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musharna

plant-genomics-mcp

plantcyc_locus_info

Retrieves subscription status and alternative sources for a PlantCyc locus, explaining why PlantCyc data is not freely accessible.

Instructions

Returns subscription-access info and alternatives for a PlantCyc locus. Does NOT fetch annotation or pathway data — PlantCyc requires paid SRI/Phoenix subscription. Use ensembl_plants_lookup_locus or phytozome_lookup_locus for canonical gene annotation; PlantCyc's pathway-membership value-add is not currently substituted. Returns structured redirect with rationale and probed_at date.

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
locusYesTAIR-canonical locus, e.g. AT1G01010

Output Schema

TableJSON Schema
NameRequiredDescriptionDefault
locusYes
statusYesAlways "subscription_required" — upstream REST is paid-only.
probed_atYesISO date of the last live access probe (YYYY-MM-DD)
rationaleYesWhy this backend is gated
alternativesYesTool names users should call instead
alternatives_noteYesWhat the alternatives do and do NOT cover
plantcyc_web_urlYesBrowser URL for the PlantCyc gene page
Behavior5/5

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

Discloses that PlantCyc requires paid subscription, does not fetch annotation/pathway data, and returns structured redirect with rationale and date.

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?

Four sentences that are front-loaded, each adding value: purpose, negatives, alternatives, output. No unnecessary text.

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?

Fully explains the tool's purpose, limitations, and output, given the simplicity of one parameter and presence of output schema.

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 100%, and the description does not add new info beyond schema's parameter description, meeting baseline without enhancement.

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 subscription-access info and alternatives for a PlantCyc locus, and distinguishes itself from siblings by explicitly naming alternative tools for canonical annotation.

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 use this tool (subscription info) and when not to (annotation/pathway data), and provides specific alternative tools.

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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