npm - @cyanheads/openalex-mcp-server - Versions diffs - 0.7.11 → 0.7.12 - Mend

@cyanheads/openalex-mcp-server 0.7.11 → 0.7.12

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 (18) hide show

package/AGENTS.md CHANGED Viewed

@@ -1,7 +1,7 @@
 # Developer Protocol
 **Server:** openalex-mcp-server
-**Version:** 0.7.11
+**Version:** 0.7.12
 **Framework:** [@cyanheads/mcp-ts-core](https://www.npmjs.com/package/@cyanheads/mcp-ts-core) `^0.12.7`
 **Engines:** Bun ≥1.3.0, Node ≥24.0.0
 **MCP SDK:** `@modelcontextprotocol/server` ^2.0.0

package/CLAUDE.md CHANGED Viewed

@@ -1,7 +1,7 @@
 # Developer Protocol
 **Server:** openalex-mcp-server
-**Version:** 0.7.11
+**Version:** 0.7.12
 **Framework:** [@cyanheads/mcp-ts-core](https://www.npmjs.com/package/@cyanheads/mcp-ts-core) `^0.12.7`
 **Engines:** Bun ≥1.3.0, Node ≥24.0.0
 **MCP SDK:** `@modelcontextprotocol/server` ^2.0.0

package/README.md CHANGED Viewed

@@ -7,7 +7,7 @@
 <div align="center">
-[![Version](https://img.shields.io/badge/Version-0.7.11-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/openalex-mcp-server) [![MCP SDK](https://img.shields.io/badge/MCP%20SDK-^2.0.0-green.svg?style=flat-square)](https://modelcontextprotocol.io/) [![npm](https://img.shields.io/npm/v/@cyanheads/openalex-mcp-server?style=flat-square&logo=npm&logoColor=white)](https://www.npmjs.com/package/@cyanheads/openalex-mcp-server) [![TypeScript](https://img.shields.io/badge/TypeScript-^7.0.2-3178C6.svg?style=flat-square)](https://www.typescriptlang.org/) [![Bun](https://img.shields.io/badge/Bun-v1.3.0-blueviolet.svg?style=flat-square)](https://bun.sh/)
+[![Version](https://img.shields.io/badge/Version-0.7.12-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/openalex-mcp-server) [![MCP SDK](https://img.shields.io/badge/MCP%20SDK-^2.0.0-green.svg?style=flat-square)](https://modelcontextprotocol.io/) [![npm](https://img.shields.io/npm/v/@cyanheads/openalex-mcp-server?style=flat-square&logo=npm&logoColor=white)](https://www.npmjs.com/package/@cyanheads/openalex-mcp-server) [![TypeScript](https://img.shields.io/badge/TypeScript-^7.0.2-3178C6.svg?style=flat-square)](https://www.typescriptlang.org/) [![Bun](https://img.shields.io/badge/Bun-v1.3.0-blueviolet.svg?style=flat-square)](https://bun.sh/)
 </div>
@@ -35,7 +35,7 @@ Five tools for querying the [OpenAlex](https://openalex.org) academic research c
 |:----------|:------------|
 | `openalex_search_entities` | Search, filter, sort, or retrieve by ID across all 8 entity types. |
 | `openalex_analyze_trends` | Group-by aggregation for trend and distribution analysis. |
-| `openalex_resolve_name` | Resolve a name or an identifier (DOI, ORCID, ROR, PMID, PMCID, ISSN, OpenAlex ID) to an OpenAlex ID. |
+| `openalex_resolve_name` | Resolve a name or an identifier (DOI, ORCID, ROR, PMID, ISSN, OpenAlex ID) to an OpenAlex ID. |
 | `openalex_get_citation_graph` | Walk the citation graph one hop from a seed work: cites, cited_by, or related_to. |
 | `openalex_describe_fields` | List valid filter, group_by, and select field names for an entity type — call before building a query to avoid invalid-field errors. |
@@ -43,7 +43,7 @@ Five tools for querying the [OpenAlex](https://openalex.org) academic research c
 Primary discovery and lookup tool. Covers all OpenAlex entity types (works, authors, sources, institutions, topics, keywords, publishers, funders).
-- Retrieve a single entity by ID (OpenAlex ID, DOI, ORCID, ROR, PMID, PMCID, ISSN), bare or in URL form, with the scheme prefix accepted in any case. `id` takes precedence: search criteria passed alongside it are not applied, and the response says which ones were dropped rather than echoing them back as though they ran. The search-only validations (semantic page cap, `sample` with `cursor`, `seed` without `sample`) are skipped too — a lookup is never rejected over parameters it ignores
