@djmima/pubmed-mcp 1.0.2 → 1.2.0
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/CHANGELOG.md +33 -1
- package/README.md +11 -11
- package/dist/auth.d.ts +5 -7
- package/dist/auth.d.ts.map +1 -1
- package/dist/auth.js +21 -15
- package/dist/auth.js.map +1 -1
- package/dist/cli/commands.d.ts.map +1 -1
- package/dist/cli/commands.js +3 -5
- package/dist/cli/commands.js.map +1 -1
- package/dist/cli/run.d.ts.map +1 -1
- package/dist/cli/run.js +6 -0
- package/dist/cli/run.js.map +1 -1
- package/dist/http.d.ts +20 -0
- package/dist/http.d.ts.map +1 -0
- package/dist/http.js +86 -0
- package/dist/http.js.map +1 -0
- package/dist/index.d.ts +4 -4
- package/dist/index.js +21 -46
- package/dist/index.js.map +1 -1
- package/dist/pubmed/client.d.ts.map +1 -1
- package/dist/pubmed/client.js +49 -15
- package/dist/pubmed/client.js.map +1 -1
- package/dist/pubmed/types.d.ts +2 -1
- package/dist/pubmed/types.d.ts.map +1 -1
- package/dist/pubmed/types.js +2 -1
- package/dist/pubmed/types.js.map +1 -1
- package/dist/server.d.ts.map +1 -1
- package/dist/server.js +2 -1
- package/dist/server.js.map +1 -1
- package/dist/tools/convertArticleIds.d.ts.map +1 -1
- package/dist/tools/convertArticleIds.js +2 -1
- package/dist/tools/convertArticleIds.js.map +1 -1
- package/dist/tools/findRelatedArticles.d.ts +5 -0
- package/dist/tools/findRelatedArticles.d.ts.map +1 -1
- package/dist/tools/findRelatedArticles.js +10 -2
- package/dist/tools/findRelatedArticles.js.map +1 -1
- package/dist/tools/getArticleMetadata.d.ts.map +1 -1
- package/dist/tools/getArticleMetadata.js +2 -1
- package/dist/tools/getArticleMetadata.js.map +1 -1
- package/dist/tools/getCopyrightStatus.d.ts.map +1 -1
- package/dist/tools/getCopyrightStatus.js +2 -1
- package/dist/tools/getCopyrightStatus.js.map +1 -1
- package/dist/tools/getFullTextArticle.d.ts.map +1 -1
- package/dist/tools/getFullTextArticle.js +2 -1
- package/dist/tools/getFullTextArticle.js.map +1 -1
- package/dist/utils/ids.d.ts +17 -0
- package/dist/utils/ids.d.ts.map +1 -0
- package/dist/utils/ids.js +21 -0
- package/dist/utils/ids.js.map +1 -0
- package/dist/version.d.ts +11 -0
- package/dist/version.d.ts.map +1 -0
- package/dist/version.js +25 -0
- package/dist/version.js.map +1 -0
- package/package.json +4 -4
package/dist/index.js
CHANGED
|
@@ -11,7 +11,8 @@
|
|
|
11
11
|
*
|
|
12
12
|
* HTTP mode (Cloud Run / remote deployment):
|
|
13
13
|
* Activated when the PORT environment variable is set.
|
|
14
|
-
* Starts an Express server that handles Streamable HTTP
|
|
14
|
+
* Starts an Express server (see http.ts) that handles Streamable HTTP
|
|
15
|
+
* transport at /mcp.
|
|
15
16
|
* Used by remote clients: Claude custom connectors and the Anthropic API
|
|
16
17
|
* MCP connector, which can only reach servers over HTTP.
|
|
17
18
|
* /mcp requires an OAuth 2.0 Bearer token (see auth.ts); /health and
|
|
@@ -23,17 +24,27 @@
|
|
|
23
24
|
* NCBI_API_KEY — NCBI API key; raises rate limit from 3 → 8 req/s
|
|
24
25
|
* Register free at https://www.ncbi.nlm.nih.gov/account/
|
|
25
26
|
* PORT — When set, enables HTTP mode on the specified port.
|
|
26
|
-
* OAUTH_ISSUER, OAUTH_JWKS_URL, MCP_RESOURCE_URL
|
|
27
|
+
* OAUTH_ISSUER, OAUTH_JWKS_URL, MCP_RESOURCE_URL, ALLOWED_SUBJECTS
|
|
27
28
|
* — Required in HTTP mode; startup fails without them.
|
|
28
|
-
*
|
|
29
|
-
* See auth.ts for all four.
|
|
29
|
+
* See auth.ts.
|
|
30
30
|
*/
|
|
31
|
-
// Load .env file
|
|
32
|
-
//
|
|
31
|
+
// Load the .env file in the package root (the repository root in a source
|
|
32
|
+
// checkout) if present. Silently skipped in production where env vars are
|
|
33
|
+
// injected by the runtime (Cloud Run, Docker --env, etc.). Never read from the
|
|
34
|
+
// current directory: MCP clients start the server in whatever project is
|
|
35
|
+
// open, and a .env there could otherwise set PORT (switching to HTTP mode) or
|
|
36
|
+
// HTTPS_PROXY with NODE_TLS_REJECT_UNAUTHORIZED=0, letting a proxy read the
|
|
37
|
+
// API key and alter NCBI responses. Variables already set in the environment
|
|
38
|
+
// take precedence.
|
|
33
39
|
// quiet: dotenv >=17 logs to stdout by default, which corrupts the stdio
|
|
34
40
|
// JSON-RPC stream.
|
|
41
|
+
import path from 'node:path';
|
|
42
|
+
import { fileURLToPath } from 'node:url';
|
|
35
43
|
import { config as loadDotenv } from 'dotenv';
|
|
36
|
-
loadDotenv({
|
|
44
|
+
loadDotenv({
|
|
45
|
+
path: path.join(path.dirname(fileURLToPath(import.meta.url)), '..', '.env'),
|
|
46
|
+
quiet: true,
|
|
47
|
+
});
|
|
37
48
|
import { createServer } from './server.js';
|
|
38
49
|
import { NcbiClient } from './pubmed/client.js';
|
|
39
50
|
async function main() {
|
|
@@ -52,45 +63,9 @@ async function main() {
|
|
|
52
63
|
// after loadDotenv() so that it reads NCBI_API_KEY from .env.
|
|
53
64
|
const sharedNcbiClient = new NcbiClient();
|
|
54
65
|
async function startHttpServer(port) {
|
|
55
|
-
|
|
56
|
-
const {
|
|
57
|
-
const
|
|
58
|
-
const app = express();
|
|
59
|
-
app.use(express.json());
|
|
60
|
-
// OAuth 2.0 Protected Resource Metadata (RFC 9728) — public so the client can
|
|
61
|
-
// discover the authorization server. No token required.
|
|
62
|
-
app.get('/.well-known/oauth-protected-resource', protectedResourceMetadata);
|
|
63
|
-
// Return JSON (not HTML) for malformed request bodies.
|
|
64
|
-
app.use((err, _req, res, next) => {
|
|
65
|
-
if (err.type === 'entity.parse.failed') {
|
|
66
|
-
res.status(400).json({ error: 'Invalid JSON body' });
|
|
67
|
-
return;
|
|
68
|
-
}
|
|
69
|
-
next(err);
|
|
70
|
-
});
|
|
71
|
-
// MCP Streamable HTTP — handles both POST (client→server) and GET (SSE stream).
|
|
72
|
-
// SDK v1.x: stateless transports cannot be reused across requests.
|
|
73
|
-
// A new transport and server instance must be created for every request.
|
|
74
|
-
app.all('/mcp', requireAuth, (req, res) => {
|
|
75
|
-
const transport = new StreamableHTTPServerTransport({
|
|
76
|
-
sessionIdGenerator: undefined, // stateless mode
|
|
77
|
-
});
|
|
78
|
-
const mcpServer = createServer(sharedNcbiClient);
|
|
79
|
-
mcpServer
|
|
80
|
-
.connect(transport)
|
|
81
|
-
.then(() => transport.handleRequest(req, res, req.body))
|
|
82
|
-
.catch((err) => {
|
|
83
|
-
process.stderr.write(`[http] handleRequest error: ${String(err)}\n`);
|
|
84
|
-
if (!res.headersSent) {
|
|
85
|
-
res.status(500).json({ error: 'Internal server error' });
|
|
86
|
-
}
|
|
87
|
-
});
|
|
88
|
-
});
|
|
89
|
-
// Health check endpoint — used by Cloud Run readiness/liveness probes.
|
|
90
|
-
// No auth required so Cloud Run can always reach it.
|
|
91
|
-
app.get('/health', (_req, res) => {
|
|
92
|
-
res.send('ok');
|
|
93
|
-
});
|
|
66
|
+
// Imported only in HTTP mode: auth.ts requires the OAuth variables.
|
|
67
|
+
const { createHttpApp } = await import('./http.js');
|
|
68
|
+
const app = createHttpApp(sharedNcbiClient);
|
|
94
69
|
const httpServer = app.listen(port, () => {
|
|
95
70
|
process.stderr.write(`PubMed MCP server running on HTTP port ${port}\n`);
|
|
96
71
|
process.stderr.write(` MCP endpoint : http://localhost:${port}/mcp\n`);
|
package/dist/index.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";AACA;;;;;;;;;;;;;;;;;;;;;;;;;;;;GA4BG;AAEH,
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";AACA;;;;;;;;;;;;;;;;;;;;;;;;;;;;GA4BG;AAEH,0EAA0E;AAC1E,0EAA0E;AAC1E,+EAA+E;AAC/E,yEAAyE;AACzE,8EAA8E;AAC9E,4EAA4E;AAC5E,6EAA6E;AAC7E,mBAAmB;AACnB,yEAAyE;AACzE,mBAAmB;AACnB,OAAO,IAAI,MAAM,WAAW,CAAC;AAC7B,OAAO,EAAE,aAAa,EAAE,MAAM,UAAU,CAAC;AACzC,OAAO,EAAE,MAAM,IAAI,UAAU,EAAE,MAAM,QAAQ,CAAC;AAC9C,UAAU,CAAC;IACT,IAAI,EAAE,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,MAAM,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,EAAE,MAAM,CAAC;IAC3E,KAAK,EAAE,IAAI;CACZ,CAAC,CAAC;AAEH,OAAO,EAAE,YAAY,EAAE,MAAM,aAAa,CAAC;AAC3C,OAAO,EAAE,UAAU,EAAE,MAAM,oBAAoB,CAAC;AAEhD,KAAK,UAAU,IAAI;IACjB,MAAM,IAAI,GAAG,OAAO,CAAC,GAAG,CAAC,IAAI,CAAC,CAAC,CAAC,QAAQ,CAAC,OAAO,CAAC,GAAG,CAAC,IAAI,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS,CAAC;IAE3E,IAAI,IAAI,KAAK,SAAS,EAAE,CAAC;QACvB,MAAM,eAAe,CAAC,IAAI,CAAC,CAAC;IAC9B,CAAC;SAAM,CAAC;QACN,MAAM,gBAAgB,EAAE,CAAC;IAC3B,CAAC;AACH,CAAC;AAED,8EAA8E;AAE9E,6EAA6E;AAC7E,wEAAwE;AACxE,2EAA2E;AAC3E,8DAA8D;AAC9D,MAAM,gBAAgB,GAAG,IAAI,UAAU,EAAE,CAAC;AAE1C,KAAK,UAAU,eAAe,CAAC,IAAY;IACzC,oEAAoE;IACpE,MAAM,EAAE,aAAa,EAAE,GAAG,MAAM,MAAM,CAAC,WAAW,CAAC,CAAC;IACpD,MAAM,GAAG,GAAG,aAAa,CAAC,gBAAgB,CAAC,CAAC;IAE5C,MAAM,UAAU,GAAG,GAAG,CAAC,MAAM,CAAC,IAAI,EAAE,GAAG,EAAE;QACvC,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,0CAA0C,IAAI,IAAI,CAAC,CAAC;QACzE,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,qCAAqC,IAAI,QAAQ,CAAC,CAAC;QACxE,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,qCAAqC,IAAI,WAAW,CAAC,CAAC;QAC3E,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,yEAAyE,CAAC,CAAC;IAClG,CAAC,CAAC,CAAC;IAEH,MAAM,QAAQ,GAAG,GAAS,EAAE;QAC1B,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,mCAAmC,CAAC,CAAC;QAC1D,UAAU,CAAC,KAAK,CAAC,GAAG,EAAE,CAAC,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC;IAC1C,CAAC,CAAC;IAEF,OAAO,CAAC,EAAE,CAAC,QAAQ,EAAE,QAAQ,CAAC,CAAC;IAC/B,OAAO,CAAC,EAAE,CAAC,SAAS,EAAE,QAAQ,CAAC,CAAC;AAClC,CAAC;AAED,6EAA6E;AAE7E,KAAK,UAAU,gBAAgB;IAC7B,MAAM,EAAE,oBAAoB,EAAE,GAAG,MAAM,MAAM,CAC3C,2CAA2C,CAC5C,CAAC;IAEF,MAAM,MAAM,GAAG,YAAY,EAAE,CAAC;IAC9B,MAAM,SAAS,GAAG,IAAI,oBAAoB,EAAE,CAAC;IAE7C,MAAM,MAAM,CAAC,OAAO,CAAC,SAAS,CAAC,CAAC;IAEhC,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,sCAAsC,CAAC,CAAC;IAE7D,MAAM,QAAQ,GAAG,GAAS,EAAE;QAC1B,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,mCAAmC,CAAC,CAAC;QAC1D,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;IAClB,CAAC,CAAC;IAEF,OAAO,CAAC,EAAE,CAAC,QAAQ,EAAE,QAAQ,CAAC,CAAC;IAC/B,OAAO,CAAC,EAAE,CAAC,SAAS,EAAE,QAAQ,CAAC,CAAC;AAClC,CAAC;AAED,6EAA6E;AAE7E,IAAI,EAAE,CAAC,KAAK,CAAC,CAAC,GAAG,EAAE,EAAE;IACnB,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,gBAAgB,MAAM,CAAC,GAAG,CAAC,IAAI,CAAC,CAAC;IACtD,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;AAClB,CAAC,CAAC,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"client.d.ts","sourceRoot":"","sources":["../../src/pubmed/client.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;GAUG;
