@cyanheads/pubmed-mcp-server 2.7.6 → 2.7.7

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (6) hide show
  1. package/CLAUDE.md +9 -8
  2. package/README.md +1 -1
  3. package/dist/index.js +1 -0
  4. package/dist/index.js.map +1 -1
  5. package/package.json +4 -2
  6. package/server.json +3 -3
package/CLAUDE.md CHANGED
@@ -1,8 +1,8 @@
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  # Agent Protocol
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  **Server:** @cyanheads/pubmed-mcp-server
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- **Version:** 2.7.6
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- **Framework:** [@cyanheads/mcp-ts-core](https://www.npmjs.com/package/@cyanheads/mcp-ts-core) `^0.9.10`
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+ **Version:** 2.7.7
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+ **Framework:** [@cyanheads/mcp-ts-core](https://www.npmjs.com/package/@cyanheads/mcp-ts-core) `^0.9.13`
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  **Engines:** Bun ≥1.3.2, Node ≥24.0.0
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  > **Read the framework docs first:** `node_modules/@cyanheads/mcp-ts-core/CLAUDE.md` contains the full API reference — builders, Context, error codes, exports, patterns. This file covers server-specific conventions only.
@@ -263,24 +263,25 @@ Available skills:
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  | `field-test` | Exercise tools/resources/prompts with real inputs, verify behavior, report issues |
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  | `tool-defs-analysis` | Read-only audit of definition language: voice, leaks, defaults, recovery hints, examples |
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  | `security-pass` | Audit server for MCP-flavored security gaps: output injection, scope blast radius, input sinks, tenant isolation |
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+ | `code-simplifier` | Post-session cleanup against `git diff` — modernize syntax, consolidate duplication, align with the codebase |
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  | `devcheck` | Lint, format, typecheck, audit |
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  | `polish-docs-meta` | Finalize docs, README, metadata, and agent protocol for shipping |
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- | `maintenance` | Investigate changelogs, adopt upstream changes, and sync skills after `bun update --latest` |
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- | `git-wrapup` | Land working-tree changes as a versioned release commit + annotated tag (version bump, changelog, verify, commit, tag — no push/publish) |
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- | `release-and-publish` | Ship a release: verification gate, push commits+tags, publish to npm / MCP Registry / GHCR / `.mcpb` bundle on GitHub Releases |
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+ | `maintenance` | Investigate changelogs, adopt upstream changes, sync skills to agent dirs |
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+ | `git-wrapup` | Land working-tree changes as a versioned commit + annotated tag — version bump, changelog, verify, tag. Local only. |
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+ | `release-and-publish` | Push + npm + MCP Registry + GH Release + Docker. Picks up from `git-wrapup` |
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  | `api-auth` | Auth modes, scopes, JWT/OAuth |
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  | `api-canvas` | DataCanvas: register tabular data, run SQL, export, plus the `spillover()` helper for big result sets — Tier 3 opt-in |
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  | `api-config` | AppConfig, parseConfig, env vars |
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  | `api-context` | Context interface, logger, state, progress |
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  | `api-errors` | McpError, JsonRpcErrorCode, error patterns |
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- | `api-linter` | Definition lint rules reference (`format-parity`, `schema-*`, `server-json-*`, …) |
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+ | `api-linter` | Definition linter rule catalog — invoked by `bun run lint:mcp` and `devcheck` |
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  | `api-services` | LLM, Speech, Graph services |
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  | `api-telemetry` | OTel catalog: spans, metrics, completion logs, env config, cardinality rules |
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  | `api-testing` | createMockContext, test patterns |
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  | `api-utils` | Formatting, parsing, security, pagination, scheduling, telemetry helpers |
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  | `api-workers` | Cloudflare Workers runtime |
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- | `report-issue-framework` | File bug/feature request against @cyanheads/mcp-ts-core |
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- | `report-issue-local` | File bug/feature request against this server's repo |
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+ | `report-issue-framework` | File a bug or feature request against `@cyanheads/mcp-ts-core` via `gh` CLI |
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+ | `report-issue-local` | File a bug or feature request against this server's own repo via `gh` CLI |
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  When you complete a skill's checklist, check the boxes and add a completion timestamp at the end (e.g., `Completed: 2026-03-11`).
