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Deep Research

deep_research
Read-onlyIdempotent

ACCOUNT REQUIRED (free — sign in via GitHub at https://pipeworx.io/signup; depth:"thorough" needs a paid plan). If you are not signed in, use ask_pipeworx instead — it works on every tier. Grounded multi-source research across Pipeworx's 1517 STRUCTURED data sources (SEC filings, FRED/BLS economics, FDA, USPTO patents, markets, science, government records, etc.) in ONE call — this is NOT open-web search. Decomposes your question into focused facets, routes each to the right one of 5,798 tools IN PARALLEL, and returns a findings packet: verbatim evidence + confidence + source + fetched_at + a stable pipeworx:// citation per finding, with explicit gaps[] for facets the data couldn't answer (never invented). Best for broad/multi-part questions over structured data ("compare X and Y's regulatory + financial exposure", "research the filings + market picture for ACME"). For a single lookup use ask_pipeworx (one LLM call, not many). For BREAKING or colloquial CURRENT-NEWS / "what's the world saying about X" topics, prefer ask_pipeworx — it routes to live news APIs and the *-news-feeds packs; deep_research returns mostly empty gaps[] when the topic isn't in the structured catalog. Second-hop iteration: depth:"standard" re-angles unanswered gaps (gap recovery); depth:"thorough" additionally chases the best leads from the first pass — so multi-step questions resolve in one call. Every finding carries a hop field and a citation_uri — a resolvable pipeworx:// record URI, present only when the source emits one that resources/read can actually serve, so a citation you get back is always fetchable. "standard" and "thorough" also return contradictions[] flagging findings that disagree. Large records are semantically excerpted to the passages relevant to each facet (not head-truncated), so answers deep in a long filing/series aren't missed. Expect 15-60s (thorough with its follow-up + contradiction pass: up to ~90s).

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
depthNoHow many facets to research in parallel: quick=3 (single hop), standard=3 (default; adds a gap-recovery hop that re-angles unanswered facets + a contradictions[] scan across findings), thorough=6 (paid; adds a full iterative hop that chases leads + recovers gaps, plus the contradictions[] scan).
questionYesThe research question, in natural language. Broad/multi-part is fine — decomposition is the point.

Schema Changelog

Changes observed during successful MCP inspections. Dates show when Glama detected each change.

  1. Changed1 schema field changed
    • changedInput schema / properties / depth / description
      Previous value: -"How many facets to research in parallel: quick=3 (single hop), standard=5 (default; adds a gap-recovery hop that re-angles unanswered facets + a contradictions[] scan across findings), thorough=8 (paid; adds a full iterative hop that chases leads + recovers gaps, plus the contradictions[] scan)."New value: +"How many facets to research in parallel: quick=3 (single hop), standard=3 (default; adds a gap-recovery hop that re-angles unanswered facets + a contradictions[] scan across findings), thorough=6 (paid; adds a full iterative hop that chases leads + recovers gaps, plus the contradictions[] scan)."
  2. Changed1 schema field changed
    • changedInput schema / properties / depth / description
      Previous value: -"How many facets to research in parallel: quick=3 (single hop), standard=5 (default; adds a gap-recovery hop that re-angles unanswered facets), thorough=8 (paid; adds a full iterative hop that chases leads + recovers gaps, plus a contradictions[] scan across findings)."New value: +"How many facets to research in parallel: quick=3 (single hop), standard=5 (default; adds a gap-recovery hop that re-angles unanswered facets + a contradictions[] scan across findings), thorough=8 (paid; adds a full iterative hop that chases leads + recovers gaps, plus the contradictions[] scan)."
  3. Changed1 schema field changed
    • changedInput schema / properties / depth / description
      Previous value: -"How many facets to research in parallel: quick=3, standard=5 (default), thorough=8 (paid plans). \"thorough\" also runs a second ITERATIVE hop — a planner inspects the first-pass findings/gaps and chases the most valuable leads or recovers gaps, resolving multi-step questions in one call."New value: +"How many facets to research in parallel: quick=3 (single hop), standard=5 (default; adds a gap-recovery hop that re-angles unanswered facets), thorough=8 (paid; adds a full iterative hop that chases leads + recovers gaps, plus a contradictions[] scan across findings)."
  4. Changed1 schema field changed
    • changedInput schema / properties / depth / description
      Previous value: -"How many facets to research in parallel: quick=3, standard=5 (default), thorough=8 (paid plans)."New value: +"How many facets to research in parallel: quick=3, standard=5 (default), thorough=8 (paid plans). \"thorough\" also runs a second ITERATIVE hop — a planner inspects the first-pass findings/gaps and chases the most valuable leads or recovers gaps, resolving multi-step questions in one call."
  5. Added

