail the return format, but the output schema covers that. It could benefit from mentioning that the tool is a query (read-only), but overall it is sufficient.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, so the description must compensate. It provides clear explanations for all four parameters: resource (with examples), filters (with format and example), fields (with default and nested field example), and paging (with behavior description). This adds significant meaning beyond the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool queries DHIS2 metadata, specifies it is a simplified interface and a wrapper around dhis2_query(), and differentiates from that sibling tool by implying it is for common lookups. Examples further clarify the resource types.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description positions the tool as a 'convenience wrapper' for common metadata lookups, implying use when a simpler interface is desired over dhis2_query(). It does not explicitly say when not to use it, but the sibling tool name is mentioned, providing context.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

dhis2_queryA

Make an authenticated API call to the configured DHIS2 instance.

Returns the JSON response as formatted text. Use for live metadata
validation, data element lookup, indicator queries, and data quality checks.

Args:
    endpoint: API path relative to /api/, e.g. "dataElements" or "organisationUnits.json".
              If it does not start with "/api/", that prefix is added automatically.
    params:   Query parameters as a dict, e.g. {"fields": "id,name", "paging": "false"}.
    method:   HTTP method — "GET" (default), "POST", or "PUT".
    body:     Request body for POST/PUT (serialised to JSON).

Examples:
    dhis2_query("dataElements", {"fields": "id,name,valueType", "paging": "false"})
    dhis2_query("system/info")
    dhis2_query("organisationUnits", {"filter": "level:eq:2", "fields": "id,name,level"})
ParametersJSON Schema
NameRequiredDescriptionDefault
endpointYes
paramsNo
methodNoGET
bodyNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries the burden. It mentions authentication, automatic URL prefix handling, and return format (JSON as text). However, it does not disclose potential side effects of write operations (POST/PUT), rate limits, or error behavior, which are important for a tool that can modify data.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a summary line, parameter explanations, and examples. It is front-loaded with the core action. While thorough, it could be slightly more concise (e.g., combining explanation and examples), but every sentence adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has 4 parameters, an output schema (though not shown), and no annotations, the description is comprehensive. It explains all parameters, provides examples, and specifies behavior (authentication, prefix handling, return format). It covers the necessary context for an agent to use the tool correctly.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The description provides full parameter documentation via an Args section, explaining endpoint (relative path), params (dict), method (default GET), and body (serialized for POST/PUT). It also gives multiple examples. This adds significant value beyond the bare input schema, which has 0% description coverage.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: 'Make an authenticated API call to the configured DHIS2 instance.' It specifies use cases like metadata validation and data element lookup, and gives concrete examples. This is a specific verb+resource definition that distinguishes it from sibling tools like dhis2_metadata.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly lists when to use the tool ('live metadata validation, data element lookup, indicator queries, and data quality checks'). It provides usage examples and parameter guidance, but does not explicitly state when not to use it or compare with alternatives like dhis2_metadata, which would be ideal.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

diff_anonymizationA

Return a unified diff comparing original and anonymized text.

Args:
    original:   Original (pre-anonymization) text.
    anonymized: Anonymized text from anonymize_text().

Returns a plain unified-diff string suitable for display.
ParametersJSON Schema
NameRequiredDescriptionDefault
originalYes
anonymizedYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so description carries burden. It describes the output (plain unified-diff string) but does not disclose side effects, permissions, or error conditions. It's adequate but minimal.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Three sentences front-load the main purpose, parameter descriptions are compact, and every sentence adds value. No unnecessary words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple diff tool with 2 parameters and an output schema, the description covers inputs, output format, and intended use. Could mention edge cases like empty strings or large texts, but overall sufficient.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema has 0% description coverage, so description adds meaning for both parameters: 'Original (pre-anonymization) text' and 'Anonymized text from anonymize_text()'. This clarifies the expectation beyond bare string type.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool returns a unified diff comparing original and anonymized text, with specific verb 'Return' and resource 'unified diff'. It distinguishes itself from sibling tool anonymize_text by being a complementary diff operation.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies it should be used after anonymize_text by referencing 'from anonymize_text()'. No explicit when-not or alternatives, but the context is clear enough for this simple comparison tool.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

discovery_introA

Return the tiny first-run orientation — the 3-5 highest-value capabilities.

Use ONCE for a brand-new user (or when they ask 'what can you do?'). After this,
rely on `next_discovery_tip` for the long tail. No-op (returns '') if the intro was
already given or tips are off.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.9/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Discloses that it is a no-op (returns '') if the intro was already given or tips are off. No annotations provided, but description fully covers behavioral traits.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Three sentences, front-loaded with purpose, no wasted words. Every sentence adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a parameterless tool with output schema, description covers purpose, usage, and behavior completely.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

No parameters; baseline score of 4 applies as per guidelines.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Clearly states it returns a tiny first-run orientation with 3-5 highest capabilities. Distinguishes from sibling tool `next_discovery_tip`.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly says to use once for a brand-new user or when asked 'what can you do?', then rely on `next_discovery_tip`. Also states it's a no-op if already given or tips off.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

discovery_statusA

Report the discovery-tips state and a simple adoption read.

Tells you whether the just-in-time feature tips are on or off, the current
mode, any active snooze, and how many tips have been shown versus how many
of those features the user has since started using (adoption). Use it to
answer "are tips on?" or to sanity-check before changing them with
set_discovery_tips. Pairs with discovery_intro and next_discovery_tip.

Takes no arguments.

Returns:
    A one-line text summary: on/off, mode, snooze note, shown count, and
    how many shown features are now adopted.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so description carries full burden. It discloses that the tool takes no arguments, returns a one-line summary with specific fields, and implies it is read-only (reports state). It does not mention side effects, but the non-mutating nature is clear from 'report' and 'read'.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Three short, front-loaded paragraphs. Main purpose in first paragraph, details in second, usage guidance and sibling relations in third, then arguments and return summary. Every sentence is relevant and no redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given zero parameters and existence of output schema, the description provides enough context: what it does, how to use it with siblings, and what the return contains. It could mention potential error states or performance, but for a simple read tool it is sufficient.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters3/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema has no parameters with 100% coverage; description adds 'Takes no arguments' which is trivial. No further parameter details needed. Baseline 3 is appropriate as schema already covers.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states the tool reports discovery-tip state and adoption. It uses specific verb 'report' and resource 'discovery-tips state' and 'adoption read'. It distinguishes from siblings by mentioning pairing with discovery_intro and next_discovery_tip and use before set_discovery_tips.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly says to use it to answer 'are tips on?' and to sanity-check before set_discovery_tips, and mentions pairing with other discovery tools. However, it does not explicitly state when not to use it or give alternatives.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

draft_self_improvement_proposal_toolA

Draft a skill-improvement proposal from recent reflexions (Phase 9b).

Reads themed reflexions for ``agent_slug``, appends a 'Self-improvement
notes' section to the agent's current skill.md, and queues the result in
``skill_improvement_proposals`` with status='draft'.

The draft is NOT applied. Use ``apply_proposal(id)`` to write it to disk.
ParametersJSON Schema
NameRequiredDescriptionDefault
agent_slugYes
daysNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.7/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It describes reading reflexions, appending to skill.md, and queuing as draft, and explicitly states the draft is not applied. However, it does not mention side effects (e.g., whether it overwrites existing drafts), permissions, or error handling. The transparency is adequate but not exhaustive.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is multi-sentence but well-structured: it starts with the main purpose, then details the actions, and ends with a clarification about not being applied. It is concise without extraneous words, though one or two sentences could be slightly tightened.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The tool has 2 parameters and no annotations, and there is an output schema (not shown) which presumably covers return values. The description covers the main workflow but misses potential prerequisites or error conditions (e.g., what happens if no recent reflexions exist). It is reasonably complete for a straightforward drafting tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters2/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description must compensate. It mentions agent_slug in the context of reading reflexions, but the 'days' parameter (default 14) is only vaguely implied by 'recent reflexions' and not explicitly described. The description adds some meaning but leaves the role of 'days' unclear.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool drafts a skill-improvement proposal from recent reflexions, naming the phase (9b), the input (agent_slug), and the actions (appends a section, queues result). It explicitly distinguishes from the sibling 'apply_proposal_tool' by stating the draft is not applied.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies when to use (when drafting a proposal from recent reflexions) and suggests an alternative ('use apply_proposal(id) to write it to disk'). However, it does not explicitly specify scenarios where drafting would be inappropriate, such as if a draft already exists.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

encrypt_backupA

AES-256-GCM encrypt a backup file.

Produces <backup_path>.enc. The passphrase is never stored.
Uses Python stdlib only (hashlib for key derivation, os.urandom for salt/nonce).

NOTE: This uses a simple PBKDF2+AES-GCM implementation.
For production-grade encryption, use a proper secrets manager.

Args:
    backup_path: Full path to the .sqlite backup file.
    passphrase:  Encryption passphrase.

Returns JSON with enc_path and whether original was removed.
ParametersJSON Schema
NameRequiredDescriptionDefault
backup_pathYes
passphraseYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

The description mentions the passphrase is never stored and uses Python stdlib, which adds transparency. However, it does not clarify whether the original backup file is deleted or if any other side effects occur; the return value mentions 'whether original was removed' but the action is not described. Without annotations, this is a gap.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, with a clear structure: purpose, implementation note, args, and returns. Every sentence adds value without redundancy. It is front-loaded with the main action.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity, the description covers the main aspects: file input, encryption method, and return value. It explains enough for an agent to invoke correctly. However, it lacks detail on error handling and file overwriting behavior, but overall it is sufficient.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The schema has no parameter descriptions (0% coverage), but the description adds specific meanings: backup_path is 'Full path to the .sqlite backup file' and passphrase is 'Encryption passphrase.' This goes beyond the schema's titles and provides context that the file should be a .sqlite file, which is helpful.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it encrypts a backup file using AES-256-GCM, specifies the output filename pattern, and tells the agent it produces an encrypted version. The verb 'encrypt' and resource 'backup file' are specific, and it distinguishes from siblings like 'decrypt_backup'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description includes a note advising that this is a simple implementation and for production-grade encryption a proper secrets manager should be used. This provides clear guidance on limitations and when to consider alternatives, though it could explicitly state when not to use this tool.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

end_spanA

Close an open span. Computes duration from start_ms to now.

Args:
    span_id: The span_id returned by start_span().
    status:  'ok' | 'error'. Default: 'ok'.
    error:   Error message if status='error'. Optional.

Returns a summary line: '{name} — {duration_ms}ms [{status}]'
ParametersJSON Schema
NameRequiredDescriptionDefault
span_idYes
statusNook
errorNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so the description carries full burden. It discloses duration computation and return format, but does not mention side effects, permissions, or error handling beyond status.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, front-loaded with the main purpose, and uses structured Args/Returns format. Every sentence adds value without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description explains parameters return value, covering the essentials for a 3-param tool with output schema. It lacks prerequisite context (e.g., span must be open) but is otherwise complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema description coverage, the description adds meaning by explaining each parameter (span_id from start_span, status default 'ok', error optional). This goes beyond the schema's type/default fields.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it closes an open span and computes duration, using specific verb 'Close' and resource 'span'. It distinguishes from sibling 'start_span' and 'log_span'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies it is used after start_span, but does not explicitly state when to use vs alternatives or provide exclusions. The context of sibling tools makes it clear, but could be more direct.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

enrich_meeting_with_crossrefsA

Find cross-references for a saved meeting: open tasks, related papers, active projects.

Call this after saving a meeting transcript (via Meetings tab or
transcribe_recording()). It extracts key topics from the transcript,
matches them against tasks, library papers, and active projects, and
returns a structured cross-reference brief.

The result is also written to the meeting's notes field in the database
so it appears in the Meetings tab.

Args:
    meeting_id: The meeting_id from the meetings table.

Returns:
    Formatted cross-reference brief listing matched tasks, papers, and projects.
ParametersJSON Schema
NameRequiredDescriptionDefault
meeting_idYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.7/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so description fully shoulders behavioral disclosure. It explicitly states a side effect: 'The result is also written to the meeting's notes field in the database'. It also describes the return format. No contradictions.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a concise main sentence, followed by context, Args, and Returns sections. Every sentence adds value, and there is no redundant information.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple tool with one parameter and no output schema needed (output is described as 'Formatted cross-reference brief'), the description covers preconditions (after saving transcript), side effects, and output. It is complete given the tool's complexity.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, but the description adds meaning by explaining that meeting_id is 'from the meetings table' and that it will extract key topics from the transcript. This provides context beyond the schema's simple 'Meeting Id' title.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'Find cross-references' and specifies the resource as 'a saved meeting' with explicit types: tasks, papers, projects. It distinguishes from sibling tools like transcribe_recording by indicating it is called after saving.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Provides explicit guidance: 'Call this after saving a meeting transcript (via Meetings tab or transcribe_recording())'. It gives context on when to use the tool but does not explicitly state when not to use it or list alternative cross-referencing tools.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

export_citationsA

Export library references as a citation file (BibTeX).

Closes the "no citation-style export" gap: produces a .bib you can import
into Word (via Zotero/Mendeley), LaTeX/Overleaf, or any reference manager,
and use for cite-while-you-write.

Args:
    query: Optional keyword filter over title/authors/journal. Empty = all.
    tag: Optional tag filter (substring match on the tags field).
    collection: Optional collection-name filter.
    fmt: Output format — currently "bibtex" (RIS available via mine_references).
    limit: Max records to export (default 500).

Writes the file to outputs/exports/ and returns its path + a preview.
ParametersJSON Schema
NameRequiredDescriptionDefault
queryNo
tagNo
collectionNo
fmtNobibtex
limitNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries the full burden. It discloses that the tool writes a file to 'outputs/exports/' and returns its path plus a preview. However, it does not state whether the tool is read-only or if it modifies the library, leaving some behavioral ambiguity.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise with a clear top-level purpose, a contextual sentence, and a bullet list of parameters. Every sentence adds value without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description covers the output (file path and preview), mentions a sibling format option, and explains all parameters. However, it omits prerequisites (e.g., library must exist) and idempotency details, which are minor gaps for an export tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has no descriptions (coverage 0%), but the description provides clear explanations for all 5 parameters, including defaults and the role of each filter. This fully compensates for the schema's lack of documentation.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The first sentence clearly states the verb ('Export') and the resource ('library references as a citation file (BibTeX)'). It distinguishes from siblings by mentioning that RIS format is available via 'mine_references', providing differentiation.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains when to use the tool (to produce a .bib file for Word, LaTeX, etc.) and notes that RIS is available via a sibling tool. However, it does not explicitly list when not to use it or more detailed alternative conditions.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

extract_structuredA

Extract a structured, cited evidence brief on a topic from the PDF library.

Elicit-style structured extraction: runs a fixed question set over the indexed
library (PaperQA2) and assembles a markdown table — one row per field, each
answer carrying its citations. Useful for systematic-review scaffolding.

Args:
    topic: The subject to extract on (e.g. "HAT passive screening sensitivity").
    fields: Optional comma-separated fields to extract. Default set covers
            population, design, sample size, outcome, finding, limitations.
    scope: Which index to query ("default" or "ph_library"). Build it first
           with index_library_pdfs().
ParametersJSON Schema
NameRequiredDescriptionDefault
topicYes
fieldsNo
scopeNodefault

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It discloses the mechanism (runs a fixed question set over PaperQA2, assembles a markdown table), and notes the prerequisite (scope must be built with index_library_pdfs()). No destructive actions implied, and the behavior is well described.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise with three focused paragraphs: purpose, output format and use case, parameter details. It is front-loaded and efficient, with no unnecessary words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description covers purpose, output format (markdown table with citations), parameter details, and prerequisite (indexing). With an output schema present (though not shown), the description is sufficient for an agent to understand the tool's behavior and requirements.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the description compensates by explaining all three parameters in the Args section: topic (subject), fields (optional comma-separated, default set), scope (index, with build note). This adds clear meaning beyond the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it extracts a structured, cited evidence brief from the PDF library using a fixed question set, producing a markdown table with citations. This distinguishes it from sibling tools like search_literature or ask_library by focusing on structured extraction for systematic-review scaffolding.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides the use case ('systematic-review scaffolding') and explains parameters (topic, fields, scope) but does not explicitly state when not to use it or mention alternatives among siblings, though the context is clear.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

find_connectionsA

Search library, meetings, and news for items related to given text.

Searches library_seeded, meetings, and news_briefs tables for related
content using keyword matching.

Args:
    content: Text snippet to find connections for.
    limit: Maximum results per source (default 5).
ParametersJSON Schema
NameRequiredDescriptionDefault
contentYes
limitNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.7/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries full burden. It only mentions 'keyword matching' without details on matching behavior (fuzzy/exact, case sensitivity, fields searched). No information about result ordering, deduplication, or pagination is given.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise with three sentences and an Args list. It is front-loaded with the main function and each sentence provides unique value. No unnecessary words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the presence of an output schema, the description covers core purpose and parameters adequately. However, it lacks details on search behavior (e.g., keyword matching specifics, result structure) that would make it fully complete for an agent.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the description adds meaningful parameter semantics: 'Text snippet to find connections for' for content and 'Maximum results per source (default 5)' for limit, clarifying scope and default behavior beyond name and type.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool searches library, meetings, and news for items related to given text, specifying the tables searched. This distinguishes it from sibling tools like search_library (single source) and semantic_search (different approach).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description does not explicitly state when to use this tool versus alternatives. It implies usage for cross-source keyword search but provides no guidance on when not to use it or when to prefer other search tools.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

full_scanA

Run all Metis update scans in sequence and return a combined report.

Runs:
1. News feeds (RSS) — new items added to news_briefs
2. Literature folder — new PDFs registered in literature_metadata
3. Inbox — unprocessed items flagged
4. Tracked files — changed files reported

No LLM calls. Safe to run at any time.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries the behavioral burden. It discloses that the tool runs four scans, adds new items to news_briefs, registers PDFs, flags unprocessed items, and reports changed files. It explicitly states no LLM calls and safety. However, it does not mention idempotency or potential conflicts between scans.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, front-loads the purpose, and uses a clear bullet list for the scans. Every sentence adds information, and there is no wasted text.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool triggers multiple scans and has an output schema (not shown), the description covers what each scan does and that a combined report is returned. It is sufficient for an agent to understand the tool's scope, though details about the report format are omitted.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

There are zero parameters, and schema coverage is 100%, so baseline 4 applies. The description adds value by explaining what the tool does without needing to describe parameters, listing the scans that are executed.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: running all Metis update scans in sequence and returning a combined report. It lists the four specific scans (news feeds, literature folder, inbox, tracked files), making it distinct from sibling tools that perform single scans.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description indicates it is safe to run at any time and involves no LLM calls, giving clear context. It implies using this tool for a full update versus individual scan tools, but does not explicitly state when to prefer this over the specific scan tools.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

generate_daily_insightA

Assemble recent activity into context for the daily insight.

Gathers the raw material for a "what's happening across your research"
digest: the last 7 days of agent_runs summaries, last 3 days of high-signal
news_briefs, last 14 days of meeting titles, and last 7 days of new library
additions. It stores a placeholder row in daily_insights; the Metis agent
does the actual synthesis from the returned context. Read the stored result
later with get_daily_insight.

Takes no arguments.

Returns:
    A text block of the assembled recent context (and the sources drawn on)
    for the agent to synthesize into a daily insight.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

The description explains that the tool stores a placeholder row in daily_insights and that the Metis agent performs the actual synthesis. It does not detail side effects like overwriting behavior, idempotency, or required permissions. Since no annotations are provided, the description carries the full burden for behavioral transparency, but it is adequate for a tool with no parameters.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise and well-structured. The first sentence immediately states the purpose, followed by a clear bulleted list of gathered data. It efficiently covers what the tool does, its side effect, and the return value without any extraneous detail.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (no parameters, clear output), the description is complete. It explains the data sources, the placeholder storage, and the relationship to get_daily_insight. The return value is described, and the presence of an output schema is noted in the context, so the description suffices.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has zero parameters, and the description explicitly states 'Takes no arguments.' This adds clarity beyond the schema, confirming there are no inputs needed. With 100% schema description coverage, the baseline is 3, but the explicit statement earns a 4.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool assembles recent activity into context for a daily insight. It specifies the exact sources and timeframes (e.g., last 7 days of agent_runs, last 3 days of news_briefs). It distinguishes itself from the sibling tool get_daily_insight by explaining that this tool prepares the context while get_daily_insight retrieves the stored result.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides clear usage context: it gathers raw material for the daily insight and instructs users to read the stored result later with get_daily_insight. However, it does not explicitly state when not to use this tool or mention alternative approaches, leaving some room for ambiguity.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

generate_handoff_brief_toolA

Generate a portable session handoff brief.

Captures: tokens used today, active projects, open tasks, recent agent
runs, and the most recent journal entry. Writes to
`metis/journal/YYYY-MM-DD_session_handoff_auto.md` and returns the brief.

Use this when a session is approaching its end, before `/clear`, or when
switching to another AI / device.
ParametersJSON Schema
NameRequiredDescriptionDefault
session_idNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.6/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Describes writing a file and capturing specific data, which is transparent for a read-mostly operation. However, with no annotations, it should disclose potential side effects (e.g., overwriting files), preconditions (e.g., existence of a journal entry), or failure modes. The description leaves some behavioral ambiguity.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Extremely concise: three short sentences covering purpose, captured data, and usage scenario. Each sentence adds value with no wasted words. The structure is front-loaded and easy to scan.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's low complexity (one optional param, has output schema), the description covers most relevant aspects: the brief's contents, file location, and usage timing. However, it omits parameter semantics and any preconditions, making it not fully complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters2/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The only parameter, session_id, is optional with a default empty string, but the description provides no explanation of its purpose or expected value. With 0% schema description coverage, the description fails to add meaning beyond the schema, which is a significant gap for effective tool invocation.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool generates a portable session handoff brief, listing specific captured data and output location. However, it does not explicitly differentiate from similar sibling tools like save_session_summary or consolidate_session_memory, missing a chance to clarify its unique role.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly recommends using this tool when a session is ending, before /clear, or when switching AI/device. This is good contextual guidance, though it omits when not to use it or mention of alternatives.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

generate_imageA

Generate an image using AI and save it to the PKM.

Saves to {pkm_root}/outputs/images/YYYY-MM-DD_[slug].png

Args:
    prompt: Description of the image to generate.
    backend: "gemini" (default) or "huggingface"
    model: "flash" (gemini-3.1-flash-preview-image-generation),
           "imagen" (imagen-4.0-generate-001),
           "flux" (FLUX.1-schnell via HuggingFace)
    width: Image width in pixels (default 1024).
    height: Image height in pixels (default 1024).
    output_filename: Optional custom filename (without extension).
ParametersJSON Schema
NameRequiredDescriptionDefault
promptYes
backendNogemini
modelNoflash
widthNo
heightNo
output_filenameNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.6/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Without annotations, the description carries the burden of behavioral disclosure. It explains the save location and default parameter values, but does not mention any side effects, authentication requirements, rate limits, or whether the operation is reversible. For a content creation tool, more transparency about potential limitations or safety would be beneficial.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is relatively concise with a single introductory sentence followed by a bullet-like list of arguments. It is front-loaded with the main purpose. Minor issue: the list could be formatted more clearly, but overall it is efficient and each line adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has 6 parameters (1 required) and an output schema exists, the description covers the input parameters thoroughly and specifies the output file path. It does not describe return values, but that's acceptable since an output schema is present. The description is complete for practical use.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description fully compensates. It lists all 6 parameters with clear explanations, default values, and examples (e.g., model options with specific identifiers). This adds significant meaning beyond the basic schema, enabling correct tool usage.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states 'Generate an image using AI and save it to the PKM', specifying verb and resource. It also details the save path. However, it does not explicitly distinguish this tool from sibling image-related tools like list_generated_images, though the purpose is sufficiently clear.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No guidance on when to use this tool versus alternatives. The description lacks context about appropriate use cases, prerequisites, or which backend/model to choose for different scenarios. It simply describes what the tool does without usage recommendations.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_agent_contextA

Load an agent's system prompt and contract from the RC.

Reads system-prompt.md and contract.md from agents/{agent_slug}/.
If the agent is not found, lists all available agents.

Args:
    agent_slug: Folder name of the agent (e.g. "archivist", "librarian").
ParametersJSON Schema
NameRequiredDescriptionDefault
agent_slugYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It clearly discloses that the tool reads two specific files and lists agents if the slug is not found. This is adequate, though it does not explicitly state read-only nature, which is implied.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is three sentences plus an Args section, all front-loaded with the purpose. Every sentence serves a purpose, with no extraneous words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple tool with one parameter and an output schema, the description covers the action, parameter meaning, and edge case. The output schema covers return values, so the description is complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema description coverage, the description provides essential meaning: 'Folder name of the agent' with examples ('archivist', 'librarian'). This adds significant value beyond the schema's bare parameter definition.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Load an agent's system prompt and contract', which is a specific verb and resource. It further specifies the exact files read and the behavior when the agent is not found, distinguishing it from sibling tools like get_context or get_research_context.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No guidance is provided on when to use this tool versus alternatives like get_context or get_working_memory. The description only mentions the fallback listing of agents but does not set usage boundaries or prerequisites.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_agent_runsA

Retrieve recent agent run history from the database.

Returns the log of past agent work — what ran, when, its status, and token
usage — for the dashboard or for reviewing recent activity. These rows are
written by log_agent_run. Results come back newest first.

Args:
    limit: Maximum number of runs to return, newest first (default 10).
    since: ISO date or datetime string; only runs at or after this time are
        returned. Empty string (default) returns runs from all dates.
    agent_slug: Filter to a single agent by slug, e.g. "librarian" or
        "metis". Empty string (default) returns all agents.

Returns:
    A text block listing the matching runs (run_id, agent, task summary,
    status, timestamp, token counts, model).
ParametersJSON Schema
NameRequiredDescriptionDefault
limitNo
sinceNo
agent_slugNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so the description carries full burden. It explains the tool reads from the database, returns newest-first results, and details the output content (run_id, agent, task summary, status, timestamp, token counts, model). No destructive behavior is implied, and the read-only nature is clear.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a one-sentence purpose, a paragraph on what is returned, a bulleted Args section, and a Returns section. Information is front-loaded and every sentence adds value without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the simplicity of the tool (3 optional parameters, no nested objects, has output schema), the description covers purpose, parameters, return format, and even the related writing tool. It is fully sufficient for correct invocation without further context.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the description's Args section thoroughly documents all three parameters: limit (default 10, newest first), since (ISO date/datetime, empty returns all), and agent_slug (filter by slug, empty returns all). This adds significant meaning beyond the type/default in the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool retrieves recent agent run history from the database, specifying the resource (agent runs) and action (retrieve). It distinguishes from sibling tool log_agent_run by noting that tool writes these rows.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description mentions use cases ('for the dashboard or for reviewing recent activity') and references the writing tool, but does not provide explicit guidance on when to use this tool versus other retrieval tools like search_memory or search_session_memory. No exclusions or alternatives are given, so only adequate for a 3.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_backup_scheduleA

Return the current backup schedule configuration.

ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.7/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description must disclose behavioral traits. It only states the purpose and does not mention that it is read-only, has no side effects, or any required permissions. This is insufficient for an agent to understand the tool's behavior.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is a single sentence with no wasted words. It is concise, clearly front-loaded, and easy to parse.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the simplicity (0 parameters) and the presence of an output schema, the description is adequate but lacks explicit mention of the read-only nature. It covers the basic purpose but could be more complete by referencing the output schema or confirming it is a safe operation.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

There are no parameters in the input schema (schema coverage 100%). With 0 parameters, the baseline is 4. The description does not add parameter-specific information, but none is needed.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'Return' and the resource 'current backup schedule configuration'. It is specific and distinguishes from sibling tools like 'set_backup_schedule' (which modifies) and 'backup_db' (which triggers backup).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for reading the backup schedule, but does not explicitly state when to use it versus alternatives (e.g., 'set_backup_schedule' for writing). No prerequisites or exclusions are mentioned.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_brainstorm_sessionA

Retrieve all turns in a brainstorm session.

Args:
    session_uuid: The session identifier returned by brainstorm_turn().
ParametersJSON Schema
NameRequiredDescriptionDefault
session_uuidYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.9/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, and description does not disclose behavioral traits such as read-only nature, side effects, or limitations. Minimal info beyond the basic operation.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Extremely concise: two sentences and an Args list. All content is relevant and front-loaded with the key action. No wasted words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

With an output schema present, return values need not be described. However, the description lacks constraints (e.g., session existence, empty results) and could be more helpful with brief notes on expected behavior.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the description adds context to the single parameter: 'The session identifier returned by brainstorm_turn().' This clarifies origin and usage beyond schema title/type.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states 'Retrieve all turns in a brainstorm session,' specifying the verb and resource. Distinguishes from siblings like 'list_brainstorm_sessions' (lists sessions) and 'brainstorm_turn' (creates turns).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Args section explains that session_uuid comes from 'brainstorm_turn()', providing context on when to use this tool—after a session is created. However, no explicit when-not-to-use or alternatives are mentioned.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_constitutionA

M5.7.3 — Load the Metis constitutional policy for agent context.

Returns a compact summary of behavioral rules appropriate for the
complexity level. Prepend to any agent's system context to enforce
shared policy across all agent types.

Args:
    level: 'quick' | 'standard' | 'deep' | 'chain'
ParametersJSON Schema
NameRequiredDescriptionDefault
levelNodeep

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so description must disclose behavior. It describes a read-only load operation returning a summary, but doesn't mention side effects, auth requirements, or rate limits. Adequate but not thorough.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Description is relatively concise with version header, purpose, usage note, and arg spec. Could drop version number without loss, but still efficient.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (one param, output schema exists), the description covers purpose, when to use, and parameter meaning. No major gaps.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Single parameter 'level' with enum values explicitly listed in description, compensating for 0% schema coverage. Provides clear actionable options.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states the tool loads a constitutional policy for agent context, with specific verb and resource. It distinguishes itself from other get_ tools by focusing on governance rules.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explains when to use: prepend to system context for shared policy enforcement. No explicit exclusions or alternatives, but context is clear.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_contactsA

Retrieve all contacts from the contacts table.

ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.5/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries full burden. It only says 'Retrieve all contacts' but does not disclose behavior like being read-only, pagination, permissions, or any side effects.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is a single sentence that is clear and to the point. It could be slightly more structured, but it is efficient with no wasted words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has no parameters and an output schema is provided, the description is nearly complete. It could mention that it returns all contacts without filtering, but the context is well covered.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

There are no parameters, so baseline is 4. The description does not add anything beyond the empty schema, but it is accurate and sufficient.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it retrieves all contacts from the contacts table, using a specific verb ('Retrieve') and resource ('contacts'). It distinguishes from sibling tools like 'update_contact' which is a mutation.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No guidance on when to use this tool vs alternatives. It is the only tool for listing contacts, but no explicit context or exclusions are provided.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_contextA

Recall relevant prior context within a token budget.

Progressive disclosure: returns more detail when budget allows.
  ≤ 500 tokens  → index only   (type + first 12 words per entry)
  ≤ 2000 tokens → preview      (type + first 40 words)
  >  2000 tokens → full         (complete content)

Combines semantic vector search (if fastembed available) with keyword
fallback, filtered to the last `days` days.

Args:
    query:        What you are looking for — natural language.
    budget_tokens: How many tokens you can spend on context (default 2000).
    agent_slug:   Restrict to a specific agent's observations (optional).
    days:         How far back to search (default 90 days).
ParametersJSON Schema
NameRequiredDescriptionDefault
queryYes
budget_tokensNo
agent_slugNo
daysNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.9/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so the description carries full burden. It discloses progressive disclosure behavior, the combination of vector search and keyword fallback, and filtering by days. It also mentions dependency on fastembed availability. This gives good insight into how the tool operates, though edge cases or failure modes are not mentioned.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is highly concise and well-structured. It starts with a one-line summary, followed by a bulleted explanation of progressive disclosure tiers, then an Args list. Every sentence adds value, and the structure front-loads the key concept. No unnecessary text.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's moderate complexity (4 parameters, output schema present), the description covers all parameters, the progressive disclosure behavior, and the search algorithm. The presence of an output schema means return values need not be detailed here. It lacks handling of empty results or errors, but overall provides sufficient context for an agent to select and invoke the tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the description includes an 'Args' section explaining each parameter in plain language (e.g., query is natural language, budget_tokens controls progressive disclosure levels, agent_slug for restriction, days for recency). This adds significant meaning beyond the schema's type/default information, effectively compensating for the schema's lack of descriptions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's function: 'Recall relevant prior context within a token budget.' It explains the progressive disclosure based on budget and the search approach. While specific, it does not explicitly differentiate from sibling tools like search_memory or surface_relevant_context, which perform similar retrieval tasks.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage when prior context is needed within a token budget, and explains the progressive disclosure tiers. However, it does not specify when not to use this tool, nor does it mention alternative tools for different scenarios (e.g., exact search, full-text search). The 'Args' section provides parameter descriptions but no explicit 'when to use' guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_course_statusA

Return the current status of a course build (or all active builds).

Args:
    slug: Course slug. Leave empty to list all active builds.

Returns:
    Status summary including current step, modules, and next action.
ParametersJSON Schema
NameRequiredDescriptionDefault
slugNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description must disclose behavior. It describes input and returns but does not explicitly state that the tool is read-only, non-destructive, or safe to call. It adds context on the return format but lacks these behavioral disclosures.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is very concise: one sentence for purpose, plus structured Args and Returns. No wasted words, front-loaded with the main purpose.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the simple tool (one optional param, output schema present), the description is fairly complete. It explains purpose, parameter, and return summary. It could mention prerequisites like requiring a course build to exist, but that is not critical.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema description coverage, the description compensates by explaining the 'slug' parameter and its default behavior (empty lists all active builds). This adds meaning beyond the schema alone, though it could be more precise about slug format.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'Return' and the resource 'current status of a course build', distinguishing between querying a specific course or all active builds. This differentiates it from siblings like 'start_course_build' and 'publish_course'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides clear guidance on when to use the tool: to get the status of a course build. It explains the default behavior when slug is empty. It does not explicitly mention when not to use or name alternatives, but the context is clear.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_daily_insightA

Retrieve a stored daily insight.

Args:
    date: Date in YYYY-MM-DD format. Empty = today.
ParametersJSON Schema
NameRequiredDescriptionDefault
dateNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.5/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It only states 'Retrieve a stored daily insight' without disclosing behavior on missing dates, idempotence, authentication needs, or side effects. This is insufficient for a tool that mutates no state but has potential error cases.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is minimal yet effective: two lines, front-loaded with purpose, and no unnecessary information. Every sentence earns its place.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple retrieval tool with one optional parameter and an output schema (not shown), the description is adequate but lacks information on what happens if no insight exists for the given date. Given low complexity, it barely meets the minimum viable standard.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The description adds value by explaining the date parameter format ('YYYY-MM-DD') and default behavior ('Empty = today'). This compensates for the lack of schema-level descriptions (schema coverage 0%). The single parameter is well-documented.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the action ('Retrieve') and the resource ('stored daily insight'). It is specific and distinguishable from the sibling tool 'generate_daily_insight' which creates insights.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No guidance is provided on when to use this tool versus alternatives, such as 'generate_daily_insight'. There is no mention of prerequisites, contexts where the tool is appropriate, or when to avoid it.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_glossaryA

Retrieve all glossary terms.

ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries full burden. 'Retrieve' implies read-only and no side effects. While it doesn't mention pagination or ordering, the tool is simple with zero parameters and an output schema, so the behavior is sufficiently disclosed.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is a single, concise sentence that is front-loaded and contains no unnecessary words. It efficiently communicates the tool's action.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (zero parameters, has output schema), the description is complete. It states the core action without needing to detail return values or additional context, as the output schema covers the return structure.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has zero parameters and description coverage is 100% (no params). The description doesn't need to add parameter information, and the baseline for zero params is 4. No additional value is required.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description 'Retrieve all glossary terms' clearly states a specific verb ('Retrieve') and resource ('all glossary terms'), and it distinguishes from the sibling 'add_glossary_term' which performs a different operation.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides no explicit when-to-use or when-not-to-use guidance. However, the tool is straightforward and the usage is implied: use it to get all glossary terms. No sibling tool overlaps with this retrieval purpose.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_ideasA

List captured ideas from your knowledge base, newest first.

Use this to review what you've been thinking about over a chosen time
window — the ideas you logged with capture_idea — so you can revisit,
connect, or act on them. Pairs with capture_idea (to add) and
cross_pollinate (to surface related work).

Args:
    scope: Time window to retrieve. One of "today", "week" (last 7 days),
        "month" (last 30 days), or "all". Defaults to "week".
    limit: Maximum number of ideas to return, newest first. Defaults to 20.

Returns:
    A formatted list of matching ideas with their timestamps and tags, or a
    friendly note if none were found in that window.
ParametersJSON Schema
NameRequiredDescriptionDefault
scopeNoweek
limitNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.8/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so description bears full burden. It describes read-only behavior, output format (list with timestamps/tags), and default sorting. Could mention pagination or absence of side effects explicitly, but current level is sufficient.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Concise: first sentence captures core function, followed by usage context, sibling references, and clear Args/Returns sections. No redundant words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given low complexity (2 params, no required, output schema exists), the description covers operation, usage context, parameter details, and return format completely. No gaps.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, but description fully explains both parameters: scope with enumerated options and defaults ('today', 'week', 'month', 'all'), limit as max count, and ordering context. This adds significant meaning beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'List captured ideas' and resource 'knowledge base', with explicit ordering ('newest first'). It distinguishes from siblings by naming complementary tools (capture_idea, cross_pollinate).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Provides explicit when-to-use: 'review what you've been thinking about over a chosen time window' and identifies alternatives ('Pairs with capture_idea... cross_pollinate').

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_journalA

List journal entries from your knowledge base, newest first.

Use this to look back over your dated journal/log entries — reflections,
progress notes, and session handoffs — optionally from a given start date.
Helpful for "what was I working on lately?" and for rebuilding context at
the start of a session.

Args:
    date_from: Earliest entry date to include, as "YYYY-MM-DD". Empty
        string (the default) applies no date filter and returns the most
        recent entries.
    limit: Maximum number of entries to return, newest first. Defaults to 10.

Returns:
    A formatted list of journal entries with their dates, or a note if none
    match.
ParametersJSON Schema
NameRequiredDescriptionDefault
date_fromNo
limitNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description bears full burden. It states entries are returned newest first and optional date filtering, but lacks explicit read-only confirmation or discussion of rate limits/auth. Adequate but not rich.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured: brief intro, usage context, parameter explanations. Every sentence adds value with no filler.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the output schema exists, the description covers purpose, usage, and parameters. Minor missing details like pagination or exact return format, but overall complete for this simple tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema description coverage, the description fully explains both parameters: date_from format and behavior, limit meaning and default. Adds significant value beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it lists journal entries, newest first, which is a specific verb+resource. It distinguishes itself from sibling tools like add_journal_entry (adds) and other list tools.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides explicit use cases: looking back over dated entries, rebuilding context. It does not explicitly say when not to use it or compare to alternatives, but the context is clear.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_library_statsA

Summarise your literature library at a glance.

Use this to see how big and how current your reference collection is before
searching or citing: it reports the total number of papers, a breakdown by
source (e.g. Zotero, Mendeley, manual) and by item type, the most recently
added references, and — if you sync Zotero — when the library was last
synced. A quick "what's in my library right now?" overview. Takes no
arguments. Pairs with search_library and sync_zotero_library.

Returns:
    A formatted summary: total papers, counts by source and item type, the
    five most recent references, and Zotero sync state if available.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description effectively conveys that the tool is a read-only query of library stats, taking no arguments and returning a formatted summary. It mentions potential dependence on Zotero sync but does not indicate any destructive actions. A slight improvement would be explicitly stating it does not modify the library.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a brief introductory sentence, usage context, and a list of return values. It is informative without excessive length, though a minor reduction in detail about return values could improve conciseness.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has no parameters and an output schema is present, the description covers all necessary aspects: purpose, usage context, what it returns, and related tools. No gaps remain for an agent to effectively select and invoke the tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The tool has zero parameters, so the baseline is 4. The description reinforces that it takes no arguments, which aligns with the empty input schema. No further parameter information is needed.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool summarizes the literature library, providing a quick overview of total papers, breakdown by source and item type, recent references, and Zotero sync state. It distinguishes itself from siblings like search_library and sync_zotero_library by focusing on summary statistics rather than searching or syncing.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly advises using this tool before searching or citing to gauge the library's size and currency. It also mentions pairing with search_library and sync_zotero_library, indicating complementary tools. While it doesn't list specific scenarios to avoid, the guidance is clear enough for appropriate usage.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_network_policyA

Return the current network access policy.

Returns 'normal' if no policy file exists (default).

ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Discloses that the tool returns 'normal' if no policy file exists, which is useful default behavior. No annotations present, so the description adequately covers the main behavioral trait.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two short sentences, immediately stating the main action and then the default. No extraneous words, front-loaded with key information.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given zero parameters and an output schema (presumably defined), the description fully covers the tool's behavior and default state. No gaps for this simple tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

No parameters exist, so schema coverage is 100%. The description adds value by explaining the return value and default behavior, exceeding the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool returns the current network access policy, distinguishing it from sibling `set_network_policy`. It specifies the return value 'normal' as default, providing precise purpose.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for viewing the policy, contrasting with the sibling tool for setting. No explicit when-not or alternatives, but the simplicity makes it clear.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_new_publicationsA

Retrieve new publications, optionally filtered by topic.

Args:
    topic: Filter by topic tag. Empty = all topics.
    limit: Maximum results (default 20).
    unread_only: If True, only return unread publications (default True).
ParametersJSON Schema
NameRequiredDescriptionDefault
topicNo
limitNo
unread_onlyNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.5/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description must fully disclose behavior. It states the tool retrieves publications but does not clarify whether the operation is read-only or if it has side effects (e.g., marking publications as read). The unread_only parameter suggests filtering, but the tool's impact on state is unclear.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is exceptionally concise with a clear purpose statement followed by a short, well-structured args list. Every sentence adds value, and there is no redundancy or unnecessary information.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the presence of an output schema, the tool does not need to explain return values. The description adequately covers the parameters and basic purpose. However, it omits details like sort order (likely by date) and potential limitations (e.g., pagination beyond limit). For a simple retrieval, it is mostly complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description must add meaning. It explains each parameter: topic filters by tag (empty means all), limit caps results with default 20, unread_only returns only unread with default True. This adds value beyond the schema, though it lacks details on valid topic values or ordering.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool retrieves new publications, optionally filtered by topic. However, it does not explicitly differentiate from sibling tools like search_literature or search_library that also retrieve publications. The term 'new' is ambiguous but partially clarified by the unread_only parameter.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies use for retrieving new publications with optional filters, but it provides no explicit guidance on when to use this tool versus alternatives (e.g., search_literature). It also does not mention any prerequisites or context for usage.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_news_briefsA

Retrieve recent news briefs from the database.

Args:
    limit: Maximum number of briefs to return (default 10).
    source_type: Filter by type — "news" for RSS items, "article" for scientific papers. Empty = all.
    domain: Filter by domain tag (e.g. "HAT", "AI", "public-health"). Empty = all.
    since: ISO date string — only return briefs created after this date. Empty = all.
ParametersJSON Schema
NameRequiredDescriptionDefault
limitNo
source_typeNo
domainNo
sinceNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so description bears full burden. It reveals retrieval of briefs with filters but does not explicitly state it is read-only, mention ordering, pagination beyond limit, or potential side effects.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two sentences with a clear intro and a bullet-style parameter list. Every sentence adds value, no fluff, front-loaded with purpose.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given 4 parameters fully documented and an output schema present, the description covers input needs comprehensively. It does not require additional context about returns.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the description provides clear semantics for all 4 parameters: limit (max number, default 10), source_type (filter values), domain (examples given), since (ISO date). This fully compensates for missing schema descriptions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description states 'Retrieve recent news briefs from the database' with a specific verb and resource, and the sibling tools (e.g., get_ideas, get_journal) are distinct, making the purpose clear and distinguishable.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Parameter details imply usage context but no explicit guidance on when to use this tool vs alternatives, no exclusions, and no mention of when not to use it.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_pdf_index_statsA

Report indexing status and coverage for your PDF knowledge bases.

Use this to check how complete your RAG (retrieval) corpus is before
relying on grounded answers: it shows, per knowledge database, the document
and chunk counts, when it was last built, a domain breakdown, and which PDFs
are still un-indexed. A quick "is my library ready to answer questions?"
health check. Pairs with index_pdf_library (to index) and
search_pdf_knowledge (to query).

Args:
    database: Slug of a single knowledge database to report on (e.g.
        "ph-background"). Empty string (the default) reports on every
        database.

Returns:
    A formatted status report covering each database's counts, last-built
    time, domain breakdown, and any un-indexed PDFs.
ParametersJSON Schema
NameRequiredDescriptionDefault
databaseNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, and the description does not disclose behavioral traits such as side effects, idempotency, or safety. Since this is a read-only report tool, the description should explicitly state it has no side effects, but it does not.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a clear purpose statement, usage context, parameter documentation, and return value explanation. It is slightly verbose but remains focused and informative.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the presence of an output schema, the description adequately explains the return value as a 'formatted status report' covering specific details. No additional information is necessary for an agent to understand what the tool returns.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the description provides a detailed explanation of the 'database' parameter, including its meaning, example value, and default behavior. This compensates for the lack of schema descriptions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'Report' and the resource 'indexing status and coverage for your PDF knowledge bases'. It distinguishes from sibling tools by naming index_pdf_library and search_pdf_knowledge as related but distinct tools, providing clear differentiation.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly states when to use: 'to check how complete your RAG corpus is before relying on grounded answers' and pairs with related tools for indexing and querying. It lacks explicit when-not-to-use guidance, but the context is clear enough.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_pending_proposalsA

List all skill improvement proposals awaiting review.

Returns proposals sorted by most recent first, with agent slug, rationale, and a diff summary (first 200 chars of proposed content).

ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description discloses sorting by most recent first, and the returned fields (agent slug, rationale, diff summary). It does not mention any safety concerns or side effects, but for a read-only list tool, this is adequate.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two sentences with no filler. The first sentence states the purpose, the second details output ordering and content. Every sentence adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given zero parameters and the presence of an output schema, the description sufficiently explains the tool's behavior and return value. No obvious gaps.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

There are no parameters, and schema coverage is 100%. The description adds no parameter info, which is appropriate; baseline 4 for zero parameters.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool lists skill improvement proposals awaiting review, with a specific verb and resource. It distinguishes from siblings like approve_proposal, reject_proposal, etc., by focusing on listing pending ones.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for viewing pending proposals before approval/rejection, but it does not explicitly state when to use it versus alternatives or provide exclusion criteria.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_project_categoriesA

Return all distinct project categories currently in use.

Lists the user-defined categories (e.g. "Article", "Grant", "Teaching")
that have been assigned to projects, so you can group projects or offer
an existing category before set_project_category invents a new one.

Takes no arguments.

Returns:
    A text line listing the distinct non-empty categories in alphabetical
    order, or a message that none are defined yet.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It discloses that the tool takes no arguments and returns a text line of categories or a message. As a read-only operation, this is sufficient behavioral transparency for a simple tool.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise and well-structured: the first sentence states the core purpose, followed by examples and a reference to the sibling tool, then parameter info and return format. No superfluous content.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description explains the return format in detail (alphabetical list or 'none defined' message) and references the sibling tool for context. Given the tool's simplicity and the presence of an output schema, this is complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The tool has zero parameters, which sets a baseline of 4. The description explicitly states 'Takes no arguments,' adding clarity beyond the empty schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description explicitly states the tool returns 'all distinct project categories currently in use' and provides examples ('Article', 'Grant', 'Teaching'). It distinguishes itself from the sibling tool 'set_project_category' by noting it helps offer existing categories before inventing new ones.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains when to use the tool (to see existing categories before using 'set_project_category') and implies it's for grouping projects. While it doesn't explicitly list when not to use it, the context is clear.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_project_statusA

Status of your registered projects.

Reads the project REGISTRY (the `projects` table — the source of truth that
the dashboard Work tab shows), not just the folders on disk, and adds task
completion counts. Empty project_id lists ALL active projects; a specific
project_id (exact or partial) shows that one, enriched from its folder card
if a `projects/active/<name>/` folder exists.

Args:
    project_id: Project id (or part of one). Empty string = all active projects.
ParametersJSON Schema
NameRequiredDescriptionDefault
project_idNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries full burden. It discloses the tool is read-only (reads registry), explains data source, and details enrichment from folder cards. It does not mention rate limits or performance, but the behavior is well covered.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise: four sentences plus an Args line. It front-loads the purpose and structure is clear with sections. No unnecessary words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has one parameter and an output schema exists, the description covers the purpose, data source, parameter semantics, and enrichment behavior. It is fully sufficient for correct agent usage.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, so description must compensate. It does so effectively with an Args section explaining project_id supports partial matching and empty string means all active projects, adding significant meaning beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool returns 'Status of your registered projects' and specifies it reads the project registry (not disk folders) and adds task completion counts. This distinguishes it clearly from filesystem-related tools like 'scan_project_folder'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains the data source (registry vs. folders) and behavior for empty vs. specific project_id, giving context for when to use. However, it does not explicitly list alternatives or state when not to use this tool.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_research_contextA

Retrieve research project context from the PKM.

Gathers information about the research structure, articles, milestones,
and methods to help with research planning and writing.

Args:
    section: What to retrieve -- "overview", "articles", "milestones", "methods".
    max_chars: Maximum characters to return for file-based sections (default 8000).
               Pass 0 for no limit.
ParametersJSON Schema
NameRequiredDescriptionDefault
sectionNooverview
max_charsNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.5/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries full burden. It implies read-only via 'Retrieve' but does not explicitly state it is non-destructive or free of side effects, which is critical for a retrieval tool.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is highly concise with a front-loaded purpose and efficient listing of arguments. Every sentence provides necessary information without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description adequately covers parameters. It lacks mention of prerequisites (e.g., an active research project) or error handling, but an output schema exists so return values are not required.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the description fully compensates: it lists valid section values (overview, articles, milestones, methods) and explains max_chars behavior (default 8000, pass 0 for no limit), adding meaning beyond the schema's type and default.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool retrieves research project context and lists components (overview, articles, milestones, methods). However, it does not explicitly differentiate from sibling tools like load_project_context or get_context, which may have overlapping functionality.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No explicit guidance on when to use this tool versus alternatives. The phrase 'to help with research planning and writing' is vague and does not provide conditions for use or exclusion.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_spansA

Fetch recent agent spans, optionally filtered by session or run.

Args:
    session_id: Filter to this session. Optional.
    run_id:     Filter to this agent_runs.run_id. Optional.
    limit:      Max rows to return. Default: 50.

Returns a JSON array of span objects.
ParametersJSON Schema
NameRequiredDescriptionDefault
session_idNo
run_idNo
limitNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries the full burden. It states 'Fetch' and returns a JSON array, implying a read-only operation, but does not explicitly confirm non-destructiveness or mention permissions, rate limits, or pagination behavior.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise (4 lines for args, 1 line for return), well-structured with an Args section, and contains no fluff. Every sentence is necessary.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given that an output schema exists (so return values are documented externally), the description's note about 'JSON array of span objects' suffices. However, it could briefly mention span attributes for agent understanding.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Since schema coverage is 0%, the description compensates by explaining each parameter (session_id, run_id, limit) with defaults and role. This adds meaning beyond the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Fetch recent agent spans' with specific filter options (session, run). This distinguishes it from sibling tools like log_span (creation) and start_span/end_span (lifecycle).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for retrieving spans, but does not explicitly state when to use this tool instead of alternatives like search_session_memory or get_agent_runs. No when-not-to-use guidance is given.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_tasksA

Query tasks from the SQLite database with optional filters.

Args:
    status: Filter by status -- "open", "done", "blocked", or "" for all.
    project_id: Filter by project. Empty = all projects.
    owner: Filter by owner. Empty = all owners.
    limit: Maximum results (default 25).
ParametersJSON Schema
NameRequiredDescriptionDefault
statusNoopen
project_idNo
ownerNo
limitNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries full burden. It discloses the database source and filtering behavior but does not explicitly state it is a read-only operation or discuss default parameter behavior (e.g., default status='open' is only in schema, not description).

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, front-loads the purpose, and uses a clean bullet-style list for parameters. Every sentence is informative and no unnecessary text is present.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the presence of an output schema, the description does not need to explain return values. It covers the key aspects: source, filters, and limit. It could mention default behavior explicitly but is otherwise complete for a simple query tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, and the description compensates by explaining each parameter's meaning and allowed values (e.g., status: 'open', 'done', 'blocked', or ''). This adds significant value beyond the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Query tasks from the SQLite database with optional filters,' specifying the verb (query), resource (tasks), and source (SQLite database), which distinguishes it from sibling tools like create_task or delete_task.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description outlines filter parameters but does not explicitly state when to use this tool versus alternatives or provide exclusion criteria. Usage is implied through the parameter list, but no explicit guidance is given.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_thinking_profileA

Read and return the current thinking profile from system/thinking-profile.yaml.

Falls back to default structure if the file does not exist.

ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so the description carries full burden. It discloses fallback to default structure when the file is missing, which adds transparency. However, it does not explicitly state that the operation is read-only or non-destructive, though that is implied by 'Read and return'.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two short, front-loaded sentences with no waste. The main action is stated first, followed by a concise fallback note. Every sentence earns its place.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (no parameters, output schema exists), the description is complete. It explains what it does, the source file, and the fallback behavior. No gaps remain for an agent to understand usage.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has zero parameters, and the description adds no parameter information because none is needed. Schema description coverage is 100%, so the description meets the baseline effortlessly.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'Read and return' and the specific resource 'current thinking profile from system/thinking-profile.yaml'. It includes a fallback behavior, making the purpose unambiguous and distinct from sibling tools like update_thinking_profile or reset_thinking_profile.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description mentions fallback behavior but does not provide explicit guidance on when to use this tool versus siblings (e.g., update_thinking_profile, reset_thinking_profile). No alternatives are named or excluded, leaving some ambiguity for the agent.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_topic_memoryA

Return all memory entries tagged with a specific topic, newest first.

