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onto_embed

Generate text and structural embeddings for ontology classes to enable semantic search and improve alignment accuracy.

Instructions

Generate text + structural Poincaré embeddings for all classes in the loaded ontology. Requires the embedding model (run open-ontologies init to download). Embeddings enable semantic search via onto_search and improve alignment accuracy.

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
struct_dimNoStructural embedding dimension. Default: 32
struct_epochsNoStructural training epochs. Default: 100
Behavior2/5

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

With no annotations, the description must disclose behavioral traits, but it only says 'generate' without stating whether this is idempotent, destructive, or requires permissions. It does not mention what happens to existing embeddings or if there are 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 with two sentences. The first sentence states the main function, and the second adds a prerequisite and links to related tools, avoiding unnecessary detail.

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 no output schema, the description should hint at return values or side effects. It mentions enabling onto_search and alignment but does not clarify what the tool returns or if it modifies the ontology state. This leaves some gaps.

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% with descriptions for both parameters (struct_dim, struct_epochs). The description does not add any additional parameter semantics beyond what the schema already provides, so a baseline score of 3 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 action ('generate') and the specific resource ('text + structural Poincaré embeddings for all classes in the loaded ontology'), distinguishing it from sibling tools like onto_search (which uses embeddings) and onto_align (which improves alignment).

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?

There is no explicit guidance on when to use this tool versus alternatives. The only prerequisite mentioned is needing the embedding model, but no when-to-use or when-not-to-use context is provided.

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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