@cyanheads/pubmed-mcp-server 2.10.19 → 2.10.20
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.
- package/AGENTS.md +7 -4
- package/CLAUDE.md +7 -4
- package/Dockerfile +12 -3
- package/README.md +7 -7
- package/changelog/2.10.x/2.10.20.md +63 -0
- package/dist/mcp-server/tools/definitions/_text.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/_text.js +10 -5
- package/dist/mcp-server/tools/definitions/_text.js.map +1 -1
- package/dist/mcp-server/tools/definitions/fetch-articles.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/fetch-articles.tool.js +28 -10
- package/dist/mcp-server/tools/definitions/fetch-articles.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/fetch-fulltext.tool.d.ts +27 -9
- package/dist/mcp-server/tools/definitions/fetch-fulltext.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/fetch-fulltext.tool.js +577 -485
- package/dist/mcp-server/tools/definitions/fetch-fulltext.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/find-related.tool.d.ts +5 -5
- package/dist/mcp-server/tools/definitions/find-related.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/find-related.tool.js +12 -8
- package/dist/mcp-server/tools/definitions/find-related.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/lookup-citation.tool.d.ts +11 -7
- package/dist/mcp-server/tools/definitions/lookup-citation.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/lookup-citation.tool.js +70 -34
- package/dist/mcp-server/tools/definitions/lookup-citation.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/lookup-mesh.tool.d.ts +2 -1
- package/dist/mcp-server/tools/definitions/lookup-mesh.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/lookup-mesh.tool.js +11 -3
- package/dist/mcp-server/tools/definitions/lookup-mesh.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/pubmed-europepmc-fetch.tool.d.ts +18 -0
- package/dist/mcp-server/tools/definitions/pubmed-europepmc-fetch.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/pubmed-europepmc-fetch.tool.js +97 -13
- package/dist/mcp-server/tools/definitions/pubmed-europepmc-fetch.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/pubmed-europepmc-search.tool.d.ts +4 -3
- package/dist/mcp-server/tools/definitions/pubmed-europepmc-search.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/pubmed-europepmc-search.tool.js +7 -5
- package/dist/mcp-server/tools/definitions/pubmed-europepmc-search.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/search-articles.tool.d.ts +6 -4
- package/dist/mcp-server/tools/definitions/search-articles.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/search-articles.tool.js +33 -11
- package/dist/mcp-server/tools/definitions/search-articles.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/spell-check.tool.d.ts +2 -1
- package/dist/mcp-server/tools/definitions/spell-check.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/spell-check.tool.js +5 -1
- package/dist/mcp-server/tools/definitions/spell-check.tool.js.map +1 -1
- package/dist/services/error-contracts.d.ts +1 -1
- package/dist/services/error-contracts.d.ts.map +1 -1
- package/dist/services/error-contracts.js +1 -1
- package/dist/services/error-contracts.js.map +1 -1
- package/dist/services/ncbi/formatting/citation-formatter.d.ts +24 -0
- package/dist/services/ncbi/formatting/citation-formatter.d.ts.map +1 -1
- package/dist/services/ncbi/formatting/citation-formatter.js +147 -46
- package/dist/services/ncbi/formatting/citation-formatter.js.map +1 -1
- package/dist/services/ncbi/ncbi-service.d.ts +16 -1
- package/dist/services/ncbi/ncbi-service.d.ts.map +1 -1
- package/dist/services/ncbi/ncbi-service.js +115 -70
- package/dist/services/ncbi/ncbi-service.js.map +1 -1
- package/dist/services/ncbi/parsing/article-parser.d.ts.map +1 -1
- package/dist/services/ncbi/parsing/article-parser.js +38 -29
- package/dist/services/ncbi/parsing/article-parser.js.map +1 -1
- package/dist/services/ncbi/parsing/esummary-parser.d.ts +9 -0
- package/dist/services/ncbi/parsing/esummary-parser.d.ts.map +1 -1
- package/dist/services/ncbi/parsing/esummary-parser.js +26 -2
- package/dist/services/ncbi/parsing/esummary-parser.js.map +1 -1
- package/dist/services/ncbi/parsing/pmc-article-parser.d.ts.map +1 -1
- package/dist/services/ncbi/parsing/pmc-article-parser.js +395 -147
- package/dist/services/ncbi/parsing/pmc-article-parser.js.map +1 -1
- package/dist/services/ncbi/parsing/pmc-xml-helpers.d.ts +73 -5
- package/dist/services/ncbi/parsing/pmc-xml-helpers.d.ts.map +1 -1
- package/dist/services/ncbi/parsing/pmc-xml-helpers.js +223 -27
- package/dist/services/ncbi/parsing/pmc-xml-helpers.js.map +1 -1
- package/dist/services/ncbi/parsing/text-helpers.d.ts +8 -6
- package/dist/services/ncbi/parsing/text-helpers.d.ts.map +1 -1
- package/dist/services/ncbi/parsing/text-helpers.js +95 -19
- package/dist/services/ncbi/parsing/text-helpers.js.map +1 -1
- package/dist/services/ncbi/response-handler.d.ts +20 -12
- package/dist/services/ncbi/response-handler.d.ts.map +1 -1
- package/dist/services/ncbi/response-handler.js +112 -19
- package/dist/services/ncbi/response-handler.js.map +1 -1
- package/dist/services/ncbi/types.d.ts +2 -2
- package/dist/services/openalex/openalex-service.d.ts +10 -6
- package/dist/services/openalex/openalex-service.d.ts.map +1 -1
- package/dist/services/openalex/openalex-service.js +13 -9
- package/dist/services/openalex/openalex-service.js.map +1 -1
- package/package.json +13 -11
- package/server.json +10 -24
package/package.json
CHANGED
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@@ -1,6 +1,6 @@
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{
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"name": "@cyanheads/pubmed-mcp-server",
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"version": "2.10.