Args:
    topic: Topic tag to filter by (e.g. "metis-setup", "phd-research").
ParametersJSON Schema
NameRequiredDescriptionDefault
topicYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It discloses that results are returned in newest-first order, which is a behavioral trait. However, it does not mention other relevant behaviors such as whether the tool returns an empty list if no topic matches, any rate limits, or authentication requirements. The description is adequate but could be more transparent.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is extremely concise: one line stating the purpose and one line for the parameter with an example. No wasted words. The purpose is front-loaded immediately, allowing the agent to quickly understand the tool's function.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The tool has one parameter, an output schema exists (so return format is covered elsewhere), and the description succinctly covers what the tool does and how to use the parameter. It is complete for a simple read-only retrieval tool. Some may argue it could mention that it filters from memory entries, but that is implicit.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description must compensate. It explains the 'topic' parameter as 'Topic tag to filter by' and provides concrete examples ('metis-setup', 'phd-research'), adding meaning beyond the schema's simple type definition. This helps the agent understand what values to supply. It does not list all possible values, but given no enums, it is sufficiently informative.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Return all memory entries tagged with a specific topic, newest first.' This specifies the verb ('return'), the resource ('memory entries tagged with a topic'), and the ordering ('newest first'), distinguishing it from siblings like search_memory (which likely does full-text search) or list_recent_memory (which may not filter by topic).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides a usage example (e.g., 'metis-setup', 'phd-research') and implies when to use this tool: when you need to retrieve memory entries filtered by a specific topic tag. However, it does not explicitly state when not to use it or mention alternatives, though these are implied by sibling tool names.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_user_configA

Return the full Metis user configuration from user-config.yaml.

Returns the complete YAML content (research interests, data sensitivity,
specialist contexts, etc.). For a lightweight profile summary (name,
interests, news_topics), use get_user_profile() instead.
Creates the config file with defaults if it does not exist yet.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.7/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so description carries full burden. Discloses that it creates default config if missing—a non-obvious side effect. Lacks discussion of authorization or other constraints, but side effect is well communicated.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Three sentences, each earning its place: main purpose, return content details, alternative tool, and side effect. Front-loaded and no waste.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

With output schema present and zero parameters, the description fully covers the tool's purpose, side effect, and alternative. No gaps remain.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

No parameters in schema (0 params, 100% coverage). Baseline 4 applies. Description adds no parameter info because none exist, which is appropriate.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Clearly states the verb 'Return' and resource 'full Metis user configuration from user-config.yaml'. Distinguishes from sibling get_user_profile by specifying scope (full config vs lightweight profile). Lists example contents.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly provides alternative tool (get_user_profile) for lightweight profile, indicating when not to use this tool. Also notes side effect of creating config if missing.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_user_profileA

Return the user's identity, interests, and active model preference.

Call this at the start of any personalised run to understand the user's
topics and news signals to prioritise.

Returns JSON with:
- display_name: user's display name (set via /metis_config)
- role: professional role (e.g. "Senior researcher")
- interests: list of research interest tags (e.g. ["your research area", "a method you use"])
- news_topics: list of news monitoring topics (e.g. ["a topic you follow", "AI in your field"])
- active_model: current default model slug (haiku / sonnet / opus)

Usage pattern:
  profile = json.loads((await get_user_profile())[0].text)
  interests = profile['interests']   # → ["your research area", "a method you use"]
  news_topics = profile['news_topics']  # → ["a topic you follow", "AI in your field"]
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.7/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so description carries full burden. It discloses the return format (JSON with specific fields) and implies no side effects. Lacks mention of potential errors or authorization, but for a simple read it is sufficient.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Extremely concise: one sentence for purpose, one for when to use, then a structured list of return fields, and a compact usage example. Every sentence adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (0 params, output schema exists), the description fully covers what an agent needs: purpose, invocation timing, return structure, and parsing pattern. No gaps.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

No parameters; schema coverage is 100% (empty schema). Baseline score of 4 is appropriate since description adds no param info, but none is needed.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool returns user identity, interests, and active model preference. It distinguishes itself from siblings by being a dedicated profile getter, and provides explicit field names.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Directly advises to call at the start of any personalised run, which is a clear usage scenario. Also includes a code pattern showing how to parse the result, aiding proper invocation.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_user_topicsA

Return all active topics from user_topics.

ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.5/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Without annotations, the description must disclose behavioral traits. It mentions 'active topics' but does not explain what 'active' means, whether pagination exists, or if any filtering is applied beyond the default.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is a single concise sentence that communicates the essential purpose without unnecessary words. It is front-loaded and efficient.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has no parameters and a likely rich output schema (not shown), the description is minimally complete. However, it lacks context about what constitutes 'active' and does not mention any constraints like maximum results, which would improve completeness.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The tool has zero parameters and the schema coverage is 100%. With no parameters, the description does not need to add param semantics; a baseline of 4 is appropriate.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool returns all active topics from user_topics, specifying the verb 'return' and the resource 'active topics from user_topics'. This distinguishes it from sibling tools like add_user_topic or get_topic_memory.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No guidance is provided on when to use this tool versus alternatives. Given many sibling tools, such as get_topic_memory, the description should indicate use cases or exclusions.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

get_working_memoryA

Retrieve working memory for a session, or the most recent entries if no session given.

Args:
    session_id: Pipeline session ID. Leave empty to get the 20 most recent entries
                across all sessions.
ParametersJSON Schema
NameRequiredDescriptionDefault
session_idNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description must disclose behavioral traits. It notes the read-only nature ('Retrieve') and the limit of 20 entries when no session is given, but lacks details on output format, permissions, or side effects.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is extremely concise with no unnecessary words. It front-loads the purpose and efficiently explains the parameter in a separate line.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity and the existence of an output schema, the description covers the core functionality adequately. It could mention the output type, but the output schema likely fills that gap.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, but the description explains the parameter's purpose and behavior ('Pipeline session ID. Leave empty to get the 20 most recent entries across all sessions.'), adding significant value beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Retrieve working memory for a session' with a specific verb and resource. It distinguishes two use cases (with and without session_id), setting it apart from siblings like 'set_working_memory' and 'search_session_memory'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implicitly guides when to use: provide session_id for a specific session or leave empty for recent entries. However, it does not explicitly mention when not to use or compare to alternatives.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

import_bibtex_libraryA

Import papers from a BibTeX file into literature_metadata.

Use this for Mendeley users: export your library from Mendeley as BibTeX,
then point this tool at the file.

Args:
    bibtex_path: Full path to the .bib file (e.g. from Mendeley export).
ParametersJSON Schema
NameRequiredDescriptionDefault
bibtex_pathYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.8/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description must fully disclose behavior. It indicates a write operation ('import') but does not detail side effects (e.g., duplicate handling, overwrite policy), authentication requirements, error conditions, or return value structure. This lack of detail reduces transparency for a mutation tool.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, with two sentences plus an argument description. It front-loads the purpose. However, it could be slightly more structured (e.g., separate sections for usage and args). Still, it avoids verbosity and is efficient.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple parameter tool, the description covers the main purpose and usage scenario. However, with no annotations and an existing output schema (which it does not reference), it lacks information about expected output, error handling, and prerequisites (e.g., file existence, format). It is adequate but not thorough.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has 0% description coverage for the parameter, but the description adds meaningful context: 'Full path to the .bib file (e.g. from Mendeley export).' This clarifies that a full path is expected and provides an example usage, which goes beyond the schema's mere name 'Bibtex Path'.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description states the tool's action ('Import papers from a BibTeX file') and the target ('into literature_metadata'). The verb is specific ('Import') and the resource is clearly identified. Among sibling tools, none duplicate this function, so it distinguishes well.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides a concrete use case: 'Use this for Mendeley users: export your library from Mendeley as BibTeX, then point this tool at the file.' This guides when to use it. However, it does not mention alternatives or explicitly state when not to use it, so it is not a full 5.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

index_library_pdfsA

Build or rebuild a PaperQA2 index over the user's PDF library.

Walks knowledge/library/ (all subdirectories), collects PDFs, and indexes
them with PaperQA2 + Claude Haiku. The index is persisted so that
ask_library() can query it without re-reading every PDF.

Run once after adding new papers, or with force_reindex=True to rebuild.

Args:
    force_reindex: Rebuild from scratch even if an index already exists.
    topic_filter: If given, only index PDFs whose parent folder name
                  contains this string (e.g. "NTD", "Epidemiology", "Methods").
    scope: Which library to index. "default" = knowledge/library/ (all PDFs).
           "ph_library" = knowledge/library/ph-background/ (public health background).
ParametersJSON Schema
NameRequiredDescriptionDefault
force_reindexNo
topic_filterNo
scopeNodefault

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.1/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Without annotations, the description explains the indexing process and persistence, but does not disclose potential side effects like long runtime, disk usage, or permission requirements.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, front-loaded with the main purpose, and uses a clear structure with separate paragraphs for the overview and parameter details. Every sentence adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description covers the tool's operation, parameters, and relationship to ask_library(), but does not describe the return value or potential errors. The output schema likely fills this gap.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The description includes an 'Args' section that thoroughly explains all three parameters (force_reindex, topic_filter, scope) with concrete examples, fully compensating for the 0% schema coverage.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool builds or rebuilds a PaperQA2 index over PDFs, specifying the resource and action. However, it does not differentiate itself from the sibling tool 'index_pdf_library', which may have similar functionality.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides when to use the tool (after adding papers, with force_reindex) and explains scope and topic_filter options. It does not mention alternative tools or exclusions, but context is clear.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

index_pdf_libraryA

Extract and index full text from all PDFs in the Metis library.

Reads PDFs from inputs/literature/ and Zotero storage.
Stores first 4000 characters per paper in library_fulltext table.
Also updates literature_metadata.abstract for any matched papers.
Incremental — only processes files not yet indexed.

Args:
    scope: "literature" = inputs/literature/ only | "zotero" = Zotero storage only | "all" = both
ParametersJSON Schema
NameRequiredDescriptionDefault
scopeNoall

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries the full burden. It discloses that the tool reads PDFs, stores only the first 4000 characters, updates the abstract, and is incremental (only processes unindexed files). This covers key behavioral traits without contradictions.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise (four sentences plus an args list) and front-loaded with the main action. It is efficient but could be slightly tighter; nonetheless, it earns its keep.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (one parameter, no annotations, output schema exists), the description covers sources, storage location, incremental behavior, and scope. It does not need to explain return values due to output schema. Missing mention of performance or limitations, but overall adequate.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The schema has 0% coverage (no descriptions for parameters). The description compensates by explaining the 'scope' parameter values: 'literature', 'zotero', and 'all', with clear mappings. This adds significant meaning beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's action: 'Extract and index full text from all PDFs in the Metis library.' It specifies sources (inputs/literature/ and Zotero storage) and what is stored (first 4000 characters, updates abstract). This distinguishes it from siblings like 'search_literature' or 'scan_literature'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides context on when to use: for incremental indexing of PDFs, with scope options. It does not explicitly state when not to use or mention alternatives, but the purpose is clear enough for an agent to decide.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

ingest_ideas_documentB

Import an ideas document (Word/text/markdown) and capture each idea.

Reads the file, splits it into discrete items (paragraphs, bullet points,
or numbered items), and calls capture_idea() for each non-empty item.
Supports .txt, .md, and .docx files.

Args:
    file_path: Absolute or METIS_RC_ROOT-relative path to the ideas file.
ParametersJSON Schema
NameRequiredDescriptionDefault
file_pathYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

B3.4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries the full burden of behavioral disclosure. It explains the internal process (splitting into items, calling 'capture_idea') and implies that it is a write operation (creating ideas). However, it does not discuss potential side effects like duplicate detection, error handling for malformed files, or rate limits when calling the nested tool. This is adequate but not comprehensive.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is efficient with 5 concise sentences. The first sentence immediately states the primary purpose. The subsequent sentences provide necessary detail without redundancy. It could potentially be tightened, but overall it is well-structured and not verbose.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a single-parameter tool with an output schema (not shown but indicated), the description adequately covers what the tool does, how it works, and the parameter. It mentions the internal call to 'capture_idea', which gives context. Minor gaps like idempotency or error states are acceptable given the tool's simplicity.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The schema has 0% description coverage on 'file_path', but the description compensates by explaining that it should be an absolute or METIS_RC_ROOT-relative path. It also lists supported file formats (.txt, .md, .docx). This adds meaningful context beyond the raw schema, helping the agent format the parameter correctly.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's function: 'Import an ideas document... and capture each idea.' It specifies the resource (ideas document) and action (import and capture). It also details the process (reads file, splits into items, calls capture_idea). However, it does not explicitly differentiate this tool from siblings like 'capture_idea' or other scan tools, which slightly reduces clarity.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description does not provide guidance on when to use this tool versus alternatives. It mentions that it calls 'capture_idea' internally, but does not explain, for example, when a user should choose this over direct use of 'capture_idea' or other import tools. No mention of prerequisites or exclusions.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

kg_communityA

Return the connected cluster around a given knowledge library note.

Performs BFS flood-fill from the given note up to `depth` hops,
returning all reachable notes grouped by distance. Useful for surfacing
related concepts when working on a specific topic.

Args:
    note_path: Relative path from knowledge/library/ (e.g. 'disease-areas/[condition].md')
    depth:     Maximum hop distance to explore (default 2).
ParametersJSON Schema
NameRequiredDescriptionDefault
note_pathYes
depthNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Describes the BFS algorithm and output grouping by distance. No annotations present, so burden is on description. It implies read-only operation but doesn't explicitly confirm non-destructive behavior or mention permissions.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Every sentence serves a purpose: purpose, algorithm, use case, and parameter details. No redundant information, front-loaded.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Covers purpose, algorithm, usage context, parameter format, and output structure (grouped by distance). With output schema present, return value details are not needed. No gaps identified.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema has 0% description coverage; the description compensates fully with clear parameter definitions, including a concrete example for note_path and value ranges for depth.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool returns the connected cluster around a note using BFS flood-fill. It distinguishes from sibling tools like kg_paths by focusing on community detection rather than path finding.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Provides context for when to use the tool ('useful for surfacing related concepts when working on a specific topic') but does not explicitly exclude other scenarios or mention alternatives like kg_paths.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

kg_pathsA

Find connection paths between two knowledge library notes via BFS.

Args:
    from_path: Relative path from knowledge/library/ (e.g. 'concepts/elimination-framework.md')
    to_path:   Target note path.
    max_hops:  Maximum path length (default 4).

Returns all paths found up to max_hops, ranked by length.
ParametersJSON Schema
NameRequiredDescriptionDefault
from_pathYes
to_pathYes
max_hopsNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries full burden. It specifies BFS algorithm, max_hops constraint, and return format. Although it doesn't explicitly state read-only nature, the 'find' verb implies it. No contradictions.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is very concise: a single sentence stating purpose, followed by a clean Args list. Every part is necessary and front-loaded.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the moderate complexity of graph pathfinding and the presence of an output schema to document return values, the description adequately covers input parameters, algorithm, and return format (paths ranked by length). No gaps.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, so description must compensate. It provides clear, meaningful descriptions for each parameter, including an example path and default value for max_hops, adding significant value beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool finds connection paths between two notes via BFS, specifying the resource ('knowledge library notes') and the algorithm. This distinguishes it from ambiguous siblings like 'find_connections'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains the parameters but provides no explicit guidance on when to use this tool versus alternatives. It does not mention exclusions or when not to use it.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

list_backupsA

List all backup files with size, age, and checksum availability.

Args:
    backup_dir: Directory to scan. Defaults to metis/system/backups/.

Returns JSON array, newest first.
ParametersJSON Schema
NameRequiredDescriptionDefault
backup_dirNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

The description discloses the return format (JSON array) and sorting, and implies a read-only operation. No annotations exist, so the description adequately covers behavior without contradictions.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two sentences plus an arg line: no wasted words, front-loaded with verb and resource, every sentence adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

With one parameter and an output schema (presumably covering structure), the description is sufficient for a list tool. It explains purpose, parameter, and return format, though details about JSON structure are left to the schema.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The schema has 0% coverage, but the description adds a clear explanation of the backup_dir parameter and its default value, which the schema alone lacks.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool lists backup files with specific attributes (size, age, checksum availability), making it distinct from siblings like backup_db or verify_backup.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description specifies the default directory and sort order (newest first) but does not explicitly state when to use this tool over alternatives or mention any exclusions.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

list_basketA

List files in the Metis basket (legacy & inspiration documents).

The basket is a flat holding area for any document kept as a reference for future work. The private/ subfolder is NEVER listed — it contains personal or patient data.

ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.8/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries the full burden. It discloses that the private/ subfolder is never listed, which is a key behavioral trait. However, it does not mention other aspects like sorting, pagination, or whether all files are returned, leaving some behavioral gaps.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is two sentences long, front-loaded with the main action, and every sentence adds value. It is clear and concise with no unnecessary words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has no parameters and an output schema exists, the description adequately covers the nature of the basket and the privacy exclusion. It could briefly mention the return format but the output schema covers that.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The tool has zero parameters, so the baseline is 4. The description adds context about the basket's purpose and the exclusion of private data, which is valuable beyond the empty schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it lists files in the Metis basket, specifying the type of documents (legacy & inspiration). It distinguishes from sibling tools like list_folder by naming the specific container and noting the exclusion of the private/ subfolder, which is unique to this tool.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides no guidance on when to use this tool versus alternatives like list_folder or list_backups. It only states what it does and a caveat about privacy but lacks explicit when-to-use or when-not-to-use information.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

list_brainstorm_sessionsA

List recent brainstorm sessions with title, turn count, and status.

Args:
    limit: Maximum sessions to return (default 20).
ParametersJSON Schema
NameRequiredDescriptionDefault
limitNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description bears full burden. It states the output includes title, turn count, and status, and implies recency ordering, but does not specify read-only behavior, sorting criteria, or whether all sessions are included. The presence of an output schema reduces the need for format details, but behavioral traits beyond the schema are under-disclosed.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is extremely concise: two sentences, no fluff. The first sentence front-loads the purpose, and the second explains the parameter. Every word contributes value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple list tool with one parameter and an existing output schema, the description is nearly complete. It covers the parameter and basic output fields. However, it could enhance completeness by mentioning the ordering (e.g., 'by last modified date') or noting that it excludes archived sessions.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The single parameter 'limit' has no schema description (0% coverage), but the description adds meaningful semantics: 'Maximum sessions to return (default 20).' This fully compensates for the schema gap and clarifies the parameter's purpose and default value.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool lists recent brainstorm sessions and enumerates the fields returned (title, turn count, status). The verb 'list' combined with the resource 'recent brainstorm sessions' is specific and distinct from sibling tools like get_brainstorm_session.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for listing recent sessions but provides no explicit guidance on when to use this tool versus alternatives (e.g., list_recent_sessions, get_brainstorm_session). With many sibling tools, the lack of exclusions or context leaves ambiguity.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

list_contextsA

List all user contexts (general + specialist) with active status.

ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.7/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries the full burden. It only states the tool lists contexts with active status but does not disclose any behavioral traits like idempotency, cost, rate limits, or safety (e.g., it is read-only).

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is a single sentence with no wasted words. It is concise and to the point.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given that an output schema exists and the tool is simple with no parameters, the description is largely complete. However, it could enhance completeness by clarifying what 'contexts' are and the meaning of 'active status', or by noting any ordering or limits.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has zero parameters, so schema coverage is effectively 100%. There is no need for the description to add parameter meaning; the baseline for zero-parameter tools is 4, and the description meets this without requiring additional explanation.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool lists all user contexts, including general and specialist, with their active status. This distinguishes it from siblings like get_context (retrieves a specific context) and add_specialist_context (creates a context).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides no guidance on when to use this tool instead of alternatives such as get_context or toggle_context. It lacks explicit when-to-use or when-not-to-use instructions.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

list_folderA

List files in a folder.

Args:
    folder_path: Absolute path to the folder.
    pattern: Glob pattern to filter files (e.g. "*.R", "*.md"). Default: all files.
ParametersJSON Schema
NameRequiredDescriptionDefault
folder_pathYes
patternNo*

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.9/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries full burden. It does not disclose whether listing is recursive, error behaviors, or permission requirements. This is a significant gap for a file-listing tool.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two sentences with a structured Args section. Every word earns its place. No redundancy or verbosity.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

An output schema exists, so return values are covered. However, missing details like recursion depth or performance considerations slightly lower completeness. Still, adequate for a simple tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Since schema_description_coverage is 0%, the description adds critical meaning: folder_path is described as 'Absolute path' and pattern as 'Glob pattern to filter files'. This fully compensates for the schema's lack of descriptions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'List files in a folder' with a specific verb and resource. The parameters (folder_path, pattern) further clarify the action. This distinguishes it from sibling tools like search_notes or scan_folder_for_intent.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No explicit guidance on when to use this tool versus alternatives (e.g., search_fulltext). The context of listing files vs. searching is implied but not stated. A score of 3 reflects adequate but missing explicit usage context.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

list_generated_imagesA

List recently generated images in the PKM.

Reads from {pkm_root}/outputs/images/ directory.
Returns filename, date, and prompt (from JSON sidecar if present).

Args:
    limit: Maximum number of images to return (default 20, newest first).
ParametersJSON Schema
NameRequiredDescriptionDefault
limitNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description discloses it reads from a specific directory and returns filename, date, and prompt. It is a read-only operation, but could mention any potential side effects or permissions, though for a list tool this is sufficient.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is extremely concise, with a clear purpose sentence followed by a directory note, return fields, and an args list. Every sentence adds value, and the format is easy to parse.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the existence of an output schema (implied by context), the description's mention of return fields is sufficient. It also specifies ordering (newest first). Could mention edge cases like an empty directory, but overall complete for a simple list tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The description adds full meaning to the only parameter 'limit', explaining it controls the maximum number of images returned (default 20, newest first). This is valuable beyond the schema which only has type and default.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'list' and resource 'generated images in the PKM', and specifies the directory path and return fields. It distinguishes itself from siblings like 'generate_image' (creation) and 'list_folder' (generic listing).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for viewing recently generated images, and the context of siblings makes it clear when to use. However, it does not explicitly state when not to use or mention alternatives, leaving some room for improvement.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

list_knowledge_databasesA

List all knowledge databases (layers) registered in Metis.

Shows built-in databases (PH background, HAT specialist, Epi methods) and any custom databases the user has created. Reports layer, document count, chunk count, and last build date.

ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.7/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so the description fully shoulders transparency. It discloses the read-only nature and details what information is returned (layer, document count, chunk count, last build date), leaving no ambiguity.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two tightly written sentences contain all necessary information. The first sentence states the purpose, and the second enriches the output details. No superfluous content.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given zero parameters and the presence of an output schema, the description covers all needed context: what the tool lists and what fields are reported. It is fully adequate.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

There are no parameters, and schema coverage is trivially 100%. Per guidelines, a 0-parameter tool receives a baseline of 4. The description adds no parameter info, but none is needed.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description specifies the exact action: 'List all knowledge databases (layers) registered in Metis.' It distinguishes this tool from siblings like 'create_knowledge_database' by focusing on listing existing databases.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Though no explicit 'when-to-use' or alternatives are given, the purpose is self-evident for a parameterless list tool. The description clearly states the scope (all databases, built-in and custom), making usage obvious.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

list_recent_memoryA

Return the n most recent memory entries (default 10).

Useful at the start of a session to recall what was last worked on.

Args:
    n: Number of entries to return (default 10).
ParametersJSON Schema
NameRequiredDescriptionDefault
nNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.6/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so description carries full burden. It states the basic function but omits details like ordering (ascending/descending?), what constitutes 'recent', scope (all memory types?), or side effects. Minimal disclosure for a tool that likely reads data.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Extremely concise: two sentences plus a parameter description. No wasted words, front-loaded with the core action.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Has output schema, so return values need not be detailed. However, the description doesn't specify the format of memory entries (text, metadata, etc.) or any constraints, which could leave an agent uncertain. Adequate but not fully complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, so description must add meaning. It explains parameter 'n' as 'Number of entries to return (default 10)', which goes beyond the schema's type and default. Clear and helpful.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

States it returns the n most recent memory entries with a default of 10, which is clear and specific. However, doesn't explicitly distinguish from siblings like search_memory or get_working_memory, but the name and description imply a distinct list operation.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Provides a concrete use case: 'Useful at the start of a session to recall what was last worked on.' This gives clear context, but does not mention when not to use or alternatives.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

list_recent_sessionsA

List the most recent session summaries, newest first.

Returns the rolling history of saved session summaries so you can pick up
where a previous conversation left off or review recent decisions and
topics. Each entry carries its summary, key topics, and decisions.
Complements search_session_memory (keyword search) and
save_session_summary (which writes these rows).

Args:
    limit: Maximum number of summaries to return, most recent first
        (default 20).

Returns:
    A list of session-summary dicts (id, session_id, summary, key_topics,
    decisions, created_at); a single-item list with an "error" key on failure.
ParametersJSON Schema
NameRequiredDescriptionDefault
limitNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries full burden. It discloses the return format (list of dicts with specific fields), ordering ('newest first'), and error behavior ('error' key on failure). No side effects or safety concerns are mentioned, which is acceptable for a read-only list operation.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise: the main action is in the first sentence, with additional context in a few short sentences. It clearly separates Args and Returns sections. No unnecessary words or redundancies.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple read-only tool with one optional parameter, the description covers purpose, usage context, parameter explanation, return structure, and sibling relationships. It is self-contained and sufficient for an agent to correctly invoke the tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The only parameter 'limit' is described as 'Maximum number of summaries to return, most recent first (default 20).' The schema only provides type and default, so the description adds meaningful semantics and usage context, adequately compensating for the schema's lack of property descriptions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool lists the most recent session summaries in newest-first order. It explicitly distinguishes itself from sibling tools by naming search_session_memory (keyword search) and save_session_summary (write), making its unique role unambiguous.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains when to use the tool ('pick up where a previous conversation left off' or 'review recent decisions and topics') and how it complements related tools. It does not explicitly state when not to use it, but the context is clear enough.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

list_research_entitiesA

List all entities in the research timeline with their claim count and last update.

Use this to get an overview of what topics have tracked beliefs, before
drilling into a specific entity with query_research_timeline().
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It discloses the returned data fields but does not confirm read-only status or any potential side effects. It is straightforward but lacks extra behavioral context.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two sentences: the first defines the tool's action, the second provides usage guidance. No unnecessary words, excellent efficiency.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given zero parameters and the existence of an output schema (not shown but present), the description covers the essential information—listing entities with claim count and last update. It is complete for its intended overview purpose.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has zero parameters and 100% description coverage (vacuously). The description adds no parameter info, which is appropriate since there are none. Baseline of 4 applies.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'list', the resource 'entities in the research timeline', and includes what information is provided ('claim count and last update'). It also implicitly distinguishes from sibling tool 'query_research_timeline' by suggesting using this before drilling into a specific entity.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly recommends using this tool to get an overview before drilling with 'query_research_timeline()', providing clear context for when to use it. No explicit when-not-to, but the guidance is sufficient.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

list_supported_formatsA

List supported dataset formats and installed library versions.

Returns a JSON object with supported extensions, read/write capabilities, and the versions of pandas, openpyxl, and pyreadstat installed.

ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

The description discloses the return format (JSON with extensions, read/write capabilities, library versions). No annotations exist, but the description is sufficient for a read-only, no-side-effect tool.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, consisting of two sentences. The first sentence states the purpose, and the second provides key output details. No unnecessary words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description is complete for a no-parameter tool. It covers the output sufficiently, and the presence of an output schema further reinforces completeness.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The tool has zero parameters, and the description adds value by detailing the output structure. According to guidelines, baseline is 4, and the description goes beyond by specifying the exact information returned.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool lists supported dataset formats and installed library versions, using a specific verb and resource. It distinguishes from siblings, as no other sibling tool has a similar purpose.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description does not explicitly provide when to use or when not to use the tool. However, the purpose is self-evident for checking supported formats, but it lacks explicit guidance on alternatives.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

load_project_contextA

Load the full context block for a project — ready to paste into Claude.

