clinicaltrialsgov-mcp-server 2.4.8 → 2.4.9

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Files changed (30) hide show
  1. package/README.md +1 -1
  2. package/dist/mcp-server/tools/definitions/find-eligible.tool.d.ts.map +1 -1
  3. package/dist/mcp-server/tools/definitions/find-eligible.tool.js +1 -1
  4. package/dist/mcp-server/tools/definitions/find-eligible.tool.js.map +1 -1
  5. package/dist/mcp-server/tools/definitions/get-study-count.tool.d.ts +6 -1
  6. package/dist/mcp-server/tools/definitions/get-study-count.tool.d.ts.map +1 -1
  7. package/dist/mcp-server/tools/definitions/get-study-count.tool.js +17 -5
  8. package/dist/mcp-server/tools/definitions/get-study-count.tool.js.map +1 -1
  9. package/dist/mcp-server/tools/definitions/get-study-results.tool.d.ts.map +1 -1
  10. package/dist/mcp-server/tools/definitions/get-study-results.tool.js +57 -12
  11. package/dist/mcp-server/tools/definitions/get-study-results.tool.js.map +1 -1
  12. package/dist/mcp-server/tools/definitions/get-study.tool.d.ts +14 -0
  13. package/dist/mcp-server/tools/definitions/get-study.tool.d.ts.map +1 -1
  14. package/dist/mcp-server/tools/definitions/get-study.tool.js +110 -15
  15. package/dist/mcp-server/tools/definitions/get-study.tool.js.map +1 -1
  16. package/dist/mcp-server/tools/definitions/search-studies.tool.d.ts +6 -1
  17. package/dist/mcp-server/tools/definitions/search-studies.tool.d.ts.map +1 -1
  18. package/dist/mcp-server/tools/definitions/search-studies.tool.js +26 -8
  19. package/dist/mcp-server/tools/definitions/search-studies.tool.js.map +1 -1
  20. package/dist/mcp-server/tools/utils/recovery-hints.d.ts +1 -0
  21. package/dist/mcp-server/tools/utils/recovery-hints.d.ts.map +1 -1
  22. package/dist/mcp-server/tools/utils/recovery-hints.js +1 -0
  23. package/dist/mcp-server/tools/utils/recovery-hints.js.map +1 -1
  24. package/dist/services/clinical-trials/clinical-trials-service.d.ts +8 -0
  25. package/dist/services/clinical-trials/clinical-trials-service.d.ts.map +1 -1
  26. package/dist/services/clinical-trials/clinical-trials-service.js +75 -3
  27. package/dist/services/clinical-trials/clinical-trials-service.js.map +1 -1
  28. package/dist/services/clinical-trials/types.d.ts +4 -0
  29. package/dist/services/clinical-trials/types.d.ts.map +1 -1
  30. package/package.json +5 -5
package/README.md CHANGED
@@ -10,7 +10,7 @@
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  [![npm](https://img.shields.io/npm/v/clinicaltrialsgov-mcp-server?style=flat-square&logo=npm&logoColor=white)](https://www.npmjs.com/package/clinicaltrialsgov-mcp-server)
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  [![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/clinicaltrialsgov-mcp-server)
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- [![Version](https://img.shields.io/badge/Version-2.4.8-blue.svg?style=flat-square)](./CHANGELOG.md)
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+ [![Version](https://img.shields.io/badge/Version-2.4.9-blue.svg?style=flat-square)](./CHANGELOG.md)
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  [![Framework](https://img.shields.io/badge/Built%20on-@cyanheads/mcp--ts--core-259?style=flat-square)](https://www.npmjs.com/package/@cyanheads/mcp-ts-core)
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package/dist/mcp-server/tools/definitions/find-eligible.tool.d.ts.map CHANGED
@@ -1 +1 @@
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- {"version":3,"file":"find-eligible.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/find-eligible.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAkEjE,eAAO,MAAM,YAAY;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GAoUvB,CAAC"}
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+ {"version":3,"file":"find-eligible.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/find-eligible.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAkEjE,eAAO,MAAM,YAAY;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GAsUvB,CAAC"}
package/dist/mcp-server/tools/definitions/find-eligible.tool.js CHANGED
@@ -85,7 +85,7 @@ export const findEligible = tool('clinicaltrials_find_eligible', {
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  conditions: z
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  .array(z.string())
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  .min(1)