+- Retrieve a single entity by ID (OpenAlex ID, DOI, ORCID, ROR, PMID, ISSN), bare or in URL form, with the scheme prefix accepted in any case. A PMCID is recognized as well, bare or as a PubMed Central URL, but OpenAlex indexes no PMCIDs, so it resolves nothing — pass the work's PMID or DOI instead. `id` takes precedence: search criteria passed alongside it are not applied, and the response says which ones were dropped rather than echoing them back as though they ran. The search-only validations (semantic page cap, `sample` with `cursor`, `seed` without `sample`) are skipped too — a lookup is never rejected over parameters it ignores
 - Keyword search with boolean operators, quoted phrases, wildcards, and fuzzy matching
 - Exact and AI semantic search modes
 - Rich filter syntax: AND across fields, OR within fields (`us|gb`), NOT (`!us`), ranges (`2020-2024`), comparisons (`>100`)
@@ -71,7 +71,8 @@ Aggregate entities into groups and count them for trend, distribution, and compa
 The front door for turning anything you have into an OpenAlex ID. **Always use this before filtering by entity** — names are ambiguous, IDs are not.
 - A name or partial name runs an autocomplete search: up to 10 matches with disambiguation hints, ~200ms
-- An identifier resolves deterministically to the single record it addresses — OpenAlex ID, DOI, ORCID, ROR, PMID, PMCID, or ISSN, bare or in URL form, with the scheme prefix accepted in any case. No `entity_type` needed: the identifier determines its own
+- An identifier resolves deterministically to the single record it addresses — OpenAlex ID, DOI, ORCID, ROR, PMID, or ISSN, bare or in URL form, with the scheme prefix accepted in any case. No `entity_type` needed: the identifier determines its own
+- A PMCID is recognized, bare or as a PubMed Central URL, but OpenAlex indexes no PMCIDs, so it resolves nothing — the empty result says so and points at converting it to a PMID or DOI
 - An identifier that matches nothing returns an empty result naming the scheme, not name-search advice
 - Optional entity type filter and field-level filters, applied to name queries
@@ -84,7 +85,7 @@ One-hop citation graph traversal from a seed work. Wraps the OpenAlex `cites`/`c
 - `cites`: works that cite the seed (incoming citations)
 - `cited_by`: works the seed cites (its reference list)
 - `related_to`: OpenAlex algorithmic "related works" (~8-30 typical, may be empty for less-cited seeds)
-- Accepts OpenAlex IDs, DOIs, PMIDs, PMCIDs as `seed_id`, bare or in URL form; validates the seed via a singleton `/works/{id}` lookup before walking, so non-existent seeds surface as `NotFound`
+- Accepts OpenAlex IDs, DOIs, and PMIDs as `seed_id`, bare or in URL form; validates the seed via a singleton `/works/{id}` lookup before walking, so non-existent seeds surface as `NotFound`. A PMCID seed is recognized but OpenAlex indexes no PMCIDs, so it resolves nothing — the `NotFound` says so and points at converting it to a PMID or DOI
 - Stacks with `filters`/`sort`/`select` to narrow the graph (e.g., `publication_year=">2020"`, `is_oa="true"`)
 ---
@@ -118,7 +119,7 @@ Built on [`@cyanheads/mcp-ts-core`](https://github.com/cyanheads/mcp-ts-core):
 OpenAlex-specific:
-- Typed API client with automatic ID normalization (DOI, ORCID, ROR, PMID, PMCID, ISSN, OpenAlex URLs)
+- Typed API client with automatic ID normalization (DOI, ORCID, ROR, PMID, PMCID, ISSN, OpenAlex and PubMed/PubMed Central URLs). A PMCID normalizes but resolves nothing — OpenAlex indexes none — so use the work's PMID or DOI
 - Abstract reconstruction from inverted indices — plaintext instead of OpenAlex's position-keyed encoding
 - HTTP status codes mapped to specific MCP error classes (400 → InvalidParams, 422 → ValidationError, 429 → RateLimited, etc.) with upstream messages surfaced
 - Every API-calling tool reports what the call spent against the OpenAlex daily budget and what is left of it, so a paginated sweep can be priced before it runs instead of ending in a 429. An account holding prepaid balance sees that too, since it keeps serving once the day's allowance is gone