|
|
1
|
+
{"version":3,"file":"client.d.ts","sourceRoot":"","sources":["../../src/pubmed/client.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;GAUG;AA8EH,qBAAa,gBAAiB,SAAQ,KAAK;aACI,KAAK,CAAC,EAAE,OAAO;gBAAhD,OAAO,EAAE,MAAM,EAAkB,KAAK,CAAC,EAAE,OAAO,YAAA;CAI7D;AAED,qBAAa,YAAa,SAAQ,KAAK;aACQ,UAAU,CAAC,EAAE,MAAM;gBAApD,OAAO,EAAE,MAAM,EAAkB,UAAU,CAAC,EAAE,MAAM,YAAA;CAIjE;AAED,qBAAa,cAAe,SAAQ,KAAK;aACM,KAAK,CAAC,EAAE,OAAO;gBAAhD,OAAO,EAAE,MAAM,EAAkB,KAAK,CAAC,EAAE,OAAO,YAAA;CAI7D;AAID,qBAAa,UAAU;IACrB,OAAO,CAAC,QAAQ,CAAC,MAAM,CAAqB;IAC5C,OAAO,CAAC,QAAQ,CAAC,WAAW,CAAc;gBAE9B,MAAM,CAAC,EAAE,MAAM;IAQ3B,OAAO,CAAC,YAAY;IAWpB;;;OAGG;YACW,OAAO;IAerB;;;OAGG;IACG,OAAO,CAAC,MAAM,EAAE;QACpB,IAAI,EAAE,MAAM,CAAC;QACb,MAAM,CAAC,EAAE,MAAM,CAAC;QAChB,QAAQ,CAAC,EAAE,MAAM,CAAC;QAClB,IAAI,CAAC,EAAE,MAAM,CAAC;QACd,KAAK,CAAC,EAAE,MAAM,CAAC;QACf,QAAQ,CAAC,EAAE,MAAM,CAAC;QAClB,OAAO,CAAC,EAAE,MAAM,CAAC;QACjB,OAAO,CAAC,EAAE,MAAM,CAAC;KAClB,GAAG,OAAO,CAAC,aAAa,CAAC;IAsB1B;;;OAGG;IACG,MAAM,CAAC,MAAM,EAAE;QACnB,EAAE,EAAE,MAAM,CAAC;QACX,EAAE,EAAE,MAAM,GAAG,MAAM,EAAE,CAAC;QACtB,OAAO,CAAC,EAAE,MAAM,CAAC;QACjB,OAAO,CAAC,EAAE,MAAM,CAAC;KAClB,GAAG,OAAO,CAAC,MAAM,CAAC;IAkBnB;;;OAGG;IACG,KAAK,CAAC,MAAM,EAAE;QAClB,MAAM,EAAE,MAAM,CAAC;QACf,EAAE,EAAE,MAAM,EAAE,CAAC;QACb,QAAQ,EAAE,MAAM,CAAC;QACjB,GAAG,CAAC,EAAE,MAAM,CAAC;KACd,GAAG,OAAO,CAAC,aAAa,CAAC;IAoB1B;;;OAGG;IACG,SAAS,CAAC,SAAS,EAAE,aAAa,EAAE,GAAG,OAAO,CAAC,MAAM,CAAC;IAkC5D;;OAEG;IACG,SAAS,CAAC,MAAM,EAAE;QACtB,GAAG,EAAE,MAAM,EAAE,CAAC;QACd,MAAM,CAAC,EAAE,MAAM,CAAC;KACjB,GAAG,OAAO,CAAC,cAAc,CAAC;CAe5B;AAID,MAAM,WAAW,aAAa;IAC5B,KAAK,EAAE,MAAM,CAAC;IACd,MAAM,EAAE,MAAM,CAAC;IACf,QAAQ,EAAE,MAAM,CAAC;IACjB,MAAM,EAAE,MAAM,EAAE,CAAC;IACjB,cAAc,EAAE,OAAO,EAAE,CAAC;IAC1B,gBAAgB,EAAE,MAAM,CAAC;IACzB,SAAS,CAAC,EAAE;QAAE,eAAe,CAAC,EAAE,MAAM,EAAE,CAAC;QAAC,cAAc,CAAC,EAAE,MAAM,EAAE,CAAA;KAAE,CAAC;IACtE,WAAW,CAAC,EAAE;QACZ,cAAc,CAAC,EAAE,MAAM,EAAE,CAAC;QAC1B,qBAAqB,CAAC,EAAE,MAAM,EAAE,CAAC;QACjC,cAAc,CAAC,EAAE,MAAM,EAAE,CAAC;KAC3B,CAAC;CACH;AAED,MAAM,WAAW,aAAa;IAC5B,MAAM,CAAC,EAAE;QAAE,IAAI,EAAE,MAAM,CAAC;QAAC,OAAO,EAAE,MAAM,CAAA;KAAE,CAAC;IAC3C,QAAQ,EAAE,YAAY,EAAE,CAAC;CAC1B;AAED,MAAM,WAAW,YAAY;IAC3B,MAAM,EAAE,MAAM,CAAC;IACf,GAAG,EAAE,MAAM,EAAE,CAAC;IACd,UAAU,CAAC,EAAE,cAAc,EAAE,CAAC;IAC9B,SAAS,CAAC,EAAE,OAAO,EAAE,CAAC;CACvB;AAED,MAAM,WAAW,cAAc;IAC7B,IAAI,EAAE,MAAM,CAAC;IACb,QAAQ,EAAE,MAAM,CAAC;IACjB,KAAK,EAAE,KAAK,CAAC;QAAE,EAAE,EAAE,MAAM,CAAC;QAAC,KAAK,CAAC,EAAE,MAAM,CAAA;KAAE,GAAG,MAAM,CAAC,CAAC;CACvD;AAED,MAAM,WAAW,aAAa;IAC5B,OAAO,EAAE,MAAM,CAAC;IAChB,IAAI,EAAE,MAAM,CAAC;IACb,MAAM,EAAE,MAAM,CAAC;IACf,UAAU,EAAE,MAAM,CAAC;IACnB,MAAM,EAAE,MAAM,CAAC;IACf,GAAG,EAAE,MAAM,CAAC;CACb;AAED,MAAM,WAAW,cAAc;IAC7B,MAAM,EAAE,MAAM,CAAC;IACf,eAAe,EAAE,MAAM,CAAC;IACxB,OAAO,EAAE;QACP,QAAQ,EAAE,MAAM,EAAE,CAAC;QACnB,MAAM,EAAE,MAAM,CAAC;QACf,MAAM,EAAE,MAAM,CAAC;QACf,GAAG,EAAE,MAAM,EAAE,CAAC;QACd,KAAK,EAAE,MAAM,CAAC;QACd,IAAI,EAAE,MAAM,CAAC;QACb,IAAI,EAAE,MAAM,CAAC;QACb,QAAQ,EAAE,MAAM,CAAC;QACjB,QAAQ,EAAE,MAAM,CAAC;KAClB,CAAC;IACF,OAAO,EAAE,KAAK,CAAC;QACb,IAAI,CAAC,EAAE,MAAM,CAAC;QACd,KAAK,CAAC,EAAE,MAAM,CAAC;QACf,GAAG,CAAC,EAAE,MAAM,CAAC;QACb,cAAc,EAAE,MAAM,CAAC;QACvB,MAAM,CAAC,EAAE,MAAM,CAAC;QAChB,CAAC,GAAG,EAAE,MAAM,GAAG,MAAM,GAAG,SAAS,CAAC;KACnC,CAAC,CAAC;CACJ"}
|
package/dist/pubmed/client.js
CHANGED
|
@@ -23,6 +23,18 @@ const HTTPS_AGENT = new https.Agent({
|
|
|
23
23
|
ALPNProtocols: ['http/1.1'],
|
|
24
24
|
keepAlive: true,
|
|
25
25
|
});
|
|
26
|
+
/**
|
|
27
|
+
* Abort a request when NCBI sends no response headers, or the connection
|
|
28
|
+
* goes idle, for this long. Without it a stalled connection hangs the tool
|
|
29
|
+
* call (and in HTTP mode, the client's request) indefinitely.
|
|
30
|
+
*/
|
|
31
|
+
const REQUEST_TIMEOUT_MS = 60_000;
|
|
32
|
+
/** Options shared by every NCBI request. */
|
|
33
|
+
const REQUEST_OPTIONS = {
|
|
34
|
+
httpsAgent: HTTPS_AGENT,
|
|
35
|
+
timeout: REQUEST_TIMEOUT_MS,
|
|
36
|
+
beforeRedirect: refuseRedirectOffNcbi,
|
|
37
|
+
};
|
|
26
38
|
const TOOL_NAME = 'pubmed-mcp';
|
|
27
39
|
/**
|
|
28
40
|
* NCBI requires `email` to be the software developer's address, not an end
|
|
@@ -120,7 +132,7 @@ export class NcbiClient {
|
|
|
120
132
|
await sleep(retryDelayMs(err, attempt));
|
|
121
133
|
continue;
|
|
122
134
|
}
|
|
123
|
-
throw wrapAxiosError(err, operation);
|
|
135
|
+
throw wrapAxiosError(err, operation, this.apiKey);
|
|
124
136
|
}
|
|
125
137
|
}
|
|
126
138
|
}
|
|
@@ -130,7 +142,7 @@ export class NcbiClient {
|
|
|
130
142
|
*/
|
|
131
143
|
async esearch(params) {
|
|
132
144
|
const response = await this.request('esearch', () => axios.get(`${NCBI_BASE_URL}esearch.fcgi`, {
|
|
133
|
-
|
|
145
|
+
...REQUEST_OPTIONS,
|
|
134
146
|
params: {
|
|
135
147
|
...this.commonParams(),
|
|
136
148
|
db: 'pubmed',
|
|
@@ -154,7 +166,7 @@ export class NcbiClient {
|
|
|
154
166
|
async efetch(params) {
|
|
155
167
|
const idStr = Array.isArray(params.id) ? params.id.join(',') : params.id;
|
|
156
168
|
const response = await this.request('efetch', () => axios.get(`${NCBI_BASE_URL}efetch.fcgi`, {
|
|
157
|
-
|
|
169
|
+
...REQUEST_OPTIONS,
|
|
158
170
|
params: {
|
|
159
171
|
...this.commonParams(),
|
|
160
172
|
db: params.db,
|
|
@@ -183,7 +195,7 @@ export class NcbiClient {
|
|
|
183
195
|
searchParams.append('id', id);
|
|
184
196
|
}
|
|
185
197
|
const response = await this.request('elink', () => axios.get(`${NCBI_BASE_URL}elink.fcgi?${searchParams.toString()}`, {
|
|
186
|
-
|
|
198
|
+
...REQUEST_OPTIONS,
|
|
187
199
|
}));
|
|
188
200
|
return response.data;
|
|
189
201
|
}
|
|
@@ -193,10 +205,12 @@ export class NcbiClient {
|
|
|
193
205
|
*/
|
|
194
206
|
async ecitmatch(citations) {
|
|
195
207
|
const bdata = citations
|
|
196
|
-
.map((c) =>
|
|
208
|
+
.map((c) => [c.journal, c.year, c.volume, c.first_page, c.author, c.key]
|
|
209
|
+
.map(bdataField)
|
|
210
|
+
.join('|') + '|')
|
|
197
211
|
.join('\r');
|
|
198
212
|
const response = await this.request('ecitmatch', () => axios.get(`${NCBI_BASE_URL}ecitmatch.cgi`, {
|
|
199
|
-
|
|
213
|
+
...REQUEST_OPTIONS,
|
|
200
214
|
params: {
|
|
201
215
|
...this.commonParams(),
|
|
202
216
|
db: 'pubmed',
|
|
@@ -219,7 +233,7 @@ export class NcbiClient {
|
|
|
219
233
|
*/
|
|
220
234
|
async idConvert(params) {
|
|
221
235
|
const response = await this.request('idConvert', () => axios.get(PMC_ID_CONVERTER_URL, {
|
|
222
|
-
|
|
236
|
+
...REQUEST_OPTIONS,
|
|
223
237
|
params: {
|
|
224
238
|
...this.commonParams(),
|
|
225
239
|
format: 'json',
|
|
@@ -228,11 +242,11 @@ export class NcbiClient {
|
|
|
228
242
|
versions: 'no',
|
|
229
243
|
},
|
|
230
244
|
}));
|
|
231
|
-
return sanitizeIdConvResponse(response.data);
|
|
245
|
+
return sanitizeIdConvResponse(response.data, this.apiKey);
|
|
232
246
|
}
|
|
233
247
|
}
|
|
234
248
|
// ─── Helpers ─────────────────────────────────────────────────────────────────
|
|
235
|
-
function wrapAxiosError(err, operation) {
|
|
249
|
+
function wrapAxiosError(err, operation, apiKey) {
|
|
236
250
|
if (err instanceof NcbiApiError || err instanceof NcbiNetworkError) {
|
|
237
251
|
return err;
|
|
238
252
|
}
|
|
@@ -240,10 +254,11 @@ function wrapAxiosError(err, operation) {
|
|
|
240
254
|
const status = err.response?.status;
|
|
241
255
|
if (status !== undefined) {
|
|
242
256
|
const body = describeResponseBody(err.response?.data);
|
|
243
|
-
const message = redactApiKey(body || err.message);
|
|
257
|
+
const message = redactApiKey(body || err.message, apiKey);
|
|
244
258
|
return new NcbiApiError(`NCBI ${operation} returned HTTP ${status}: ${message}`, status);
|
|
245
259
|
}
|
|
246
|
-
|
|
260
|
+
// The AxiosError is not kept as the cause: its config holds the API key.
|
|
261
|
+
return new NcbiNetworkError(`Network error during NCBI ${operation}: ${redactApiKey(err.message, apiKey)}`);
|
|
247
262
|
}
|
|
248
263
|
if (err instanceof Error)
|
|
249
264
|
return err;
|
|
@@ -289,15 +304,32 @@ function retryDelayMs(err, attempt) {
|
|
|
289
304
|
}
|
|
290
305
|
return fallback;
|
|
291
306
|
}
|
|
307
|
+
/**
|
|
308
|
+
* Refuse a redirect that leaves NCBI or drops HTTPS. The API key travels in
|
|
309
|
+
* the query string, which redirects keep (the ID Converter redirects to
|
|
310
|
+
* pmc.ncbi.nlm.nih.gov with the query intact). Checks href rather than
|
|
311
|
+
* hostname, which axios rewrites to the proxy's when a proxy is configured.
|
|
312
|
+
*/
|
|
313
|
+
function refuseRedirectOffNcbi(options) {
|
|
314
|
+
const target = new URL(String(options.href));
|
|
315
|
+
const onNcbi = target.hostname === 'ncbi.nlm.nih.gov' || target.hostname.endsWith('.ncbi.nlm.nih.gov');
|
|
316
|
+
if (target.protocol !== 'https:' || !onNcbi) {
|
|
317
|
+
throw new Error(`refused redirect to ${target.protocol}//${target.host}`);
|
|
318
|
+
}
|
|
319
|
+
}
|
|
320
|
+
/** "|" separates ECitMatch fields and "\r" separates citations, so neither may appear in a field. */
|
|
321
|
+
function bdataField(value) {
|
|
322
|
+
return String(value).replace(/[|\r\n]+/g, ' ');
|
|
323
|
+
}
|
|
292
324
|
function looksLikeHtml(text) {
|
|
293
325
|
return /^\s*(?:<!doctype\s+html|<html\b)/i.test(text);
|
|
294
326
|
}
|
|
295
|
-
function sanitizeIdConvResponse(response) {
|
|
327
|
+
function sanitizeIdConvResponse(response, apiKey) {
|
|
296
328
|
return {
|
|
297
329
|
...response,
|
|
298
330
|
request: {
|
|
299
331
|
...response.request,
|
|
300
|
-
echo: redactApiKey(response.request.echo),
|
|
332
|
+
echo: redactApiKey(response.request.echo, apiKey),
|
|
301
333
|
},
|
|
302
334
|
records: response.records.map((record) => ({
|
|
303
335
|
...record,
|
|
@@ -310,10 +342,12 @@ function sanitizeIdConvResponse(response) {
|
|
|
310
342
|
})),
|
|
311
343
|
};
|
|
312
344
|
}
|
|
313
|
-
function redactApiKey(value) {
|
|
345
|
+
function redactApiKey(value, apiKey) {
|
|
314
346
|
// NCBI echoes the key both as a query param and as "api-key" in JSON error bodies.
|
|
315
|
-
|
|
347
|
+
const redacted = value
|
|
316
348
|
.replace(/(^|[?&])(api_key=)[^&\s]+/gi, '$1$2<redacted>')
|
|
317
349
|
.replace(/("api[-_]key"\s*:\s*")[^"]*/gi, '$1<redacted>');
|
|
350
|
+
// Any other echo of the key, such as one in an HTML-escaped URL.