Returns the project's context_doc, recent session history, and next step
formatted as a structured brief. Use this at the start of any work session
on a specific project so Claude has full background.

Args:
    project_id: The project slug (e.g. "hat-dashboard", "article-1").
ParametersJSON Schema
NameRequiredDescriptionDefault
project_idYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description must carry the full burden. It describes the tool as loading and returning a context block, implying a read operation, but does not explicitly state it has no side effects or require permissions. Adequate but not thorough.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is two short paragraphs plus an args line—no fluff. Every sentence adds value, and the structure is front-loaded with the core purpose.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given low schema coverage and no annotations, the description explains the return value (structured brief with three components) and usage context. The presence of an output schema reduces the need to detail return format. Nearly complete for this simple tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has a single parameter with no description (0% coverage). The description adds meaningful context by providing an example ('e.g. "hat-dashboard", "article-1"') and clarifying it is a 'project slug', which goes beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description uses a specific verb 'Load' and resource 'full context block for a project'. It explicitly states what it returns (context_doc, recent session history, next step formatted as a structured brief), clearly distinguishing it from siblings like get_context or get_project_status.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description advises using it 'at the start of any work session on a specific project so Claude has full background.' This provides clear context for when to use the tool, though it does not explicitly mention alternatives or when not to use it.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

log_agent_runA

Log a completed agent run to the database for audit and dashboard tracking.

Records that an agent did a piece of work so it appears in the dashboard's
Agents view and in get_agent_runs. Call it after writing an output file, per
the output contract. When a session_id is supplied it also writes a "result"
event to session_events, closing the loop for /metis pipeline calls.

Args:
    agent_slug: Slug of the agent that performed the work (e.g. "librarian").
    task_summary: Brief description of what the agent did.
    input_path: Path to the input file(s), if any (default empty string).
    output_path: Path to the output file(s) produced, if any (default empty).
    complexity: The run status stored in the `status` column — typically
        "completed", "partial", or "failed" (default "standard").
    input_tokens: Input tokens consumed, for cost tracking (default 0).
    output_tokens: Output tokens produced, for cost tracking (default 0).
    model: Model identifier used, e.g. "claude-sonnet-4-6" (default empty).
    session_id: Pipeline session ID from session_bootstrap(); when set, also
        records a result event in session_events (default empty string).

Returns:
    A confirmation message naming the agent and task that were logged.
ParametersJSON Schema
NameRequiredDescriptionDefault
agent_slugYes
task_summaryYes
input_pathNo
output_pathNo
complexityNostandard
input_tokensNo
output_tokensNo
modelNo
session_idNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so the description carries full burden. It discloses that the tool writes to the database for audit/dashboard, can write to session_events, and returns a confirmation message. It does not mention authorization or rate limits, but overall it transparently describes the tool's behavior.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a one-sentence summary, contextual explanation, and parameter list. It is somewhat verbose due to the parameter docstrings, but it remains clear and front-loaded. Minor reduction in verbosity could improve conciseness.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given 9 parameters, no schema coverage, and an existing output schema, the description explains all parameter semantics, return value, and side effects. It covers prerequisites (session_bootstrap for session_id) and dual behavior. It lacks error handling or edge cases, but for a logging tool, it is fairly complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description provides all parameter semantics. It gives detailed explanations for each of the 9 parameters, including types, defaults, and clarifications (e.g., 'complexity' maps to status column). This adds significant value beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool logs a completed agent run for audit and dashboard tracking. It specifies the action ('log'), the resource ('agent run'), and the purpose. It distinguishes from siblings like get_agent_runs (retrieval) and session_bootstrap (initialization) by explaining when to call it and the effect on session_events.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly says 'Call it after writing an output file, per the output contract.' It also explains when session_id is supplied, it writes a result event. This provides clear context for use, though it does not explicitly mention when not to use the tool.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

log_spanA

Record a completed span in one call (no separate start/end needed).

Useful for logging retrospective timing data (e.g. 'that DB query took 42ms').

Args:
    name:        Span label.
    duration_ms: How long the work took in milliseconds.
    kind:        'internal' | 'tool' | 'agent' | 'llm'. Default: 'internal'.
    session_id:  Session identifier. Optional.
    run_id:      FK to agent_runs. Optional.
    parent_id:   Parent span_id. Optional.
    status:      'ok' | 'error'. Default: 'ok'.
    tags:        JSON string of metadata. Optional.

Returns the new span_id.
ParametersJSON Schema
NameRequiredDescriptionDefault
nameYes
duration_msYes
kindNointernal
session_idNo
run_idNo
parent_idNo
statusNook
tagsNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It discloses that the tool records a span and returns a span_id, but does not discuss side effects, idempotency, permissions, or error behavior. This is adequate but not rich.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a clear header, usage example, and parameter list. It is appropriately sized for 8 parameters, though slightly verbose with the example. Every sentence adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (logging a span with 8 parameters, mostly optional), the description covers the core functionality and return value. However, it lacks information about error handling, duplicate detection, or authentication requirements, leaving minor gaps.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Although the input schema lacks descriptions (0% coverage), the tool description includes a detailed Args section explaining each parameter (name, duration_ms, kind, etc.). This adds significant meaning beyond the schema, compensating well for the schema gap.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool records a completed span in one call, distinguishing it from sibling tools like start_span and end_span. It uses a specific verb (Record) and resource (completed span), and provides an example of retrospective timing data.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly states when to use the tool ('for logging retrospective timing data') and contrasts it with needing separate start/end calls, implying when not to use it. However, it does not explicitly name alternative tools or provide exclusionary guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

mark_publications_readA

Mark new publications as read by their IDs.

Clears items from the "new publications" queue once the user has seen them,
stamping each with a read time so they stop resurfacing. Use the IDs
returned by get_new_publications.

Args:
    ids: List of new_publications row IDs to mark as read; an empty list is
        a no-op.

Returns:
    A confirmation message with the count of publications marked as read.
ParametersJSON Schema
NameRequiredDescriptionDefault
idsYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.8/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Describes the internal action: stamps each with a read time to prevent resurfacing. No annotations present, so description fully compensates. No contradiction.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

A single concise paragraph followed by structured Args and Returns sections. Every sentence is informative with no redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple tool with one parameter and an output schema, the description fully covers usage, parameter semantics, and return value. No gaps.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, but the description provides a clear meaning for the 'ids' parameter: 'List of new_publications row IDs to mark as read; an empty list is a no-op.' This adds essential context beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Mark new publications as read by their IDs' and explains the effect of clearing them from the 'new publications' queue. It distinguishes itself from the sibling 'get_new_publications' which returns the IDs.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly instructs to use IDs from 'get_new_publications' and notes that an empty list is a no-op. No explicit when-not-to-use, but context is sufficient.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

memory_health_reportA

Generate a health report for the memory palace.

Returns: entry counts by type, topic coverage map, coverage gaps vs active
projects, duplicate candidates, and entries without output file provenance.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided. Description lists output but does not disclose behavioral traits such as read-only nature, permissions required, or side effects. Minimal transparency beyond output.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Description is concise and front-loaded with action and bullet points for output. No unnecessary words; every sentence adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given zero parameters and presence of output schema, the description adequately explains the tool's purpose and output components. Could elaborate on return value types but sufficient for agent decision-making.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

No parameters; schema coverage is 100%. Description adds meaning by detailing the report's contents, exceeding the baseline score of 4 for zero-parameter tools.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states it generates a health report for the memory palace with specific output components (entry counts, topic coverage, gaps, duplicates, provenance). Distinguishes from sibling tools that add or retrieve individual memory entries.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Description implies use for assessing memory health but does not explicitly state when to use vs alternatives like search_memory or get_topic_memory. Context is clear but lacks exclusions or alternative recommendations.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

metis_doctorA

Run a one-screen health check on Metis.

Verifies Python version, the SQLite database, the Anthropic API key, your
user-config.yaml, agent and skill folders, folder-rename hygiene, MCP
imports, and that `.env` is gitignored. Returns a structured report so the
dashboard or a CLI session can render it cleanly.

Use when:
  - Something feels broken and you want a single command to triage.
  - Just before publishing the repo, to catch hygiene issues.
  - After a `git pull`, to confirm nothing regressed.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries full burden. It describes the checks performed and that it returns a structured report, but doesn't state that the tool is read-only or non-destructive, nor does it mention any side effects or authorization requirements.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Three concise, front-loaded sentences cover purpose, checks, and usage. Every sentence adds value with no redundancy. Well-structured for an AI agent.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given zero parameters and an existing output schema, the description fully covers what the tool does and when to use it. No gaps identified for a health check tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The tool has zero parameters and schema coverage is 100% (no params to describe). The description adds value by listing what the health check verifies, which indirectly covers the expected output fields, earning a baseline of 4.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: 'Run a one-screen health check on Metis.' It lists specific components verified (Python version, SQLite, API key, etc.), distinguishing it from sibling tools, none of which are health check tools.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The 'Use when:' section provides explicit scenarios: troubleshooting, pre-publishing, and post-pull verification. While it doesn't mention when not to use or alternatives, the guidance is contextually clear and actionable.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

mine_referencesA

Mine reference lists of specific articles.

Fetches references for one or more DOIs (comma-separated) via CrossRef,
checks against your Zotero library, and reports what's missing.

Args:
    dois:  Comma-separated list of DOIs to mine.
    label: Optional label for the output file.
ParametersJSON Schema
NameRequiredDescriptionDefault
doisYes
labelNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.1/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries full burden. It discloses the tool fetches external data (CrossRef), compares to local Zotero library, and reports missing references. It implies a read-only operation with no side effects, which is adequately transparent.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise with a one-line summary, a process sentence, and bullet-pointed arguments. Every sentence adds value, though the process sentence could be slightly more structured. No redundant information.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given that an output schema exists, the description does not need to explain return values. It covers input parameters and core behavior. However, it does not mention prerequisites like Zotero library connectivity or external API rate limits, which would enhance completeness.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0% (no parameter descriptions), but the description adds clear explanations for both parameters: dois as a comma-separated list of DOIs, and label as an optional output file label. This compensates well for the schema gap.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'Mine reference lists' and specifies the resource 'specific articles'. It explains the process: fetch references for DOIs via CrossRef, check against Zotero library, report missing. This distinguishes it from sibling tools like search_literature which searches broadly.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for mining references from specific DOIs but does not explicitly state when to use this tool versus alternatives like search_literature or scan_literature. No exclusions or prerequisites mentioned.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

next_discovery_tipA

Return ONE earned, not-yet-shown feature tip for the current moment (or '').

Call at natural trigger moments (user starts a project, writes R code, builds a
library, asks a knowledge question, handles a dataset…). Pass `context` as
comma-separated trigger tags. Returns at most one tip — and ONLY for a feature the
user does NOT already use (earned discovery), respecting the off/snooze/power-user
settings and a frequency cap (≤1 tip / 20 min, ≤3 / day). Records it so it never
repeats. Returns '' when nothing should be shown. Weave the tip in naturally.

Args:
    context: comma-separated trigger tags describing what the user is doing.
ParametersJSON Schema
NameRequiredDescriptionDefault
contextNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.8/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, but description fully discloses behavior: respects off/snooze/power-user settings, frequency cap (≤1/20min, ≤3/day), records to avoid repeats, returns empty string when inappropriate.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Description is front-loaded with core purpose and well-structured with paragraphs. Slightly verbose but each sentence adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given tool complexity (frequency caps, user settings) and presence of output schema (not shown but indicated), description covers all necessary context for correct invocation.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage 0%, but description adds meaning: 'comma-separated trigger tags describing what the user is doing' for the context parameter.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states it returns one earned, not-yet-shown feature tip (or empty string). Distinct from siblings which are mostly CRUD or search tools.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Provides explicit trigger moments (user starts project, writes R code, etc.) and explains when not to call (if user already uses feature, frequency cap, returns empty).

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

_obsidian_vaultA

Resolve the configured Obsidian vault path, if one is set and valid.

Looks up the user's external Obsidian vault so note-indexing tools
(e.g. kg_index_notes) know where to read .md notes from. Checks the
METIS_OBSIDIAN_VAULT environment variable first, then the
integrations.obsidian_vault (or top-level obsidian_vault) key in
user-config.yaml.

Takes no arguments.

Returns:
    A Path to the vault directory if it is configured and exists on disk,
    otherwise None.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.7/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so description carries full burden. It fully discloses behavior: checks environment variable and config file, validates existence on disk, returns Path or None. No side effects are mentioned, which is appropriate for a read-only lookup.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Description is three well-structured paragraphs: first sentence states purpose, then explains context and lookup logic, then return type. Every sentence is necessary and no waste.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (no parameters, no annotations, straightforward return), the description covers all needed aspects: purpose, usage context, configuration sources, argument absence, return type, and mentions sibling tools for context.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Input schema has zero parameters, and description explicitly states 'Takes no arguments.' With no parameters, baseline is 4, and description adds no extra but also doesn't need to.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states the tool resolves the configured Obsidian vault path, specifying verb ('resolve') and resource ('vault path'). It distinguishes itself by mentioning it supports note-indexing sibling tools like kg_index_notes.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Describes when to use the tool (before note-indexing) and explains the lookup order across environment variable and config file. It does not explicitly state when not to use it, but the context is clear given the helper role.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

probe_tool_resultA

M5.7.1 — Probe external tool result for injection patterns.

Call this before inserting any externally-sourced content into agent context:
web scrapes, RSS items, PDF extracts, YouTube transcripts, GitHub readmes.

Args:
    content: The external content to probe.
    source_label: Human-readable label for logging (e.g., "PubMed abstract", "RSS item").

Returns:
    JSON with {probed_content, flagged, patterns_found}.
ParametersJSON Schema
NameRequiredDescriptionDefault
contentYes
source_labelNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden of behavioral transparency. It discloses that the tool returns a JSON with fields probed_content, flagged, and patterns_found, indicating it performs analysis without modifying state. It does not contradict any annotations.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is highly concise and well-structured, using a version header, a one-line purpose statement, a usage guideline paragraph, and clearly labeled Args/Returns sections. Every sentence adds value, and the information is front-loaded for quick understanding.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (2 params, 1 required) and the presence of an output schema (though not shown), the description sufficiently covers its purpose, usage, parameters, and output. It could be considered complete for an analysis tool, though it might optionally mention that it does not modify data.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, meaning the schema provides no parameter descriptions. The tool description compensates by explaining both parameters: 'content' as 'The external content to probe' and 'source_label' as 'Human-readable label for logging'. This adds meaningful context beyond the raw schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's verb ('Probe') and resource ('external tool result') with a specific purpose ('for injection patterns'). It distinguishes from siblings by describing a unique security-related operation, which is not evident in any sibling tool name.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly says when to use this tool ('Call this before inserting any externally-sourced content into agent context') and provides concrete examples of such content (web scrapes, RSS items, PDF extracts, YouTube transcripts, GitHub readmes). It lacks alternative tool references or explicit exclusions, but the usage context is clear.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

profile_datasetA

Profile a tabular dataset: shape, dtypes, null %, unique counts, distributions.

Supports CSV, TSV, Excel (.xlsx/.xls), SPSS (.sav), Stata (.dta).
Performs PII column name scan before profiling (non-blocking, annotated).
Never modifies the source file.

Args:
    path:        Absolute local path to the dataset file.
    sample_rows: If > 0, include this many rows as a data sample in the output.

Returns JSON with: path, rows, columns, null stats, duplicate count,
per-column profile (dtype, nulls, distributions or top values),
and any flagged PII column names.
ParametersJSON Schema
NameRequiredDescriptionDefault
pathYes
sample_rowsNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.8/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It clearly states the tool is non-destructive ('Never modifies the source file'), performs a PII scan before profiling, and returns a JSON with specific fields. This provides good behavioral context beyond what annotations would offer.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a summary line, format support, behavioral notes, and an Args section. It is concise without wasted words, though some information (like 'never modifies' could be integrated without repetition.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's complexity (2 parameters, no annotations, but a clear output schema mentioned), the description covers all necessary aspects: parameter semantics, supported formats, behavioral notes, and output structure. It is complete for an agent to use confidently.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The description adds meaning beyond the input schema: for 'path' it specifies 'Absolute local path', and for 'sample_rows' it explains the condition (if > 0) and effect on output. With 0% schema description coverage, the description compensates well.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description uses 'Profile a tabular dataset' as a specific verb and resource, and lists the outputs (shape, dtypes, null %, unique counts, distributions). It clearly conveys the tool's purpose but does not explicitly differentiate it from sibling tools like clean_dataset or anonymize_text.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for exploratory data analysis but lacks explicit guidance on when to use this tool versus alternatives. It states 'Never modifies the source file' which helps in selecting it for read-only operations, but no exclusions or specific context are provided.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

promote_basket_itemA

Move a basket item to a stable project folder (promote from basket to active storage).

Refuses to touch basket/private/ items.

Args:
    source_path: Absolute path to the file in basket/ to promote.
    target_path: Absolute destination path (file or folder).
ParametersJSON Schema
NameRequiredDescriptionDefault
source_pathYes
target_pathYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Annotations are absent, so description bears full burden. Mentions the refusal behavior but omits details like whether source is deleted, error handling, or permissions needed.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Three concise sentences with no extraneous words. Front-loaded with the core action, then constraint, then parameter descriptions.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple tool with two parameters and an output schema (exist), the description covers the main points. Could elaborate on whether the move is a cut or copy, but overall adequate.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, but description adds meaning by specifying source_path as absolute path in basket/ and target_path as absolute destination (file or folder). This goes beyond the schema's plain string definitions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Clearly states the action (move/promote) and the resource (basket item to project folder). Distinct from siblings like list_basket or archive_project.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No explicit when-to-use vs alternatives. Provides a when-not condition (refuses basket/private/ items) but lacks broader usage guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

propose_library_organizationA

Cluster papers by topic and propose an AI-generated collection structure.

Uses abstracts and titles to embed papers, then clusters them with k-means.
Returns a proposed collection structure with suggested names and paper counts.

Args:
    n_clusters: Number of topic clusters. 0 = auto-detect (sqrt of library size).
    min_papers: Minimum papers per cluster to report (default 3).
ParametersJSON Schema
NameRequiredDescriptionDefault
n_clustersNo
min_papersNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.9/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so the description carries the full burden. It describes the algorithm (embedding, k-means) and return structure but does not explicitly state it is read-only or non-destructive. The word 'propose' implies no side effects, but it's not definitive.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, with a clear first sentence stating purpose, followed by method details and parameter explanations. No unnecessary content, though a bit more structure could improve scannability.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's moderate complexity and an output schema, the description adequately covers inputs and overall behavior. It lacks prerequisites (e.g., need papers in library) but is otherwise comprehensive.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Both parameters are explained beyond schema types: n_clusters with auto-detect logic and min_papers with default. This adds significant value since schema description coverage is 0%.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description explicitly states the tool clusters papers by topic and proposes a collection structure, using specific verbs 'cluster' and 'propose' with resource 'papers'. This clearly distinguishes it from sibling tools like search_library or archive_library_item.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains the method (k-means clustering) but does not provide explicit guidance on when to use this tool versus alternatives (e.g., after importing papers). No exclusions or alternatives are mentioned.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

propose_skill_improvementA

An agent proposes a change to its own skill file.

The proposal is queued for human review. The skill file is NOT modified
until the user calls approve_proposal().

Args:
    agent_slug: The agent's slug (e.g. 'librarian', 'writing-partner')
    proposed_content: The full proposed replacement content of the skill file
    rationale: Why this change is being proposed (1–3 sentences)

Returns:
    Confirmation with the proposal ID for the user to review
ParametersJSON Schema
NameRequiredDescriptionDefault
agent_slugYes
proposed_contentYes
rationaleNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It discloses critical behavior: 'The skill file is NOT modified until the user calls approve_proposal().' It also mentions the return value (proposal ID). While it doesn't detail auth needs or rate limits, the non-destructive nature is communicated.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is three concise sentences plus a list of args. It front-loads the purpose, then key behavioral info, then parameters. Every sentence is necessary and no words are wasted.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given three parameters, no annotations, and an expected output schema (though not provided here), the description covers purpose, behavior, return info, and parameter meanings. It could be more complete by explaining what a skill file is or the format of proposed_content, but it is sufficient for an agent to use the tool correctly.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description must compensate. It explains each parameter: agent_slug with an example, proposed_content as the full replacement, and rationale with a length guideline. This adds significant meaning beyond the schema's titles.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the action: 'An agent proposes a change to its own skill file.' It distinguishes from siblings like approve_proposal by noting that the skill file is not modified until approval. The verb 'propose' combined with the object 'skill file' is specific and unambiguous.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly states when to use the tool (to propose a change) and that the change is queued for human review, implying the alternative of using approve_proposal to effect the change. It does not explicitly state when not to use, but the context is clear.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

publish_courseA

Finalise and publish a completed course build.

Marks the learning_courses row as 'active', sets progress to 0,
and writes a completion note. Call after all 7 steps are done.

Args:
    slug: The course slug to publish.

Returns:
    Confirmation with the course path and Learning tab link.
ParametersJSON Schema
NameRequiredDescriptionDefault
slugYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so the description carries full burden. It clearly discloses that it marks the course as active, sets progress to 0, and writes a completion note. No contradiction with annotations since none exist.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two short paragraphs: purpose/behavior, then usage timing, then Args/Returns. Every sentence contributes value. No redundant or wordy content.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

With one parameter and an output schema (though not shown), the description covers purpose, effect, usage timing, and return structure. Could mention prerequisites like requiring all 7 steps to be completed, but it already does. Minor gap: no details on what the completion note contains.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters3/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, so description must compensate. The description adds 'The course slug to publish', which only rephrases the schema's 'Slug'. No additional format, examples, or constraints provided. Minimal added value.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'publish' and 'finalise', identifies the resource as a completed course build, and describes the specific database actions. Distinguishes well from sibling tools like 'review_course', 'save_course_outline', etc.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly says 'Call after all 7 steps are done', indicating the prerequisite context. Does not mention alternatives or when not to use, but the purpose and sibling list provide sufficient guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

query_research_timelineA

Query the temporal evolution of research beliefs.

Returns all claims for an entity ordered by date, showing how thinking
evolved. Superseded claims (older beliefs you updated) are hidden by default
but can be shown to trace the full reasoning chain.

Args:
    entity: Filter by entity name (partial match). Leave empty to see all
        recent entries across all entities.
    since_date: ISO date string (YYYY-MM-DD). Only show entries on or after
        this date. Leave empty for all time.
    show_superseded: If True, include claims that have been replaced by newer
        ones. Default False — shows only the current belief for each topic.
ParametersJSON Schema
NameRequiredDescriptionDefault
entityNo
since_dateNo
show_supersededNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

The description discloses key behaviors: returns claims ordered by date, hides superseded by default but can include them. No annotations exist, so the description carries the transparency burden adequately.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a clear purpose sentence followed by parameter details. It is concise but covers necessary information without verbosity.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has an output schema and only three parameters, the description provides sufficient context about returns and options. It explains the temporal evolution and supersedence logic, making it complete for agent use.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

No schema descriptions for parameters (0% coverage), but the description explains each parameter thoroughly: entity (partial match, leave empty), since_date (ISO format, on/after), show_superseded (boolean, default False). This fully compensates for missing schema info.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool queries the temporal evolution of research beliefs, with a specific verb and resource. It distinguishes itself from sibling tools by focusing on timeline ordering and superseded claims.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains the tool returns claims ordered by date and mentions parameter usage. It does not explicitly state when not to use it or alternatives, but the context is clear enough for selection.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

read_fileA

Read the content of a file and return it as text.

Works for any text file: R scripts, markdown, Python, JSON, CSV, etc.
The file does not need to be pre-registered in tracked_files.

Args:
    path: Absolute path to the file to read.
    max_chars: Maximum characters to return (default 8000). For large files,
               increase this or ask for a specific section.
ParametersJSON Schema
NameRequiredDescriptionDefault
pathYes
max_charsNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries full burden. It discloses the read-only nature and file type support, but doesn't discuss error handling, permissions, or encoding. The 'return it as text' is clear, but some behavioral details are absent.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Concise and well-structured: a main sentence, two bullet points on file types and pre-registration, and an Args section. No wasted words, and critical information is front-loaded.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the presence of an output schema (not shown), the description adequately covers core behavior: reads file, returns text, handles various types, no pre-registration needed. It is complete for a file read tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Despite 0% schema coverage, the description provides thorough parameter documentation in the Args section: path is absolute, max_chars has default and guidance for large files. This adds significant meaning beyond the schema's type and title.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'Read' and resource 'file content', and specifies that it works for any text file without pre-registration. This distinguishes it from sibling tools like scan_tracked_files that require tracking.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implicitly indicates usage for reading any text file and advises increasing max_chars for large files. However, it does not explicitly state when to use this tool over alternatives or provide exclusion criteria.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

record_dataset_treatmentB

Record one cleaning/transformation step for a dataset (its lineage).

Build a traceable chain raw → cleaned → analysis dataset, so any result can
be reproduced. Call once per step (recode, filter, join, derive, …).

Args:
    dataset_name: The dataset being transformed.
    description: What this step does (e.g. "drop records with missing age").
    project_id: Project this belongs to. Optional.
    step_type: recode | filter | join | derive | clean | other.
    code: The code for this step, if any.
    input_dataset: Dataset(s) this step consumes.
    output_dataset: Dataset this step produces.
ParametersJSON Schema
NameRequiredDescriptionDefault
dataset_nameYes
descriptionYes
project_idNo
step_typeNo
codeNo
input_datasetNo
output_datasetNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

B3.1/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It mentions recording lineage for reproducibility but does not disclose potential side effects, authentication needs, or what happens if a step is re-recorded.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness3/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description includes multiple sentences and a parameter list. It is adequately organized with the purpose first, but the parameter list makes it slightly long. Could be more concise.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given 7 parameters (2 required), no annotations, and an output schema, the description provides a reasonable overview of the tool's role in lineage tracking. It does not cover edge cases or error conditions, but is sufficient for basic understanding.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters3/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description must compensate. It provides brief explanations for each parameter (e.g., 'dataset_name: The dataset being transformed'), adding some meaning beyond the schema. However, explanations are minimal and could be more detailed.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool records a cleaning/transformation step for dataset lineage. It uses specific verbs ('record', 'build') and explains the traceable chain purpose. However, it does not explicitly distinguish from sibling tools like 'clean_dataset' or 'profile_dataset'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description says 'Call once per step' and lists step types (recode, filter, join, etc.), implying when to use. But it does not provide explicit guidance on when not to use or alternatives.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

record_research_findingA

Record a timestamped research belief or finding about an entity.

Use this whenever you reach a conclusion, update a previous belief, or
encounter evidence that changes your view. The timeline preserves the full
chain of reasoning across sessions.

