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wjgoarxiv

vmd-hydrate-mcp

by wjgoarxiv

render_cages

Render clathrate hydrate cages as photorealistic PNG images with customizable colors, emphasis, and highlight. Supports sI, sII, sH cage types and per-type color mapping.

Instructions

Render clathrate cages photorealistically (ambient occlusion + shadows, orthographic by default). Each cage type is drawn in ONE unified color for both its water-oxygen vertices and its O-O framework, using a curated palette (512=cyan, 51262=violet, 51264=red, 435663=lime, 51268=blue).

Natural-language styling maps directly to the arguments:

  • "show only the sII large cages" -> cage_types=["51264"]

  • "... in magenta" -> highlight_color="magenta" (name or #rrggbb)

  • "emphasize / thicker width" -> emphasis=True (thicker edges + bigger spheres)

  • per-type colors -> colors={"512": "cyan", "51264": "magenta"} cage_types are internal codes: 512, 51262, 51263, 51264, 51268, 435663, ... (sI = 512+51262, sII = 512+51264, sH = 512+435663+51268). Returns a PNG.

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
pathYes
frameNo
widthNo
colorsNo
heightNo
methodNoTRACE
emphasisNo
materialNoGlossy
backgroundNo#0f172a
cage_typesNo
projectionNoorthographic
highlight_colorNo
Behavior4/5

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

With no annotations, the description carries full burden. It discloses rendering method (TRACE), projection (orthographic), default background color, curated color palette, and that output is a PNG. It does not mention performance, size limits, or state mutations, but is reasonably transparent.

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 moderately long but well-structured with examples. It front-loads the purpose and then provides natural-language mappings. Could be slightly more concise, but overall efficient.

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 12 parameters and no output schema, the description should explain more about the return format (e.g., base64) and error conditions. It covers some behavioral aspects but leaves gaps in parameter details and output handling.

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 0%, so description must compensate. It explains several parameters (cage_types, highlight_color, emphasis, colors) via examples, but does not cover path, frame, width, height, method, material, background, projection. Partial coverage.

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 that the tool renders clathrate cages photorealistically with ambient occlusion and shadows, and distinguishes from siblings like 'render' by specifying cage-specific coloring and natural-language styling. It provides specific verb and resource.

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?

The description includes natural-language examples that map to arguments, guiding the agent on how to specify cage types, colors, emphasis, etc. However, it lacks explicit guidance on when to use this tool versus alternatives like 'render' or 'set_representation'.

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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