|
|
351
|
+
return apiKey ? redacted.split(apiKey).join('<redacted>') : redacted;
|
|
318
352
|
}
|
|
319
353
|
//# sourceMappingURL=client.js.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"client.js","sourceRoot":"","sources":["../../src/pubmed/client.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;GAUG;AAEH,OAAO,KAAK,MAAM,YAAY,CAAC;AAC/B,OAAO,KAAK,MAAM,OAAO,CAAC;AAE1B,MAAM,aAAa,GAAG,gDAAgD,CAAC;AACvE,MAAM,oBAAoB,GAAG,qDAAqD,CAAC;AAEnF;;;;;GAKG;AACH,MAAM,WAAW,GAAG,IAAI,KAAK,CAAC,KAAK,CAAC;IAClC,aAAa,EAAE,CAAC,UAAU,CAAC;IAC3B,SAAS,EAAE,IAAI;CAChB,CAAC,CAAC;AAEH,MAAM,SAAS,GAAG,YAAY,CAAC;AAC/B;;;;;GAKG;AACH,MAAM,UAAU,GAAG,+CAA+C,CAAC;AAEnE,gFAAgF;AAEhF,MAAM,WAAW;IACP,QAAQ,GAAG,CAAC,CAAC;IACJ,WAAW,CAAS,CAAC,KAAK;IAE3C,YAAY,iBAAyB;QACnC,IAAI,CAAC,WAAW,GAAG,IAAI,GAAG,iBAAiB,CAAC;IAC9C,CAAC;IAED;;;;OAIG;IACH,KAAK,CAAC,QAAQ;QACZ,MAAM,GAAG,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC;QACvB,MAAM,IAAI,GAAG,IAAI,CAAC,GAAG,CAAC,GAAG,EAAE,IAAI,CAAC,QAAQ,CAAC,CAAC;QAC1C,IAAI,CAAC,QAAQ,GAAG,IAAI,GAAG,IAAI,CAAC,WAAW,CAAC;QACxC,IAAI,IAAI,GAAG,GAAG,EAAE,CAAC;YACf,MAAM,KAAK,CAAC,IAAI,GAAG,GAAG,CAAC,CAAC;QAC1B,CAAC;IACH,CAAC;CACF;AAED,SAAS,KAAK,CAAC,EAAU;IACvB,OAAO,IAAI,OAAO,CAAO,CAAC,OAAO,EAAE,EAAE,CAAC,UAAU,CAAC,OAAO,EAAE,EAAE,CAAC,CAAC,CAAC;AACjE,CAAC;AAED,kDAAkD;AAClD,MAAM,sBAAsB,GAAG,CAAC,CAAC;AACjC,sEAAsE;AACtE,MAAM,qBAAqB,GAAG,IAAI,CAAC;AAEnC,gFAAgF;AAEhF,MAAM,OAAO,gBAAiB,SAAQ,KAAK;IACI;IAA7C,YAAY,OAAe,EAAkB,KAAe;QAC1D,KAAK,CAAC,OAAO,CAAC,CAAC;QAD4B,UAAK,GAAL,KAAK,CAAU;QAE1D,IAAI,CAAC,IAAI,GAAG,kBAAkB,CAAC;IACjC,CAAC;CACF;AAED,MAAM,OAAO,YAAa,SAAQ,KAAK;IACQ;IAA7C,YAAY,OAAe,EAAkB,UAAmB;QAC9D,KAAK,CAAC,OAAO,CAAC,CAAC;QAD4B,eAAU,GAAV,UAAU,CAAS;QAE9D,IAAI,CAAC,IAAI,GAAG,cAAc,CAAC;IAC7B,CAAC;CACF;AAED,MAAM,OAAO,cAAe,SAAQ,KAAK;IACM;IAA7C,YAAY,OAAe,EAAkB,KAAe;QAC1D,KAAK,CAAC,OAAO,CAAC,CAAC;QAD4B,UAAK,GAAL,KAAK,CAAU;QAE1D,IAAI,CAAC,IAAI,GAAG,gBAAgB,CAAC;IAC/B,CAAC;CACF;AAED,gFAAgF;AAEhF,MAAM,OAAO,UAAU;IACJ,MAAM,CAAqB;IAC3B,WAAW,CAAc;IAE1C,YAAY,MAAe;QACzB,gFAAgF;QAChF,MAAM,GAAG,GAAG,MAAM,IAAI,OAAO,CAAC,GAAG,CAAC,YAAY,CAAC;QAC/C,IAAI,CAAC,MAAM,GAAG,GAAG,EAAE,IAAI,EAAE,IAAI,SAAS,CAAC;QACvC,MAAM,GAAG,GAAG,IAAI,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,kEAAkE;QACnG,IAAI,CAAC,WAAW,GAAG,IAAI,WAAW,CAAC,GAAG,CAAC,CAAC;IAC1C,CAAC;IAEO,YAAY;QAClB,MAAM,MAAM,GAA2B;YACrC,IAAI,EAAE,SAAS;YACf,KAAK,EAAE,UAAU;SAClB,CAAC;QACF,IAAI,IAAI,CAAC,MAAM,EAAE,CAAC;YAChB,MAAM,CAAC,SAAS,CAAC,GAAG,IAAI,CAAC,MAAM,CAAC;QAClC,CAAC;QACD,OAAO,MAAM,CAAC;IAChB,CAAC;IAED;;;OAGG;IACK,KAAK,CAAC,OAAO,CAAI,SAAiB,EAAE,IAAsB;QAChE,KAAK,IAAI,OAAO,GAAG,CAAC,GAAI,OAAO,EAAE,EAAE,CAAC;YAClC,MAAM,IAAI,CAAC,WAAW,CAAC,QAAQ,EAAE,CAAC;YAClC,IAAI,CAAC;gBACH,OAAO,MAAM,IAAI,EAAE,CAAC;YACtB,CAAC;YAAC,OAAO,GAAG,EAAE,CAAC;gBACb,IAAI,OAAO,GAAG,sBAAsB,IAAI,aAAa,CAAC,GAAG,CAAC,EAAE,CAAC;oBAC3D,MAAM,KAAK,CAAC,YAAY,CAAC,GAAG,EAAE,OAAO,CAAC,CAAC,CAAC;oBACxC,SAAS;gBACX,CAAC;gBACD,MAAM,cAAc,CAAC,GAAG,EAAE,SAAS,CAAC,CAAC;YACvC,CAAC;QACH,CAAC;IACH,CAAC;IAED;;;OAGG;IACH,KAAK,CAAC,OAAO,CAAC,MASb;QACC,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,OAAO,CAAC,SAAS,EAAE,GAAG,EAAE,CAClD,KAAK,CAAC,GAAG,CAAC,GAAG,aAAa,cAAc,EAAE;YACxC,UAAU,EAAE,WAAW;YACvB,MAAM,EAAE;gBACN,GAAG,IAAI,CAAC,YAAY,EAAE;gBACtB,EAAE,EAAE,QAAQ;gBACZ,OAAO,EAAE,MAAM;gBACf,MAAM,EAAE,MAAM,CAAC,MAAM,IAAI,EAAE;gBAC3B,QAAQ,EAAE,MAAM,CAAC,QAAQ,IAAI,CAAC;gBAC9B,IAAI,EAAE,MAAM,CAAC,IAAI;gBACjB,GAAG,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,IAAI,EAAE,MAAM,CAAC,IAAI,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;gBAC7C,GAAG,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,KAAK,EAAE,MAAM,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;gBAChD,GAAG,CAAC,MAAM,CAAC,QAAQ,CAAC,CAAC,CAAC,EAAE,QAAQ,EAAE,MAAM,CAAC,QAAQ,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;gBACzD,GAAG,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,OAAO,EAAE,MAAM,CAAC,OAAO,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;gBACtD,GAAG,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,OAAO,EAAE,MAAM,CAAC,OAAO,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;aACvD;SACF,CAAC,CACH,CAAC;QACF,OAAQ,QAAQ,CAAC,IAAyC,CAAC,aAAa,CAAC;IAC3E,CAAC;IAED;;;OAGG;IACH,KAAK,CAAC,MAAM,CAAC,MAKZ;QACC,MAAM,KAAK,GAAG,KAAK,CAAC,OAAO,CAAC,MAAM,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,EAAE,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,EAAE,CAAC;QACzE,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,OAAO,CAAC,QAAQ,EAAE,GAAG,EAAE,CACjD,KAAK,CAAC,GAAG,CAAC,GAAG,aAAa,aAAa,EAAE;YACvC,UAAU,EAAE,WAAW;YACvB,MAAM,EAAE;gBACN,GAAG,IAAI,CAAC,YAAY,EAAE;gBACtB,EAAE,EAAE,MAAM,CAAC,EAAE;gBACb,EAAE,EAAE,KAAK;gBACT,OAAO,EAAE,MAAM,CAAC,OAAO,IAAI,KAAK;gBAChC,GAAG,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,OAAO,EAAE,MAAM,CAAC,OAAO,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;aACvD;YACD,YAAY,EAAE,MAAM;SACrB,CAAC,CACH,CAAC;QACF,OAAO,QAAQ,CAAC,IAAc,CAAC;IACjC,CAAC;IAED;;;OAGG;IACH,KAAK,CAAC,KAAK,CAAC,MAKX;QACC,kDAAkD;QAClD,MAAM,YAAY,GAAG,IAAI,eAAe,CAAC;YACvC,GAAG,IAAI,CAAC,YAAY,EAAE;YACtB,MAAM,EAAE,MAAM,CAAC,MAAM;YACrB,QAAQ,EAAE,MAAM,CAAC,QAAQ;YACzB,GAAG,EAAE,MAAM,CAAC,GAAG,IAAI,UAAU;YAC7B,OAAO,EAAE,MAAM;SAChB,CAAC,CAAC;QACH,KAAK,MAAM,EAAE,IAAI,MAAM,CAAC,EAAE,EAAE,CAAC;YAC3B,YAAY,CAAC,MAAM,CAAC,IAAI,EAAE,EAAE,CAAC,CAAC;QAChC,CAAC;QACD,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,OAAO,CAAC,OAAO,EAAE,GAAG,EAAE,CAChD,KAAK,CAAC,GAAG,CAAC,GAAG,aAAa,cAAc,YAAY,CAAC,QAAQ,EAAE,EAAE,EAAE;YACjE,UAAU,EAAE,WAAW;SACxB,CAAC,CACH,CAAC;QACF,OAAO,QAAQ,CAAC,IAAqB,CAAC;IACxC,CAAC;IAED;;;OAGG;IACH,KAAK,CAAC,SAAS,CAAC,SAA0B;QACxC,MAAM,KAAK,GAAG,SAAS;aACpB,GAAG,CACF,CAAC,CAAC,EAAE,EAAE,CACJ,GAAG,CAAC,CAAC,OAAO,IAAI,CAAC,CAAC,IAAI,IAAI,CAAC,CAAC,MAAM,IAAI,CAAC,CAAC,UAAU,IAAI,CAAC,CAAC,MAAM,IAAI,CAAC,CAAC,GAAG,GAAG,CAC7E;aACA,IAAI,CAAC,IAAI,CAAC,CAAC;QACd,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,OAAO,CAAC,WAAW,EAAE,GAAG,EAAE,CACpD,KAAK,CAAC,GAAG,CAAC,GAAG,aAAa,eAAe,EAAE;YACzC,UAAU,EAAE,WAAW;YACvB,MAAM,EAAE;gBACN,GAAG,IAAI,CAAC,YAAY,EAAE;gBACtB,EAAE,EAAE,QAAQ;gBACZ,OAAO,EAAE,KAAK;gBACd,OAAO,EAAE,KAAK;gBACd,KAAK;aACN;YACD,YAAY,EAAE,MAAM;SACrB,CAAC,CACH,CAAC;QACF,MAAM,WAAW,GAAG,MAAM,CAAC,QAAQ,CAAC,OAAO,EAAE,CAAC,cAAc,CAAC,IAAI,EAAE,CAAC,CAAC,WAAW,EAAE,CAAC;QACnF,MAAM,IAAI,GAAG,MAAM,CAAC,QAAQ,CAAC,IAAI,IAAI,EAAE,CAAC,CAAC;QACzC,IAAI,WAAW,CAAC,QAAQ,CAAC,MAAM,CAAC,IAAI,aAAa,CAAC,IAAI,CAAC,EAAE,CAAC;YACxD,MAAM,IAAI,YAAY,CACpB,+DAA+D;gBAC7D,0DAA0D,EAC5D,QAAQ,CAAC,MAAM,CAChB,CAAC;QACJ,CAAC;QACD,OAAO,IAAI,CAAC;IACd,CAAC;IAED;;OAEG;IACH,KAAK,CAAC,SAAS,CAAC,MAGf;QACC,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,OAAO,CAAC,WAAW,EAAE,GAAG,EAAE,CACpD,KAAK,CAAC,GAAG,CAAC,oBAAoB,EAAE;YAC9B,UAAU,EAAE,WAAW;YACvB,MAAM,EAAE;gBACN,GAAG,IAAI,CAAC,YAAY,EAAE;gBACtB,MAAM,EAAE,MAAM;gBACd,GAAG,EAAE,MAAM,CAAC,GAAG,CAAC,IAAI,CAAC,GAAG,CAAC;gBACzB,MAAM,EAAE,MAAM,CAAC,MAAM,IAAI,MAAM;gBAC/B,QAAQ,EAAE,IAAI;aACf;SACF,CAAC,CACH,CAAC;QACF,OAAO,sBAAsB,CAAC,QAAQ,CAAC,IAAsB,CAAC,CAAC;IACjE,CAAC;CACF;AAsED,gFAAgF;AAEhF,SAAS,cAAc,CAAC,GAAY,EAAE,SAAiB;IACrD,IAAI,GAAG,YAAY,YAAY,IAAI,GAAG,YAAY,gBAAgB,EAAE,CAAC;QACnE,OAAO,GAAG,CAAC;IACb,CAAC;IACD,IAAI,KAAK,CAAC,YAAY,CAAC,GAAG,CAAC,EAAE,CAAC;QAC5B,MAAM,MAAM,GAAG,GAAG,CAAC