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package/README.md CHANGED
@@ -9,7 +9,7 @@
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- [![Version](https://img.shields.io/badge/Version-2.7.6-blue.svg?style=flat-square)](./CHANGELOG.md) [![License](https://img.shields.io/badge/License-Apache%202.0-orange.svg?style=flat-square)](./LICENSE) [![Docker](https://img.shields.io/badge/Docker-ghcr.io-2496ED?style=flat-square&logo=docker&logoColor=white)](https://github.com/users/cyanheads/packages/container/package/pubmed-mcp-server) [![MCP SDK](https://img.shields.io/badge/MCP%20SDK-^1.29.0-green.svg?style=flat-square)](https://modelcontextprotocol.io/) [![npm](https://img.shields.io/npm/v/@cyanheads/pubmed-mcp-server?style=flat-square&logo=npm&logoColor=white)](https://www.npmjs.com/package/@cyanheads/pubmed-mcp-server) [![TypeScript](https://img.shields.io/badge/TypeScript-^6.0.3-3178C6.svg?style=flat-square)](https://www.typescriptlang.org/) [![Bun](https://img.shields.io/badge/Bun-v1.3.2-blueviolet.svg?style=flat-square)](https://bun.sh/)
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+ [![Version](https://img.shields.io/badge/Version-2.7.7-blue.svg?style=flat-square)](./CHANGELOG.md) [![License](https://img.shields.io/badge/License-Apache%202.0-orange.svg?style=flat-square)](./LICENSE) [![Docker](https://img.shields.io/badge/Docker-ghcr.io-2496ED?style=flat-square&logo=docker&logoColor=white)](https://github.com/users/cyanheads/packages/container/package/pubmed-mcp-server) [![MCP SDK](https://img.shields.io/badge/MCP%20SDK-^1.29.0-green.svg?style=flat-square)](https://modelcontextprotocol.io/) [![npm](https://img.shields.io/npm/v/@cyanheads/pubmed-mcp-server?style=flat-square&logo=npm&logoColor=white)](https://www.npmjs.com/package/@cyanheads/pubmed-mcp-server) [![TypeScript](https://img.shields.io/badge/TypeScript-^6.0.3-3178C6.svg?style=flat-square)](https://www.typescriptlang.org/) [![Bun](https://img.shields.io/badge/Bun-v1.3.2-blueviolet.svg?style=flat-square)](https://bun.sh/)
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  </div>
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package/dist/index.js CHANGED
@@ -39,6 +39,7 @@ await createApp({
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  prompts: [researchPlanPrompt],
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  instructions: "Use the pubmed_* tools to search PubMed and PubMed Central, fetch article metadata and full text, format citations, and find related articles via NCBI's E-utilities. Articles are keyed by PMID (integer); PMC full text by PMCID (`PMC` prefix); most also carry a DOI. Typical flow: `pubmed_search_articles` → `pubmed_fetch_articles` → `pubmed_fetch_fulltext`. When PubMed itself comes up empty (preprints, EPMC-only OA), broaden via `pubmed_europepmc_search`. Prefer deterministic resolvers when inputs are structured: `pubmed_lookup_citation` for partial references, `pubmed_convert_ids` to crosswalk IDs. Refine queries with `pubmed_lookup_mesh` and `pubmed_spell_check`.",
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  landing: {
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+ requireAuth: false,
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  tagline: 'Search PubMed, fetch articles, generate citations, explore MeSH terms, and discover related research.',
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  repoRoot: 'https://github.com/cyanheads/pubmed-mcp-server',
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  links: [
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@@ -1 +1 @@
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package/package.json CHANGED
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  {
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  "name": "@cyanheads/pubmed-mcp-server",
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- "version": "2.7.6",
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+ "version": "2.7.7",
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  "mcpName": "io.github.cyanheads/pubmed-mcp-server",
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  "description": "Search PubMed/Europe PMC, fetch articles and full text (PMC/EPMC/Unpaywall), citations, MeSH terms via MCP. STDIO or Streamable HTTP.",
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  "type": "module",
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  "mcp-server",
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  "typescript",
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  "bun",
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+ "stdio",
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+ "streamable-http",
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  "ai-agent",
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  "e-utilities",
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  "open-access",
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  "access": "public"
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  },
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  "dependencies": {
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- "@cyanheads/mcp-ts-core": "^0.9.10",
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+ "@cyanheads/mcp-ts-core": "^0.9.13",
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  "defuddle": "^0.18.1",
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  "fast-xml-parser": "^5.8.0",
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  "linkedom": "^0.18.12",
package/server.json CHANGED
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  "url": "https://github.com/cyanheads/pubmed-mcp-server",
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  "source": "github"
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  },
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- "version": "2.7.6",
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+ "version": "2.7.7",
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  "remotes": [
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  {
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  "type": "streamable-http",
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  "registryBaseUrl": "https://registry.npmjs.org",
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  "identifier": "@cyanheads/pubmed-mcp-server",
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  "runtimeHint": "bun",
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- "version": "2.7.6",
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+ "version": "2.7.7",
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  "packageArguments": [
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  {
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  "type": "positional",
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  "registryBaseUrl": "https://registry.npmjs.org",
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  "identifier": "@cyanheads/pubmed-mcp-server",
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  "runtimeHint": "bun",
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- "version": "2.7.6",
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+ "version": "2.7.7",
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  "packageArguments": [
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  {
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  "type": "positional",