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Biosamples

by io.github.pipeworx-io

Scan Dependency

scan_dependency
Read-onlyIdempotent

Composite "should I add this npm package to my project" check in ONE call — fans out across deps.dev (license + advisories + version history) and bundlephobia (gzipped/minified bundle size, dependency count, ESM/tree-shake support). Use whenever an agent asks "is X safe / popular / small" or "what does adding lodash cost me". Returns a summary block (is_latest, license, published_at, advisory_count, bundle_kb_min, bundle_kb_gz, dependency_count, has_esm, tree_shakeable), per-advisory detail, links, and a list of recent alternative versions. NPM ecosystem only in v1; PyPI / Maven / Cargo / Go fall under deps.dev:version directly. Partial failures degrade gracefully — bundlephobia's first measurement on a new version can take 5-30s; sources_failed will list it if it times out, the rest still returns.

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
packageYesnpm package name. Scoped packages (e.g. "@types/node") are accepted.
versionNoSpecific version to check (e.g., "18.3.1"). Defaults to the latest published version when omitted.

TDQS

A4.8/5.0
Behavior5/5

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

Annotations already declare read-only, idempotent, open-world, non-destructive. Description adds valuable beyond: mentions graceful degradation, timeouts (5-30s for bundlephobia first measurement), and partial failure reporting via sources_failed.

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?

Description is a single dense paragraph. It effectively front-loads the core purpose, then details return structure and caveats. Could be more structured with bullet points, but still concise and informative.

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?

Without output schema, description fully lists return fields (summary block, per-advisory, links, alternative versions), explains ecosystem scope, failure behavior, and timing caveats. No gaps in required context.

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 coverage is 100%, so baseline 3. Description adds that scoped packages are accepted and version defaults to latest. However, does not elaborate on other constraints or format details beyond schema.

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?

Description explicitly states the composite check for npm packages, including the verb 'scan' and resource 'dependency'. It distinguishes from other ecosystem tools by specifying NPM only, and contrasts with siblings like 'comparing entities'.

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?

Clearly states when to use: when agent asks about safety, popularity, size, or cost of adding a package. Also specifies when not to use: other ecosystems fall under different tools (deps.dev:version).

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

All Biosamples toolsInspect
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TDQS

A3.8/5.0
Disambiguation2/5

Many tools overlap heavily: ask_pipeworx, ask_pipeworx_beta, and ask_pipeworx_grounded are near-identical variants (beta currently identical), and the set includes five-plus prediction-market tools (polymarket_arbitrage, polymarket_edges, polymarket_edge_tracker, polymarket_fill_risk, polymarket_kalshi_spread, bet_research) with fuzzy boundaries. Long descriptions help, but an agent selecting among them would frequently struggle to pick the right one.

Naming Consistency3/5

Names are uniformly lowercase snake_case, but the pattern is inconsistent: verb_first names (search_samples, validate_claim, resolve_entity) mix with noun-style names (entity_profile, pipeworx_trending, polymarket_arbitrage) and bare imperatives (remember, recall, forget, subscribe). It is readable, but there is no predictable verb_noun convention across the set.

Tool Count2/5

33 tools is well over the coherent range, and the count is especially inflated because the server is named Biosamples yet only two tools (search_samples, get_sample) actually belong to that domain. The remaining 31 tools are an unrelated mix of Pipeworx research, prediction-market, memory, and subscription utilities, including redundant variants.

Completeness2/5

For the stated Biosamples purpose, only search and retrieve exist—no submission, update, or batch operations—so the domain surface is a read-only fragment. For the broader accidental scope of the other tools, the set is a grab bag with no coherent lifecycle, leaving significant gaps regardless of which domain is considered primary.

Resources