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musharna

plant-genomics-mcp

by musharna

Batch: Gramene Homologs

batch_gramene_homologs
Read-onlyIdempotent

Retrieve homologs for up to 50 plant gene loci in one batch call. Filter by ortholog, paralog, or all homology types.

Instructions

Batch version of gramene_homologs. Up to 50 loci per call; shares the homology_type filter across all loci. Returns the standard batch envelope (count + results dict + errors dict).

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
lociYesList of locus identifiers (max 50)
homology_typeNoortholog

Output Schema

TableJSON Schema
NameRequiredDescriptionDefault
toolYesThe batch tool name, e.g. batch_resolve_locus_to_uniprot
countYesNumber of distinct loci queried, returned (== len(results) + len(errors)). The input list is de-duplicated first, so this is LOWER than the number of loci you sent if you sent a duplicate — that is de-duplication, not a dropped locus.
errorsYeslocus → '[ClassName] message' for PlantGenomicsError failures
resultsYeslocus → per-locus result dict (same shape as the single-locus tool)
Behavior4/5

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

Annotations already indicate readOnly, idempotent, nondestructive behavior. Description adds return format ('standard batch envelope with count + results dict + errors dict'), providing valuable behavioral details beyond 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?

Two sentences with no wasted words; critical information (limit, filter sharing, return envelope) 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?

All essential aspects are covered: purpose, limits, filter behavior, return envelope. Tool has output schema so return details aren't needed in description.

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 covers 50% of parameters; description adds sharing behavior for homology_type and reaffirms the 50-loci limit, which is not fully captured in 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?

Clearly states it's the batch version of gramene_homologs with explicit 50-loci limit and shared homology_type filter, distinguishing it from the single-locus sibling.

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?

Implicitly guides when to use (multiple loci) by contrasting with 'batch version', but does not explicitly mention when not to use or name the alternative single tool.

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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