Args:
    entity: What this claim is about. Use a consistent name across sessions
        (e.g. "RDT sensitivity in low-burden areas", "Disease X elimination study",
        "DHIS2 tracker performance").
    claim: Your current belief or finding in 1-3 sentences.
    evidence: What supports this claim — paper citation, data result, meeting
        discussion. Brief reference is enough.
    confidence: "low", "medium", or "high".
    source_type: "session", "paper", "meeting", "data_analysis", "literature_review".
    source_ref: Specific reference — DOI, file path, meeting date.
    supersedes_id: If this replaces a previous claim, pass that claim's id.
        Set to 0 if this is a new claim with no predecessor.
ParametersJSON Schema
NameRequiredDescriptionDefault
entityYes
claimYes
evidenceNo
confidenceNomedium
source_typeNosession
source_refNo
supersedes_idNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description must fully disclose behavior. It mentions the tool is timestamped and preserves chain of reasoning across sessions via supersedes_id. However, it does not explicitly state that it creates/modifies data, requires permissions, or has any side effects. Adequate but not comprehensive.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is front-loaded with purpose and use cases, followed by a well-organized Args list. Each sentence is relevant and concise. No redundancy or unnecessary detail.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given 7 parameters (2 required, 5 with defaults) and no annotations, the description covers all parameters and explains behavior (timestamping, chaining). It does not mention the return value, but an output schema is provided (not shown). Slight gap in completeness.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the tool description includes a detailed Args section covering all 7 parameters. It provides context on usage (consistent naming for entity, 1-3 sentences for claim, examples for evidence and source_ref, allowed values for confidence and source_type, and how to use supersedes_id). This greatly adds meaning beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool records 'a timestamped research belief or finding about an entity.' It specifies when to use it (conclusion, update, evidence) and distinguishes from sibling tools by focusing on research findings and timeline preservation.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly states when to use the tool ('reach a conclusion, update a previous belief, or encounter evidence that changes your view') and provides guidance on consistent naming for the entity. It doesn't specify when not to use it or list alternatives, but the context is clear.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

record_thinking_eventA

Record one signal about how you think and work, to personalise Metis.

Each event is a small piece of evidence — you acted on a brainstorm, rated
an idea highly, flagged an agent's output — that feeds your evolving
"thinking profile". Over time these signals let Metis tailor its routing,
suggestions, and tone to your preferences. Call it whenever a meaningful
preference moment occurs; read the accumulated profile with
get_thinking_profile.

Args:
    event_type: The kind of signal. Must be one of: "brainstorm_acted_on",
        "brainstorm_ignored", "idea_rated_high", "idea_linked_project",
        "journal_revisited", "agent_output_accepted", "agent_output_flagged".
    source_type: Domain or category the signal belongs to (e.g. "biology").
        Optional; defaults to empty.
    content_id: ID of the related content record (idea, journal entry, etc.)
        if applicable. Optional; defaults to 0 (none).
    agent_slug: Agent identifier this signal relates to, used for the
        "agent_output_*" event types. Optional.
    context: Free-text note giving context for the event. Optional.

Returns:
    A confirmation that the signal was recorded, or an error listing the
    valid event types if an invalid one was supplied.
ParametersJSON Schema
NameRequiredDescriptionDefault
event_typeYes
source_typeNo
content_idNo
agent_slugNo
contextNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations; description discloses it records a signal, is non-destructive, and returns confirmation or error. Doesn't detail side effects or auth needs, but sufficient given simplicity.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Well-structured with paragraphs and an Args section. Front-loaded with purpose. Each sentence provides useful information, though slightly verbose.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Covers all 5 parameters, return value, and error case. Output schema exists. Completeness is good for a moderate-complexity tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Each parameter is thoroughly documented in the description text, including valid values for event_type, defaults, and optionality. Adds significant value over the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

States 'Record one signal about how you think and work' with a clear verb, resource, and purpose. Distinguishes from sibling get_thinking_profile by mentioning it.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Provides guidance: 'Call it whenever a meaningful preference moment occurs.' Lists event types and references get_thinking_profile. Lacks explicit when-not or comparison to reset_thinking_profile.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

register_code_artifactA

Save a script, snippet, reusable function or template to the Code Repository.

Use this whenever the user writes or shares code worth reusing, so it can be
found and rebuilt later. Capture as much reproducibility context as you can.

Args:
    title: Short descriptive name (e.g. "INLA BYM2 spatial model setup").
    code: The actual code.
    language: r | python | sql | stata | shell | … (lowercase).
    project_id: The project this belongs to (links it for reuse). Optional.
    kind: script | snippet | function | template.
    purpose: One line on what it does / when to use it.
    tags: Comma-separated tags (e.g. "spatial,INLA,mapping").
    file_path: Where the script lives on disk, if any.
    packages: Dependencies / environment (e.g. "INLA 24.9, sf, dplyr").
    params: Seeds, thresholds, hyperparameters used (for exact reproduction).
ParametersJSON Schema
NameRequiredDescriptionDefault
titleYes
codeYes
languageNo
project_idNo
kindNoscript
purposeNo
tagsNo
file_pathNo
packagesNo
paramsNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.9/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries full burden but does not disclose behavioral traits such as overwrite behavior, authentication needs, rate limits, or side effects. It also does not describe the output or return value.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise with two paragraphs: the first states purpose and usage, the second lists parameters. It is front-loaded and every sentence adds value, with no wasted words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description provides parameter details but lacks information about the output (despite having an output schema), error cases, or prerequisites. For a 10-parameter tool with no annotations, it is somewhat complete but leaves gaps.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description compensates by providing a clear block with explanations for each parameter (e.g., 'title: Short descriptive name'). This adds significant meaning beyond the schema's types and defaults.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'Save' and the resource 'Code Repository', and lists the kinds of code artifacts (script, snippet, function, template). This distinguishes it from sibling tools like search_code_repository.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly says 'Use this whenever the user writes or shares code worth reusing', providing clear when-to-use guidance. It does not mention alternatives or exclusions, but the context is clear.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

register_data_dictionaryA

Record a dataset's data dictionary — one stored entry per variable.

Captures each variable's name, type, label, unique values / factor levels,
and units so future analysis scripts reuse the exact same names and
treatments. Re-registering the same dataset is idempotent: it replaces the
previous dictionary for that dataset (matched on dataset_name + project_id).

Args:
    dataset_name: Name of the dataset, e.g. "hat_cases_2015_2023".
    variables: List of variable entries. Each entry may be a plain string
        (the variable name) or an object with any of: name (required),
        type, label, unique_values, units, notes. Entries without a name
        are skipped.
    project_id: Project this dataset belongs to (default empty string);
        also part of the key used when replacing an existing dictionary.
    dataset_path: Where the dataset lives on disk (default empty string).

Returns:
    A confirmation message with the count of variables recorded for the
    dataset, or an error if none were provided.
ParametersJSON Schema
NameRequiredDescriptionDefault
dataset_nameYes
variablesYes
project_idNo
dataset_pathNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries the burden. It discloses that re-registering is idempotent (replaces previous dictionary matched on dataset_name + project_id), describes the return value, and states error behavior. It does not detail side effects, but the behavior seems straightforward and well-explained.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is efficiently structured: a one-line summary, a clarifying paragraph, then a clear bullet list of arguments, and a return description. No unnecessary words; every sentence adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the complexity of 4 parameters (including a complex array), the description covers purpose, arguments, return, and idempotency. It lacks only minor details like potential error scenarios beyond empty variables, but overall it is sufficient.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, but the description provides detailed explanations for all 4 parameters. It clarifies the variables array format (string or object with name required), the role of project_id in idempotency, and provides examples. This fully compensates for the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool records a data dictionary for a dataset, storing per-variable metadata like name, type, and labels. It differentiates from sibling tools by focusing specifically on dictionary registration and mentions idempotency, which clarifies its unique purpose.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies use when you need to record variable definitions for a dataset, but it does not explicitly state when to use this tool versus alternatives (e.g., add_glossary_term, record_dataset_treatment). No exclusions or contextual guidance are provided.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

reject_proposalA

Reject a pending skill improvement proposal without applying it.

The skill file is not changed. The proposal is marked rejected with an
optional reason.

Args:
    proposal_id: The numeric ID from get_pending_proposals()
    reason: Optional note explaining why the proposal was rejected
ParametersJSON Schema
NameRequiredDescriptionDefault
proposal_idYes
reasonNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries full burden for behavioral transparency. It clearly states that the skill file is unchanged and that the proposal is marked rejected with an optional reason. This covers the key behavioral aspect (non-destructive mutation) but could optionally include more detail on side effects.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is three sentences long, front-loaded with the main purpose. It uses a clear Args block for parameter details. Every sentence is informative, with no fluff. This is a model of conciseness.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple two-parameter tool with an output schema, the description covers purpose, parameters, and behavioral effect. It does not explain the return value, but the presence of an output schema makes that acceptable. It could optionally mention that the proposal is marked as rejected in the system, but overall it is complete enough for correct usage.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description must compensate. It does so excellently: for 'proposal_id', it specifies the source ('from get_pending_proposals()'), and for 'reason', it explains its optional nature and purpose. This adds significant value beyond the raw schema types.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description uses a specific verb ('Reject') and clearly identifies the resource ('a pending skill improvement proposal'). It distinguishes from sibling tools like 'approve_proposal' and 'apply_proposal_tool' by explicitly stating the outcome ('without applying it').

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides context for when to use the tool (rejecting a proposal) and references where to obtain the proposal ID ('from get_pending_proposals()'). While it does not explicitly list alternatives, the sibling tools provide implicit guidance. The usage is clear and direct.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

remove_first_run_markerA

Delete the .first-run marker file to signal that the config wizard is complete.

Called at the end of the first-run wizard after all config files are written. Safe to call even if the marker does not exist.

ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries full burden. It discloses the destructive action ('Delete') and idempotency ('Safe to call even if the marker does not exist'), which is adequate for a simple tool. No contradictions.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Three sentences, each earning its place: purpose, usage context, and safety note. No unnecessary words. Front-loaded with the key action.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The tool is simple and the description covers core behavior. Though an output schema exists, the description does not explain return value, but for a deletion marker this is a minor omission. Still, overall complete for its complexity.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has 0 parameters, so schema coverage is 100%. The description adds no parameter info (none needed). Baseline 4 is appropriate.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description specifies the verb 'Delete' and the resource '.first-run marker file', clearly indicating the tool's function. It is distinct from sibling tools which generally do not involve deleting marker files.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description states 'Called at the end of the first-run wizard after all config files are written', providing clear context for use. It also notes safety even if marker doesn't exist, but lacks explicit alternatives or when-not-to-use. However, for this specific tool, usage is well-defined.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

remove_library_itemA

Remove a library item from the Metis index, optionally deleting the file.

De-indexes a paper or document by deleting its row from library_seeded. By
default the file on disk is left untouched (index-only removal); set
delete_file=True to also delete the file, which is guarded so only paths
inside the PKM root can be removed. To hide rather than remove an item, use
archive_library_item instead.

Args:
    relative_path: The relative_path primary key identifying the row in the
        library_seeded table.
    delete_file: If True, also delete the underlying file from disk (subject
        to the within-PKM-root safety check); if False (default), only the
        index row is removed.

Returns:
    A confirmation message of what was removed, or a not-found / error
    message if the item or table is missing.
ParametersJSON Schema
NameRequiredDescriptionDefault
relative_pathYes
delete_fileNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries full burden. It discloses that by default only the index is removed, file deletion is guarded to paths within PKM root, and returns confirmation or error messages. It does not detail permissions, but the safety guard is mentioned.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a brief summary followed by details on behavior, parameters, and returns. It is front-loaded and clear, though could be slightly more concise without losing information.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description covers purpose, parameters, behavioral details, safety, and return value. Given that an output schema exists (context signal), the return description suffices. For a 2-parameter tool with no annotations, it is fairly complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description must compensate. It explains both parameters: 'relative_path' as primary key, and 'delete_file' with default False and safety check. This adds meaning beyond the schema, though the format of relative_path is not specified.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool removes a library item from the Metis index, optionally deleting the file. It uses a specific verb 'remove' and resource 'library item', and distinguishes itself from the sibling tool 'archive_library_item' which hides rather than removes.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides guidance on when to use this tool versus 'archive_library_item' (hide instead of remove), and explains the optional file deletion. However, it does not explicitly state when not to use it (e.g., for items that shouldn't be removed).

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

remove_projectA

Remove a project from Metis entirely.

Deletes project record and associated tasks from DB.
If delete_files=True, also deletes the external_path folder from disk
(only if path is within RC root — safety check enforced).

Args:
    project_id: The project_id to remove.
    delete_files: If True, delete the project folder from disk. Default False.
ParametersJSON Schema
NameRequiredDescriptionDefault
project_idYes
delete_filesNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so description carries burden. It discloses key behaviors: deletes records and tasks, optionally deletes folder with safety check. However, it does not mention irreversibility, auth requirements, or return value.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Description is very concise with three focused sentences plus Args list. Every sentence earns its place: purpose, deletion scope, and parameter details. No wasted words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given moderate complexity, the description covers main behavior and parameters. Output schema exists but not shown; description could mention irreversibility and return value for full completeness.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so description compensates by explaining both parameters: project_id as the ID to remove and delete_files as boolean with default False and safety condition. This adds meaning beyond schema titles, though project_id format is not detailed.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Remove a project from Metis entirely' with specific verb and resource. It explains what gets deleted (project record, tasks, optionally folder) and distinguishes from siblings like archive_project which implies temporary state.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides clear context for when to use (permanent removal) and includes a safety check for file deletion. However, it does not explicitly compare to alternatives like archive_project or unarchive_project, which would help the agent decide.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

remove_tracked_fileA

Stop tracking a file so Metis no longer watches it for changes.

Removes a single file from the tracked-files list (the files the dashboard
Planning tab scans for activity). Use this when a file is no longer relevant
or was added by mistake. The file on disk is never touched — only its
tracking record is deleted. The inverse of add_tracked_file.

Args:
    path: Absolute path of the file to stop tracking. Must match the path
        exactly as it was registered.

Returns:
    A confirmation that tracking stopped, or a note if the path was not in
    the tracking list.
ParametersJSON Schema
NameRequiredDescriptionDefault
pathYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

The description discloses that 'the file on disk is never touched — only its tracking record is deleted,' which is critical for understanding side effects. It also notes the return behavior (confirmation or note if path not found). With no annotations, this adequately covers behavioral traits.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, using two paragraphs plus structured Args and Returns sections. Every sentence adds value, and the structure is clear.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple tool with one parameter and an output schema, the description covers the purpose, usage, behavioral effect, parameter details, and return values comprehensively. It addresses all necessary aspects.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema provides only the name and type for the path parameter. The description adds meaning by specifying it must be an 'Absolute path' and must 'match the path exactly as it was registered,' which is valuable beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's action: 'Stop tracking a file so Metis no longer watches it for changes.' It specifies that it removes a single file from the tracked-files list and mentions the inverse operation, add_tracked_file, distinguishing it from siblings.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description advises use when a file 'is no longer relevant or was added by mistake.' It also explicitly names the inverse tool, add_tracked_file, giving context for when to use this vs. alternatives. However, it does not list other alternatives or conditions to avoid using this tool.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

reset_thinking_profileA

Clear all thinking_profile_events and reset thinking-profile.yaml to defaults.

This erases all recorded preference signals and restores the default profile.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.8/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries the full burden of behavioral disclosure. It mentions erasing recorded preference signals and restoring defaults but does not detail reversibility, confirmation steps, or impact on other system components. Basic transparency is present but incomplete.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is extremely concise (two sentences, 20 words) and front-loaded with the core action. Every sentence adds value without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given no parameters, no annotations, and an existing output schema, the description covers the essential behavior. It could mention that the reset is irreversible or that it only affects the thinking profile, but it is largely complete for a simple reset tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has no parameters, so schema coverage is 100%. The description does not need to add parameter meaning, and the baseline for zero parameters is 4. The description is sufficient for a parameterless tool.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the action ('Clear all thinking_profile_events and reset thinking-profile.yaml to defaults') with a specific verb and resource, and it distinguishes itself from sibling tools like get_thinking_profile and update_thinking_profile by explicitly mentioning resetting to defaults.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides no guidance on when to use this tool versus alternatives, such as under what conditions a reset is appropriate or what the consequences are (e.g., loss of preference signals). There are no explicit when-to-use or when-not-to-use instructions.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

restore_dbA

Restore the Metis database from a backup.

Renames the current live database to <db>.pre-restore.<timestamp>
before overwriting, so you can recover if something goes wrong.

IMPORTANT: This overwrites the live database. All changes since the backup
was taken will be lost. The dashboard must be restarted after restore.

Args:
    backup_path: Full path to the .sqlite backup to restore from.
    confirm:     Must be the string 'YES' to proceed.

Returns JSON with status and paths.
ParametersJSON Schema
NameRequiredDescriptionDefault
backup_pathYes
confirmNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.8/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description fully discloses the renaming of the current database to a timestamped backup, the overwrite action, loss of changes, and the need to restart the dashboard. It also notes the return format, providing complete behavioral transparency.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured: a clear purpose sentence, step-by-step explanation, important warnings, and parameter descriptions. It is concise with no unnecessary information, every sentence serves a purpose.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the complexity of a restore operation with a safety rename, the description covers the process, the confirm parameter, the implications of overwriting, and the need for dashboard restart. An output schema exists but the description already mentions the return format, making it complete enough for an AI agent to use correctly.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has no parameter descriptions (0% coverage). The description compensates by explaining that backup_path is a full path to a .sqlite file and confirm must be the string 'YES'. This adds essential meaning beyond the raw schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Restore the Metis database from a backup' using a specific verb and resource. It explains the renaming behavior and distinguishes the tool from siblings like backup_db and verify_backup.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description warns that the operation overwrites the live database and requires a dashboard restart, implying when to use. However, it does not explicitly state when not to use or mention alternatives, leaving room for clearer guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

review_courseA

Step 6 — Run quality checks on a drafted course before publishing.

Checks:
  - All lessons in lessons.json have a corresponding file on disk
  - Each lesson file contains the required section headers
  - No lessons are empty (< 200 chars)
  - lessons.json is valid JSON with modules and lessons arrays

Returns a pass/fail report. Fix any failures before calling publish_course().

Args:
    slug: The course slug to review.
ParametersJSON Schema
NameRequiredDescriptionDefault
slugYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries the full burden of behavioral disclosure. It describes the tool as performing checks and returning a report, implying it is read-only. However, it does not explicitly confirm non-destructive behavior or mention any side effects, which could be clearer.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise and well-structured. It uses a brief introductory line, bullet points for checks, and a clear instruction for the result. No extraneous information is present.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a straightforward review tool with one parameter and an output schema, the description is mostly complete. It explains the checks and the expected action. However, it could mention whether the tool saves anything or provides example output, but the output schema covers the return details.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters3/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The description explains the parameter 'slug' with 'The course slug to review,' which adds basic meaning beyond the schema. However, with 0% schema description coverage, more detail (e.g., format or examples) would improve agent understanding, though the parameter is simple enough.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: 'Run quality checks on a drafted course before publishing.' It lists specific checks and distinguishes itself from the sibling tool publish_course by indicating it should be used beforehand.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description positions the tool as 'Step 6' in a workflow and explicitly instructs the agent to fix failures before calling publish_course(). This provides clear usage context, though it does not mention when not to use or list alternative tools.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

run_metisA

Master /metis entry point — runs the 11-stage pipeline and returns a routing decision.

Every /metis invocation passes through here. The pipeline:
  1. Bootstraps or resumes the session
  2. Classifies content (PUBLIC/INTERNAL/CONFIDENTIAL/SENSITIVE)
  3. Data Guardian: blocks SENSITIVE requests outright
  4. Cybersecurity: blocks prompt injection and suspicious URLs
  5. Parses intent and selects the appropriate agent(s)
  6. Allocates model and token budget
  7. Assembles minimum surgical context from memory
  8. Persists the turn to session_events
  9. Returns routing decision — agents execute and then call:
       save_session_event(..., 'result', output)
       log_agent_run(..., session_id=session_id)
       write_reflexion(session_id, agent_slug, ...)

Stages 10 (logging) and 11 (reflexion) are called by the executing agent
after completing their work.

Args:
    request: The researcher's request text.
    session_id: Existing session ID if resuming. Leave empty to auto-bootstrap.
    client: Which Claude client is calling ('code'|'chat'|'cowork'|'dashboard').
    max_turns: Maximum pipeline turns before graceful truncation (default 20).
ParametersJSON Schema
NameRequiredDescriptionDefault
requestYes
session_idNo
clientNocode
max_turnsNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.7/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description fully bears the burden of behavioral disclosure. It details all 11 pipeline stages, including bootstrapping, classification, blocking sensitive requests, cybersecurity checks, persisting the turn, and returning a routing decision. No contradictions and extensive transparency.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a clear first sentence stating purpose, followed by a bulleted breakdown of stages and then parameter explanations. While lengthy, every sentence adds value for a complex tool; could be slightly more concise but remains effective.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's complexity as a master pipeline, the description covers the full flow, all stages, parameter semantics, and post-call actions. An output schema exists, so the brief mention of returning a routing decision is sufficient. Complete for agent understanding.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, so the description must compensate. It provides clear explanations for all four parameters: request (the researcher's request), session_id (auto-bootstrap if empty), client (allowed values), max_turns (default 20). This adds significant meaning beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it is the master entry point for the /metis pipeline, detailing its role in running an 11-stage process and returning a routing decision. It distinguishes itself by explaining its central role and how it relates to other tools (e.g., agents call save_session_event, log_agent_run, write_reflexion after).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly says 'Every /metis invocation passes through here,' clearly indicating when to use this tool—whenever running the metis pipeline. It does not provide when-not-to-use or alternatives, but given it is the master entry point, usage context is well-defined.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

save_brainstorm_outputA

Freeze a brainstorm session as a saved Markdown output.

Writes to outputs/brainstorms/<date>_<slug>.md and updates the
brainstorm_sessions table status to 'saved'.

Args:
    session_uuid: The session identifier.
    title:        Short descriptive title for the brainstorm.
    synthesis:    The key insights and connections (Markdown-formatted).
    action_items: Bullet-point action items or follow-up questions.
ParametersJSON Schema
NameRequiredDescriptionDefault
session_uuidYes
titleYes
synthesisYes
action_itemsNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.8/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so description must fully disclose behavior. It mentions writing to a file and updating a database table, which are key side effects. However, it omits details like overwriting behavior, permissions needed, or whether the action is reversible.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Description is relatively concise with a clear first sentence and a structured Args block. It could be slightly more front-loaded, but overall no unnecessary words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the existence of an output schema, the description does not need to detail return values. It adequately covers the key actions (file write, DB update) and parameter purposes. But it lacks mention of error conditions or required preconditions.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the description's 'Args' section provides clear semantic meaning for each parameter: session_uuid is the session identifier, title is a short descriptive title, synthesis is key insights in Markdown, action_items are bullet points. This fully compensates for the lack of schema descriptions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states the tool's purpose: 'Freeze a brainstorm session as a saved Markdown output.' It specifies the verb (freeze/save) and the resource (brainstorm output), and distinguishes it from siblings like 'get_brainstorm_session' and 'brainstorm_turn' by focusing on output persistence.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No explicit guidance on when to use this tool versus alternatives. It does not mention prerequisites (e.g., session must exist), nor does it compare with similar tools like 'save_session_summary' or 'commit_session_decisions'. Usage context is implied but not stated.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

save_course_curriculumA

Step 4 — Save the approved curriculum design for a course.

Call this after the Learning Architect has produced the curriculum.
Pass a JSON object with ``modules`` (array) and ``lessons`` (array).
Writes to `knowledge/courses/{slug}/course.json` and advances to Step 5.

Args:
    slug: The course slug.
    curriculum_json: JSON object with ``modules`` and ``lessons`` arrays.
ParametersJSON Schema
NameRequiredDescriptionDefault
slugYes
curriculum_jsonYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.4/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries the full burden. It discloses the write operation: 'Writes to knowledge/courses/{slug}/course.json and advances to Step 5.' This explains the side effects and state progression, which is sufficient for a save tool.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, front-loaded with purpose, and includes an Args section. Every sentence adds value without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's complexity (saving curriculum as JSON), the description covers the key aspects: purpose, when to call, parameters, and side effects. An output schema exists, so return value documentation is not required. It is complete for an agent to use.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The description explains that curriculum_json is a JSON object with modules and lessons arrays, adding meaning beyond the schema (which only defines it as a string). It also describes slug as the course slug. This compensates for the 0% schema description coverage.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: 'Step 4 — Save the approved curriculum design for a course.' It specifies it should be called after the Learning Architect produces the curriculum, distinguishing it from sibling tools like save_course_outline or save_lesson_draft by its role in a workflow step.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides clear context on when to use: 'Call this after the Learning Architect has produced the curriculum.' It also mentions the side effect of writing to a file and advancing to Step 5. However, it does not explicitly mention when not to use or suggest alternative tools.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

save_course_outlineA

Save an approved course outline after Step 2 (Scope Plan).

Call this once the user has reviewed and approved the module outline.
Pass outline_json as a JSON array of module objects:
  [{"module": 1, "title": "...", "bloom_level": "...", "hours": 2}, ...]

Args:
    slug: The course slug returned by start_course_build()
    outline_json: JSON array of module definitions
    approved: Must be True to advance the build to Step 3 (Harvest)

Returns:
    Confirmation and next-step instructions.
ParametersJSON Schema
NameRequiredDescriptionDefault
slugYes
outline_jsonYes
approvedNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries full burden. It discloses that approved=True advances to Step 3, but does not specify behavior when approved=False, or error handling for invalid outline_json. Lacks some behavioral details expected for a mutation tool.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Extremely concise: one sentence for purpose, one for usage, an example for outline_json, and bulleted Args/Returns. Well-structured and front-loaded with essential information.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given 3 parameters, no schema descriptions, and an output schema that likely covers return details, the description provides all necessary context. It explains the workflow step, input format, and condition for progression.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema description coverage, the description fully compensates by explaining each parameter: slug as start_course_build() return, outline_json with an example JSON array, and approved as a boolean to advance. Adds meaning beyond the raw schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Save an approved course outline after Step 2 (Scope Plan)' with a specific verb and resource. It distinguishes from sibling tools like save_course_curriculum by placing it in a pipeline context.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly states when to call ('once the user has reviewed and approved the module outline'), prerequisite (slug from start_course_build()), and condition for advancing to Step 3. Provides clear context for when this tool should be used.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

save_course_sourcesA

Step 3 — Save harvested source metadata for a course.

Call this after the Content Harvester has collected materials. Pass a
JSON array of source objects. Each source is written as a YAML file in
`knowledge/courses/{slug}/sources/` and the build advances to Step 4.

Args:
    slug: The course slug.
    sources: JSON array of source dicts — each must have at least a
             ``title`` and one of ``url``, ``file_path``, or ``doi``.
             Example: '[{"title": "OpenIntro Stats", "url": "https://openintro.org/book/os/", "type": "textbook"}]'
ParametersJSON Schema
NameRequiredDescriptionDefault
slugYes
sourcesYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries the full burden. It discloses that source files are written as YAML in a specific path and the build advances, but does not mention overwrite behavior, validation, required permissions, or error handling. This provides some but not comprehensive behavioral insight.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise (~100 words), well-structured with a header, usage note, and argument list. Every sentence serves a purpose with no redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description covers the step context, input requirements, and action. Although an output schema exists, the description does not mention return values, which is acceptable per guidelines. It lacks any mention of error conditions or side effects but is still fairly complete for a simple tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, so description is essential. It defines both 'slug' and 'sources', includes required fields for each source dict ('title' plus one of url/file_path/doi'), and provides an example. This adds high value beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'Save', the resource 'harvested source metadata', and the context 'for a course'. It positions it as Step 3 in a build process, distinguishing it from sibling tools like save_course_curriculum or save_course_outline.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

It explicitly says to call this after the Content Harvester has collected materials and that it advances to Step 4. While it does not list negative cases or alternatives, the step context provides clear usage guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

save_lesson_draftA

Step 5 of the course build — save one drafted lesson to disk.