,QAAQ,EAAE,MAAM,CAAC;QACpC,IAAI,MAAM,KAAK,SAAS,EAAE,CAAC;YACzB,MAAM,IAAI,GAAG,oBAAoB,CAAC,GAAG,CAAC,QAAQ,EAAE,IAAI,CAAC,CAAC;YACtD,MAAM,OAAO,GAAG,YAAY,CAAC,IAAI,IAAI,GAAG,CAAC,OAAO,CAAC,CAAC;YAClD,OAAO,IAAI,YAAY,CACrB,QAAQ,SAAS,kBAAkB,MAAM,KAAK,OAAO,EAAE,EACvD,MAAM,CACP,CAAC;QACJ,CAAC;QACD,OAAO,IAAI,gBAAgB,CACzB,6BAA6B,SAAS,KAAK,GAAG,CAAC,OAAO,EAAE,EACxD,GAAG,CACJ,CAAC;IACJ,CAAC;IACD,IAAI,GAAG,YAAY,KAAK;QAAE,OAAO,GAAG,CAAC;IACrC,OAAO,IAAI,KAAK,CAAC,6BAA6B,SAAS,EAAE,CAAC,CAAC;AAC7D,CAAC;AAED,MAAM,qBAAqB,GAAG,GAAG,CAAC;AAElC,uFAAuF;AACvF,SAAS,oBAAoB,CAAC,IAAa;IACzC,IAAI,IAAI,KAAK,SAAS,IAAI,IAAI,KAAK,IAAI;QAAE,OAAO,EAAE,CAAC;IACnD,IAAI,IAAY,CAAC;IACjB,IAAI,OAAO,IAAI,KAAK,QAAQ,EAAE,CAAC;QAC7B,IAAI,GAAG,IAAI,CAAC;IACd,CAAC;SAAM,IAAI,IAAI,YAAY,WAAW,IAAI,WAAW,CAAC,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC;QACnE,IAAI,GAAG,MAAM,CAAC,IAAI,CAAC,IAAmB,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC;IAC3D,CAAC;SAAM,CAAC;QACN,IAAI,CAAC;YACH,IAAI,GAAG,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAC;QAC9B,CAAC;QAAC,MAAM,CAAC;YACP,IAAI,GAAG,MAAM,CAAC,IAAI,CAAC,CAAC;QACtB,CAAC;IACH,CAAC;IACD,IAAI,GAAG,IAAI,CAAC,IAAI,EAAE,CAAC;IACnB,OAAO,IAAI,CAAC,MAAM,GAAG,qBAAqB;QACxC,CAAC,CAAC,GAAG,IAAI,CAAC,KAAK,CAAC,CAAC,EAAE,qBAAqB,CAAC,GAAG;QAC5C,CAAC,CAAC,IAAI,CAAC;AACX,CAAC;AAED,SAAS,aAAa,CAAC,GAAY;IACjC,OAAO,KAAK,CAAC,YAAY,CAAC,GAAG,CAAC,IAAI,GAAG,CAAC,QAAQ,EAAE,MAAM,KAAK,GAAG,CAAC;AACjE,CAAC;AAED,yFAAyF;AACzF,SAAS,YAAY,CAAC,GAAY,EAAE,OAAe;IACjD,MAAM,QAAQ,GAAG,qBAAqB,GAAG,CAAC,OAAO,GAAG,CAAC,CAAC,CAAC;IACvD,IAAI,CAAC,KAAK,CAAC,YAAY,CAAC,GAAG,CAAC;QAAE,OAAO,QAAQ,CAAC;IAC9C,MAAM,OAAO,GAAG,GAAG,CAAC,QAAQ,EAAE,OAA8C,CAAC;IAC7E,MAAM,OAAO,GAAG,MAAM,CAAC,OAAO,EAAE,CAAC,aAAa,CAAC,CAAC,CAAC;IACjD,IAAI,MAAM,CAAC,QAAQ,CAAC,OAAO,CAAC,IAAI,OAAO,GAAG,CAAC,EAAE,CAAC;QAC5C,OAAO,IAAI,CAAC,GAAG,CAAC,OAAO,GAAG,IAAI,EAAE,MAAM,CAAC,CAAC;IAC1C,CAAC;IACD,OAAO,QAAQ,CAAC;AAClB,CAAC;AAED,SAAS,aAAa,CAAC,IAAY;IACjC,OAAO,mCAAmC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;AACxD,CAAC;AAED,SAAS,sBAAsB,CAAC,QAAwB;IACtD,OAAO;QACL,GAAG,QAAQ;QACX,OAAO,EAAE;YACP,GAAG,QAAQ,CAAC,OAAO;YACnB,IAAI,EAAE,YAAY,CAAC,QAAQ,CAAC,OAAO,CAAC,IAAI,CAAC;SAC1C;QACD,OAAO,EAAE,QAAQ,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC;YACzC,GAAG,MAAM;YACT,GAAG,CAAC,MAAM,CAAC,IAAI,KAAK,SAAS,CAAC,CAAC,CAAC,EAAE,IAAI,EAAE,MAAM,CAAC,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;YACnE,GAAG,CAAC,MAAM,CAAC,KAAK,KAAK,SAAS,CAAC,CAAC,CAAC,EAAE,KAAK,EAAE,MAAM,CAAC,MAAM,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;YACtE,GAAG,CAAC,MAAM,CAAC,GAAG,KAAK,SAAS,CAAC,CAAC,CAAC,EAAE,GAAG,EAAE,MAAM,CAAC,MAAM,CAAC,GAAG,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;YAChE,GAAG,CAAC,MAAM,CAAC,cAAc,CAAC,KAAK,SAAS;gBACtC,CAAC,CAAC,EAAE,cAAc,EAAE,MAAM,CAAC,MAAM,CAAC,cAAc,CAAC,CAAC,EAAE;gBACpD,CAAC,CAAC,EAAE,CAAC;SACR,CAAC,CAAC;KACJ,CAAC;AACJ,CAAC;AAED,SAAS,YAAY,CAAC,KAAa;IACjC,mFAAmF;IACnF,OAAO,KAAK;SACT,OAAO,CAAC,6BAA6B,EAAE,gBAAgB,CAAC;SACxD,OAAO,CAAC,+BAA+B,EAAE,cAAc,CAAC,CAAC;AAC9D,CAAC"}
|
|
1
|
+
{"version":3,"file":"client.js","sourceRoot":"","sources":["../../src/pubmed/client.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;GAUG;AAEH,OAAO,KAAK,MAAM,YAAY,CAAC;AAC/B,OAAO,KAAK,MAAM,OAAO,CAAC;AAE1B,MAAM,aAAa,GAAG,gDAAgD,CAAC;AACvE,MAAM,oBAAoB,GAAG,qDAAqD,CAAC;AAEnF;;;;;GAKG;AACH,MAAM,WAAW,GAAG,IAAI,KAAK,CAAC,KAAK,CAAC;IAClC,aAAa,EAAE,CAAC,UAAU,CAAC;IAC3B,SAAS,EAAE,IAAI;CAChB,CAAC,CAAC;AAEH;;;;GAIG;AACH,MAAM,kBAAkB,GAAG,MAAM,CAAC;AAElC,4CAA4C;AAC5C,MAAM,eAAe,GAAG;IACtB,UAAU,EAAE,WAAW;IACvB,OAAO,EAAE,kBAAkB;IAC3B,cAAc,EAAE,qBAAqB;CACtC,CAAC;AAEF,MAAM,SAAS,GAAG,YAAY,CAAC;AAC/B;;;;;GAKG;AACH,MAAM,UAAU,GAAG,+CAA+C,CAAC;AAEnE,gFAAgF;AAEhF,MAAM,WAAW;IACP,QAAQ,GAAG,CAAC,CAAC;IACJ,WAAW,CAAS,CAAC,KAAK;IAE3C,YAAY,iBAAyB;QACnC,IAAI,CAAC,WAAW,GAAG,IAAI,GAAG,iBAAiB,CAAC;IAC9C,CAAC;IAED;;;;OAIG;IACH,KAAK,CAAC,QAAQ;QACZ,MAAM,GAAG,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC;QACvB,MAAM,IAAI,GAAG,IAAI,CAAC,GAAG,CAAC,GAAG,EAAE,IAAI,CAAC,QAAQ,CAAC,CAAC;QAC1C,IAAI,CAAC,QAAQ,GAAG,IAAI,GAAG,IAAI,CAAC,WAAW,CAAC;QACxC,IAAI,IAAI,GAAG,GAAG,EAAE,CAAC;YACf,MAAM,KAAK,CAAC,IAAI,GAAG,GAAG,CAAC,CAAC;QAC1B,CAAC;IACH,CAAC;CACF;AAED,SAAS,KAAK,CAAC,EAAU;IACvB,OAAO,IAAI,OAAO,CAAO,CAAC,OAAO,EAAE,EAAE,CAAC,UAAU,CAAC,OAAO,EAAE,EAAE,CAAC,CAAC,CAAC;AACjE,CAAC;AAED,kDAAkD;AAClD,MAAM,sBAAsB,GAAG,CAAC,CAAC;AACjC,sEAAsE;AACtE,MAAM,qBAAqB,GAAG,IAAI,CAAC;AAEnC,gFAAgF;AAEhF,MAAM,OAAO,gBAAiB,SAAQ,KAAK;IACI;IAA7C,YAAY,OAAe,EAAkB,KAAe;QAC1D,KAAK,CAAC,OAAO,CAAC,CAAC;QAD4B,UAAK,GAAL,KAAK,CAAU;QAE1D,IAAI,CAAC,IAAI,GAAG,kBAAkB,CAAC;IACjC,CAAC;CACF;AAED,MAAM,OAAO,YAAa,SAAQ,KAAK;IACQ;IAA7C,YAAY,OAAe,EAAkB,UAAmB;QAC9D,KAAK,CAAC,OAAO,CAAC,CAAC;QAD4B,eAAU,GAAV,UAAU,CAAS;QAE9D,IAAI,CAAC,IAAI,GAAG,cAAc,CAAC;IAC7B,CAAC;CACF;AAED,MAAM,OAAO,cAAe,SAAQ,KAAK;IACM;IAA7C,YAAY,OAAe,EAAkB,KAAe;QAC1D,KAAK,CAAC,OAAO,CAAC,CAAC;QAD4B,UAAK,GAAL,KAAK,CAAU;QAE1D,IAAI,CAAC,IAAI,GAAG,gBAAgB,CAAC;IAC/B,CAAC;CACF;AAED,gFAAgF;AAEhF,MAAM,OAAO,UAAU;IACJ,MAAM,CAAqB;IAC3B,WAAW,CAAc;IAE1C,YAAY,MAAe;QACzB,gFAAgF;QAChF,MAAM,GAAG,GAAG,MAAM,IAAI,OAAO,CAAC,GAAG,CAAC,YAAY,CAAC;QAC/C,IAAI,CAAC,MAAM,GAAG,GAAG,EAAE,IAAI,EAAE,IAAI,SAAS,CAAC;QACvC,MAAM,GAAG,GAAG,IAAI,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,kEAAkE;QACnG,IAAI,CAAC,WAAW,GAAG,IAAI,WAAW,CAAC,GAAG,CAAC,CAAC;IAC1C,CAAC;IAEO,YAAY;QAClB,MAAM,MAAM,GAA2B;YACrC,IAAI,EAAE,SAAS;YACf,KAAK,EAAE,UAAU;SAClB,CAAC;QACF,IAAI,IAAI,CAAC,MAAM,EAAE,CAAC;YAChB,MAAM,CAAC,SAAS,CAAC,GAAG,IAAI,CAAC,MAAM,CAAC;QAClC,CAAC;QACD,OAAO,MAAM,CAAC;IAChB,CAAC;IAED;;;OAGG;IACK,KAAK,CAAC,OAAO,CAAI,SAAiB,EAAE,IAAsB;QAChE,KAAK,IAAI,OAAO,GAAG,CAAC,GAAI,OAAO,EAAE,EAAE,CAAC;YAClC,MAAM,IAAI,CAAC,WAAW,CAAC,QAAQ,EAAE,CAAC;YAClC,IAAI,CAAC;gBACH,OAAO,MAAM,IAAI,EAAE,CAAC;YACtB,CAAC;YAAC,OAAO,GAAG,EAAE,CAAC;gBACb,IAAI,OAAO,GAAG,sBAAsB,IAAI,aAAa,CAAC,GAAG,CAAC,EAAE,CAAC;oBAC3D,MAAM,KAAK,CAAC,YAAY,CAAC,GAAG,EAAE,OAAO,CAAC,CAAC,CAAC;oBACxC,SAAS;gBACX,CAAC;gBACD,MAAM,cAAc,CAAC,GAAG,EAAE,SAAS,EAAE,IAAI,CAAC,MAAM,CAAC,CAAC;YACpD,CAAC;QACH,CAAC;IACH,CAAC;IAED;;;OAGG;IACH,KAAK,CAAC,OAAO,CAAC,MASb;QACC,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,OAAO,CAAC,SAAS,EAAE,GAAG,EAAE,CAClD,KAAK,CAAC,GAAG,CAAC,GAAG,aAAa,cAAc,EAAE;YACxC,GAAG,eAAe;YAClB,MAAM,EAAE;gBACN,GAAG,IAAI,CAAC,YAAY,EAAE;gBACtB,EAAE,EAAE,QAAQ;gBACZ,OAAO,EAAE,MAAM;gBACf,MAAM,EAAE,MAAM,CAAC,MAAM,IAAI,EAAE;gBAC3B,QAAQ,EAAE,MAAM,CAAC,QAAQ,IAAI,CAAC;gBAC9B,IAAI,EAAE,MAAM,CAAC,IAAI;gBACjB,GAAG,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,IAAI,EAAE,MAAM,CAAC,IAAI,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;gBAC7C,GAAG,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,KAAK,EAAE,MAAM,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;gBAChD,GAAG,CAAC,MAAM,CAAC,QAAQ,CAAC,CAAC,CAAC,EAAE,QAAQ,EAAE,MAAM,CAAC,QAAQ,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;gBACzD,GAAG,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,OAAO,EAAE,MAAM,CAAC,OAAO,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;gBACtD,GAAG,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,OAAO,EAAE,MAAM,CAAC,OAAO,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;aACvD;SACF,CAAC,CACH,CAAC;QACF,OAAQ,QAAQ,CAAC,IAAyC,CAAC,aAAa,CAAC;IAC3E,CAAC;IAED;;;OAGG;IACH,KAAK,CAAC,MAAM,CAAC,MAKZ;QACC,MAAM,KAAK,GAAG,KAAK,CAAC,OAAO,CAAC,MAAM,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,EAAE,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,EAAE,CAAC;QACzE,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,OAAO,CAAC,QAAQ,EAAE,GAAG,EAAE,CACjD,KAAK,CAAC,GAAG,CAAC,GAAG,aAAa,aAAa,EAAE;YACvC,GAAG,eAAe;YAClB,MAAM,EAAE;gBACN,GAAG,IAAI,CAAC,YAAY,EAAE;gBACtB,EAAE,EAAE,MAAM,CAAC,EAAE;gBACb,EAAE,EAAE,KAAK;gBACT,OAAO,EAAE,MAAM,CAAC,OAAO,IAAI,KAAK;gBAChC,GAAG,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,OAAO,EAAE,MAAM,CAAC,OAAO,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;aACvD;YACD,YAAY,EAAE,MAAM;SACrB,CAAC,CACH,CAAC;QACF,OAAO,QAAQ,CAAC,IAAc,CAAC;IACjC,CAAC;IAED;;;OAGG;IACH,KAAK,CAAC,KAAK,CAAC,MAKX;QACC,kDAAkD;QAClD,MAAM,YAAY,GAAG,IAAI,eAAe,CAAC;YACvC,GAAG,IAAI,CAAC,YAAY,EAAE;YACtB,MAAM,EAAE,MAAM,CAAC,MAAM;YACrB,QAAQ,EAAE,MAAM,CAAC,QAAQ;YACzB,GAAG,EAAE,MAAM,CAAC,GAAG,IAAI,UAAU;YAC7B,OAAO,EAAE,MAAM;SAChB,CAAC,CAAC;QACH,KAAK,MAAM,EAAE,IAAI,MAAM,CAAC,EAAE,EAAE,CAAC;YAC3B,YAAY,CAAC,MAAM,CAAC,IAAI,EAAE,EAAE,CAAC,CAAC;QAChC,CAAC;QACD,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,OAAO,CAAC,OAAO,EAAE,GAAG,EAAE,CAChD,KAAK,CAAC,GAAG,CAAC,GAAG,aAAa,cAAc,YAAY,CAAC,QAAQ,EAAE,EAAE,EAAE;YACjE,GAAG,eAAe;SACnB,CAAC,CACH,CAAC;QACF,OAAO,QAAQ,CAAC,IAAqB,CAAC;IACxC,CAAC;IAED;;;OAGG;IACH,KAAK,CAAC,SAAS,CAAC,SAA0B;QACxC,MAAM,KAAK,GAAG,SAAS;aACpB,GAAG,CACF,CAAC,CAAC,EAAE,EAAE,CACJ,CAAC,CAAC,CAAC,OAAO,EAAE,CAAC,CAAC,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,CAAC,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,CAAC,GAAG,CAAC;aACzD,GAAG,CAAC,UAAU,CAAC;aACf,IAAI,CAAC,GAAG,CAAC,GAAG,GAAG,CACrB;aACA,IAAI,CAAC,IAAI,CAAC,CAAC;QACd,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,OAAO,CAAC,WAAW,EAAE,GAAG,EAAE,CACpD,KAAK,CAAC,GAAG,CAAC,GAAG,aAAa,eAAe,EAAE;YACzC,GAAG,eAAe;YAClB,MAAM,EAAE;gBACN,GAAG,IAAI,CAAC,YAAY,EAAE;gBACtB,EAAE,EAAE,QAAQ;gBACZ,OAAO,EAAE,KAAK;gBACd,OAAO,EAAE,KAAK;gBACd,KAAK;aACN;YACD,YAAY,EAAE,MAAM;SACrB,CAAC,CACH,CAAC;QACF,MAAM,WAAW,GAAG,MAAM,CAAC,QAAQ,CAAC,OAAO,EAAE,CAAC,cAAc,CAAC,IAAI,EAAE,CAAC,CAAC,WAAW,EAAE,CAAC;QACnF,MAAM,IAAI,GAAG,MAAM,CAAC,QAAQ,CAAC,IAAI,IAAI,EAAE,CAAC,CAAC;QACzC,IAAI,WAAW,CAAC,QAAQ,CAAC,MAAM,CAAC,IAAI,aAAa,CAAC,IAAI,CAAC,EAAE,CAAC;YACxD,MAAM,IAAI,YAAY,CACpB,+DAA+D;gBAC7D,0DAA0D,EAC5D,QAAQ,CAAC,MAAM,CAChB,CAAC;QACJ,CAAC;QACD,OAAO,IAAI,CAAC;IACd,CAAC;IAED;;OAEG;IACH,KAAK,CAAC,SAAS,CAAC,MAGf;QACC,MAAM,QAAQ,GAAG,MAAM,IAAI,CAAC,OAAO,CAAC,WAAW,EAAE,GAAG,EAAE,CACpD,KAAK,CAAC,GAAG,CAAC,oBAAoB,EAAE;YAC9B,GAAG,eAAe;YAClB,MAAM,EAAE;gBACN,GAAG,IAAI,CAAC,YAAY,EAAE;gBACtB,MAAM,EAAE,MAAM;gBACd,GAAG,EAAE,MAAM,CAAC,GAAG,CAAC,IAAI,CAAC,GAAG,CAAC;gBACzB,MAAM,EAAE,MAAM,CAAC,MAAM,IAAI,MAAM;gBAC/B,QAAQ,EAAE,IAAI;aACf;SACF,CAAC,CACH,CAAC;QACF,OAAO,sBAAsB,CAAC,QAAQ,CAAC,IAAsB,EAAE,IAAI,CAAC,MAAM,CAAC,CAAC;IAC9E,CAAC;CACF;AAsED,gFAAgF;AAEhF,SAAS,cAAc,CAAC,GAAY,EAAE,SAAiB,EAAE,MAA0B;IACjF,IAAI,GAAG,YAAY,YAAY,IAAI,GAAG,YAAY,gBAAgB,EAAE,CAAC;QACnE,OAAO,GAAG,CAAC;IACb,CAAC;IACD,IAAI,KAAK,CAAC,YAAY,CAAC,GAAG,CAAC,EAAE,CAAC;QAC5B,MAAM,MAAM,GAAG,GAAG,CAAC,QAAQ,EAAE,MAAM,CAAC;QACpC,IAAI,MAAM,KAAK,SAAS,EAAE,CAAC;YACzB,MAAM,IAAI,GAAG,oBAAoB,CAAC,GAAG,CAAC,QAAQ,EAAE,IAAI,CAAC,CAAC;YACtD,MAAM,OAAO,GAAG,YAAY,CAAC,IAAI,IAAI,GAAG,CAAC,OAAO,EAAE,MAAM,CAAC,CAAC;YAC1D,OAAO,IAAI,YAAY,CACrB,QAAQ,SAAS,kBAAkB,MAAM,KAAK,OAAO,EAAE,EACvD,MAAM,CACP,CAAC;QACJ,CAAC;QACD,yEAAyE;QACzE,OAAO,IAAI,gBAAgB,CACzB,6BAA6B,SAAS,KAAK,YAAY,CAAC,GAAG,CAAC,OAAO,EAAE,MAAM,CAAC,EAAE,CAC/E,CAAC;IACJ,CAAC;IACD,IAAI,GAAG,YAAY,KAAK;QAAE,OAAO,GAAG,CAAC;IACrC,OAAO,IAAI,KAAK,CAAC,6BAA6B,SAAS,EAAE,CAAC,CAAC;AAC7D,CAAC;AAED,MAAM,qBAAqB,GAAG,GAAG,CAAC;AAElC,uFAAuF;AACvF,SAAS,oBAAoB,CAAC,IAAa;IACzC,IAAI,IAAI,KAAK,SAAS,IAAI,IAAI,KAAK,IAAI;QAAE,OAAO,EAAE,CAAC;IACnD,IAAI,IAAY,CAAC;IACjB,IAAI,OAAO,IAAI,KAAK,QAAQ,EAAE,CAAC;QAC7B,IAAI,GAAG,IAAI,CAAC;IACd,CAAC;SAAM,IAAI,IAAI,YAAY,WAAW,IAAI,WAAW,CAAC,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC;QACnE,IAAI,GAAG,MAAM,CAAC,IAAI,CAAC,IAAmB,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC;IAC3D,CAAC;SAAM,CAAC;QACN,IAAI,CAAC;YACH,IAAI,GAAG,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAC;QAC9B,CAAC;QAAC,MAAM,CAAC;YACP,IAAI,GAAG,MAAM,CAAC,IAAI,CAAC,CAAC;QACtB,CAAC;IACH,CAAC;IACD,IAAI,GAAG,IAAI,CAAC,IAAI,EAAE,CAAC;IACnB,OAAO,IAAI,CAAC,MAAM,GAAG,qBAAqB;QACxC,CAAC,CAAC,GAAG,IAAI,CAAC,KAAK,CAAC,CAAC,EAAE,qBAAqB,CAAC,GAAG;QAC5C,CAAC,CAAC,IAAI,CAAC;AACX,CAAC;AAED,SAAS,aAAa,CAAC,GAAY;IACjC,OAAO,KAAK,CAAC,YAAY,CAAC,GAAG,CAAC,IAAI,GAAG,CAAC,QAAQ,EAAE,MAAM,KAAK,GAAG,CAAC;AACjE,CAAC;AAED,yFAAyF;AACzF,SAAS,YAAY,CAAC,GAAY,EAAE,OAAe;IACjD,MAAM,QAAQ,GAAG,qBAAqB,GAAG,CAAC,OAAO,GAAG,CAAC,CAAC,CAAC;IACvD,IAAI,CAAC,KAAK,CAAC,YAAY,CAAC,GAAG,CAAC;QAAE,OAAO,QAAQ,CAAC;IAC9C,MAAM,OAAO,GAAG,GAAG,CAAC,QAAQ,EAAE,OAA8C,CAAC;IAC7E,MAAM,OAAO,GAAG,MAAM,CAAC,OAAO,EAAE,CAAC,aAAa,CAAC,CAAC,CAAC;IACjD,IAAI,MAAM,CAAC,QAAQ,CAAC,OAAO,CAAC,IAAI,OAAO,GAAG,CAAC,EAAE,CAAC;QAC5C,OAAO,IAAI,CAAC,GAAG,CAAC,OAAO,GAAG,IAAI,EAAE,MAAM,CAAC,CAAC;IAC1C,CAAC;IACD,OAAO,QAAQ,CAAC;AAClB,CAAC;AAED;;;;;GAKG;AACH,SAAS,qBAAqB,CAAC,OAAgC;IAC7D,MAAM,MAAM,GAAG,IAAI,GAAG,CAAC,MAAM,CAAC,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC;IAC7C,MAAM,MAAM,GACV,MAAM,CAAC,QAAQ,KAAK,kBAAkB,IAAI,MAAM,CAAC,QAAQ,CAAC,QAAQ,CAAC,mBAAmB,CAAC,CAAC;IAC1F,IAAI,MAAM,CAAC,QAAQ,KAAK,QAAQ,IAAI,CAAC,MAAM,EAAE,CAAC;QAC5C,MAAM,IAAI,KAAK,CAAC,uBAAuB,MAAM,CAAC,QAAQ,KAAK,MAAM,CAAC,IAAI,EAAE,CAAC,CAAC;IAC5E,CAAC;AACH,CAAC;AAED,qGAAqG;AACrG,SAAS,UAAU,CAAC,KAAsB;IACxC,OAAO,MAAM,CAAC,KAAK,CAAC,CAAC,OAAO,CAAC,WAAW,EAAE,GAAG,CAAC,CAAC;AACjD,CAAC;AAED,SAAS,aAAa,CAAC,IAAY;IACjC,OAAO,mCAAmC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;AACxD,CAAC;AAED,SAAS,sBAAsB,CAC7B,QAAwB,EACxB,MAA0B;IAE1B,OAAO;QACL,GAAG,QAAQ;QACX,OAAO,EAAE;YACP,GAAG,QAAQ,CAAC,OAAO;YACnB,IAAI,EAAE,YAAY,CAAC,QAAQ,CAAC,OAAO,CAAC,IAAI,EAAE,MAAM,CAAC;SAClD;QACD,OAAO,EAAE,QAAQ,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC;YACzC,GAAG,MAAM;YACT,GAAG,CAAC,MAAM,CAAC,IAAI,KAAK,SAAS,CAAC,CAAC,CAAC,EAAE,IAAI,EAAE,MAAM,CAAC,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;YACnE,GAAG,CAAC,MAAM,CAAC,KAAK,KAAK,SAAS,CAAC,CAAC,CAAC,EAAE,KAAK,EAAE,MAAM,CAAC,MAAM,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;YACtE,GAAG,CAAC,MAAM,CAAC,GAAG,KAAK,SAAS,CAAC,CAAC,CAAC,EAAE,GAAG,EAAE,MAAM,CAAC,MAAM,CAAC,GAAG,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;YAChE,GAAG,CAAC,MAAM,CAAC,cAAc,CAAC,KAAK,SAAS;gBACtC,CAAC,CAAC,EAAE,cAAc,EAAE,MAAM,CAAC,MAAM,CAAC,cAAc,CAAC,CAAC,EAAE;gBACpD,CAAC,CAAC,EAAE,CAAC;SACR,CAAC,CAAC;KACJ,CAAC;AACJ,CAAC;AAED,SAAS,YAAY,CAAC,KAAa,EAAE,MAA0B;IAC7D,mFAAmF;IACnF,MAAM,QAAQ,GAAG,KAAK;SACnB,OAAO,CAAC,6BAA6B,EAAE,gBAAgB,CAAC;SACxD,OAAO,CAAC,+BAA+B,EAAE,cAAc,CAAC,CAAC;IAC5D,iEAAiE;IACjE,OAAO,MAAM,CAAC,CAAC,CAAC,QAAQ,CAAC,KAAK,CAAC,MAAM,CAAC,CAAC,IAAI,CAAC,YAAY,CAAC,CAAC,CAAC,CAAC,QAAQ,CAAC;AACvE,CAAC"}
|
package/dist/pubmed/types.d.ts
CHANGED
|
@@ -1,6 +1,7 @@
|
|
|
1
1
|
/**
|
|
2
2
|
* TypeScript types for PubMed MCP tool responses.
|
|
3
|
-
*
|
|
3
|
+
* Tool names follow the Anthropic PubMed connector, but these shapes are this
|
|
4
|
+
* server's own and are not kept in sync with that connector.