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- .describe('Medical conditions or diagnoses. E.g., ["Type 2 Diabetes", "Hypertension"].'),
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+ .describe('Medical conditions or diagnoses. E.g., ["Type 2 Diabetes", "Hypertension"]. Plain words only — brackets, parentheses, and commas inside an entry will trip the upstream Essie parser.'),
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  location: z
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  .object({
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  country: z.string().describe('Country name. E.g., "United States".'),
package/dist/mcp-server/tools/definitions/find-eligible.tool.js.map CHANGED
@@ -1 +1 @@
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1
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package/dist/mcp-server/tools/definitions/get-study-count.tool.d.ts CHANGED
@@ -20,8 +20,13 @@ export declare const getStudyCount: import("@cyanheads/mcp-ts-core").ToolDefinit
20
20
  }, z.core.$strip>, readonly [{
21
21
  readonly reason: "field_invalid";
22
22
  readonly code: JsonRpcErrorCode.ValidationError;
23
- readonly when: "A field name in the advanced filter is invalid (often a module name instead of a piece name).";
23
+ readonly when: "A field name in the advanced filter or AREA[] expression is invalid (often a module name instead of a piece name).";
24
24
  readonly recovery: "Call clinicaltrials_get_field_definitions to browse the field tree; use PascalCase piece names like OverallStatus, Phase, or StudyType.";
25
+ }, {
26
+ readonly reason: "query_parse_error";
27
+ readonly code: JsonRpcErrorCode.ValidationError;
28
+ readonly when: "A free-text query or advancedFilter expression uses syntax the upstream Essie parser rejects — typically a reserved character ([, ], (, ), or comma) in a query/conditionQuery/etc. value.";
29
+ readonly recovery: "Field-scoped search uses advancedFilter with AREA[FieldName]value (call clinicaltrials_get_field_definitions to look up the right FieldName); free-text fields (query, conditionQuery, etc.) take plain words plus AND, OR, NOT — brackets, parentheses, and commas are reserved by the upstream parser.";
25
30
  }, {
26
31
  readonly reason: "rate_limited";
27
32
  readonly code: JsonRpcErrorCode.RateLimited;
package/dist/mcp-server/tools/definitions/get-study-count.tool.d.ts.map CHANGED
@@ -1 +1 @@
1
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1
+ {"version":3,"file":"get-study-count.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/get-study-count.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAKjE,eAAO,MAAM,aAAa;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GA+IxB,CAAC"}
package/dist/mcp-server/tools/definitions/get-study-count.tool.js CHANGED
@@ -18,9 +18,15 @@ export const getStudyCount = tool('clinicaltrials_get_study_count', {
18
18
  {
19
19
  reason: 'field_invalid',
20
20
  code: JsonRpcErrorCode.ValidationError,
21
- when: 'A field name in the advanced filter is invalid (often a module name instead of a piece name).',
21
+ when: 'A field name in the advanced filter or AREA[] expression is invalid (often a module name instead of a piece name).',
22
22
  recovery: RECOVERY_HINTS.field_invalid,
23
23
  },
24
+ {
25
+ reason: 'query_parse_error',
26
+ code: JsonRpcErrorCode.ValidationError,
27
+ when: 'A free-text query or advancedFilter expression uses syntax the upstream Essie parser rejects — typically a reserved character ([, ], (, ), or comma) in a query/conditionQuery/etc. value.',
28
+ recovery: RECOVERY_HINTS.query_parse_error,
29
+ },
24
30
  {
25
31
  reason: 'rate_limited',
26
32
  code: JsonRpcErrorCode.RateLimited,
@@ -30,16 +36,22 @@ export const getStudyCount = tool('clinicaltrials_get_study_count', {
30
36
  },
31
37
  ],
32
38
  input: z.object({
33
- query: z.string().optional().describe('General full-text search across all fields.'),
39
+ query: z
40
+ .string()
41
+ .optional()
42
+ .describe('General free-text search across all fields. Plain words plus AND, OR, NOT only — brackets, parentheses, and commas are reserved by the upstream Essie parser and will fail. For field-scoped searches, use the dedicated *Query parameters (conditionQuery, interventionQuery, etc.) or advancedFilter with AREA[FieldName]value.'),
34
43
  conditionQuery: z
35
44
  .string()