TDQS

A4.7/5.0
Behavior5/5

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

Annotations already declare readOnlyHint=true and idempotentHint=true, and the description adds substantial behavioral detail beyond that: parallel routing across 5,798 tools, the findings-packet shape (verbatim evidence, confidence, source, fetched_at, citation), explicit gaps[] for unanswered facets with a never-invented policy, contradictions[] on standard/thorough, the hop field, citation_uri resolvability conditions, semantic excerpting instead of head-truncation, latency expectations, and account/tier requirements. No contradiction with annotations.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness3/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Critical routing info (account required, use ask_pipeworx instead) is front-loaded, and nearly every sentence carries real information. However, it is a single dense wall of text with quirky editorializing parentheticals ('one call', '(never invented)', 'not head-truncated') that add noise without structure; it could be tightened with clearer breaks between behavior, output, and timing.

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?

With no output schema, the description fully carries the return-value burden: it specifies the findings packet fields, gaps[], contradictions[], hop field, and citation_uri fetchability condition. It also covers prerequisites (account tiers, signup), timing (15-60s, up to ~90s), and limitations (not open-web search). For a complex research tool, nothing an agent needs to invoke it correctly is missing.

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 the baseline is 3, and the description adds meaning beyond it: it explains depth tiers in operational terms (hop counts, gap-recovery, contradiction scans), flags that 'thorough' requires a paid plan, and clarifies the question parameter with examples of appropriate broad/multi-part questions. This enriches rather than repeats the 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?

States a specific verb and resource: 'Grounded multi-source research across Pipeworx's 1517 STRUCTURED data sources... in ONE call'. Explicitly distinguishes itself from siblings and open-web search ('this is NOT open-web search'), and names the alternative ask_pipeworx for single lookups. An agent can clearly tell what this tool does and how it differs.

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?

Gives explicit when-to-use guidance: 'Best for broad/multi-part questions over structured data' with concrete examples ('compare X and Y's regulatory + financial exposure'). Gives explicit when-not-to-use and the alternative: 'For a single lookup use ask_pipeworx instead' and 'If you are not signed in, use ask_pipeworx instead'. Nothing is left to inference.

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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TDQS

B3.3/5.0
Disambiguation1/5

The tool set is severely mismatched: only 3 of 34 tools (get_pathway, list_pathways, search_pathways) relate to WikiPathways while the rest form overlapping Pipeworx/Polymarket families (ask_pipeworx vs ask_pipeworx_beta vs ask_pipeworx_grounded; multiple polymarket_* tools) with unclear boundaries and overlapping purposes.

Naming Consistency2/5

Naming conventions are highly inconsistent: product-specific names (pipeworx_feedback, pipeworx_trending), generic memory verbs (remember, recall, forget), and mixed snake_case patterns with no unifying verb_noun structure. The names do not reflect the WikiPathways domain at all.

Tool Count1/5

34 tools is far too many for a WikiPathways server, which only needs a handful of pathway-related operations. Nearly all tools belong to unrelated domains (SEC, FDA, Polymarket, npm, etc.), making the set feel bloated and unfocused.

Completeness1/5

For the stated WikiPathways purpose, only get, list, and search are present—no create, update, or delete operations—leaving obvious lifecycle gaps. The extensive non-WikiPathways tools do not contribute to the server's apparent domain coverage and create dead ends for agents expecting pathway management.