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"version": "2.10.20",
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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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@@ -30,6 +30,8 @@
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"format:unsafe": "biome check --write --unsafe .",
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"test": "bunx vitest run",
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"test:coverage": "bunx vitest run --coverage",
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"test:corpus": "bunx vitest run tests/corpus",
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"corpus:snapshot": "PUBMED_CORPUS_UPDATE=1 bunx vitest run tests/corpus",
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"audit:fix": "bun audit fix",
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"audit:refresh": "rm -f bun.lock && bun install && bun audit",
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"list-skills": "bun run scripts/list-skills.ts",
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"access": "public"
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},
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"dependencies": {
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"@cyanheads/mcp-ts-core": "^0.13.
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"@cyanheads/mcp-ts-core": "^0.13.11",
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"defuddle": "^0.19.4",
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"fast-xml-parser": "^5.11.
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"fast-xml-parser": "^5.11.2",
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"linkedom": "^0.18.13",
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"pino-pretty": "^13.1.3",
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"sanitize-html": "^2.
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"sanitize-html": "^2.18.0",
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"unpdf": "^1.8.1",
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"zod": "^4.6.5"
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},
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"devDependencies": {
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"@biomejs/biome": "^2.5.
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"@biomejs/biome": "^2.5.15",
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"@socketsecurity/bun-security-scanner": "^1.1.3",
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"@types/node": "^26.6.
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"@types/sanitize-html": "^2.16.
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"@vitest/coverage-istanbul": "^5.0.
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"@types/node": "^26.6.3",
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"@types/sanitize-html": "^2.16.2",
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"@vitest/coverage-istanbul": "^5.0.3",
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"depcheck": "^1.4.7",
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"fast-check": "^4.10.2",
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"ignore": "^7.0.
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"tsc-alias": "^1.9.
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"ignore": "^7.0.11",
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"tsc-alias": "^1.9.7",
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"typescript": "^7.0.2",
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"vitest": "^5.0.
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"vitest": "^5.0.3"
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},
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"overrides": {
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"@hono/node-server": "^2.0.11",
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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": "2.10.
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"version": "2.10.20",
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"remotes": [
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{
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"type": "streamable-http",
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"registryType": "npm",
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"registryBaseUrl": "https://registry.npmjs.org",
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"identifier": "@cyanheads/pubmed-mcp-server",
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"runtimeHint": "
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"version": "2.10.
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"packageArguments": [
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{
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"type": "positional",
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"value": "run"
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},
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{
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"type": "positional",
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"value": "start:stdio"
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}
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],
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"runtimeHint": "npx",
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"version": "2.10.20",
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"environmentVariables": [
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{
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"name": "MCP_LOG_LEVEL",
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"registryType": "npm",
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"registryBaseUrl": "https://registry.npmjs.org",
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"identifier": "@cyanheads/pubmed-mcp-server",
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"runtimeHint": "
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"version": "2.10.
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"
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"runtimeHint": "npx",
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"version": "2.10.20",
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"environmentVariables": [
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"name": "MCP_TRANSPORT_TYPE",
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"description": "Selects the HTTP transport.",
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"format": "string",
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"value": "http"
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"type": "positional",
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"value": "start:http"
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}
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"environmentVariables": [
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"name": "MCP_HTTP_HOST",
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"description": "The hostname for the HTTP server.",
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