|
|
4
5
|
*/
|
|
5
6
|
export interface SearchArticlesWarnings {
|
|
6
7
|
phrases_ignored: string[];
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"types.d.ts","sourceRoot":"","sources":["../../src/pubmed/types.ts"],"names":[],"mappings":"AAAA
|
|
1
|
+
{"version":3,"file":"types.d.ts","sourceRoot":"","sources":["../../src/pubmed/types.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAIH,MAAM,WAAW,sBAAsB;IACrC,eAAe,EAAE,MAAM,EAAE,CAAC;IAC1B,wBAAwB,EAAE,MAAM,EAAE,CAAC;IACnC,eAAe,EAAE,MAAM,EAAE,CAAC;CAC3B;AAED,6EAA6E;AAC7E,MAAM,WAAW,oBAAoB;IACnC,iBAAiB,EAAE,MAAM,EAAE,CAAC;IAC5B,gBAAgB,EAAE,MAAM,EAAE,CAAC;CAC5B;AAED,MAAM,WAAW,sBAAsB;IACrC,KAAK,EAAE,MAAM,EAAE,CAAC;IAChB,WAAW,EAAE,MAAM,CAAC;IACpB,cAAc,EAAE,MAAM,CAAC;IACvB,KAAK,EAAE,MAAM,CAAC;IACd,iBAAiB,EAAE,MAAM,CAAC;IAC1B,QAAQ,EAAE,OAAO,CAAC;IAClB,QAAQ,EAAE,sBAAsB,CAAC;IACjC,MAAM,EAAE,oBAAoB,CAAC;CAC9B;AAID,MAAM,WAAW,kBAAkB;IACjC,IAAI,EAAE,MAAM,CAAC;IACb,GAAG,CAAC,EAAE,MAAM,CAAC;IACb,GAAG,CAAC,EAAE,MAAM,CAAC;IACb,KAAK,CAAC,EAAE,MAAM,CAAC;CAChB;AAED,MAAM,WAAW,cAAc;IAC7B,KAAK,EAAE,MAAM,CAAC;IACd,gBAAgB,EAAE,MAAM,CAAC;CAC1B;AAED,MAAM,WAAW,aAAa;IAC5B,SAAS,EAAE,MAAM,CAAC;IAClB,SAAS,EAAE,MAAM,CAAC;IAClB,QAAQ,EAAE,MAAM,CAAC;IACjB,iFAAiF;IACjF,eAAe,CAAC,EAAE,MAAM,CAAC;IACzB,YAAY,CAAC,EAAE,MAAM,EAAE,CAAC;CACzB;AAED,MAAM,WAAW,sBAAsB;IACrC,IAAI,EAAE,MAAM,CAAC;IACb,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,GAAG,CAAC,EAAE,MAAM,CAAC;CACd;AAED,MAAM,WAAW,eAAe;IAC9B,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,KAAK,CAAC,EAAE,MAAM,CAAC;CAChB;AAED,MAAM,WAAW,eAAe;IAC9B,WAAW,EAAE,kBAAkB,CAAC;IAChC,KAAK,EAAE,MAAM,CAAC;IACd,QAAQ,EAAE,MAAM,CAAC;IACjB,GAAG,CAAC,EAAE,MAAM,CAAC;IACb,OAAO,EAAE,cAAc,CAAC;IACxB,OAAO,EAAE,aAAa,EAAE,CAAC;IACzB,wEAAwE;IACxE,YAAY,EAAE,MAAM,CAAC;IACrB,gBAAgB,EAAE,sBAAsB,CAAC;IACzC,QAAQ,EAAE,MAAM,EAAE,CAAC;IACnB,UAAU,EAAE,MAAM,EAAE,CAAC;IACrB,aAAa,EAAE,MAAM,EAAE,CAAC;IACxB,QAAQ,EAAE,MAAM,CAAC;IACjB,QAAQ,EAAE,eAAe,CAAC;CAC3B;AAED,MAAM,WAAW,0BAA0B;IACzC,QAAQ,EAAE,eAAe,EAAE,CAAC;IAC5B,KAAK,EAAE,MAAM,CAAC;IACd,sBAAsB,EAAE,MAAM,CAAC;CAChC;AAID,MAAM,WAAW,SAAS;IACxB,IAAI,EAAE,MAAM,CAAC;IACb,QAAQ,EAAE,MAAM,CAAC;IACjB,KAAK,EAAE,MAAM,EAAE,CAAC;CACjB;AAED,MAAM,WAAW,OAAO;IACtB,MAAM,EAAE,MAAM,CAAC;IACf,GAAG,EAAE,MAAM,EAAE,CAAC;IACd,UAAU,EAAE,SAAS,EAAE,CAAC;CACzB;AAED,MAAM,WAAW,2BAA2B;IAC1C,QAAQ,EAAE,OAAO,EAAE,CAAC;CACrB;AAID,MAAM,WAAW,cAAc;IAC7B,OAAO,EAAE,MAAM,CAAC;IAChB,IAAI,EAAE,MAAM,CAAC;IACb,MAAM,EAAE,MAAM,CAAC;IACf,UAAU,EAAE,MAAM,CAAC;IACnB,MAAM,EAAE,MAAM,CAAC;IACf,IAAI,EAAE,MAAM,CAAC;IACb,GAAG,EAAE,MAAM,CAAC;CACb;AAED,MAAM,WAAW,+BAA+B;IAC9C,SAAS,EAAE,cAAc,EAAE,CAAC;CAC7B;AAID,MAAM,WAAW,kBAAkB;IACjC,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,GAAG,CAAC,EAAE,MAAM,CAAC;IACb,cAAc,EAAE,MAAM,CAAC;IACvB,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,CAAC,GAAG,EAAE,MAAM,GAAG,MAAM,GAAG,SAAS,CAAC;CACnC;AAED,MAAM,WAAW,mBAAmB;IAClC,QAAQ,EAAE,MAAM,EAAE,CAAC;IACnB,MAAM,EAAE,MAAM,CAAC;IACf,MAAM,EAAE,MAAM,CAAC;IACf,GAAG,EAAE,MAAM,EAAE,CAAC;IACd,KAAK,EAAE,MAAM,CAAC;IACd,IAAI,EAAE,MAAM,CAAC;IACb,IAAI,EAAE,MAAM,CAAC;IACb,QAAQ,EAAE,MAAM,CAAC;IACjB,QAAQ,EAAE,MAAM,CAAC;CAClB;AAED,MAAM,WAAW,yBAAyB;IACxC,MAAM,EAAE,MAAM,CAAC;IACf,eAAe,EAAE,MAAM,CAAC;IACxB,OAAO,EAAE,mBAAmB,CAAC;IAC7B,OAAO,EAAE,kBAAkB,EAAE,CAAC;CAC/B;AAID,MAAM,WAAW,mBAAmB;IAClC,KAAK,EAAE,MAAM,CAAC;IACd,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,GAAG,CAAC,EAAE,MAAM,CAAC;CACd;AAED,MAAM,WAAW,eAAe;IAC9B,WAAW,EAAE,mBAAmB,CAAC;IACjC,KAAK,EAAE,MAAM,CAAC;IACd,QAAQ,EAAE,MAAM,CAAC;IACjB,GAAG,CAAC,EAAE,MAAM,CAAC;IACb,SAAS,EAAE,MAAM,CAAC;CACnB;AAED,MAAM,WAAW,oBAAoB;IACnC,KAAK,EAAE,MAAM,CAAC;IACd,KAAK,EAAE,MAAM,CAAC;CACf;AAED,MAAM,WAAW,0BAA0B;IACzC,sBAAsB,EAAE,MAAM,CAAC;IAC/B,QAAQ,EAAE,eAAe,EAAE,CAAC;IAC5B,MAAM,EAAE,oBAAoB,EAAE,CAAC;IAC/B,KAAK,EAAE,MAAM,CAAC;CACf;AAID,MAAM,WAAW,eAAe;IAC9B,IAAI,EAAE,MAAM,CAAC;IACb,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,aAAa,EAAE,OAAO,CAAC;IACvB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,mBAAmB,CAAC,EAAE,MAAM,CAAC;IAC7B,cAAc,CAAC,EAAE,OAAO,CAAC;CAC1B;AAED,MAAM,WAAW,0BAA0B;IACzC,QAAQ,EAAE,eAAe,EAAE,CAAC;IAC5B,KAAK,EAAE,MAAM,CAAC;CACf;AAID,eAAO,MAAM,sBAAsB,QAKuB,CAAC"}
|
package/dist/pubmed/types.js
CHANGED
|
@@ -1,6 +1,7 @@
|
|
|
1
1
|
/**
|
|
2
2
|
* TypeScript types for PubMed MCP tool responses.
|
|
3
|
-
*
|
|
3
|
+
* Tool names follow the Anthropic PubMed connector, but these shapes are this
|
|
4
|
+
* server's own and are not kept in sync with that connector.
|
|
4
5
|
*/
|
|
5
6
|
// ─── Shared constants ────────────────────────────────────────────────────────
|
|
6
7
|
export const IMPORTANT_LEGAL_NOTICE = 'PubMed data is provided by the National Library of Medicine (NLM). ' +
|
package/dist/pubmed/types.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"types.js","sourceRoot":"","sources":["../../src/pubmed/types.ts"],"names":[],"mappings":"AAAA
|
|
1
|
+
{"version":3,"file":"types.js","sourceRoot":"","sources":["../../src/pubmed/types.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAiMH,gFAAgF;AAEhF,MAAM,CAAC,MAAM,sBAAsB,GACjC,qEAAqE;IACrE,2FAA2F;IAC3F,iEAAiE;IACjE,6FAA6F;IAC7F,wDAAwD,CAAC"}
|
package/dist/server.d.ts.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"server.d.ts","sourceRoot":"","sources":["../src/server.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAEH,OAAO,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AACpE,OAAO,EAAE,UAAU,EAAE,MAAM,oBAAoB,CAAC;
|
|
1
|
+
{"version":3,"file":"server.d.ts","sourceRoot":"","sources":["../src/server.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAEH,OAAO,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AACpE,OAAO,EAAE,UAAU,EAAE,MAAM,oBAAoB,CAAC;AAgChD;;;;;;GAMG;AACH,wBAAgB,YAAY,CAAC,MAAM,GAAE,UAA6B,GAAG,SAAS,CAyK7E"}
|
package/dist/server.js
CHANGED
|
@@ -7,6 +7,7 @@
|
|
|
7
7
|
*/
|
|
8
8
|
import { McpServer } from '@modelcontextprotocol/sdk/server/mcp.js';
|
|
9
9
|
import { NcbiClient } from './pubmed/client.js';
|
|
10
|
+
import { packageVersion } from './version.js';
|
|
10
11
|
import { searchArticlesSchema, searchArticles, } from './tools/searchArticles.js';
|
|
11
12
|
import { getArticleMetadataSchema, getArticleMetadata, } from './tools/getArticleMetadata.js';
|
|
12
13
|
import { findRelatedArticlesSchema, findRelatedArticles, } from './tools/findRelatedArticles.js';
|
|
@@ -24,7 +25,7 @@ import { getCopyrightStatusSchema, getCopyrightStatus, } from './tools/getCopyri
|
|
|
24
25
|
export function createServer(client = new NcbiClient()) {
|
|
25
26
|
const server = new McpServer({
|
|
26
27
|
name: 'pubmed',
|
|
27
|
-
version:
|
|
28
|
+
version: packageVersion(),
|
|
28
29
|
});
|
|
29
30
|
// ── search_articles ──────────────────────────────────────────────────────
|
|
30
31
|
server.tool('search_articles', 'Search PubMed for biomedical articles. Returns PMIDs and result set metadata. ' +
|
package/dist/server.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"server.js","sourceRoot":"","sources":["../src/server.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAEH,OAAO,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AACpE,OAAO,EAAE,UAAU,EAAE,MAAM,oBAAoB,CAAC;
|
|
1
|
+
{"version":3,"file":"server.js","sourceRoot":"","sources":["../src/server.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAEH,OAAO,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AACpE,OAAO,EAAE,UAAU,EAAE,MAAM,oBAAoB,CAAC;AAChD,OAAO,EAAE,cAAc,EAAE,MAAM,cAAc,CAAC;AAE9C,OAAO,EACL,oBAAoB,EACpB,cAAc,GACf,MAAM,2BAA2B,CAAC;AACnC,OAAO,EACL,wBAAwB,EACxB,kBAAkB,GACnB,MAAM,+BAA+B,CAAC;AACvC,OAAO,EACL,yBAAyB,EACzB,mBAAmB,GACpB,MAAM,gCAAgC,CAAC;AACxC,OAAO,EACL,6BAA6B,EAC7B,uBAAuB,GACxB,MAAM,oCAAoC,CAAC;AAC5C,OAAO,EACL,uBAAuB,EACvB,iBAAiB,GAClB,MAAM,8BAA8B,CAAC;AACtC,OAAO,EACL,wBAAwB,EACxB,kBAAkB,GACnB,MAAM,+BAA+B,CAAC;AACvC,OAAO,EACL,wBAAwB,EACxB,kBAAkB,GACnB,MAAM,+BAA+B,CAAC;AAEvC;;;;;;GAMG;AACH,MAAM,UAAU,YAAY,CAAC,SAAqB,IAAI,UAAU,EAAE;IAChE,MAAM,MAAM,GAAG,IAAI,SAAS,CAAC;QAC3B,IAAI,EAAE,QAAQ;QACd,OAAO,EAAE,cAAc,EAAE;KAC1B,CAAC,CAAC;IAEH,4EAA4E;IAE5E,MAAM,CAAC,IAAI,CACT,iBAAiB,EACjB,gFAAgF;QAC9E,iFAAiF;QACjF,4EAA4E;QAC5E,gFAAgF;QAChF,mFAAmF;QACnF,mFAAmF;QACnF,gEAAgE;QAChE,2EAA2E,EAC7E,oBAAoB,EACpB,KAAK,EAAE,MAAM,EAAE,EAAE;QACf,IAAI,CAAC;YACH,MAAM,MAAM,GAAG,MAAM,cAAc,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;YACpD,OAAO,EAAE,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,EAAE,CAAC,EAAE,CAAC;QACvE,CAAC;QAAC,OAAO,GAAG,EAAE,CAAC;YACb,OAAO,EAAE,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,WAAW,CAAC,GAAG,EAAE,iBAAiB,CAAC,EAAE,CAAC,EAAE,CAAC;QACpF,CAAC;IACH,CAAC,CACF,CAAC;IAEF,4EAA4E;IAE5E,MAAM,CAAC,IAAI,CACT,sBAAsB,EACtB,oEAAoE;QAClE,kDAAkD;QAClD,6EAA6E;QAC7E,iEAAiE;QACjE,sDAAsD;QACtD,6CAA6C;QAC7C,wDAAwD;QACxD,+EAA+E;QAC/E,qCAAqC,EACvC,wBAAwB,EACxB,KAAK,EAAE,MAAM,EAAE,EAAE;QACf,IAAI,CAAC;YACH,MAAM,MAAM,GAAG,MAAM,kBAAkB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;YACxD,OAAO,EAAE,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,EAAE,CAAC,EAAE,CAAC;QACvE,CAAC;QAAC,OAAO,GAAG,EAAE,CAAC;YACb,OAAO;gBACL,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,WAAW,CAAC,GAAG,EAAE,sBAAsB,CAAC,EAAE,CAAC;aAC5E,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;IAEF,4EAA4E;IAE5E,MAAM,CAAC,IAAI,CACT,uBAAuB,EACvB,yEAAyE;QACvE,gEAAgE;QAChE,2EAA2E;QAC3E,6EAA6E;QAC7E,iFAAiF;QACjF,8EAA8E;QAC9E,qBAAqB,EACvB,yBAAyB,EACzB,KAAK,EAAE,MAAM,EAAE,EAAE;QACf,IAAI,CAAC;YACH,MAAM,MAAM,GAAG,MAAM,mBAAmB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;YACzD,OAAO,EAAE,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,EAAE,CAAC,EAAE,CAAC;QACvE,CAAC;QAAC,OAAO,GAAG,EAAE,CAAC;YACb,OAAO;gBACL,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,WAAW,CAAC,GAAG,EAAE,uBAAuB,CAAC,EAAE,CAAC;aAC7E,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;IAEF,6EAA6E;IAE7E,MAAM,CAAC,IAAI,CACT,4BAA4B,EAC5B,wEAAwE;QACtE,qDAAqD;QACrD,+EAA+E;QAC/E,8EAA8E,EAChF,6BAA6B,EAC7B,KAAK,EAAE,MAAM,EAAE,EAAE;QACf,IAAI,CAAC;YACH,MAAM,MAAM,GAAG,MAAM,uBAAuB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;YAC7D,OAAO,EAAE,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,EAAE,CAAC,EAAE,CAAC;QACvE,CAAC;QAAC,OAAO,GAAG,EAAE,CAAC;YACb,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,WAAW,CAAC,GAAG,EAAE,4BAA4B,CAAC,EAAE;iBACvE;aACF,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;IAEF,4EAA4E;IAE5E,MAAM,CAAC,IAAI,CACT,qBAAqB,EACrB,oEAAoE;QAClE,6EAA6E;QAC7E,qEAAqE;QACrE,6DAA6D,EAC/D,uBAAuB,EACvB,KAAK,EAAE,MAAM,EAAE,EAAE;QACf,IAAI,CAAC;YACH,MAAM,MAAM,GAAG,MAAM,iBAAiB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;YACvD,OAAO,EAAE,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,EAAE,CAAC,EAAE,CAAC;QACvE,CAAC;QAAC,OAAO,GAAG,EAAE,CAAC;YACb,OAAO;gBACL,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,WAAW,CAAC,GAAG,EAAE,qBAAqB,CAAC,EAAE,CAAC;aAC3E,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;IAEF,4EAA4E;IAE5E,MAAM,CAAC,IAAI,CACT,uBAAuB,EACvB,gEAAgE;QAC9D,6EAA6E;QAC7E,gDAAgD;QAChD,2EAA2E;QAC3E,mEAAmE;QACnE,iFAAiF,EACnF,wBAAwB,EACxB,KAAK,EAAE,MAAM,EAAE,EAAE;QACf,IAAI,CAAC;YACH,MAAM,MAAM,GAAG,MAAM,kBAAkB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;YACxD,OAAO,EAAE,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,EAAE,CAAC,EAAE,CAAC;QACvE,CAAC;QAAC,OAAO,GAAG,EAAE,CAAC;YACb,OAAO;gBACL,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,WAAW,CAAC,GAAG,EAAE,uBAAuB,CAAC,EAAE,CAAC;aAC7E,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;IAEF,4EAA4E;IAE5E,MAAM,CAAC,IAAI,CACT,sBAAsB,EACtB,kEAAkE;QAChE,+EAA+E;QAC/E,2EAA2E;QAC3E,4EAA4E;QAC5E,mFAAmF,EACrF,wBAAwB,EACxB,KAAK,EAAE,MAAM,EAAE,EAAE;QACf,IAAI,CAAC;YACH,MAAM,MAAM,GAAG,MAAM,kBAAkB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;YACxD,OAAO,EAAE,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,EAAE,CAAC,EAAE,CAAC;QACvE,CAAC;QAAC,OAAO,GAAG,EAAE,CAAC;YACb,OAAO;gBACL,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,WAAW,CAAC,GAAG,EAAE,sBAAsB,CAAC,EAAE,CAAC;aAC5E,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;IAEF,OAAO,MAAM,CAAC;AAChB,CAAC;AAED,iFAAiF;AAEjF,SAAS,WAAW,CAAC,GAAY,EAAE,IAAY;IAC7C,MAAM,OAAO,GAAG,GAAG,YAAY,KAAK,CAAC,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC;IACjE,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,IAAI,YAAY,OAAO,IAAI,CAAC,CAAC;IACtD,OAAO,IAAI,CAAC,SAAS,CAAC,EAAE,KAAK,EAAE,yCAAyC,OAAO,EAAE,EAAE,CAAC,CAAC;AACvF,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"convertArticleIds.d.ts","sourceRoot":"","sources":["../../src/tools/convertArticleIds.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AACxB,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,qBAAqB,CAAC;AACtD,OAAO,KAAK,EAAE,yBAAyB,EAAE,MAAM,oBAAoB,CAAC;
|
|
1
|
+
{"version":3,"file":"convertArticleIds.d.ts","sourceRoot":"","sources":["../../src/tools/convertArticleIds.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AACxB,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,qBAAqB,CAAC;AACtD,OAAO,KAAK,EAAE,yBAAyB,EAAE,MAAM,oBAAoB,CAAC;AAGpE,8EAA8E;AAC9E,eAAO,MAAM,eAAe,MAAM,CAAC;AAEnC,eAAO,MAAM,uBAAuB;;;;;;;CAqBnC,CAAC;AAEF,MAAM,MAAM,uBAAuB,GAAG;IACpC,GAAG,EAAE,MAAM,EAAE,CAAC;IACd,OAAO,CAAC,EAAE,MAAM,GAAG,OAAO,GAAG,KAAK,CAAC;CACpC,CAAC;AAEF,wBAAsB,iBAAiB,CACrC,MAAM,EAAE,uBAAuB,EAC/B,MAAM,EAAE,UAAU,GACjB,OAAO,CAAC,yBAAyB,CAAC,CAcpC"}
|
|
@@ -5,11 +5,12 @@
|
|
|
5
5
|
* Uses the NCBI PMC ID Converter API.