package/changelog/0.7.x/0.7.12.md ADDED Viewed

@@ -0,0 +1,13 @@
+---
+summary: "PMCID is now recognized as a PubMed Central URL too, and every PMCID miss says OpenAlex indexes none and points at converting to a PMID or DOI instead of the generic verify-the-ID advice."
+breaking: false
+security: false
+---
+# 0.7.12 — 2026-09-08
+## Fixed
+- **`normalizeId()` gains a PubMed Central URL branch** (#67) — `https://pmc.ncbi.nlm.nih.gov/articles/PMC…/` and the legacy `https://www.ncbi.nlm.nih.gov/pmc/articles/PMC…/` now normalize to `pmcid:PMC…` like the bare form, instead of being forwarded verbatim as a work ID, across `openalex_search_entities` (`id`), `openalex_resolve_name` (`query`), and `openalex_get_citation_graph` (`seed_id`).
+- **A `pmcid:`-scheme 404 now carries a PMCID-specific recovery hint** (#67) — OpenAlex indexes no PMCIDs, so the shared 404 mapping and the `resolve_name` miss notice now say to convert to a PMID or DOI instead of the generic "verify the ID format" text, which could never help a well-formed PMCID.
+- Tool descriptions and README bullets no longer present PMCID as an identifier that resolves — it's recognized, bare or as a PubMed Central URL, but resolves nothing.

package/dist/mcp-server/tools/definitions/citation-graph.tool.d.ts CHANGED Viewed

@@ -94,7 +94,7 @@ export declare const getCitationGraphTool: import("@cyanheads/mcp-ts-core").Tool
     readonly reason: "entity_not_found";
     readonly code: JsonRpcErrorCode.NotFound;
     readonly when: "OpenAlex has no work matching the seed_id.";
-    readonly recovery: "Verify seed_id with openalex_resolve_name, or pass a known OpenAlex work ID (W…), DOI, PMID, or PMCID.";
+    readonly recovery: "Verify seed_id with openalex_resolve_name, or pass a known OpenAlex work ID (W…), DOI, or PMID. OpenAlex indexes no PMCIDs, so convert a PMCID to a PMID or DOI before passing it.";
 }], {
     readonly echo: z.ZodString;
     readonly totalCount: z.ZodNumber;

package/dist/mcp-server/tools/definitions/citation-graph.tool.js CHANGED Viewed

@@ -120,14 +120,14 @@ export const getCitationGraphTool = tool('openalex_get_citation_graph', {
             reason: 'entity_not_found',
             code: JsonRpcErrorCode.NotFound,
             when: 'OpenAlex has no work matching the seed_id.',
-            recovery: 'Verify seed_id with openalex_resolve_name, or pass a known OpenAlex work ID (W…), DOI, PMID, or PMCID.',
+            recovery: 'Verify seed_id with openalex_resolve_name, or pass a known OpenAlex work ID (W…), DOI, or PMID. OpenAlex indexes no PMCIDs, so convert a PMCID to a PMID or DOI before passing it.',
         },
     ],
     input: z.object({
         seed_id: z
             .string()
             .min(1)
-            .describe('Seed work identifier. Accepts OpenAlex ID ("W2741809807"), DOI ("10.1038/nature12373" or full URL), PMID ("12345678" or "https://pubmed.ncbi.nlm.nih.gov/12345678"), or PMCID. Use openalex_resolve_name first if you only have a title.'),
+            .describe('Seed work identifier. Accepts OpenAlex ID ("W2741809807"), DOI ("10.1038/nature12373" or full URL), or PMID ("12345678" or "https://pubmed.ncbi.nlm.nih.gov/12345678"). A PMCID is recognized too, bare or as a PubMed Central URL, but OpenAlex indexes no PMCIDs, so it resolves nothing — pass the work\'s PMID or DOI instead. Use openalex_resolve_name first if you only have a title.'),
         direction: z
             .enum(DIRECTIONS)
             .describe('"cites": works that cite seed_id (incoming citations). "cited_by": works that seed_id cites (its reference list). "related_to": OpenAlex algorithmically-related works (~8-30 typical, may be empty for less-cited seeds).'),