Writes a single lesson's markdown into the course's lessons folder; call it
once per lesson during drafting. The content is validated and rejected
unless it contains all required sections, in order:
## Learning objectives, ## Prerequisites, ## Content (with ### Section N:
subsections), ## Summary, ## Exercises, ## Further reading. The filename is
derived from the lesson number and its title in lessons.json.

Args:
    slug: The course slug; selects the
        knowledge/courses/<slug>/lessons/ folder to write into.
    lesson_id: The lesson id, which must match an id in lessons.json
        (e.g. "lesson-01"); used to look up the title and build the filename.
    content: The full markdown body of the lesson, including all required
        sections listed above.

Returns:
    A confirmation with the written file path, or a rejection message
    listing the required sections that are missing.
ParametersJSON Schema
NameRequiredDescriptionDefault
slugYes
lesson_idYes
contentYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It thoroughly discloses content validation requirements (six required sections in order), filename derivation from lessons.json, and return values (file path or rejection with missing sections). This gives the agent a clear behavioral model.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a front-loaded purpose, followed by validation details and parameter descriptions. It is comprehensive but could be slightly tighter by removing redundant phrasing. The use of bullet-like list for required sections aids readability.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the complexity (3 parameters, validation rules, output schema), the description covers key aspects: purpose, validation, return, and filename derivation. It does not mention prerequisites like lessons.json existence or course initialization, but the 'Step 5' context implies these. Overall adequate.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, so the description must compensate. It explains that slug selects the folder path, lesson_id must match an id in lessons.json (with example), and content is the full markdown body. This adds meaningful context beyond the schema names, though more detail on slug format would be beneficial.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it saves one drafted lesson markdown to disk as Step 5 of the course build. It specifies the action (save), resource (lesson draft), and scope (single lesson per call), distinguishing it from sibling tools like save_course_curriculum or save_course_outline.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description advises calling it once per lesson during drafting and within the course build sequence (Step 5). It provides clear context but does not explicitly state when not to use it or list alternatives, which would strengthen the guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

save_reviewA

Save an agent's output as a review file and record the run.

This is the standard way a Metis agent persists its work: it writes the
markdown to outputs/reviews/{agent_slug}/{date}_{task_slug}.md and, by
default, logs the run so the dashboard's Agents tab tracks it. Use it at the
end of any substantive agent task so the result is filed and discoverable.

Args:
    agent_slug: Slug of the agent that produced the review
        (e.g. "epidemiologist", "writing-partner").
    task_slug: Short kebab-case slug identifying the task; becomes part of
        the filename (e.g. "article1-methodology").
    content: The full review content as markdown.
    log_run: Whether to also record this as an agent run for the dashboard.
        Defaults to True.

Returns:
    A confirmation with the path of the saved review file.
ParametersJSON Schema
NameRequiredDescriptionDefault
agent_slugYes
task_slugYes
contentYes
log_runNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description fully carries the burden. It discloses file path pattern (outputs/reviews/...), default logging behavior, and return value. Does not cover error states or overwrite behavior, but is transparent on key behaviors.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Well-structured with a clear first sentence, followed by context, usage instruction, parameter documentation, and return description. No extraneous text, every sentence is informative.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Covers purpose, parameters, usage, side effects, and return value. Output schema exists (implied by Returns section), and description complements it well, leaving no major gaps.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The Args section provides meaningful examples ('epidemiologist', 'article1-methodology') and explains the role of each parameter, including the default for log_run. This adds substantial value beyond the input schema, which only provides type and title.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description specifies the action 'Save an agent's output as a review file' and clearly distinguishes from sibling tools like log_agent_run and save_brainstorm_output by mentioning it is the standard way to persist work and filing results.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly states 'Use it at the end of any substantive agent task' providing clear when-to-use guidance. Does not explicitly mention alternatives or when not to use, but context is strong.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

save_session_eventA

Stage 8: Persist one atomic event to session_events (write-through guarantee).

Call this after every tool call, file write, and classification decision.
Event types: 'turn' | 'tool_call' | 'result' | 'file_write' | 'redline' | 'classification'

Args:
    session_id: Session ID from session_bootstrap().
    event_type: Category of event being recorded.
    content: Event content (truncated to 2000 chars).
ParametersJSON Schema
NameRequiredDescriptionDefault
session_idYes
event_typeYes
contentYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.1/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries full burden. It discloses a write-through guarantee and content truncation to 2000 chars. It also notes that session_id comes from session_bootstrap(). It does not cover error handling or rate limits, but overall adequately discloses key behaviors.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is relatively concise, with a front-loaded purpose and a bullet list of event types. The 'Stage 8' label adds minimal overhead. Every sentence serves a purpose, though the list of event types could be integrated more succinctly.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple logging tool, the description is complete: it explains what, when, and how to use it, and specifies parameter constraints. The output schema is assumed to cover return values, so no further detail is needed.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so description must compensate. It adds meaning by defining event types ('turn', 'tool_call', etc.), explaining that session_id is from session_bootstrap(), and noting content truncation. This provides valuable context beyond the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: to persist an atomic event to session_events. It specifies the verb 'persist' and the resource 'session_events', and provides usage context ('call after every tool call'). However, it does not explicitly differentiate from sibling tools, though its logging function is distinct.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description gives explicit when-to-use guidance: 'Call this after every tool call, file write, and classification decision.' It lists event types, providing clear context. It does not mention when not to use or alternatives, but the instruction is straightforward.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

save_session_summaryA

Save a summary of the current session to persistent memory.

Call this at the end of any substantive session so future sessions can
recall what was discussed, decided, or built — the core of Metis's
cross-session continuity. The saved summary is searchable later via
search_session_memory and surfaces when you resume related work.

Args:
    summary: A 2–5 sentence, plain-English summary of what happened this
        session. Required.
    key_topics: Optional list of short topic tags for retrieval
        (e.g. ["phase-10", "APScheduler"]).
    decisions: Optional list of key decisions made
        (e.g. ["switched to AGPL-3.0"]).
    session_id: Optional identifier used to group related summaries; if
        omitted, the summary is stored on its own.

Returns:
    A dict with the saved record's id and a confirmation status.
ParametersJSON Schema
NameRequiredDescriptionDefault
summaryYes
key_topicsNo
decisionsNo
session_idNo

TDQS

A4.6/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Describes that the summary is stored to persistent memory and is searchable later. The return value is described as a dict with id and confirmation. Lacks explicit detail on overwrite behavior or limits, but adequate for the complexity.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Very concise: one sentence for purpose, a paragraph for usage, structured Args section, and Returns. No redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Covers all necessary aspects for a save operation: purpose, when to use, parameter meanings, return value. References retrieval counterpart. No gaps given the tool's simplicity.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, but the description provides rich details for each parameter: required summary length, optional key_topics with examples, decisions with examples, and session_id with grouping behavior. Adds significant value beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Clearly states the verb 'save', the resource 'summary of current session', and the purpose 'cross-session continuity'. Distinguishes from siblings like 'save_session_event' and pairs with 'search_session_memory'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly says 'Call this at the end of any substantive session' and explains the benefit of cross-session continuity. Does not state when not to use, but the context is clear enough.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

scaffold_scriptA

Assemble the raw material to write a NEW script from previous work.

Pulls the most relevant prior code, the project's dataset variables/paths,
and the cleaning steps — so you can write a new script in the user's own
conventions (same names, paths, packages). Call this, then write the script.

Args:
    goal: What the new script should do.
    project_id: The project to scaffold for (prioritised, then cross-project).
    language: Target language (r, python, …).
ParametersJSON Schema
NameRequiredDescriptionDefault
goalYes
project_idNo
languageNor

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.1/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so description carries full burden. It discloses that it pulls prior code, dataset variables/paths, and cleaning steps. However, it does not mention side effects, authentication needs, or whether it modifies anything. For a read-oriented scaffold tool, this is adequate but not exhaustive.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Description is two sentences plus an Args list, front-loaded with purpose. Efficient and no fluff. Could be slightly more structured, but it earns its length.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given 3 parameters, no annotations, but an output schema exists, the description adequately explains the tool's effect and inputs. It covers what is pulled and the steps to follow. Return values are left to output schema, which is acceptable.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, and description provides explicit meanings for all three parameters: goal ('what the new script should do'), project_id ('project to scaffold for, prioritised then cross-project'), language ('r, python, …'). This compensates well for sparse schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states it 'assembles raw material to write a new script', specifying verb and resource. Distinguishes from siblings by focusing on scaffolding, not writing or editing. No sibling tool offers similar functionality.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

States 'Call this, then write the script', indicating it's a preparatory step before script writing. Provides clear context but does not explicitly exclude alternative tools or mention when not to use. However, sibling list has no competing tool, so guidance is adequate.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

scan_folder_for_intentA

Detect a project's purpose from its folder contents.

Args:
    folder_path: Absolute path to the project folder.
    scan_type: One of:
        "names"   — file/folder names only (fast, no content read)
        "content" — reads README, CLAUDE.md, PLANNING.md (more accurate)
        "none"    — skip scan, return empty (user will describe manually)
ParametersJSON Schema
NameRequiredDescriptionDefault
folder_pathYes
scan_typeNonames

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.1/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so the description carries full burden. It discloses that scanning can be fast (names only) or more accurate (content reading), and that 'none' yields empty results. However, it does not mention error handling, permissions, or side effects.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is extremely concise, using a docstring format with a single-line purpose followed by a clear Args section. Each sentence adds necessary detail without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given an output schema exists (so return values are handled), the description covers the tool's purpose, parameters, and behavioral variations. It lacks potential edge cases like non-existent folders, but overall provides sufficient context for a scanning tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema coverage, the description provides detailed semantics for both parameters: `folder_path` is clearly defined as an absolute path, and `scan_type` enumerates three options with behavior descriptions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Detect a project's purpose from its folder contents,' using a specific verb and resource. It distinguishes itself from siblings like `scan_project_folder` by focusing on intent detection, and details three scanning modes.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for understanding project purpose via folder scanning, but does not explicitly state when to use this tool versus alternatives (e.g., `scan_project_folder`), nor does it provide when-not or prerequisite conditions.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

scan_inboxA

Scan the inbox/ folder and auto-transcribe any audio files to ideas.

Detects audio files (.m4a, .mp3, .wav, .ogg, .flac, .aac) and, when
auto_transcribe_audio=True (default), transcribes each one with faster-whisper
and captures the transcript as an idea. The audio file is moved to
inbox/processed/ after successful transcription.

Non-audio files are listed but left for manual review.

Args:
    auto_transcribe_audio: When True (default), automatically transcribe
        audio files found in the inbox. Set to False to just list them.
ParametersJSON Schema
NameRequiredDescriptionDefault
auto_transcribe_audioNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so the description fully carries the burden. It discloses file detection, transcription via faster-whisper, file movement to processed/, and handling of non-audio files. However, it does not mention any side effects like overwriting or deletion, and permissions are not discussed.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, well-structured, and front-loaded with the primary action. Every sentence adds value, and the parameter documentation is clearly separated. No fluff.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (one boolean parameter, clear behavior) and the presence of an output schema, the description is complete. It covers input, processing steps, and outcome (transcript as idea, file moved). No missing critical details.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The single parameter auto_transcribe_audio is fully explained in the description, including its default value and effect (transcribe vs list). Schema description coverage is 0%, so the description provides all necessary semantics, which is excellent.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's action: scanning the inbox folder and auto-transcribing audio files into ideas. It specifies supported file formats, the default behavior, and the outcome (capturing transcript as an idea). This distinguishes it from sibling tools like 'capture_idea' (manual) and 'transcribe_recording' (single file).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains when to use the tool (to process audio files in inbox/auto-transcribe or list them) and the behavior of the parameter. While it doesn't explicitly list alternative tools, the context is clear for an agent to decide. Minor gap: no mention of prerequisites or when not to use.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

scan_literatureA

Scan inputs/literature/ for new PDFs and register them in literature_metadata.

Walks all subdirectories. Uses the parent folder name as a domain tag.
Deduplicates by title so running multiple times is safe.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries full burden for behavioral disclosure. It clearly states it scans subdirectories, uses parent folder name as a tag, and deduplicates by title. These details cover the main behaviors (scanning, registration, deduplication) and are consistent with the tool's purpose. No contradictions.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise (3 sentences) and front-loaded: first sentence states the core action, second adds scope details, third explains safety. Every sentence serves a purpose without redundancy. Ideal structure for quick agent comprehension.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The tool has low complexity (no parameters, simple scanning behavior) and an output schema exists (though not shown, the context confirms it). The description covers scanning, registration, tagging, and deduplication—sufficient for an agent to understand the tool's effect and safe usage. No obvious gaps given the scope.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has zero parameters, so there is nothing for the description to add. Schema coverage is 100% vacuously. The description provides no parameter-related information, but none is needed. Baseline of 4 is appropriate for a parameterless tool.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the action ('Scan'), the specific resource ('inputs/literature/ for new PDFs'), and the outcome ('register them in literature_metadata'). It also adds details like walking subdirectories and using parent folder name as a domain tag, making it distinct from sibling tools like 'full_scan' or 'scan_pdf_library'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly notes that deduplication makes repeated runs safe, implying it can be run idempotently without harm. While it doesn't list alternatives or when not to use, the context of sibling tools (e.g., 'index_pdf_library') combined with the specific target folder provides reasonable guidance for selection.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

scan_newsA

Fetch RSS feeds and add new items to news_briefs.

Checks WHO outbreak news, CDC EID journal, PLOS NTDs, and Anthropic news.
Deduplicates by URL so running multiple times is safe.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, but description discloses key behavior: fetches RSS feeds, adds to news_briefs, deduplicates by URL for safe re-runs. Does not cover rate limits or failure handling, but sufficient given the tool's simplicity.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two concise sentences with critical information front-loaded. No wasted words; every sentence adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given low complexity, output schema presence, and 100% schema coverage, description covers main behavior. Could mention return format but output schema likely handles that. Minor gap: no mention of error handling for feed failures.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Input schema has 0 parameters, so description correctly omits parameter details. Baseline of 4 applies as no param info needed.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states the tool fetches RSS feeds and adds items to news_briefs, listing specific sources (WHO, CDC, PLOS, Anthropic). This distinguishes it from sibling scanning tools like scan_literature or scan_pubmed_alerts.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Implies usage for aggregating news from these sources but does not explicitly state when to use vs alternatives or when not to. The deduplication note hints at idempotent usage but lacks exclusions.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

scan_openalexA

Scan OpenAlex for recent papers matching a query.

OpenAlex covers 474M papers including preprints. Free API, no key required.
Results are inserted into news_briefs with source_type='article'.

Args:
    query: Free-text search query. Defaults to the query in user-preferences.json
           (openalex_query field), then to your configured research topics from
           user-config.yaml, then to a generic global-health fallback.
    days_back: How many days back to search (default: 1).
    max_results: Maximum papers to retrieve (default: 10).
ParametersJSON Schema
NameRequiredDescriptionDefault
queryNo
days_backNo
max_resultsNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.1/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Without annotations, the description carries full transparency burden. It discloses that results are inserted into news_briefs (a side effect) and explains the default query fallback chain. However, it does not cover aspects like rate limits, error handling, or API reliability, which are important for understanding behavior.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise and well-structured. It starts with a clear one-line purpose, followed by relevant context about OpenAlex, a side-effect note, and a structured argument list. Every sentence adds value without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description sufficiently covers the tool's inputs and side effects, and an output schema exists. However, it lacks details on pagination, ordering, or error conditions, which would be helpful for a complete understanding, though not strictly required.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The schema has 0% description coverage, leaving the description to fully define parameters. It explains 'query' with its fallback defaults, 'days_back' as search range, and 'max_results' as result limit. This adds significant value beyond the schema's raw types and defaults.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: 'Scan OpenAlex for recent papers matching a query.' It identifies the specific resource (OpenAlex) and action (scan), and distinguishes from siblings by naming the source. The additional detail about results being inserted into news_briefs further clarifies the tool's role.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description mentions 'Free API, no key required' as an advantage but does not explicitly guide when to use this tool over similar siblings like 'scan_literature' or 'scan_news'. The usage context is implied (for OpenAlex papers) but not contrasted with alternatives.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

scan_project_folderA

Scan a project folder to detect work done since last scan.

Checks: git commits, modified files, todo completions, new documents.
Updates the project's scan_summary and last_scanned fields.
Also refreshes CLAUDE.md in the project folder.
ParametersJSON Schema
NameRequiredDescriptionDefault
project_idYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.1/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It discloses that the tool updates scan_summary, last_scanned, and refreshes CLAUDE.md. It also lists checked items. However, it could be more explicit about any side effects beyond these updates, but overall it is adequate.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise and well-structured. The main purpose is front-loaded, followed by bullet points of what it checks and updates. Every sentence adds value with no redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has an output schema, the description need not explain return values. It covers the core action, inputs (implicitly), and side effects. Minor gaps: no mention of idempotency or prerequisites (e.g., must have a connected project folder). Still sufficient for a scan tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters2/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, requiring the description to compensate. The description does not mention the single required parameter 'project_id' or explain its role. While the purpose suggests it refers to the project folder, the lack of explicit parameter documentation leaves ambiguity.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: scanning a project folder to detect work done since last scan. It lists specific checks (git commits, modified files, todo completions, new documents) and distinguishes itself from sibling tools like 'scan_folder_for_intent' or 'scan_inbox' by focusing on project-specific work detection.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage context (scanning a project folder for recent work) but does not explicitly state when to use versus alternatives or when not to use. There are no exclusions or alternative tool mentions, which slightly limits guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

scan_pubmed_alertsA

Scan PubMed for recent papers matching a query.

Uses NCBI E-utilities (free, no API key required). Results are inserted
into news_briefs with source_type='article'. Safe to call daily from the
morning scan scheduler job.

Args:
    query: PubMed search query. Defaults to the query in user-preferences.json
           (pubmed_query field), then to your configured research field from
           user-config.yaml, then to a generic global-health fallback.
    reldate: Look back this many days (default: 1 = yesterday + today).
    max_results: Maximum papers to retrieve (default: 15).
ParametersJSON Schema
NameRequiredDescriptionDefault
queryNo
reldateNo
max_resultsNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description fully discloses that it uses free NCBI E-utilities with no API key, inserts results into news_briefs, and is safe for daily scheduling. It does not detail rate limits or error handling, but the core behaviors are well explained.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise and well-structured: a one-line summary, a context paragraph, and an Args list. Every sentence adds value without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has an output schema, the description sufficiently covers inputs, data destination, and usage cadence. Missing details like error handling or rate limits are minor gaps, but the overall completeness is high for a simple scanning tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has 0% description coverage, but the description's 'Args' section provides detailed semantics for each parameter: query's multi-level fallback, reldate's meaning, and max_results' default. This compensates entirely for the schema's lack of descriptions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool 'Scan PubMed for recent papers matching a query', specifying the exact resource (PubMed) and action. It is distinct from siblings like scan_news or scan_openalex, which target different sources.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description mentions it is 'Safe to call daily from the morning scan scheduler job', providing a clear use case. However, it does not explicitly state when not to use this tool or compare it to alternative scanning tools like scan_literature or scan_openalex.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

scan_tracked_filesA

Scan all tracked files and report which have changed since last scan.

Reads tracked_files table, checks actual file modification times,
and updates last_scanned timestamps.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

The description discloses internal actions: reads the tracked_files table, checks file modification times, and updates last_scanned timestamps. With no annotations, this provides adequate transparency for a simple scan tool, though it omits potential side effects beyond timestamp updates.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is two sentences with zero waste. The first sentence states the primary purpose, and the second elaborates on internal steps. Every word adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a parameterless tool with an output schema (implied but not shown), the description fully explains the tool's job, behavior, and side effects. No additional information is needed given the tool's simplicity.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has zero parameters, so the description adds meaning by explaining the tool's functionality. Schema coverage is 100% trivially. The description compensates for lack of parameters by describing what the tool scans and updates.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb (scan) and resource (tracked files) and specifies the outcome (report which have changed). It distinguishes from sibling tools like add_tracked_file and remove_tracked_file by focusing on scanning existing tracked files.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for checking changed tracked files, but provides no explicit guidance on when to use this tool versus alternatives like scan_project_folder or scan_folder_for_intent. No when-not-to-use or exclusions are mentioned.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

search_code_repositoryB

Search the Code Repository for prior code, variables and treatments.

Finds reusable scripts/functions, dataset variables and cleaning steps that
match a query — e.g. "Poisson model offset" or "catastrophic expenditure".

Args:
    query: What you're looking for.
    project_id: Restrict to one project. Optional.
    language: Restrict to a language (r, python, …). Optional.
ParametersJSON Schema
NameRequiredDescriptionDefault
queryYes
project_idNo
languageNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

B3.4/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, and the description does not disclose any behavioral traits such as side effects, permissions, rate limits, or whether it is read-only. The agent receives no guidance on safety or consequences.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise and includes helpful query examples. However, it redundantly lists parameters in an Args section when the schema already defines them. The front-loading is good.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

An output schema exists, so return value details are not required. However, the description lacks information about search behavior (e.g., result count, ordering, scope of repository), which would be helpful for a search tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters3/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The schema has 0% description coverage, so the description attempts to add meaning. For query, it adds 'What you're looking for.' For project_id and language, it adds restriction context. However, these are minimal and barely enhance the schema's own parameter names.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it searches a code repository for prior code, variables, and treatments, with concrete query examples. It distinguishes this tool from sibling search tools (e.g., search_library, search_fulltext) by specifying its domain.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides examples of queries and mentions what can be found, but does not explicitly state when to use this tool versus alternatives or when not to use it. Usage context is implied, not explicit.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

search_fulltextA

Full-text keyword search across all indexed PDFs.

Exact KEYWORD search across the full body text of your indexed PDFs. For
meaning-based (semantic/vector) PDF search use search_pdf_knowledge; for
reference metadata only use search_library.

Searches the library_fulltext table for papers containing your keywords.
More powerful than title/abstract search — finds methodological details
in the body of papers.

Args:
    query: Keywords to search for, space-separated (words shorter than three
        letters and common stop-words are ignored).
    max_results: Maximum number of results to return (default 10).

Returns:
    A single TextContent listing each matching paper's title (or filename)
    with a highlighted snippet around the first matched keyword, or a
    "no results" / "no usable keywords" message.
ParametersJSON Schema
NameRequiredDescriptionDefault
queryYes
max_resultsNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description fully discloses that it searches the library_fulltext table, ignores short words and stop-words, and returns a TextContent with title and highlighted snippet. It clearly explains the search behavior and output format.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, structured with a summary line, sibling differentiation, and a clear Args section. Every sentence adds value without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the simple tool with 2 parameters and existing output schema, the description is complete. It covers query behavior, return format, and usage context, leaving no gaps for an agent.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description carries full burden. It thoroughly explains both parameters: query (with details on ignored words) and max_results (with default value), adding significant meaning beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it performs full-text keyword search across indexed PDFs, and explicitly differentiates from siblings search_pdf_knowledge and search_library, making the tool's purpose precise and distinct.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides explicit guidance on when to use this tool (keyword search) vs alternatives (semantic or metadata search) and explains the query format (space-separated, ignoring short words and stop-words). It does not include explicit when-not-to-use but covers key context.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

search_libraryA

Search the local literature library for matching papers.

Searches your saved reference METADATA (title/authors/abstract/tags of papers
in your Zotero-synced + manual library). For meaning-based search inside PDF
body text use search_pdf_knowledge; for exact keyword search of PDF text use
search_fulltext; for an online/external literature lookup use search_literature.

Runs a substring search across the user's indexed references (Zotero-synced
plus manually added) so you can find what they already have before going to
the internet. Matches the query against title, authors, abstract, and tags,
returning the newest papers first. For richer literature workflows see
ask_library, search_literature, and export_citations.

Args:
    query: Search terms matched as a substring against title, authors,
        abstract, and tags.
    limit: Maximum number of papers to return, ordered newest year first
        (default 10).

Returns:
    A formatted text list of matching papers (title, authors, year, journal,
    DOI, abstract snippet), or a "no papers found" message.
ParametersJSON Schema
NameRequiredDescriptionDefault
queryYes
limitNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries the full burden. It discloses that the tool performs substring search across indexed references (Zotero-synced + manual), matches against multiple fields, and returns newest first. It also mentions the scope (local library) and intent (avoiding internet lookups). However, it does not explicitly state that the tool is non-destructive or mention rate limits, though these are implied by context.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is structured with clear paragraphs: overview, differentiation, scope/order, and Args/Returns. It is front-loaded with purpose and alternatives. While not overly long, it contains more detail than strictly necessary, making it slightly less concise than ideal. Still, every sentence earns its place.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's moderate complexity (2 parameters, no nested objects, output schema exists), the description covers all essential aspects: purpose, usage context, alternative tools, parameter details, return format, and ordering. The output schema exists, but the description also describes the return format, which is not redundant. No gaps remain.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description must compensate. It does so with an 'Args' section explaining query as substring matching against metadata and limit as maximum results (with default 10 and ordering by newest year first). This adds significant meaning beyond the schema, though it could be slightly more precise about the substring behavior.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool searches a local literature library for matching papers, specifying it searches metadata (title/authors/abstract/tags). This uses a specific verb and resource, and explicitly distinguishes from sibling tools like search_pdf_knowledge and search_fulltext.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly tells when to use this tool ('find what they already have before going to the internet') and when not to, naming alternatives: search_pdf_knowledge for meaning-based PDF search, search_fulltext for exact keyword search, and search_literature for external lookup. This provides clear guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

search_literatureA

Search the user's literature database.

Searches your curated/seeded literature catalogue by structured facets
(disease, method, geography, keyword). For your Zotero/manual reference
metadata use search_library; for full PDF body text use search_fulltext;
for semantic RAG over indexed PDFs use search_pdf_knowledge.

Searches the library_seeded SQLite table. Use this to find papers
by disease focus, methodology, geography, or any keyword.

Args:
    query: Search term, matched as a case-insensitive substring.
    field: Column to search -- one of "all", "disease", "method",
        "geography", or "article".
    limit: Maximum number of results to return (default 20).

Returns:
    A single TextContent holding a markdown table of matching rows from the
    library_seeded table, or an error/"no results" message if the database,
    table, or column is missing or nothing matches.
ParametersJSON Schema
NameRequiredDescriptionDefault
queryYes
fieldNoall
limitNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.7/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Discloses that it searches a specific SQLite table (library_seeded) and returns a markdown table. Also describes error behavior for missing database/table/column or no results. Lacks explicit read-only/destructive hint, but annotations are absent so description carries full burden. A slight gap is not stating side-effect profile, but it's implied to be read-only

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Efficient and well-structured: clear opening sentence, bullet-like sibling differentiation, parameter documentation, and return description. Every sentence adds value without redundancy

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Complete for the tool's complexity: covers purpose, usage, parameters, return format, and error handling. Output schema exists (not shown) but description adequately explains returns. No missing critical info for a search tool

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Adds meaning beyond schema: describes query as case-insensitive substring, field as column with enumerated values (all, disease, method, geography, article), and limit with default. Schema only provides types and defaults, so description adds value. Could be more precise about allowed field values but still helpful

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Clear verb-resource combination: 'Search the user's literature database.' Specifies the resource (curated/seeded literature catalogue) and the action. Explicitly distinguishes from three sibling tools (search_library, search_fulltext, search_pdf_knowledge).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Provides explicit when-to-use and alternatives: states when to use this tool vs. search_library, search_fulltext, and search_pdf_knowledge. No when-not-to-use is needed as the guidance is clear

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

search_literature_extendedB

Search literature with optional inclusion of archived items.