|
|
6
6
|
*/
|
|
7
7
|
import { z } from 'zod';
|
|
8
|
+
import { articleIdSchema } from '../utils/ids.js';
|
|
8
9
|
/** IDs per request; the CLI splits longer lists into batches of this size. */
|
|
9
10
|
export const MAX_CONVERT_IDS = 200;
|
|
10
11
|
export const convertArticleIdsSchema = {
|
|
11
12
|
ids: z
|
|
12
|
-
.array(
|
|
13
|
+
.array(articleIdSchema)
|
|
13
14
|
.min(1)
|
|
14
15
|
.max(MAX_CONVERT_IDS)
|
|
15
16
|
.describe('Array of article IDs to convert. ' +
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"convertArticleIds.js","sourceRoot":"","sources":["../../src/tools/convertArticleIds.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;
|
|
1
|
+
{"version":3,"file":"convertArticleIds.js","sourceRoot":"","sources":["../../src/tools/convertArticleIds.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAGxB,OAAO,EAAE,eAAe,EAAE,MAAM,iBAAiB,CAAC;AAElD,8EAA8E;AAC9E,MAAM,CAAC,MAAM,eAAe,GAAG,GAAG,CAAC;AAEnC,MAAM,CAAC,MAAM,uBAAuB,GAAG;IACrC,GAAG,EAAE,CAAC;SACH,KAAK,CAAC,eAAe,CAAC;SACtB,GAAG,CAAC,CAAC,CAAC;SACN,GAAG,CAAC,eAAe,CAAC;SACpB,QAAQ,CACP,mCAAmC;QACjC,2EAA2E;QAC3E,wDAAwD;QACxD,qEAAqE,CACxE;IACH,OAAO,EAAE,CAAC;SACP,IAAI,CAAC,CAAC,MAAM,EAAE,OAAO,EAAE,KAAK,CAAC,CAAC;SAC9B,OAAO,CAAC,MAAM,CAAC;SACf,QAAQ,EAAE;SACV,QAAQ,CACP,0BAA0B;QACxB,kCAAkC;QAClC,+DAA+D;QAC/D,sCAAsC,CACzC;CACJ,CAAC;AAOF,MAAM,CAAC,KAAK,UAAU,iBAAiB,CACrC,MAA+B,EAC/B,MAAkB;IAElB,MAAM,MAAM,GAAG,MAAM,CAAC,OAAO,IAAI,MAAM,CAAC;IAExC,oDAAoD;IACpD,+DAA+D;IAC/D,MAAM,GAAG,GACP,MAAM,KAAK,OAAO;QAChB,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC,GAAG,CAAC,CAAC,EAAE,EAAE,EAAE,CAAC,CAAC,EAAE,CAAC,WAAW,EAAE,CAAC,UAAU,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC;QAChF,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC;IAEjB,MAAM,QAAQ,GAAG,MAAM,MAAM,CAAC,SAAS,CAAC,EAAE,GAAG,EAAE,MAAM,EAAE,MAAM,EAAE,CAAC,CAAC;IAEjE,uEAAuE;IACvE,OAAO,QAAqC,CAAC;AAC/C,CAAC"}
|
|
@@ -7,6 +7,11 @@
|
|
|
7
7
|
import { z } from 'zod';
|
|
8
8
|
import type { NcbiClient } from '../pubmed/client.js';
|
|
9
9
|
import type { FindRelatedArticlesResponse } from '../pubmed/types.js';
|
|
10
|
+
/**
|
|
11
|
+
* PMIDs per request, kept short because ELink takes them in the URL.
|
|
12
|
+
* The CLI splits longer lists into batches of this size.
|
|
13
|
+
*/
|
|
14
|
+
export declare const MAX_RELATED_PMIDS = 200;
|
|
10
15
|
declare const LINK_TYPES: readonly ["similar_articles", "citing_pmc_articles", "linked_gene_records", "linked_refseq_proteins", "linked_refseq_nucleotides"];
|
|
11
16
|
export type FindRelatedLinkType = (typeof LINK_TYPES)[number];
|
|
12
17
|
export declare const findRelatedArticlesSchema: {
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"findRelatedArticles.d.ts","sourceRoot":"","sources":["../../src/tools/findRelatedArticles.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AACxB,OAAO,KAAK,EAAE,UAAU,EAAkB,MAAM,qBAAqB,CAAC;AACtE,OAAO,KAAK,EAAE,2BAA2B,EAAW,MAAM,oBAAoB,CAAC;
|
|
1
|
+
{"version":3,"file":"findRelatedArticles.d.ts","sourceRoot":"","sources":["../../src/tools/findRelatedArticles.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AACxB,OAAO,KAAK,EAAE,UAAU,EAAkB,MAAM,qBAAqB,CAAC;AACtE,OAAO,KAAK,EAAE,2BAA2B,EAAW,MAAM,oBAAoB,CAAC;AAG/E;;;GAGG;AACH,eAAO,MAAM,iBAAiB,MAAM,CAAC;AAErC,QAAA,MAAM,UAAU,oIAMN,CAAC;AACX,MAAM,MAAM,mBAAmB,GAAG,CAAC,OAAO,UAAU,CAAC,CAAC,MAAM,CAAC,CAAC;AAE9D,eAAO,MAAM,yBAAyB;;;;;;;;;;CA8BrC,CAAC;AAEF,MAAM,MAAM,yBAAyB,GAAG;IACtC,KAAK,EAAE,MAAM,EAAE,CAAC;IAChB,SAAS,CAAC,EAAE,mBAAmB,CAAC;IAChC,WAAW,CAAC,EAAE,MAAM,CAAC;CACtB,CAAC;AAWF,wBAAsB,mBAAmB,CACvC,MAAM,EAAE,yBAAyB,EACjC,MAAM,EAAE,UAAU,GACjB,OAAO,CAAC,2BAA2B,CAAC,CAiCtC"}
|
|
@@ -5,6 +5,12 @@
|
|
|
5
5
|
* service. Supports cross-database links (PubMed→PubMed, PubMed→PMC, etc.).
|
|
6
6
|
*/
|
|
7
7
|
import { z } from 'zod';
|
|
8
|
+
import { pmidSchema } from '../utils/ids.js';
|
|
9
|
+
/**
|
|
10
|
+
* PMIDs per request, kept short because ELink takes them in the URL.
|
|
11
|
+
* The CLI splits longer lists into batches of this size.
|
|
12
|
+
*/
|
|
13
|
+
export const MAX_RELATED_PMIDS = 200;
|
|
8
14
|
const LINK_TYPES = [
|
|
9
15
|
'similar_articles',
|
|
10
16
|
'citing_pmc_articles',
|
|
@@ -14,9 +20,11 @@ const LINK_TYPES = [
|
|
|
14
20
|
];
|
|
15
21
|
export const findRelatedArticlesSchema = {
|
|
16
22
|
pmids: z
|
|
17
|
-
.array(
|
|
23
|
+
.array(pmidSchema)
|
|
18
24
|
.min(1)
|
|
19
|
-
.
|
|
25
|
+
.max(MAX_RELATED_PMIDS)
|
|
26
|
+
.describe('Array of source PubMed IDs to find related articles for. ' +
|
|
27
|
+
`Maximum ${MAX_RELATED_PMIDS} PMIDs per request.`),
|
|
20
28
|
link_type: z
|
|
21
29
|
.enum(LINK_TYPES)
|
|
22
30
|
.default('similar_articles')
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"findRelatedArticles.js","sourceRoot":"","sources":["../../src/tools/findRelatedArticles.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;
|
|
1
|
+
{"version":3,"file":"findRelatedArticles.js","sourceRoot":"","sources":["../../src/tools/findRelatedArticles.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAGxB,OAAO,EAAE,UAAU,EAAE,MAAM,iBAAiB,CAAC;AAE7C;;;GAGG;AACH,MAAM,CAAC,MAAM,iBAAiB,GAAG,GAAG,CAAC;AAErC,MAAM,UAAU,GAAG;IACjB,kBAAkB;IAClB,qBAAqB;IACrB,qBAAqB;IACrB,wBAAwB;IACxB,2BAA2B;CACnB,CAAC;AAGX,MAAM,CAAC,MAAM,yBAAyB,GAAG;IACvC,KAAK,EAAE,CAAC;SACL,KAAK,CAAC,UAAU,CAAC;SACjB,GAAG,CAAC,CAAC,CAAC;SACN,GAAG,CAAC,iBAAiB,CAAC;SACtB,QAAQ,CACP,2DAA2D;QACzD,WAAW,iBAAiB,qBAAqB,CACpD;IACH,SAAS,EAAE,CAAC;SACT,IAAI,CAAC,UAAU,CAAC;SAChB,OAAO,CAAC,kBAAkB,CAAC;SAC3B,QAAQ,CACP,2BAA2B;QACzB,oFAAoF;QACpF,4EAA4E;QAC5E,2DAA2D;QAC3D,gEAAgE;QAChE,iEAAiE,CACpE;IACH,WAAW,EAAE,CAAC;SACX,MAAM,EAAE;SACR,GAAG,EAAE;SACL,GAAG,CAAC,CAAC,CAAC;SACN,GAAG,CAAC,IAAI,CAAC;SACT,QAAQ,EAAE;SACV,QAAQ,CACP,sEAAsE;QACpE,8EAA8E,CACjF;CACJ,CAAC;AAQF,mEAAmE;AACnE,MAAM,aAAa,GAAwC;IACzD,gBAAgB,EAAE,eAAe;IACjC,mBAAmB,EAAE,iBAAiB;IACtC,mBAAmB,EAAE,aAAa;IAClC,sBAAsB,EAAE,uBAAuB;IAC/C,yBAAyB,EAAE,uBAAuB;CACnD,CAAC;AAEF,MAAM,CAAC,KAAK,UAAU,mBAAmB,CACvC,MAAiC,EACjC,MAAkB;IAElB,MAAM,QAAQ,GAAG,aAAa,CAAC,MAAM,CAAC,SAAS,IAAI,kBAAkB,CAAC,CAAC;IAEvE,MAAM,QAAQ,GAAG,MAAM,MAAM,CAAC,KAAK,CAAC;QAClC,MAAM,EAAE,QAAQ;QAChB,EAAE,EAAE,MAAM,CAAC,KAAK;QAChB,QAAQ;QACR,GAAG,EAAE,UAAU;KAChB,CAAC,CAAC;IAEH,MAAM,UAAU,GAAG,MAAM,CAAC,WAAW,CAAC;IAEtC,MAAM,QAAQ,GAAc,CAAC,QAAQ,CAAC,QAAQ,IAAI,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,EAAE,EAAE,EAAE,CAAC,CAAC;QACjE,MAAM,EAAE,EAAE,CAAC,MAAM;QACjB,GAAG,EAAE,EAAE,CAAC,GAAG;QACX,UAAU,EAAE,CAAC,EAAE,CAAC,UAAU,IAAI,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,IAAoB,EAAE,EAAE;YAC7D,0EAA0E;YAC1E,IAAI,KAAK,GAAG,IAAI,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC,IAAI,EAAE,EAAE;gBAClC,IAAI,OAAO,IAAI,KAAK,QAAQ;oBAAE,OAAO,IAAI,CAAC;gBAC1C,OAAO,IAAI,CAAC,EAAE,CAAC;YACjB,CAAC,CAAC,CAAC;YACH,IAAI,UAAU,KAAK,SAAS,EAAE,CAAC;gBAC7B,KAAK,GAAG,KAAK,CAAC,KAAK,CAAC,CAAC,EAAE,UAAU,CAAC,CAAC;YACrC,CAAC;YACD,OAAO;gBACL,IAAI,EAAE,IAAI,CAAC,IAAI;gBACf,QAAQ,EAAE,IAAI,CAAC,QAAQ;gBACvB,KAAK;aACN,CAAC;QACJ,CAAC,CAAC;KACH,CAAC,CAAC,CAAC;IAEJ,OAAO,EAAE,QAAQ,EAAE,CAAC;AACtB,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"getArticleMetadata.d.ts","sourceRoot":"","sources":["../../src/tools/getArticleMetadata.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AACxB,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,qBAAqB,CAAC;AACtD,OAAO,KAAK,EAAiB,0BAA0B,EAAE,MAAM,oBAAoB,CAAC;
|
|
1
|
+
{"version":3,"file":"getArticleMetadata.d.ts","sourceRoot":"","sources":["../../src/tools/getArticleMetadata.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AACxB,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,qBAAqB,CAAC;AACtD,OAAO,KAAK,EAAiB,0BAA0B,EAAE,MAAM,oBAAoB,CAAC;AAKpF,gFAAgF;AAChF,eAAO,MAAM,kBAAkB,MAAM,CAAC;AAEtC,QAAA,MAAM,YAAY,iDAAkD,CAAC;AACrE,MAAM,MAAM,UAAU,GAAG,CAAC,OAAO,YAAY,CAAC,CAAC,MAAM,CAAC,CAAC;AAEvD,eAAO,MAAM,wBAAwB;;;;;;;;;CA4BpC,CAAC;AAEF,MAAM,MAAM,wBAAwB,GAAG;IACrC,KAAK,EAAE,MAAM,EAAE,CAAC;IAChB,OAAO,CAAC,EAAE,UAAU,CAAC;IACrB,oBAAoB,CAAC,EAAE,OAAO,CAAC;CAChC,CAAC;AAqBF,wBAAsB,kBAAkB,CACtC,MAAM,EAAE,wBAAwB,EAChC,MAAM,EAAE,UAAU,GACjB,OAAO,CAAC,0BAA0B,CAAC,CAuBrC"}
|
|
@@ -6,13 +6,14 @@
|
|
|
6
6
|
*/
|
|
7
7
|
import { z } from 'zod';
|
|
8
8
|
import { IMPORTANT_LEGAL_NOTICE } from '../pubmed/types.js';
|
|
9
|
+
import { pmidSchema } from '../utils/ids.js';
|
|
9
10
|
import { parsePubmedEfetchXml } from '../utils/xml.js';
|
|
10
11
|
/** PMIDs per request; the CLI splits longer lists into batches of this size. */
|
|
11
12
|
export const MAX_METADATA_PMIDS = 200;
|
|
12
13
|
const AUTHOR_MODES = ['all', 'first_last', 'first', 'none'];
|
|
13
14
|