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package/dist/mcp-server/tools/definitions/resolve-name.tool.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ {"version":3,"file":"resolve-name.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/resolve-name.tool.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AASjE,eAAO,MAAM,eAAe;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;EA0Q1B,CAAC"}

package/dist/mcp-server/tools/definitions/resolve-name.tool.js CHANGED Viewed

@@ -6,10 +6,10 @@
 import { tool, z } from '@cyanheads/mcp-ts-core';
 import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
 import { renderBudgetTrailer } from '../render-budget.js';
-import { getOpenAlexService, inferIdentifier } from '../../../services/openalex/openalex-service.js';
+import { getOpenAlexService, inferIdentifier, PMCID_NOT_INDEXED_HINT, } from '../../../services/openalex/openalex-service.js';
 import { ENTITY_TYPES } from '../../../services/openalex/types.js';
 export const resolveNameTool = tool('openalex_resolve_name', {
-    description: 'Resolve a name or an identifier to an OpenAlex ID. ALWAYS use this before filtering by entity — names are ambiguous, IDs are not. A name returns up to 10 autocomplete matches with disambiguation hints. An identifier — OpenAlex ID, DOI, ORCID, ROR, PMID, PMCID, or ISSN, bare or in URL form — resolves directly to the one record it addresses, and needs no entity_type.',
+    description: "Resolve a name or an identifier to an OpenAlex ID. ALWAYS use this before filtering by entity — names are ambiguous, IDs are not. A name returns up to 10 autocomplete matches with disambiguation hints. An identifier — OpenAlex ID, DOI, ORCID, ROR, PMID, or ISSN, bare or in URL form — resolves directly to the one record it addresses, and needs no entity_type. A PMCID is recognized as well, bare or as a PubMed Central URL, but OpenAlex indexes no PMCIDs, so it resolves nothing — pass the work's PMID or DOI instead.",
     sourceUrl: 'https://github.com/cyanheads/openalex-mcp-server/blob/main/src/mcp-server/tools/definitions/resolve-name.tool.ts',
     annotations: { readOnlyHint: true, idempotentHint: true, openWorldHint: true },
     errors: [
@@ -92,7 +92,7 @@ export const resolveNameTool = tool('openalex_resolve_name', {
         query: z
             .string()
             .min(1)
-            .describe('Name or partial name to resolve. Also accepts an identifier, bare or in URL form — OpenAlex ID ("W2741809807", "F4320332161"), DOI ("10.1038/nature12373"), ORCID ("0000-0002-1825-0097"), ROR ("https://ror.org/00hx57361"), PMID ("12345678" or "https://pubmed.ncbi.nlm.nih.gov/12345678"), PMCID ("PMC1234567"), ISSN ("1234-5678") — which resolves straight to that one record instead of running a name search.'),
+            .describe('Name or partial name to resolve. Also accepts an identifier, bare or in URL form — OpenAlex ID ("W2741809807", "F4320332161"), DOI ("10.1038/nature12373"), ORCID ("0000-0002-1825-0097"), ROR ("https://ror.org/00hx57361"), PMID ("12345678" or "https://pubmed.ncbi.nlm.nih.gov/12345678"), ISSN ("1234-5678") — which resolves straight to that one record instead of running a name search. A PMCID ("PMC1234567" or a PubMed Central URL) is recognized but OpenAlex indexes no PMCIDs, so it resolves nothing — pass the work\'s PMID or DOI instead.'),
         filters: z
             .record(z.string(), z.string())
             .optional()
@@ -191,7 +191,12 @@ export const resolveNameTool = tool('openalex_resolve_name', {
                 notices.push(`Resolved "${input.query}" by ${scheme} — it identifies one ${entity} directly, so ${ignored.join(' and ')} did not apply.`);
             }
             if (result.results.length === 0) {
-                notices.push(`No ${entity} in OpenAlex for ${scheme} "${input.query}". An identifier either resolves or does not — check it for a typo, or search for the entity by name instead.`);
+                // A PMCID is the one identifier whose miss says nothing about the identifier: it is
+                // well formed and OpenAlex still holds no record for it, so "check it for a typo"
+                // sends the caller to re-check something that was never wrong.
+                notices.push(identifier.scheme === 'pmcid'
+                    ? `No ${entity} in OpenAlex for PMCID "${input.query}". ${PMCID_NOT_INDEXED_HINT}`
+                    : `No ${entity} in OpenAlex for ${scheme} "${input.query}". An identifier either resolves or does not — check it for a typo, or search for the entity by name instead.`);
             }
         }
         else if (result.results.length === 0) {