Searches library_seeded table across basename, relevance_note, disease,
geography, method fields. By default excludes archived items.

Args:
    query: Search term.
    include_archived: Include items with status='archived'. Default False.
    limit: Max results. Default 20.
ParametersJSON Schema
NameRequiredDescriptionDefault
queryYes
include_archivedNo
limitNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

B3.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description must carry the burden. It discloses which fields are searched and mentions the archive filter, but does not explicitly state that the tool is read-only or discuss side effects, rate limits, or authorization needs.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is relatively concise with a title line, a brief functional description, and a structured Args section. It front-loads the key extension (include_archived) but the Args section largely repeats schema information, slightly reducing conciseness.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the existence of sibling tools and an output schema, the description covers the basic functionality and searched fields. However, it does not explain how results are ordered, what fields are returned, or how pagination works. The 'extended' nature relative to 'search_literature' is not clarified.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters3/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description adds some meaning: 'query' is a search term, 'include_archived' includes archived items, and 'limit' is max results. However, it does not go beyond the schema's defaults or provide constraints like format or allowed values.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

Description clearly states the tool searches literature with optional inclusion of archived items and specifies the fields searched (basename, relevance_note, disease, geography, method). The name 'extended' implies distinction from 'search_literature', but the description does not explicitly differentiate it from siblings like 'search_literature' or 'search_fulltext'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No guidance on when to use this tool versus alternatives such as 'search_literature' or 'search_fulltext'. The description only states the default exclusion of archived items but does not provide context for tool selection.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

search_memoryA

Search the memory palace by keyword.

Looks across Metis's long-term memory to recall past context — what was
decided, found, or noted before. It searches the memory_entries table
(title, summary, topics) and also greps journal/**/*.md files on disk, so
both structured memory and freeform journal notes are covered.

Args:
    query: Keyword or phrase to match against entry titles, summaries,
        topics, and journal note text.
    entry_type: Optional filter limiting results to one kind of entry —
        "session", "journal", "idea", "decision", or "topic". Empty string
        (default) searches all types.

Returns:
    A text block of matching memory entries and journal hits, or a message
    when nothing matches.
ParametersJSON Schema
NameRequiredDescriptionDefault
queryYes
entry_typeNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.8/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries full burden and discloses that it searches both a database table (memory_entries) and journal files on disk. It mentions the specific fields searched (title, summary, topics) and the method (grep). This gives good insight into the tool's behavior.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is about 150 words, well-structured with a clear opening sentence, explanatory paragraph, and explicit Args/Returns sections. It is front-loaded and efficient, though could slightly trim the Returns section.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (2 params, no enums, output schema exists), the description covers what it does, how to use it, and what to expect in return. It mentions handling of empty results. It is complete enough for an agent to invoke correctly.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The schema has 0% description coverage. The description adds an 'Args' section explaining both parameters: 'query' as a keyword/phrase to match, and 'entry_type' as an optional filter with listed possible values. This provides meaning beyond the schema's basic titles.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly identifies the action (search) and resource (memory palace / long-term memory). It explains what kind of context is recalled. However, it does not explicitly distinguish this tool from sibling search tools like search_session_memory or search_library.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage for recalling past context from long-term memory, but it does not specify when to use this tool instead of alternatives like search_session_memory or search_notes. No exclusion criteria are provided.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

search_notesA

Search markdown notes across domains, projects, and library.

Case-insensitive substring search with surrounding context lines.

Args:
    query: Search term.
    scope: Where to search -- "all", "domains", "projects", "library".
    limit: Maximum results (default 15).
    max_chars_per_result: Truncate each result's context to this many characters (default 500).
                          Pass 0 for no truncation.
ParametersJSON Schema
NameRequiredDescriptionDefault
queryYes
scopeNoall
limitNo
max_chars_per_resultNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.8/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

The description discloses key behaviors: case-insensitive substring search, context lines, truncation via max_chars_per_result, and default limit. However, with no annotations provided, it misses details like response format or what happens with no results.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is very concise: one opening sentence, then a clean bullet list for arguments. Every sentence adds value without redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

With 4 parameters and an output schema, the description covers parameter semantics and search behavior adequately. It omits pagination or sorting, but for a search tool the core is covered. Output schema likely handles return values.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Since schema description coverage is 0%, the description adds significant value by explaining each parameter: query, scope (with values), limit (default 15), and max_chars_per_result (with truncation behavior).

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'search', the resource 'markdown notes', and the scope 'across domains, projects, and library'. This distinguishes it from sibling tools like search_library or search_fulltext.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No explicit guidance on when to use this tool versus alternatives like semantic_search or search_fulltext. The description only lists scope options without clarifying use cases or exclusions.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

search_pdf_knowledgeA

Semantic search across one or more knowledge database layers.

Meaning-based (vector) search over your knowledge-base PDF chunks — the RAG
retrieval tool behind grounded, cited answers. For exact keyword matches use
search_fulltext; for reference metadata use search_library; for your own
notes/memory (not documents) use semantic_search.

Searches indexed PDF chunks using 768-dim nomic-embed vector similarity.
You can search a single layer or combine layers (e.g. PH background + HAT specialist).

Args:
    query: Natural language question or keyword phrase to embed and match.
    databases: List of database slugs to search; pass None (the default) to
        search all indexed databases. Examples: ['ph-background'],
        ['hat-specialist', 'epi-methods'].
    top_k: Number of results to return (default 8).

Returns:
    A single TextContent listing the top-ranked PDF chunks (title, similarity
    score, layer, domain, page, source file, and an excerpt), or a message if
    nothing is indexed yet or no chunks match the requested databases.
ParametersJSON Schema
NameRequiredDescriptionDefault
queryYes
databasesNo
top_kNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.8/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It describes the vector similarity approach (768-dim nomic-embed), indicates the tool is read-only (RAG retrieval), and specifies the return format. However, it does not explicitly state non-destructive behavior, potential latency, or preconditions like indexing status. Slight gap prevents a 5.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured: a one-line summary, sibling differentiators, technical detail, and then Args/Returns sections. Every sentence adds value, and the key information is front-loaded. No wasted words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a search tool with 3 parameters and an output schema, the description covers all relevant aspects: query semantics, database selection, result count, and return format including fields (title, similarity score, layer, etc.). It also handles edge cases like empty index or no matches. Complete and informative.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description must compensate. It does so thoroughly: query is described as a 'natural language question or keyword phrase,' databases as 'list of database slugs' with examples, and top_k with default value. This adds substantial meaning beyond the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool performs semantic/vector search across knowledge database layers on PDF chunks. It explicitly distinguishes from siblings: search_fulltext for exact keyword, search_library for reference metadata, and semantic_search for personal notes. This meets the 5 standard for specific verb+resource and sibling differentiation.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides explicit guidance on when to use this tool vs. alternatives: 'for exact keyword matches use search_fulltext; for reference metadata use search_library; for your own notes/memory use semantic_search.' It also explains that you can search a single layer or combine layers, with examples. This fully meets the criteria for explicit when/when-not/alternatives.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

search_session_memoryA

Search past session summaries for a topic or keyword.

Use this to recall what was discussed in previous sessions — e.g.
"what did we decide about the installer?" or "when did we build APScheduler?".

Args:
    query: Keyword or phrase to search for.
    limit: Maximum number of results to return (default 10).
ParametersJSON Schema
NameRequiredDescriptionDefault
queryYes
limitNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries the full burden but only states that it searches past session summaries. It does not disclose behavior like whether it searches all sessions or only summaries, permission requirements, or result format. The read-only nature is implied but not explicit.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is extremely concise with a single opening sentence followed by a usage hint and example queries. Every sentence adds value, and the parameter descriptions are compact yet informative. No fluff.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's low complexity, the description covers the core functionality and parameter semantics. An output schema exists, so return values need not be described. However, additional context about how this differs from sibling 'search_memory' could enhance completeness.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description compensates by explaining 'query' as 'Keyword or phrase to search for' and 'limit' as 'Maximum number of results to return (default 10)'. This adds meaningful context beyond the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Search past session summaries for a topic or keyword' with specific verb and resource. It distinguishes itself from sibling tools like 'search_memory' by specifying 'session summaries' and provides concrete example queries.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly says 'Use this to recall what was discussed in previous sessions' with example queries, giving clear context. However, it does not provide exclusion criteria or explicitly differentiate from similar tools like search_memory.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

session_bootstrapA

Stage 1: Find or create a session for the current computer.

Checks for an active session (same computer, last active within 2 hours).
If found: resumes it and returns the last 5 events.
If not: creates a new session and seeds context from recent memory.

Args:
    client: Which Claude client is calling ('code'|'chat'|'cowork'|'dashboard').
ParametersJSON Schema
NameRequiredDescriptionDefault
clientNocode

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior5/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description fully discloses behavior: it checks for an active session within 2 hours, resumes and returns last 5 events if found, or creates a new session and seeds context from recent memory. It also specifies the 'client' parameter options. No contradictions.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is very concise: a short summary sentence, a behavior explanation in two bullet points, and a parameter line. Every sentence adds value, and the structure is front-loaded with the essential purpose.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has one parameter, no annotations, and an output schema (not shown), the description covers the main behavior and outcomes. It mentions returning 'last 5 events' when resuming and 'seeds context' when creating, but does not detail the output schema fields. However, since an output schema exists, this is acceptable.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The schema has one parameter with 0% coverage (no description), but the description adds complete meaning: it specifies the allowed values ('code', 'chat', 'cowork', 'dashboard') and its purpose ('Which Claude client is calling'). This fully compensates for the schema gap.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: 'Stage 1: Find or create a session for the current computer.' It provides a specific verb ('find or create') and resource ('session'), and distinguishes from sibling tools like list_recent_sessions by focusing on session initialization.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies this is a first step ('Stage 1') but does not explicitly state when to use this tool versus alternatives like list_recent_sessions or get_agent_context. No exclusion criteria or when-not-to-use guidance is provided.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

set_backup_scheduleA

Configure the nightly backup schedule.

The schedule is read by the scheduler (Phase 10) to trigger backup_db()
automatically. This tool only persists the configuration.

Args:
    enabled:     Whether automatic nightly backups are on.
    time_utc:    Time in HH:MM UTC to run the backup (e.g. '02:00').
    keep_days:   How many days of backups to retain (older ones deleted).
    destination: Backup directory (defaults to metis/system/backups/).
ParametersJSON Schema
NameRequiredDescriptionDefault
enabledNo
time_utcNo02:00
keep_daysNo
destinationNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.1/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries full burden. It states the tool 'only persists the configuration' and does not trigger backup, which is helpful. However, it lacks details on side effects, permissions, parameter validation, or confirmation messages, leaving gaps in behavioral clarity.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise and well-structured: a single introductory sentence establishing purpose, followed by a clear bullet list for parameters. No unnecessary information, and the purpose is front-loaded.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description covers purpose and parameters adequately. Since an output schema exists, return values are not required, but the description omits potential error conditions or prerequisites (e.g., scheduler phase). Nonetheless, for a simple configuration tool, it is reasonably complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description must compensate. It does so effectively with a bullet list explaining each parameter (enabled, time_utc format, keep_days retention, destination default), adding meaningful context beyond the schema's titles and defaults.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool configures a nightly backup schedule, using specific verb 'configure' and resource 'nightly backup schedule'. It distinguishes from siblings like get_backup_schedule (read) and backup_db (execute backup), leaving no ambiguity about its purpose.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains that the schedule is read by the scheduler to trigger backup_db() automatically and that the tool only persists configuration, implying it is for setting up schedules rather than immediate execution. However, it does not explicitly state when to use this tool versus alternatives like get_backup_schedule or backup_db, or specify when not to use it.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

set_discovery_tipsB

Adjust the feature-tips preference (the user's control).

Args:
    enabled:     True/False to turn tips on/off entirely.
    power_user:  True = expert mode (tips stay quiet); False = guided mode.
    snooze_days: >0 to snooze ALL tips for N days ("remind me later").
ParametersJSON Schema
NameRequiredDescriptionDefault
enabledNo
power_userNo
snooze_daysNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

B3.4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

The description explains the meaning of each parameter, which adds transparency. However, without annotations, it fails to disclose whether this is a safe or destructive action, any side effects, or authorization requirements.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is brief and structured, with a clear purpose statement followed by parameter explanations. Each sentence serves a purpose, and it is front-loaded. It is appropriately sized for a simple configuration tool.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple preference-setting tool with three parameters, the description adequately covers the tool's purpose and parameter semantics. The presence of an output schema reduces the need to describe return values. It does not mention edge cases but is sufficiently complete for correct usage.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The schema has no parameter descriptions, so the description compensates by explaining each parameter's function. It clarifies that enabled turns tips on/off, power_user sets mode, and snooze_days snoozes for N days. This adds significant meaning beyond the raw schema, though it could be more precise about ranges.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool adjusts feature-tips preference, using a specific verb and resource. It distinguishes from sibling tools like next_discovery_tip (show tip) and discovery_status (get status). However, it could be more explicit about the scope.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides no usage guidance. It does not explain when to use this tool versus alternatives like next_discovery_tip or discovery_status, nor does it mention prerequisites or exclusions.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

set_network_policyA

Set the current network access policy for all agents.

'strict'  — No internet access. Only local DB, files, and MCP tools.
'normal'  — Default. Librarian and News Radar may access allowed domains.
'offline' — Airplane mode. All external requests blocked.

Args:
    policy: One of 'strict' | 'normal' | 'offline'.
ParametersJSON Schema
NameRequiredDescriptionDefault
policyYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

The description explains the behavioral impact of each policy level but does not disclose potential side effects (e.g., whether changes affect active connections, require permissions, or are reversible). Since no annotations are provided, the description carries the full burden, and more detail on side effects would be beneficial.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is extremely concise: three bullet points for policy descriptions and a single line for the argument. No unnecessary words, and the structure aids readability.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple setter tool with one parameter, the description covers the essential information: parameter definition and policy meanings. An output schema exists (not shown), so return value documentation is not needed. It lacks information on error handling (e.g., invalid policy value) but is otherwise complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema description coverage, the description adds significant value by enumerating the allowed values ('strict', 'normal', 'offline') and explaining their meanings. It clearly documents the single required parameter. It could be improved by noting case sensitivity or exact format.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: 'Set the current network access policy for all agents.' It identifies the action (set), the resource (network access policy), and the scope (all agents). This sufficiently distinguishes it from the sibling tool 'get_network_policy'.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains the three policy options and their effects, which helps the agent decide which policy to use. However, it does not explicitly state when to use this tool versus alternatives (e.g., checking current policy with get_network_policy) or mention any prerequisites or side effects.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

set_project_categoryA

Assign or change a project's category.

Sets the grouping label on a project so it sorts with related work on the
dashboard. Call get_project_categories first to reuse an existing label
rather than creating a near-duplicate.

Args:
    project_id: The project_id of the project to update.
    category: The category label to assign (e.g. "Article", "Grant");
        surrounding whitespace is trimmed.

Returns:
    A confirmation message naming the category and project that were set.
ParametersJSON Schema
NameRequiredDescriptionDefault
project_idYes
categoryYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.8/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Discloses that the category label is assigned or changed, whitespace is trimmed, and returns a confirmation message. Lacks mention of error conditions or permissions, but overall informative.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Concise, well-structured with separate paragraphs for purpose, usage, args, and returns. No redundant information.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Complete for a simple two-parameter tool with output schema; covers purpose, parameters, return, and usage context adequately.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Adds full semantic context for both parameters: project_id and category, with examples and trimming behavior. Compensates for 0% schema description coverage.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Clearly states the verb 'assign or change' and the resource 'project's category'. Differentiates from sibling tools like get_project_categories and create_project by specifying its unique action.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly instructs to call get_project_categories first to reuse existing labels, preventing duplicates. Provides clear when-to-use and when-not-to guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

set_working_memoryA

Write a key/value pair to the current session's working memory.

Working memory is an ephemeral scratchpad — it persists for the session
but is not indexed for vector search. Use it for state that agents need
mid-pipeline (e.g. intermediate results, decisions made so far).

Args:
    session_id: Pipeline session ID from session_bootstrap().
    key: Variable name (e.g. 'current_article', 'user_intent').
    value: Value to store (any string, JSON, or text).
ParametersJSON Schema
NameRequiredDescriptionDefault
session_idYes
keyYes
valueYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description must disclose all behavioral traits. It clarifies ephemeral, session-scoped behavior and non-indexed nature, but omits side effects like overwriting existing keys, size limits, or error handling. Output schema existence may cover return values, but not mentioned.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise with five sentences. It is front-loaded with the action, followed by purpose and parameter details in a clear, structured format. No wasted words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a write tool with three required parameters, the description covers purpose, usage context, and parameter semantics. It lacks constraints on key length or value size, but output schema likely handles return values, making it reasonably complete.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema descriptions are absent (0% coverage), but the description's 'Args' section adds meaning: session_id source, key as variable name, value as any text/JSON. This compensates well, though value format could be more precise.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Write a key/value pair to the current session's working memory,' providing a specific verb and resource. It implicitly distinguishes from sibling 'get_working_memory' and other storage tools by focusing on write and ephemeral nature.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains that working memory is ephemeral and for mid-pipeline state, contrasting with long-term searchable memory. It advises use cases like intermediate results, but does not explicitly name alternative tools or when not to use.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

start_course_buildA

Start a new course build pipeline.

Creates a course record in the course_builds table, adds a placeholder
row to learning_courses (status='building'), and returns the intake
questionnaire for the user to complete.

Args:
    topic: The subject or title of the course (e.g. "Multilevel models for epidemiologists")
    target_audience: Who this course is for (e.g. "MPH students with basic R knowledge")
    duration_hours: Estimated total course length in hours (0 = TBD)
    notes: Any initial notes or constraints the user has mentioned

Returns:
    Course ID, a brief confirmation, and the intake questionnaire.
ParametersJSON Schema
NameRequiredDescriptionDefault
topicYes
target_audienceNo
duration_hoursNo
notesNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries full responsibility. It discloses that the tool creates records and returns a questionnaire, but doesn't discuss side effects, permissions, or error conditions. However, it is transparent about the core behavior.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise with a clear structure: brief summary, then detailed explanation of args and returns. Every sentence adds value; no filler.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's moderate complexity and lack of schema descriptions, the description covers the essential aspects: what it does, the arguments, and the return value. It is complete enough for an agent to use correctly.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The description includes an Args section that explains each parameter's purpose, especially clarifying duration_hours (0 = TBD) and notes. This adds meaning beyond the bare schema, which has no descriptions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the action ('start'), the resource ('course build pipeline'), and provides a detailed breakdown of what it does (create record, add placeholder, return questionnaire). It distinguishes from sibling tools like get_course_status or save_course_curriculum.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description does not provide explicit guidance on when to use this tool versus alternatives. It assumes the agent knows to start a new build, but doesn't mention prerequisites, conflicts with existing builds, or when not to use it.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

start_spanA

Open a new tracing span. Returns the span_id to pass to end_span().

Args:
    name:       Human-readable span label (e.g. 'stage_1_bootstrap', 'tool:search_library').
    kind:       Span type — 'internal' | 'tool' | 'agent' | 'llm'. Default: 'internal'.
    session_id: Session identifier (from session_bootstrap). Optional.
    run_id:     FK to agent_runs.run_id. Optional.
    parent_id:  Parent span_id for nested spans. Optional.
    tags:       JSON string of extra key/value metadata. Optional.

Returns the span_id string — pass it to end_span() when the work is done.
ParametersJSON Schema
NameRequiredDescriptionDefault
nameYes
kindNointernal
session_idNo
run_idNo
parent_idNo
tagsNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description fully discloses the behavior: it opens a span and returns a span_id. It does not mention side effects or destruction, which is appropriate for a tracing tool. The description adds useful context about parameter meanings and defaults.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is extremely concise: one summary line, a structured Args list with clear labels, and a brief return note. Every sentence adds value without redundancy. It is front-loaded with the core purpose.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's 6 parameters and no annotations, the description covers all necessary aspects: what it does, all parameters with types and defaults, the return value, and integration with end_span. It is complete for an agent to correctly invoke the tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, but the description provides rich semantics for all 6 parameters, including examples (e.g., 'stage_1_bootstrap' for name), enumeration of kind options, and explanations of optional fields like parent_id and tags. This far exceeds the schema's bare titles and defaults.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Open a new tracing span' with the verb 'open' and resource 'span', and explicitly returns the span_id for use with end_span. This distinguishes it from sibling tools like end_span, log_span, and get_spans by focusing on creation.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains the parameters in detail and hints at usage with end_span, but does not explicitly state when to use this tool versus alternatives (e.g., log_span for logging without span structure). The guidance is clear but not exhaustive.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

store_episodic_memoryA

Store an event in episodic memory and index it for vector search.

Logs a time-stamped EVENT (something that happened) and indexes it for vector
search. For a distilled, timeless concept/definition use store_semantic_memory;
for a human-curated palace note use add_memory_entry.

Episodic memory is a chronological log of things that happened — ideas,
notes, papers read, tasks completed, agent runs.

Args:
    content: The text content of the event to remember.
    event_type: One of 'idea', 'note', 'task', 'paper', 'meeting', or
        'agent_run'.
    session_id: Current pipeline session ID (optional).
    metadata: JSON string with extra fields such as title, tags, or source.

Returns:
    A single TextContent confirming the stored event (its row id and type),
    or an error message if the database is missing, fastembed is not
    installed, or the write fails.
ParametersJSON Schema
NameRequiredDescriptionDefault
contentYes
event_typeNonote
session_idNo
metadataNo{}

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.8/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations provided, so the description carries full burden. It describes logging a time-stamped event and indexing for vector search, mentions possible errors (database missing, fastembed not installed), and return format. However, it does not discuss write permissions, idempotency, or concurrency. Still, it clearly communicates the non-trivial side effect of indexing.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured: a concise first sentence stating purpose, followed by usage guidance, then Args and Returns sections. No redundant or vague statements. Every sentence adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given 4 parameters, 1 required, and no output schema provided, the description covers purpose, usage, parameter details, and return values. It also references sibling tools and error scenarios, making it complete for an AI agent to select and invoke the tool correctly.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, so the description must explain parameters. It includes an 'Args' section that explains each parameter: content (required), event_type (with enumerated values), session_id (optional), metadata (JSON string with extra fields). This adds critical meaning beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose: 'Store an event in episodic memory and index it for vector search.' It uses a specific verb ('store') and resource ('episodic memory'), and differentiates from siblings by naming store_semantic_memory and add_memory_entry as alternatives.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicit guidance on when to use this tool vs alternatives: 'For a distilled, timeless concept/definition use store_semantic_memory; for a human-curated palace note use add_memory_entry.' Also defines episodic memory as a chronological log.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

store_procedural_memoryA

Store a successful workflow pattern in procedural memory.

Procedural memory captures 'how to do things' — repeatable processes,
workflows that worked well, or step-by-step patterns for recurring tasks.

Args:
    procedure_name: Short name for this procedure (e.g. 'Domain literature search').
    steps: Markdown-formatted steps for the procedure.
    trigger_context: What situation should trigger using this procedure.
ParametersJSON Schema
NameRequiredDescriptionDefault
procedure_nameYes
stepsYes
trigger_contextNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.9/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries the full burden. It indicates the tool stores data but does not disclose whether it overwrites existing entries, is append-only, requires specific permissions, or has side effects. The 'successful' qualifier hints at a condition but is vague. More behavioral details are needed.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured with a clear header, conceptual explanation, and formatted Args list. Every sentence adds value without redundancy. It is concise and easy to parse.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity and the presence of an output schema, the description covers the essential purpose and parameter semantics. It could be slightly improved by noting whether the procedure updates an existing pattern or always creates a new one, but overall it is sufficient for a basic store tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The schema has 0% description coverage, so the description must compensate. The Args section adds meaningful explanations for each parameter: 'Short name...', 'Markdown-formatted steps', and 'What situation should trigger...'. This clarifies the purpose and formatting beyond the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool stores a successful workflow pattern in procedural memory, with a helpful explanation of procedural memory. However, it does not explicitly distinguish this from sibling tools like store_episodic_memory or store_semantic_memory, missing an opportunity to clarify when to use this specific store.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains when to use procedural memory ('repeatable processes, workflows that worked well, step-by-step patterns') providing context. However, it does not specify when NOT to use it or suggest alternatives, which would help the agent decide between this and other memory tools.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

store_semantic_memoryA

Store a distilled knowledge node in semantic memory.

Stores a distilled CONCEPT/definition (timeless 'what I know'). For a
time-stamped event use store_episodic_memory; for a human-curated palace
note use add_memory_entry.

Semantic memory holds the 'what I know' layer — concepts, definitions,
and their relationships. Used by retrieval to surface relevant knowledge
without relying on raw event history.

Args:
    concept: Short name for the concept, e.g. 'RDT sensitivity' or
        'fAChE inhibition'.
    definition: A one-to-three-sentence definition or explanation.
    related_concepts: Comma-separated names of related concepts.
    source_type: Where this came from: 'paper', 'note', 'idea', or
        'user_defined'.
    source_id: ID of the source record, e.g. a paper DOI or idea_id.

Returns:
    A single TextContent confirming the stored node (its row id and concept
    name), or an error message if the database is missing, fastembed is not
    installed, or the write fails.
ParametersJSON Schema
NameRequiredDescriptionDefault
conceptYes
definitionYes
related_conceptsNo
source_typeNouser_defined
source_idNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.5/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It explains the tool stores in semantic memory and that retrieval uses this knowledge, and lists error conditions (missing database, missing fastembed, write failure). However, it does not disclose behaviors like idempotency, updating existing concepts, or side effects, leaving some gaps.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is well-structured: a brief initial sentence stating purpose, then sibling comparisons, a paragraph on what semantic memory is, followed by clear Args and Returns sections. It is front-loaded with essential information and every part earns its place without unnecessary verbosity.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (store operation), the description is fairly complete: it explains the role of semantic memory, parameter semantics, and return type (TextContent with confirmation/error). It lacks details on handling duplicate concepts, but the error conditions and overall context suffice for a typical use case.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The description includes an 'Args' section explaining each parameter in detail: 'concept' with examples, 'definition' as one-to-three sentences, 'related_concepts' as comma-separated, 'source_type' with enumerated possibilities, and 'source_id' as ID. This adds significant meaning beyond the schema's mere title/type, covering all 5 parameters.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool stores a distilled knowledge node in semantic memory, using specific verb 'store' and resource 'semantic memory'. It distinguishes from sibling tools 'store_episodic_memory' (for time-stamped events) and 'add_memory_entry' (for human-curated palace note), making the purpose unambiguous.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly tells when to use this tool (for timeless concepts/definitions) and when not to: 'For a time-stamped event use store_episodic_memory; for a human-curated palace note use add_memory_entry.' This provides clear guidance on tool selection among similar siblings.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

suggest_cleaningA

Profile a dataset and return specific recommended cleaning operations.