export const getArticleMetadataSchema = {
|
|
14
15
|
pmids: z
|
|
15
|
-
.array(
|
|
16
|
+
.array(pmidSchema)
|
|
16
17
|
.min(1)
|
|
17
18
|
.max(MAX_METADATA_PMIDS)
|
|
18
19
|
.describe('Array of PubMed IDs (PMIDs) to retrieve metadata for. ' +
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"getArticleMetadata.js","sourceRoot":"","sources":["../../src/tools/getArticleMetadata.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAGxB,OAAO,EAAE,sBAAsB,EAAE,MAAM,oBAAoB,CAAC;AAC5D,OAAO,EAAE,oBAAoB,EAAE,MAAM,iBAAiB,CAAC;AAEvD,gFAAgF;AAChF,MAAM,CAAC,MAAM,kBAAkB,GAAG,GAAG,CAAC;AAEtC,MAAM,YAAY,GAAG,CAAC,KAAK,EAAE,YAAY,EAAE,OAAO,EAAE,MAAM,CAAU,CAAC;AAGrE,MAAM,CAAC,MAAM,wBAAwB,GAAG;IACtC,KAAK,EAAE,CAAC;SACL,KAAK,CAAC,
|
|
1
|
+
{"version":3,"file":"getArticleMetadata.js","sourceRoot":"","sources":["../../src/tools/getArticleMetadata.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAGxB,OAAO,EAAE,sBAAsB,EAAE,MAAM,oBAAoB,CAAC;AAC5D,OAAO,EAAE,UAAU,EAAE,MAAM,iBAAiB,CAAC;AAC7C,OAAO,EAAE,oBAAoB,EAAE,MAAM,iBAAiB,CAAC;AAEvD,gFAAgF;AAChF,MAAM,CAAC,MAAM,kBAAkB,GAAG,GAAG,CAAC;AAEtC,MAAM,YAAY,GAAG,CAAC,KAAK,EAAE,YAAY,EAAE,OAAO,EAAE,MAAM,CAAU,CAAC;AAGrE,MAAM,CAAC,MAAM,wBAAwB,GAAG;IACtC,KAAK,EAAE,CAAC;SACL,KAAK,CAAC,UAAU,CAAC;SACjB,GAAG,CAAC,CAAC,CAAC;SACN,GAAG,CAAC,kBAAkB,CAAC;SACvB,QAAQ,CACP,wDAAwD;QACtD,WAAW,kBAAkB,qBAAqB,CACrD;IACH,OAAO,EAAE,CAAC;SACP,IAAI,CAAC,YAAY,CAAC;SAClB,OAAO,CAAC,KAAK,CAAC;SACd,QAAQ,CACP,kEAAkE;QAChE,yCAAyC;QACzC,oFAAoF;QACpF,wCAAwC;QACxC,6BAA6B;QAC7B,uDAAuD,CAC1D;IACH,oBAAoB,EAAE,CAAC;SACpB,OAAO,EAAE;SACT,OAAO,CAAC,KAAK,CAAC;SACd,QAAQ,CACP,oEAAoE;QAClE,yEAAyE;QACzE,uBAAuB,CAC1B;CACJ,CAAC;AAQF,SAAS,aAAa,CAAC,OAAwB,EAAE,IAAgB;IAC/D,QAAQ,IAAI,EAAE,CAAC;QACb,KAAK,KAAK;YACR,OAAO,OAAO,CAAC;QACjB,KAAK,YAAY;YACf,OAAO,OAAO,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,OAAO,CAAC,OAAO,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC;QAClF,KAAK,OAAO;YACV,OAAO,OAAO,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC;QAC7B,KAAK,MAAM;YACT,OAAO,EAAE,CAAC;IACd,CAAC;AACH,CAAC;AAED,SAAS,mBAAmB,CAAC,MAAqB;IAChD,MAAM,IAAI,GAAG,EAAE,GAAG,MAAM,EAAE,CAAC;IAC3B,OAAO,IAAI,CAAC,YAAY,CAAC;IACzB,OAAO,IAAI,CAAC;AACd,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,kBAAkB,CACtC,MAAgC,EAChC,MAAkB;IAElB,MAAM,GAAG,GAAG,MAAM,MAAM,CAAC,MAAM,CAAC;QAC9B,EAAE,EAAE,QAAQ;QACZ,EAAE,EAAE,MAAM,CAAC,KAAK;QAChB,OAAO,EAAE,KAAK;QACd,OAAO,EAAE,UAAU;KACpB,CAAC,CAAC;IAEH,MAAM,IAAI,GAAG,MAAM,CAAC,OAAO,IAAI,KAAK,CAAC;IACrC,MAAM,mBAAmB,GAAG,MAAM,CAAC,oBAAoB,IAAI,KAAK,CAAC;IAEjE,MAAM,QAAQ,GAAG,oBAAoB,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,CAAC,OAAO,EAAE,EAAE,CAAC,CAAC;QAC3D,GAAG,OAAO;QACV,OAAO,EAAE,aAAa,CAAC,OAAO,CAAC,OAAO,EAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,MAAM,EAAE,EAAE,CAC3D,mBAAmB,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,mBAAmB,CAAC,MAAM,CAAC,CAC3D;KACF,CAAC,CAAC,CAAC;IAEJ,OAAO;QACL,QAAQ;QACR,KAAK,EAAE,QAAQ,CAAC,MAAM;QACtB,sBAAsB,EAAE,sBAAsB;KAC/C,CAAC;AACJ,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"getCopyrightStatus.d.ts","sourceRoot":"","sources":["../../src/tools/getCopyrightStatus.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AACxB,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,qBAAqB,CAAC;AACtD,OAAO,KAAK,EAAE,0BAA0B,EAAmB,MAAM,oBAAoB,CAAC;
|
|
1
|
+
{"version":3,"file":"getCopyrightStatus.d.ts","sourceRoot":"","sources":["../../src/tools/getCopyrightStatus.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AACxB,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,qBAAqB,CAAC;AACtD,OAAO,KAAK,EAAE,0BAA0B,EAAmB,MAAM,oBAAoB,CAAC;AAItF,gFAAgF;AAChF,eAAO,MAAM,mBAAmB,KAAK,CAAC;AAEtC,eAAO,MAAM,wBAAwB;;CAMpC,CAAC;AAEF,MAAM,MAAM,wBAAwB,GAAG;IACrC,KAAK,EAAE,MAAM,EAAE,CAAC;CACjB,CAAC;AAKF,wBAAsB,kBAAkB,CACtC,MAAM,EAAE,wBAAwB,EAChC,MAAM,EAAE,UAAU,GACjB,OAAO,CAAC,0BAA0B,CAAC,CA4DrC"}
|
|
@@ -11,12 +11,13 @@
|
|
|
11
11
|
* does not allow full-text XML download.
|
|
12
12
|
*/
|
|
13
13
|
import { z } from 'zod';
|
|
14
|
+
import { pmidSchema } from '../utils/ids.js';
|
|
14
15
|
import { parsePmcAccessXml } from '../utils/xml.js';
|
|
15
16
|
/** PMIDs per request; the CLI splits longer lists into batches of this size. */
|
|
16
17
|
export const MAX_COPYRIGHT_PMIDS = 50;
|
|
17
18
|
export const getCopyrightStatusSchema = {
|
|
18
19
|
pmids: z
|
|
19
|
-
.array(
|
|
20
|
+
.array(pmidSchema)
|
|
20
21
|
.min(1)
|
|
21
22
|
.max(MAX_COPYRIGHT_PMIDS)
|
|
22
23
|
.describe('Array of PubMed IDs (PMIDs) to check copyright status for.'),
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"getCopyrightStatus.js","sourceRoot":"","sources":["../../src/tools/getCopyrightStatus.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAGxB,OAAO,EAAE,iBAAiB,EAAsB,MAAM,iBAAiB,CAAC;AAExE,gFAAgF;AAChF,MAAM,CAAC,MAAM,mBAAmB,GAAG,EAAE,CAAC;AAEtC,MAAM,CAAC,MAAM,wBAAwB,GAAG;IACtC,KAAK,EAAE,CAAC;SACL,KAAK,CAAC,
|
|
1
|
+
{"version":3,"file":"getCopyrightStatus.js","sourceRoot":"","sources":["../../src/tools/getCopyrightStatus.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAGxB,OAAO,EAAE,UAAU,EAAE,MAAM,iBAAiB,CAAC;AAC7C,OAAO,EAAE,iBAAiB,EAAsB,MAAM,iBAAiB,CAAC;AAExE,gFAAgF;AAChF,MAAM,CAAC,MAAM,mBAAmB,GAAG,EAAE,CAAC;AAEtC,MAAM,CAAC,MAAM,wBAAwB,GAAG;IACtC,KAAK,EAAE,CAAC;SACL,KAAK,CAAC,UAAU,CAAC;SACjB,GAAG,CAAC,CAAC,CAAC;SACN,GAAG,CAAC,mBAAmB,CAAC;SACxB,QAAQ,CAAC,4DAA4D,CAAC;CAC1E,CAAC;AAMF,mFAAmF;AACnF,MAAM,iBAAiB,GAAG,EAAE,CAAC;AAE7B,MAAM,CAAC,KAAK,UAAU,kBAAkB,CACtC,MAAgC,EAChC,MAAkB;IAElB,yDAAyD;IACzD,MAAM,YAAY,GAAG,MAAM,MAAM,CAAC,SAAS,CAAC;QAC1C,GAAG,EAAE,MAAM,CAAC,KAAK;QACjB,MAAM,EAAE,MAAM;KACf,CAAC,CAAC;IAEH,6DAA6D;IAC7D,MAAM,WAAW,GAAG,IAAI,GAAG,EAA8B,CAAC;IAC1D,KAAK,MAAM,MAAM,IAAI,YAAY,CAAC,OAAO,EAAE,CAAC;QAC1C,MAAM,IAAI,GAAG,MAAM,CAAC,IAAI,IAAI,MAAM,CAAC,cAAc,CAAC,CAAC;QACnD,IAAI,IAAI,EAAE,CAAC;YACT,WAAW,CAAC,GAAG,CAAC,MAAM,CAAC,IAAI,CAAC,EAAE,MAAM,CAAC,KAAK,CAAC,CAAC;QAC9C,CAAC;IACH,CAAC;IAED,uEAAuE;IACvE,qEAAqE;IACrE,MAAM,MAAM,GAAG;QACb,GAAG,IAAI,GAAG,CAAC,MAAM,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC,IAAI,EAAE,EAAE,CAAC,WAAW,CAAC,GAAG,CAAC,IAAI,CAAC,CAAC,CAAC,MAAM,CAAC,QAAQ,CAAC,CAAC;KAC/E,CAAC;IACF,MAAM,aAAa,GAAG,IAAI,GAAG,EAAyB,CAAC;IACvD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,MAAM,CAAC,MAAM,EAAE,CAAC,IAAI,iBAAiB,EAAE,CAAC;QAC1D,MAAM,KAAK,GAAG,MAAM,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,GAAG,iBAAiB,CAAC,CAAC;QACrD,MAAM,GAAG,GAAG,MAAM,MAAM,CAAC,MAAM,CAAC;YAC9B,EAAE,EAAE,KAAK;YACT,EAAE,EAAE,KAAK,CAAC,GAAG,CAAC,CAAC,KAAK,EAAE,EAAE,CAAC,KAAK,CAAC,OAAO,CAAC,OAAO,EAAE,EAAE,CAAC,CAAC;YACpD,OAAO,EAAE,KAAK;SACf,CAAC,CAAC;QACH,KAAK,MAAM,IAAI,IAAI,iBAAiB,CAAC,GAAG,CAAC,EAAE,CAAC;YAC1C,aAAa,CAAC,GAAG,CAAC,IAAI,CAAC,KAAK,CAAC,WAAW,EAAE,EAAE,IAAI,CAAC,CAAC;QACpD,CAAC;IACH,CAAC;IAED,MAAM,QAAQ,GAAsB,MAAM,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC,IAAI,EAAE,EAAE;QAC5D,MAAM,KAAK,GAAG,WAAW,CAAC,GAAG,CAAC,IAAI,CAAC,CAAC;QACpC,IAAI,CAAC,KAAK,EAAE,CAAC;YACX,OAAO,EAAE,IAAI,EAAE,aAAa,EAAE,KAAK,EAAE,CAAC;QACxC,CAAC;QAED,MAAM,IAAI,GAAG,aAAa,CAAC,GAAG,CAAC,KAAK,CAAC,WAAW,EAAE,CAAC,CAAC;QACpD,IAAI,CAAC,IAAI,EAAE,CAAC;YACV,qEAAqE;YACrE,OAAO,EAAE,IAAI,EAAE,KAAK,EAAE,aAAa,EAAE,KAAK,EAAE,CAAC;QAC/C,CAAC;QAED,OAAO;YACL,IAAI;YACJ,KAAK;YACL,aAAa,EAAE,IAAI,CAAC,WAAW;YAC/B,GAAG,CAAC,IAAI,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,OAAO,EAAE,IAAI,CAAC,OAAO,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;YAClD,GAAG,CAAC,IAAI,CAAC,kBAAkB,CAAC,CAAC,CAAC,EAAE,mBAAmB,EAAE,IAAI,CAAC,kBAAkB,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;YACpF,cAAc,EAAE,IAAI,CAAC,YAAY;SAClC,CAAC;IACJ,CAAC,CAAC,CAAC;IAEH,OAAO;QACL,QAAQ;QACR,KAAK,EAAE,QAAQ,CAAC,MAAM;KACvB,CAAC;AACJ,CAAC;AAED,SAAS,QAAQ,CAAC,KAAyB;IACzC,OAAO,OAAO,KAAK,KAAK,QAAQ,IAAI,KAAK,KAAK,EAAE,CAAC;AACnD,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"getFullTextArticle.d.ts","sourceRoot":"","sources":["../../src/tools/getFullTextArticle.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AACxB,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,qBAAqB,CAAC;AACtD,OAAO,KAAK,EAAE,0BAA0B,EAAmB,MAAM,oBAAoB,CAAC;
|
|
1
|
+
{"version":3,"file":"getFullTextArticle.d.ts","sourceRoot":"","sources":["../../src/tools/getFullTextArticle.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AACxB,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,qBAAqB,CAAC;AACtD,OAAO,KAAK,EAAE,0BAA0B,EAAmB,MAAM,oBAAoB,CAAC;AAKtF,iFAAiF;AACjF,eAAO,MAAM,iBAAiB,KAAK,CAAC;AAEpC,eAAO,MAAM,wBAAwB;;CAWpC,CAAC;AAEF,MAAM,MAAM,wBAAwB,GAAG;IACrC,OAAO,EAAE,MAAM,EAAE,CAAC;CACnB,CAAC;AAYF,wBAAsB,kBAAkB,CACtC,MAAM,EAAE,wBAAwB,EAChC,MAAM,EAAE,UAAU,GACjB,OAAO,CAAC,0BAA0B,CAAC,CA6DrC"}
|