package/dist/mcp-server/tools/definitions/resolve-name.tool.js.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ 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package/dist/mcp-server/tools/definitions/search-entities.tool.js CHANGED Viewed

@@ -161,7 +161,7 @@ export const searchEntitiesTool = tool('openalex_search_entities', {
         id: z
             .string()
             .optional()
-            .describe('Retrieve a single entity by ID. Supports: OpenAlex ID ("W2741809807"), DOI ("10.1038/nature12373"), ORCID ("0000-0002-1825-0097"), ROR ("https://ror.org/00hx57361"), PMID ("12345678" or "https://pubmed.ncbi.nlm.nih.gov/12345678"), PMCID ("PMC1234567"), ISSN ("1234-5678"). When provided, `query`, `search_mode`, `filters`, `sort`, `sample`, and `seed` are not applied — the returned record is the entity at that ID regardless of them, and the response `notice` names any you passed. `select` still applies: the curated per-entity-type default is returned unless you pass `select` (use `["*"]` for the complete record). To filter, drop `id` and search. Use openalex_resolve_name to find the ID if unknown.'),
+            .describe('Retrieve a single entity by ID. Supports: OpenAlex ID ("W2741809807"), DOI ("10.1038/nature12373"), ORCID ("0000-0002-1825-0097"), ROR ("https://ror.org/00hx57361"), PMID ("12345678" or "https://pubmed.ncbi.nlm.nih.gov/12345678"), ISSN ("1234-5678"). A PMCID is recognized too, bare ("PMC1234567") or as a PubMed Central URL, but OpenAlex indexes no PMCIDs, so it resolves nothing — pass the work\'s PMID or DOI instead. When provided, `query`, `search_mode`, `filters`, `sort`, `sample`, and `seed` are not applied — the returned record is the entity at that ID regardless of them, and the response `notice` names any you passed. `select` still applies: the curated per-entity-type default is returned unless you pass `select` (use `["*"]` for the complete record). To filter, drop `id` and search. Use openalex_resolve_name to find the ID if unknown.'),
         query: z
             .string()
             .optional()

package/dist/mcp-server/tools/definitions/search-entities.tool.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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1	+ 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package/dist/services/openalex/openalex-service.d.ts CHANGED Viewed