Analyses the profile and suggests operations with rationale, e.g.:
  - "col 'age' has 12% nulls → consider fill_na or drop_na_rows"
  - "7 duplicate rows detected → apply drop_duplicates"
  - "col 'name ' has leading/trailing whitespace → apply strip_whitespace"

Args:
    path: Absolute local path to the dataset file.

Returns JSON with profile summary and a list of suggested operations,
each with: operation, column (if applicable), rationale, priority (high/medium/low).
ParametersJSON Schema
NameRequiredDescriptionDefault
pathYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.8/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It mentions profiling and suggesting operations but does not explicitly state whether the tool is read-only or modifies data. The phrase 'return specific recommended cleaning operations' suggests a read operation, but it should clearly indicate non-destructive behavior.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, front-loads purpose, and uses examples and structured Args/Returns sections. Every sentence adds value with no wasted words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the simple schema and lack of annotations, the description adequately explains purpose, examples, and return format. However, it lacks details on supported file formats or behavioral side effects, which would improve completeness.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 0%, but the description compensates by clearly defining 'path' as 'Absolute local path to the dataset file.' This is sufficient for a single string parameter. The description covers the parameter well, though it could accept additional format constraints.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool profiles a dataset and returns specific recommended cleaning operations. Examples of suggestions (fill_na, drop_duplicates, strip_whitespace) clarify the resource. It distinguishes from siblings like 'clean_dataset' (which applies cleaning) and 'profile_dataset' (which likely only profiles).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage before cleaning operations but does not explicitly state when to use this tool versus alternatives like 'profile_dataset' or 'clean_dataset'. No exclusions or prerequisites are mentioned, leaving the agent to infer context from examples.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

surface_relevant_contextA

Retrieve past memory entries relevant to a topic and return a structured context brief.

Searches memory_entries by topic keyword and optional tag list, ranks by
relevance, and formats the top N entries for injection into the current
agent's working context.

Args:
    topic: The topic or task description to search for.
    tags: Optional comma-separated topic tags to include (e.g. 'methods,phd').
    top_n: Maximum number of entries to return (default 5).
ParametersJSON Schema
NameRequiredDescriptionDefault
topicYes
tagsNo
top_nNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries full burden. It discloses that the tool searches memory_entries, ranks by relevance, and returns top N entries formatted as a context brief. However, it does not specify whether it is read-only, requires permissions, or any side effects. The description is adequate but not fully transparent.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise: a one-sentence intro followed by bulleted parameter explanations. It is front-loaded with the purpose, and every sentence adds value with no redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool has 3 parameters and an output schema (not shown but present), the description covers the main behavior and parameter semantics. It lacks detail on the return format, but the output schema likely covers that. The description is sufficient for an agent to use the tool correctly.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has 0% description coverage, so the description's parameter documentation adds significant value. It explains 'topic' as topic/task description, 'tags' as optional comma-separated tags, and 'top_n' as max entries with default 5. This is clear and helps the agent understand how to use parameters.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's verb ('Retrieve'), resource ('past memory entries'), and purpose ('return a structured context brief'). It distinguishes from siblings like 'get_topic_memory' by specifying that it searches by topic and optional tags, ranks by relevance, and formats top N for injection into working context.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies when to use (when you need relevant past memory entries for a topic) but does not explicitly state when not to use it or compare with alternatives like 'search_memory' or 'semantic_search'. Usage context is clear but lacks exclusion criteria.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

sync_zotero_libraryA

Sync the Zotero library into Metis literature_metadata.

Performs an incremental sync by default — only fetches items changed since
the last sync. Pass full=True to re-sync everything.

Requires ZOTERO_API_KEY and ZOTERO_USER_ID in metis/system/.env.

Args:
    full: If True, re-sync all items regardless of last sync state.
ParametersJSON Schema
NameRequiredDescriptionDefault
fullNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.1/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Since no annotations are provided, the description carries full burden for behavioral disclosure. It correctly indicates the default incremental behavior and the full sync option. However, it lacks details on potential side effects (e.g., overwriting existing metadata, error states, or rate limits). The description is adequate but not comprehensive.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise and well-structured: it opens with the purpose, then explains default behavior, required environment variables, and the parameter. Every sentence earns its place with no redundancy or fluff.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (one boolean parameter) and the presence of an output schema, the description covers the basic functionality. However, it omits details about return values, error handling, and the extent of the sync (e.g., collections, attachments). It is minimally complete but leaves gaps for a production tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema description coverage, the description adds crucial meaning for the sole parameter 'full'. It explains the default behavior and the effect of setting it to True, which goes beyond the schema's structural definition. This is clear and helpful.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb ('Sync') and resource ('Zotero library into Metis literature_metadata'), making the tool's purpose unambiguous. It distinguishes itself from sibling tools (e.g., import_bibtex_library, scan_literature) by specifying the exact integration with Zotero.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains default behavior (incremental sync) and the option to force full sync via the 'full' parameter. It also lists required environment variables (ZOTERO_API_KEY, ZOTERO_USER_ID), providing context for use. However, it does not specify when to avoid this tool or mention alternatives among siblings.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

toggle_contextA

Activate or deactivate a specialist context.

Args:
    name: Context name to toggle (must exist in specialist_contexts).
    active: True to activate, False to deactivate.
ParametersJSON Schema
NameRequiredDescriptionDefault
nameYes
activeYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden. It states the action and parameter meanings but does not disclose any side effects, needed permissions, rate limits, or return behavior. For a simple toggle, it is minimally sufficient but not detailed.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is two sentences plus a clear args list. It is front-loaded with the main action, and no superfluous text exists. Every sentence adds value.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (2 params, no nested objects, has output schema), the description covers the core behavior and constraints. However, it does not describe the return value or confirm that the output schema documents the result. Slightly incomplete but largely adequate.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema description coverage, the description fully explains both parameters: name (context name to toggle, must exist) and active (boolean to activate/deactivate). This adds essential meaning beyond the raw schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's action: 'Activate or deactivate a specialist context.' The verb 'toggle' paired with 'specialist context' is specific and differentiates from sibling tools like add_specialist_context (create) and list_contexts (list).

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description includes a prerequisite: name must exist in specialist_contexts. It implicitly distinguishes from add_specialist_context by mentioning existence, but does not explicitly explain when not to use or list alternatives. Slight lack of explicit guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

transcribe_recordingA

Transcribe a meeting recording using Whisper.

Optionally applies speaker diarization with pyannote.audio if installed
and HF_TOKEN is set. Saves the transcript alongside the audio file and
updates the meetings table.

Args:
    recording_id: The meeting_id from the meetings table (shown in Meetings tab)

Returns:
    Transcript text (with speaker labels if diarization succeeded) and
    the path where it was saved.
ParametersJSON Schema
NameRequiredDescriptionDefault
recording_idYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.1/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Discloses key behaviors: saves transcript alongside audio, updates meetings table, optional diarization with prerequisite (HF_TOKEN). No annotations provided, so description carries full burden.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Description is concise (4 sentences plus Args/Returns), front-loaded with main action. Efficiently conveys core functionality and side effects.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given one parameter, no annotations, and presence of output schema, the description covers purpose, parameters, returns, side effects, and optional features. Complete for a transcription tool.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema description coverage, the description explains that recording_id is the meeting_id from the meetings table, adding context beyond the schema. Single parameter is well-described.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Clearly states it transcribes a meeting recording using Whisper, with specific resource ('meeting recording') and verb ('transcribe'). Distinguishes from sibling 'transcribe_voice' by focusing on meeting recordings.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Implies usage for meeting recordings but does not explicitly compare with alternatives like 'transcribe_voice'. Provides condition for optional diarization but no when-to-use or when-not-to-use guidance.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

transcribe_voiceA

Transcribe an audio file or live mic recording and optionally capture the result.

Uses faster-whisper locally — entirely offline, no API calls, no data leaves
your machine. Supports MP3, WAV, M4A, OGG, FLAC, and most other audio formats.

Args:
    audio_path: Path to an audio file to transcribe. Leave empty when using
                record_seconds for live mic capture.
    route_to:   What to do with the transcript after transcription:
                - "raw"     → return the transcript text only (default)
                - "idea"    → capture as an idea with cross-pollination
                - "journal" → add as a journal entry (mood + energy auto-extracted)
                - "note"    → append to today's voice-notes markdown file
    record_seconds: Seconds to record from the microphone. Requires sounddevice
                    and numpy. Only used when audio_path is empty.
    model_size: faster-whisper model size. Options: "tiny", "base", "small",
                "medium", "large-v3". Defaults to METIS_WHISPER_MODEL env var,
                or "base". Larger models are more accurate but slower to load.

Returns:
    The transcript text and (if routed) confirmation of where it was saved.

Examples:
    transcribe_voice(audio_path="/tmp/idea.m4a", route_to="idea")
    transcribe_voice(audio_path="/tmp/reflection.mp3", route_to="journal")
    transcribe_voice(audio_path="", record_seconds=30, route_to="idea")
    transcribe_voice(audio_path="/tmp/note.wav", route_to="note")
ParametersJSON Schema
NameRequiredDescriptionDefault
audio_pathNo
route_toNoraw
record_secondsNo
model_sizeNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so the description carries full burden. It discloses local offline processing, supported formats, model size options, routing behavior, and default env var. Lacks detail on performance or error handling but is adequate.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Well-structured with purpose, context, Args, Returns, and Examples. Every sentence adds value. No redundancy. Appropriate length for the information conveyed.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given 4 parameters, no required params, and an output schema, the description is complete: covers all parameters, behavior, use cases, and examples. Output schema exists and description also mentions return format.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Despite 0% schema coverage, the description explains each parameter in the 'Args' section: audio_path (empty for live mic), route_to (with options), record_seconds (requires dependencies), model_size (with defaults). Adds significant meaning beyond the schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states 'Transcribe an audio file or live mic recording and optionally capture the result.' It specifies the verb (transcribe) and resource (audio file/mic recording), and hints at local offline processing which distinguishes it from potential siblings like transcribe_recording.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explains when to use: for audio files or live mic capture. It provides offline privacy context. However, it does not explicitly state when not to use this tool versus alternatives like transcribe_recording, which would improve clarity.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

unarchive_projectA

Restore an archived project to active status.

Args:
    project_id: The project_id to restore.
ParametersJSON Schema
NameRequiredDescriptionDefault
project_idYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.8/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries full burden. It states the core action (restore to active) but does not disclose side effects, permissions, reversibility, or output behavior, even though an output schema exists.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is very short with two sentences plus an Args section. It is front-loaded and efficient, though the Args section could be integrated into the main description for even greater conciseness.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given a single parameter and the existence of an output schema, the description is minimally adequate. However, it misses relational context (e.g., inverse of archive_project) and does not mention error conditions or prerequisites.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The description adds meaning to the only parameter by stating 'The project_id to restore', which is not present in the schema (0% coverage). It clarifies the parameter's role but lacks details on format or source.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description uses specific verb 'Restore' and resource 'archived project', clearly distinguishing it from sibling 'archive_project' which performs the inverse operation.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description does not explicitly state when to use this tool versus alternatives, but the presence of sibling 'archive_project' implies the usage context. No prerequisites or exclusions are provided.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

update_all_projectsA

Scan all registered project folders for activity. Refreshes CLAUDE.md for each.

Called by the dashboard Update button or on demand.

ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.9/5.0
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations, the description carries the full burden. It states it scans and refreshes files but does not disclose side effects (e.g., potential writes, required permissions, or performance impact). Insufficient for a scan-and-write operation.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two sentences, front-loaded with action verb, no redundant information. Perfectly concise.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness3/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description explains the action but lacks details on prerequisites (e.g., projects must be registered), what 'refreshes CLAUDE.md' entails, and what the output schema returns. Given the presence of an output schema, this is a minor gap.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema has zero parameters with full coverage, so there is nothing to explain. The description implicitly conveys that the tool operates on all projects without filtering, which is adequate.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Clearly states it scans all registered project folders and refreshes CLAUDE.md for each. This distinguishes it from sibling tools like scan_project_folder (single) and full_scan.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Indicates it's called by dashboard Update button or on demand, providing typical use context. However, it does not explicitly mention when not to use or contrast with alternatives.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

update_contactA

Add or update a contact record.

Args:
    name: Contact's full name (used as unique key).
    notes: Notes about this contact.
    role: Contact's role or affiliation.
    birthday: Birthday in YYYY-MM-DD format.
ParametersJSON Schema
NameRequiredDescriptionDefault
nameYes
notesYes
roleNo
birthdayNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations exist, so the description carries full burden. It discloses that 'name' is used as a unique key (determining add vs update) and specifies the birthday format. Missing are permissions, side effects, or error handling, but for a simple CRUD tool this is adequate.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is extremely concise: a two-line summary followed by a bullet-like parameter list. No redundant or unnecessary text.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity and the presence of an output schema, the description covers the essential behaviors and parameter semantics. Minor additional context (e.g., what happens if name is missing) would improve, but currently sufficient.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the description adds meaningful context for each parameter: name as unique key, notes, role, birthday format. This fully compensates for the schema's lack of descriptions.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the action ('Add or update') and the resource ('contact record'). The tool name 'update_contact' aligns well. Among siblings, there is 'get_contacts' but no other contact mutation tool, so it distinguishes sufficiently.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description implies usage through parameter explanations but lacks explicit guidance on when to use this tool versus alternatives or when not to use it. The unique key note helps, but no conditions or exclusions are stated.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

update_project_memoryA

Append a session summary to a project's history and refresh its prompt memory.

Call this at the end of any work session on a project. The history feeds
into load_project_context() so future sessions automatically know what
happened before.

Args:
    project_id: The project slug.
    what_was_done: 1-3 sentence summary of what was accomplished this session.
    next_steps: Optional: what needs to happen next. Updates the next_step field.
ParametersJSON Schema
NameRequiredDescriptionDefault
project_idYes
what_was_doneYes
next_stepsNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A3.7/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries full burden. It discloses that the tool appends, refreshes prompt memory, and updates the next_step field. It does not mention destructive effects, auth requirements, or return values, but given the simple mutation, the description is adequate.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is highly concise: three sentences plus a bullet-style args list. The main purpose is front-loaded, each sentence earns its place, and there is no fluff or redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's simplicity (3 parameters, no annotations, output schema exists), the description covers purpose, usage timing, parameter meanings, and how it integrates with other tools. It is sufficiently complete for an agent to invoke correctly.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the description provides clear, human-readable definitions for all three parameters: project_id (slug), what_was_done (1-3 sentence summary), and next_steps (optional, updates next_step). This adds significant value beyond the bare schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool appends a session summary to a project's history and refreshes prompt memory, specifying the verb and resource. It distinguishes itself from general memory tools by focusing on project sessions and mentions integration with load_project_context().

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly says 'Call this at the end of any work session on a project' and explains the history feeds into another function. However, it does not provide guidance on when not to use it or how it compares to alternative tools like add_memory_entry.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

update_taskA

Update an existing task — its status, title, owner, notes, due date, or recurrence.

The companion to create_task and get_tasks: use this to mark a task done or
blocked, reschedule it, reassign it, or edit its details. Only the fields you
pass are changed; empty arguments leave the existing value untouched. Marking
a recurring task "done" automatically creates its next occurrence. Find a
task_id with get_tasks; use delete_task to remove a task entirely.

Args:
    task_id: ID of the task to update (as shown by get_tasks). Required.
    status: New status — "open", "done", or "blocked". Empty = unchanged.
    title: New title. Empty = unchanged.
    owner: New owner. Empty = unchanged.
    notes: New notes/details. Empty = unchanged.
    due_date: New due date in "YYYY-MM-DD" format. Empty = unchanged.
    recurrence: New repeat — "daily", "weekly", "monthly", or "yearly".
        Empty = unchanged; pass "none" to clear an existing recurrence.

Returns:
    A confirmation listing the changed fields (and the next-occurrence id if a
    recurring task was completed), or a note if the task_id was not found.
ParametersJSON Schema
NameRequiredDescriptionDefault
task_idYes
statusNo
titleNo
ownerNo
notesNo
due_dateNo
recurrenceNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.8/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Discloses key behaviors: empty arguments leave unchanged, marking recurring task done auto-creates next occurrence, and output format (confirmation or not-found). Without annotations, this covers the main behavioral traits, though it doesn't address concurrency or permissions.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Well-structured and efficient: opening purpose sentence, usage paragraph, Args list with clear formatting, and Returns section. Every sentence adds value, no redundancy.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Comprehensive for a 7-parameter tool with no schema descriptions. Includes returns information, references sibling tools for ID lookup and deletion, and explains partial updates. With an output schema present, the description's return summary is sufficient.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

With 0% schema description coverage, the description fully compensates by explaining each parameter: task_id is required and sourced from get_tasks, status has explicit allowed values, due_date has format, recurrence explains special value 'none' to clear. This adds critical meaning beyond the schema's defaults and empty strings.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool updates an existing task and lists all modifiable fields (status, title, owner, notes, due date, recurrence). It positions itself as the companion to create_task and get_tasks, differentiating from delete_task.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines5/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Explicitly describes when to use (mark done/blocked, reschedule, reassign, edit details), how partial updates work (only passed fields changed), and side effects (recurring task completion creates next occurrence). Provides alternative tool names for finding task_id (get_tasks) and removing tasks (delete_task).

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

update_thinking_profileA

Recompute and update the thinking profile from the last 90 days of events.

Computes:
- connection_preferences: acted-on rates per domain_pair (source_type)
- preferred_idea_sources: frequency of source_type in high-rated idea events
- agent_feedback: accepted/flagged rates per agent_slug

Writes updated system/thinking-profile.yaml. Safe to call multiple times.
ParametersJSON Schema
NameRequiredDescriptionDefault

No parameters

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description carries full burden. It discloses that the tool writes to 'system/thinking-profile.yaml', lists the computations performed (connection_preferences, preferred_idea_sources, agent_feedback), and states it is safe to call multiple times. This provides good behavioral context, though it could elaborate on potential side effects or required permissions.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is concise, with the first line stating the action, followed by bullet points of computations, and a final note on file writing and safety. Every sentence adds value, and there is no redundancy or fluff.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description explains what the tool does (recompute from last 90 days), what it computes (three metrics), and that it writes to a YAML file. It is safe to call multiple times. Given that an output schema exists (as per context), the description does not need to detail return values. It is complete enough for an agent to understand the primary behavior.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has zero parameters, so schema coverage is 100%. The description does not need to add parameter information. The baseline for no parameters is 4, and the description meets this by not introducing unnecessary confusion.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'Recompute and update', the resource 'thinking profile', and the scope 'from the last 90 days of events'. It distinguishes itself from sibling tools like 'get_thinking_profile' (read-only) and 'reset_thinking_profile' (reset) by describing its update and computation behavior.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description notes 'Safe to call multiple times', which implies it can be used repeatedly. However, it does not explicitly state when to prefer this tool over alternatives like 'get_thinking_profile' or 'reset_thinking_profile', nor does it mention any prerequisites or when to avoid calling it.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

validate_pipeline_stageA

M5.7.4 — Validate a sub-agent output before passing to the next pipeline stage.

Treats sub-agent output with the same suspicion as external tool output.
Rejects if any required keys are missing or empty.

Args:
    output_json: JSON string of the sub-agent output dict.
    required_keys: Comma-separated list of required keys (e.g., "title,summary,agent_slug").
ParametersJSON Schema
NameRequiredDescriptionDefault
output_jsonYes
required_keysYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.6/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

The description discloses key behavioral traits: it treats sub-agent output with suspicion and rejects if required keys are missing or empty. Since no annotations are provided, the description carries full burden. It does not detail return values, but the system has an output schema, so that is acceptable. It could mention error formatting or success indications.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is highly concise with two sentences and a bulleted Args section. Every sentence provides value without redundancy. The purpose is stated upfront, and details are structured efficiently.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the tool's low complexity (2 parameters, no nested objects) and the presence of an output schema, the description covers the validation logic, parameter meanings, and usage context comprehensively. No additional details are necessary for correct invocation.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Despite 0% schema description coverage, the description thoroughly explains both parameters: 'output_json' as a JSON string of the sub-agent output, and 'required_keys' as a comma-separated list with an example. This adds significant meaning beyond the raw schema.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly specifies the tool's verb ('Validate') and resource ('sub-agent output before passing to the next pipeline stage'). It distinguishes the tool's role as a quality gate in a pipeline, which differentiates it from sibling tools that perform other operations like reading, writing, or searching.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly states when to use the tool: 'before passing to the next pipeline stage'. This provides clear context. However, it does not mention when not to use it or suggest alternatives, which would have made the guidance complete.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

verify_backupA

Run SQLite integrity_check on a backup file.

Args:
    backup_path: Full path to an unencrypted .sqlite backup.

Returns JSON with status ('ok' or errors) and table count.
ParametersJSON Schema
NameRequiredDescriptionDefault
backup_pathYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations so description carries full burden; it explains the action (integrity_check) and return format (JSON with status and table count). Minor omission: no mention of error handling or permissions.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Two efficient sentences plus structured Args/Returns; no superfluous content.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness5/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a single-parameter verification tool with output schema available, the description covers purpose, input requirements, and output format adequately.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Single parameter is described with format constraints (full path, .sqlite, unencrypted) compensating for 0% schema description coverage.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

Clearly states the tool runs SQLite integrity_check on a backup file, distinguishing it from siblings like backup_db, restore_db, encrypt_backup.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Provides prerequisite (unencrypted .sqlite) but lacks explicit guidance on when to use versus alternative backup tools.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

write_reflexionA

Stage 11: Record an agent self-critique entry to the reflexion_log.

Called at the end of every agent run to capture experience: what worked,
what could be better, what context was missing, what tools were needed.
Entries are reviewed by the weekly Coach loop for self-improvement proposals.

Args:
    session_id: Pipeline session ID from session_bootstrap().
    agent_slug: Which agent is writing the reflexion (e.g. 'librarian').
    went_well: What went well in this run (1–2 sentences).
    could_improve: What could have been done better (1–2 sentences).
    missing_context: What context or data was unavailable but needed.
    tool_wishes: Tools or capabilities that would have helped.
ParametersJSON Schema
NameRequiredDescriptionDefault
session_idYes
agent_slugYes
went_wellNo
could_improveNo
missing_contextNo
tool_wishesNo

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.3/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description must carry the full burden. It explains that entries are reviewed for self-improvement, but does not disclose side effects, auth requirements, or whether it overwrites entries. For a read-like write operation, it is minimally adequate.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is structured clearly with a title line, a usage paragraph followed by a parameter list. It is concise (approx. 100 words), front-loads the purpose, and has no redundant sentences.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the 6 parameters (2 required) and presence of an output schema, the description covers purpose, usage timing, and parameter semantics. It provides adequate context for an AI agent to invoke the tool correctly, though it omits the return value format (covered by output schema).

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters5/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 0%, but the tool description provides detailed parameter explanations (e.g., 'went_well: What went well in this run (1-2 sentences)'). This adds significant meaning beyond the schema titles and required list.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the action: 'Record an agent self-critique entry to the reflexion_log.' It specifies the stage (Stage 11) and the context (end of every agent run). This distinguishes it from similar tools like log_agent_run.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description explicitly says 'Called at the end of every agent run to capture experience' and mentions the weekly Coach loop review. It provides clear context but does not contrast with siblings like aggregate_reflexions_tool or log_agent_run.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

write_user_configA

Write the full user-config.yaml produced by the first-run config wizard.

Merges the provided YAML into the existing config so that specialist_contexts
and active_contexts set by earlier tools are preserved.

Args:
    yaml_content: Complete YAML string as produced by the wizard (all sections).
ParametersJSON Schema
NameRequiredDescriptionDefault
yaml_contentYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Without annotations, the description explains the merging behavior but lacks details on side effects, permissions, validation, or return values. The existence of an output schema is not leveraged in the description.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is two sentences plus an arg list, front-loaded with the action and resource. No redundant information.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

The description covers the main purpose and merging behavior. It does not address error handling or validation but is adequate given the tool's simplicity and the presence of an output schema.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The schema has 0% description coverage, so the parameter description adds value by stating that yaml_content should be a complete YAML string from the wizard. It could be improved with structural requirements.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the verb 'Write' and the resource 'user-config.yaml', and specifies it is the full config produced by the wizard. This distinguishes it from sibling tools like get_user_config and write_user_preferences.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description indicates the tool is for writing the full config produced by the first-run wizard and mentions merging behavior to preserve contexts. However, it does not explicitly state when not to use this tool or list alternatives.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

write_user_preferencesA

Write user-preferences.json produced by the first-run config wizard.

Merges the provided JSON into any existing preferences so incremental wizard
saves do not overwrite earlier sections.

Args:
    json_content: JSON string with preference keys (news_topics, journals,
                  pubmed_query, openalex_query, theme, density, etc.).
ParametersJSON Schema
NameRequiredDescriptionDefault
json_contentYes

Output Schema

ParametersJSON Schema
NameRequiredDescription
resultYes

TDQS

A4.2/5.0
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

With no annotations provided, the description must bear the burden of behavioral disclosure. It states that the tool merges the provided JSON into existing preferences, which is a key behavioral trait. However, it does not disclose other important aspects such as whether the operation is destructive, required permissions, or error handling. The merge behavior is helpful but leaves gaps.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is brief and to the point, consisting of two sentences plus a parameter explanation. Every sentence adds value: the first sentence states the purpose, the second explains the key behavioral trait (merge), and the third clarifies the parameter. No unnecessary words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a simple tool with one parameter and an existing output schema (which need not be described per rules), the description covers the core functionality and parameter semantics adequately. It explains the merge behavior and provides example keys, making it complete enough for an agent to use correctly. Minor omission: no mention of the return value, but the output schema compensates.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters4/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The schema description coverage is 0%, so the description is essential. It includes an 'Args' section that explains json_content as a JSON string with example keys (news_topics, journals, etc.), adding significant meaning beyond the schema's bare type definition. While it does not define the exact structure, the examples improve usability.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool writes 'user-preferences.json' produced by the first-run config wizard. The verb 'write' and the specific resource are explicitly mentioned, making the tool's purpose unmistakable. It also distinguishes from sibling tools like write_user_config by targeting preferences specifically.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines4/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides a clear usage context: it is meant for incremental saves of the first-run config wizard to avoid overwriting earlier sections. This implies when to use the tool effectively. However, it does not explicitly mention when not to use it or list alternative tools, so it falls short of a perfect score.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

TDQS

B3.4/5.0
Disambiguation2/5

With 187 tools covering many overlapping areas (e.g., multiple search tools for different scopes, multiple memory storage tools), it is difficult for an agent to distinguish between them despite detailed descriptions. The high number of similar-purpose tools leads to confusion and misselection.

Naming Consistency4/5

Most tools follow a consistent verb_noun pattern (e.g., add_, get_, search_, store_, create_, update_), making navigation predictable. A few exceptions like _obsidian_vault, kg_community, and discovery_intro are minor deviations.

Tool Count1/5

187 tools is an extremely large surface for any single server, far exceeding the recommended 3-15. This overwhelms agents and reduces the ability to select the right tool efficiently. The server would benefit from consolidation.

Completeness4/5

The tool set is remarkably comprehensive for a public health research assistant, covering projects, tasks, literature, datasets, code, memory, knowledge bases, course building, and many utilities. Minor gaps exist in social/collaboration features, but core functionality is well-covered.

Maintenance

ActivityActive
ResponsivenessUnresponsive

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