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Lucas-Servi

kegg-mcp-server

by Lucas-Servi

get_pathway_compounds

Read-onlyIdempotent

Retrieve all compounds and metabolites associated with a given KEGG pathway ID by providing the pathway identifier.

Instructions

Get all compounds (metabolites) associated with a KEGG pathway.

Args: pathway_id: KEGG pathway ID (e.g. 'map00010').

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
pathway_idYes

Output Schema

TableJSON Schema
NameRequiredDescriptionDefault
resultYes
Behavior3/5

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

Annotations already declare readOnlyHint, openWorldHint, idempotentHint, and destructiveHint, covering safety. The description adds no further behavioral traits (e.g., response format, error handling), so it provides minimal added value beyond the 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 exceptionally concise with two short sentences that convey the essential information without any superfluous content. It is well-structured and immediately useful.

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 (1 parameter, output schema exists), the description provides a solid overview. However, it omits mention of potential edge cases (e.g., invalid pathway ID) or output format, but these are partially addressed by the 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 provides no description for pathway_id (0% coverage), but the description adds an example ('map00010') and context (KEGG pathway ID). This effectively compensates for the schema gap, though more format details could improve clarity.

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 (Get) and the resource (compounds/metabolites) associated with a KEGG pathway. It provides a concrete example of a pathway_id, and the purpose is distinct from sibling tools like get_pathway_genes and get_pathway_reactions.

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 via the pathway_id parameter, but does not explicitly specify when to use this tool over alternatives (e.g., search_compounds, get_compound_info). No guidance on prerequisites or context is given.

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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