@@ -4,6 +4,14 @@
  */
 import type { Context } from '@cyanheads/mcp-ts-core';
 import { type AnalyzeParams, type AnalyzeResult, type AutocompleteParams, type AutocompleteRecord, type AutocompleteResult, type EntityRecord, type EntityType, type SearchParams, type SearchResult } from './types.js';
+/**
+ * Recovery for a PMCID that reached OpenAlex and came back with nothing. OpenAlex indexes no
+ * PMCIDs — `has_pmcid:true` matches zero works and a work's `ids` object never carries the key —
+ * so a PMCID cannot resolve however well formed it is, and the generic "verify the ID format"
+ * advice sends the caller back to retry an identifier that can never work. Shared by the 404
+ * mapping here and the `openalex_resolve_name` miss notice so both say the same thing.
+ */
+export declare const PMCID_NOT_INDEXED_HINT = "OpenAlex indexes no PMCIDs, so a PMCID resolves nothing however it is written. Convert it to a PMID or DOI \u2014 the NCBI ID Converter (https://www.ncbi.nlm.nih.gov/pmc/tools/idconv/) does this \u2014 and retry with that identifier.";
 /**
  * Detect ID format and return the API path segment.
  * "10.1038/nature12373" → "doi:10.1038/nature12373"
@@ -13,6 +21,8 @@ import { type AnalyzeParams, type AnalyzeResult, type AutocompleteParams, type A
  * "https://ror.org/00hx57361" → "ror:https://ror.org/00hx57361"
  * "013meh722" → "ror:013meh722"
  * "PMC1234567" → "pmcid:PMC1234567"
+ * "https://pmc.ncbi.nlm.nih.gov/articles/PMC1234567/" → "pmcid:PMC1234567"
+ * "https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1234567/" → "pmcid:PMC1234567"
  * "https://pubmed.ncbi.nlm.nih.gov/21491125" → "pmid:21491125"
  * "PMID:21491125" → "pmid:21491125"
  * "W2741809807" → "W2741809807"

package/dist/services/openalex/openalex-service.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
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package/dist/services/openalex/openalex-service.js CHANGED Viewed

