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syntheticgio

ncbi-datasets-mcp

by syntheticgio

ensure_cli

Verify and install NCBI datasets/dataformat CLI tools automatically when missing, enabling subsequent download and format-conversion operations.

Instructions

Check whether the NCBI datasets/dataformat CLI tools are installed and, if not, download and install them automatically. Call this tool once before using any download or format-conversion tools.

Returns the install status, binary paths, and version string.

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault

No arguments

Output Schema

TableJSON Schema
NameRequiredDescriptionDefault

No arguments

Behavior4/5

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

No annotations provided, so description carries full burden. Describes behavior: checks installation, auto-installs if missing. Mentions return values (status, paths, version). Could mention potential side effects like system modifications or internet requirement, 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.

Conciseness5/5

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

Three sentences, concise and front-loaded with the main action. Every sentence adds value: action, usage guidance, return information. 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 zero parameters and a clear return description, the tool definition is complete. Output schema exists (though not shown) to detail return types. Description covers all needed information 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?

No parameters (0 params). Baseline score of 4 per instructions. 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 clearly states the tool's purpose: checking and installing NCBI CLI tools. It specifies the action (check/install), the resource (NCBI datasets/dataformat CLI), and distinguishes it from sibling tools which are all about data operations, not installation.

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 when to use: 'Call this tool once before using any download or format-conversion tools.' Provides clear context of being a prerequisite. Lacks explicit 'when not to use' statements but not needed given the specificity.

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

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