@@ -71,6 +71,22 @@ const BARE_ROR_PATTERN = /^0[0-9a-hj-km-np-tv-z]{6}\d{2}$/;
  * host is anchored on both ends so a look-alike domain can never be read as PubMed.
  */
 const PUBMED_URL_PATTERN = /^https?:\/\/(?:www\.)?pubmed\.ncbi\.nlm\.nih\.gov\/(\d+)\/?$/i;
+/**
+ * A PubMed Central article URL — the current `pmc.ncbi.nlm.nih.gov/articles/…` host and the
+ * legacy `ncbi.nlm.nih.gov/pmc/articles/…` path alike. The article segment is a PMCID, so the
+ * URL carries exactly the same meaning as the bare form; normalizing it is what makes the two
+ * fail identically instead of the URL being forwarded verbatim as a work ID. As with PubMed,
+ * the host is anchored on both ends so a look-alike domain can never be read as PubMed Central.
+ */
+const PMC_URL_PATTERN = /^https?:\/\/(?:www\.)?(?:pmc\.ncbi\.nlm\.nih\.gov|ncbi\.nlm\.nih\.gov\/pmc)\/articles\/(PMC\d+)\/?$/i;
+/**
+ * Recovery for a PMCID that reached OpenAlex and came back with nothing. OpenAlex indexes no
+ * PMCIDs — `has_pmcid:true` matches zero works and a work's `ids` object never carries the key —
+ * so a PMCID cannot resolve however well formed it is, and the generic "verify the ID format"
+ * advice sends the caller back to retry an identifier that can never work. Shared by the 404
+ * mapping here and the `openalex_resolve_name` miss notice so both say the same thing.
+ */
+export const PMCID_NOT_INDEXED_HINT = 'OpenAlex indexes no PMCIDs, so a PMCID resolves nothing however it is written. Convert it to a PMID or DOI — the NCBI ID Converter (https://www.ncbi.nlm.nih.gov/pmc/tools/idconv/) does this — and retry with that identifier.';
 /**
  * Prefix `normalizeId()` emits → the single entity type that identifier scheme addresses.
  * Every external scheme OpenAlex indexes belongs to exactly one entity type, which is what
@@ -93,6 +109,8 @@ const ENTITY_TYPE_BY_ID_PREFIX = {
  * "https://ror.org/00hx57361" → "ror:https://ror.org/00hx57361"
  * "013meh722" → "ror:013meh722"
  * "PMC1234567" → "pmcid:PMC1234567"
+ * "https://pmc.ncbi.nlm.nih.gov/articles/PMC1234567/" → "pmcid:PMC1234567"
+ * "https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1234567/" → "pmcid:PMC1234567"
  * "https://pubmed.ncbi.nlm.nih.gov/21491125" → "pmid:21491125"
  * "PMID:21491125" → "pmid:21491125"
  * "W2741809807" → "W2741809807"
@@ -145,6 +163,12 @@ export function normalizeId(id) {
     if (pubmedPmid) {
         return `pmid:${pubmedPmid}`;
     }
+    // PubMed Central URL → the bare PMCID form, matching the `PMC\d+` branch above. Placed with
+    // the PubMed URL branch, after the shape-matching ones, for the same reason.
+    const pmcId = PMC_URL_PATTERN.exec(trimmed)?.[1];
+    if (pmcId) {
+        return `pmcid:${pmcId}`;
+    }
     // Already prefixed — OpenAlex's bare external-ID schemes are case-sensitive, so a caller's
     // `PMID:`/`DOI:` spelling 404s. Fold a recognized scheme to lower case and leave the value
     // exactly as given: DOIs and ORCIDs carry meaningful casing that is the caller's to set.
@@ -674,6 +698,14 @@ function resolveThrowReason(code, mappedReason, rawMessage) {
         return classifyRateLimitReason(rawMessage);
     return mappedReason;
 }
+/**
+ * Is this request path a by-ID lookup for a `pmcid:`-scheme identifier? `normalizeId()` folds a
+ * recognized scheme to lower case, so `pmcid:` is the exact prefix every PMCID lookup arrives
+ * with, bare form and PubMed Central URL alike.
+ */
+function isPmcidLookup(path) {
+    return path.split('/')[2]?.startsWith('pmcid:') ?? false;
+}
 /**
  * Domain-language replacement for the framework's fetch-plumbing message on the failures
  * that never carry an HTTP status. `fetch GET <url> timed out.` describes this client, not
@@ -874,6 +906,12 @@ class OpenAlexService {
             path,
             reason,
             ...ctx.recoveryFor(reason),
+            // A PMCID lookup that 404s is not a miss to verify and retry — OpenAlex indexes no
+            // PMCIDs, so every tool's generic "verify the ID" recovery hands back the one instruction
+            // that cannot help. Substituted here, where all three ID-accepting tools inherit it.
+            ...(code === JsonRpcErrorCode.NotFound && isPmcidLookup(path)
+                ? { recovery: { hint: PMCID_NOT_INDEXED_HINT } }
+                : {}),
             // `RateLimited` sits in the framework's transient set, so `withRetry` would spend the
             // full attempt budget against a budget wall that stays up until the daily reset. This
             // flag is the framework's per-error opt-out from that loop; the contract's own

package/dist/services/openalex/openalex-service.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/package.json CHANGED Viewed

@@ -1,6 +1,6 @@
 {
   "name": "@cyanheads/openalex-mcp-server",
-  "version": "0.7.11",
+  "version": "0.7.12",
   "description": "Access the OpenAlex academic research catalog - 270M+ publications through MCP. STDIO & Streamable HTTP.",
   "mcpName": "io.github.cyanheads/openalex-mcp-server",
   "type": "module",

package/server.json CHANGED Viewed

@@ -6,7 +6,7 @@
     "url": "https://github.com/cyanheads/openalex-mcp-server",
     "source": "github"
   },
-  "version": "0.7.11",
+  "version": "0.7.12",
   "remotes": [
     {
       "type": "streamable-http",
@@ -19,7 +19,7 @@
       "registryBaseUrl": "https://registry.npmjs.org",
       "identifier": "@cyanheads/openalex-mcp-server",
       "runtimeHint": "node",
-      "version": "0.7.11",
+      "version": "0.7.12",
       "packageArguments": [
         {
           "type": "positional",
@@ -67,7 +67,7 @@
       "registryBaseUrl": "https://registry.npmjs.org",
       "identifier": "@cyanheads/openalex-mcp-server",
       "runtimeHint": "node",
-      "version": "0.7.11",
+      "version": "0.7.12",
       "packageArguments": [
         {
           "type": "positional",