36
45
  .optional()
37
- .describe('Condition/disease-specific search. E.g., "Type 2 Diabetes", "non-small cell lung cancer".'),
46
+ .describe('Condition/disease-specific search. E.g., "Type 2 Diabetes", "non-small cell lung cancer". Plain words plus AND/OR/NOT only — reserved chars: [ ] ( ) ,'),
38
47
  interventionQuery: z
39
48
  .string()
40
49
  .optional()
41
- .describe('Intervention/treatment search. E.g., "pembrolizumab", "cognitive behavioral therapy".'),
42
- sponsorQuery: z.string().optional().describe('Sponsor/collaborator name search.'),
50
+ .describe('Intervention/treatment search. E.g., "pembrolizumab", "cognitive behavioral therapy". Plain words plus AND/OR/NOT only — reserved chars: [ ] ( ) ,'),
51
+ sponsorQuery: z
52
+ .string()
53
+ .optional()
54
+ .describe('Sponsor/collaborator name search. Plain words plus AND/OR/NOT only — reserved chars: [ ] ( ) ,'),
43
55
  statusFilter: z
44
56
  .union([
45
57
  z.string().describe('A single status value.'),
package/dist/mcp-server/tools/definitions/get-study-count.tool.js.map CHANGED
@@ -1 +1 @@
1
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1
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package/dist/mcp-server/tools/definitions/get-study-results.tool.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"get-study-results.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/get-study-results.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AA4SjE,eAAO,MAAM,eAAe;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GAiP1B,CAAC"}
1
+ {"version":3,"file":"get-study-results.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/get-study-results.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAwVjE,eAAO,MAAM,eAAe;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GAiP1B,CAAC"}
package/dist/mcp-server/tools/definitions/get-study-results.tool.js CHANGED
@@ -39,11 +39,42 @@ function extractTopStats(o) {
39
39
  }));
40
40
  return stats.length ? stats : undefined;
41
41
  }
42
+ /**
43
+ * Extract topline statistical analysis from a raw outcome object. Returns the
44
+ * first analysis (typically the primary one), keeping only present fields so
45
+ * the summary stays compact.
46
+ */
47
+ function extractTopAnalysis(o) {
48
+ const analyses = o.analyses;
49
+ const a = analyses?.[0];
50
+ if (!a)
51
+ return;
52
+ const keys = [
53
+ 'statisticalMethod',
54
+ 'pValue',
55
+ 'pValueComment',
56
+ 'paramType',
57
+ 'paramValue',
58
+ 'ciPctValue',
59
+ 'ciNumSides',
60
+ 'ciLowerLimit',
61
+ 'ciUpperLimit',
62
+ 'nonInferiorityType',
63
+ 'estimateComment',
64
+ 'groupIds',
65
+ ];
66
+ const out = {};
67
+ for (const k of keys)
68
+ if (a[k] != null)
69
+ out[k] = a[k];
70
+ return Object.keys(out).length > 0 ? out : undefined;
71
+ }
42
72
  /** Condense a full outcome measure to its essential metadata plus top-line per-group stats. */
43
73
  function summarizeOutcome(o) {
44
74
  const groups = o.groups;
45
75
  const classes = o.classes;
46
76
  const topStats = extractTopStats(o);
77
+ const topAnalysis = extractTopAnalysis(o);
47
78
  return {
48
79
  type: o.type,
49
80
  title: o.title,
@@ -54,6 +85,7 @@ function summarizeOutcome(o) {
54
85
  groupCount: groups?.length,
55
86
  classCount: classes?.length,
56
87
  ...(topStats ? { topStats } : {}),
88
+ ...(topAnalysis ? { topAnalysis } : {}),
57
89
  };
58
90
  }
59
91
  /** Condense the adverse events module to counts. */
@@ -100,6 +132,19 @@ function groupMap(obj) {
100
132
  function shortGroup(title, max = 40) {
101
133
  return title.length <= max ? title : `${title.slice(0, max - 1)}…`;
102
134
  }
135
+ /** Render one analysis (summary or full) as a single-line bullet. */
136
+ function formatAnalysisLine(a) {
137
+ const parts = [
138
+ a.statisticalMethod ? `Method: ${a.statisticalMethod}` : '',
139
+ a.pValue ? `p=${a.pValue}` : '',
140
+ a.paramValue ? `${a.paramType ?? 'estimate'}=${a.paramValue}` : '',
141
+ a.ciLowerLimit != null && a.ciUpperLimit != null
142
+ ? `${a.ciPctValue ?? 95}% CI [${a.ciLowerLimit}, ${a.ciUpperLimit}]`
143
+ : '',
144
+ a.nonInferiorityType ? `(${a.nonInferiorityType})` : '',
145
+ ].filter(Boolean);
146
+ return parts.length ? ` Analysis: ${parts.join(', ')}` : '';
147
+ }
103
148
  function formatOutcomes(outcomes, lines) {
104
149
  lines.push(`\n### Outcomes (${outcomes.length} measures)`);
105
150
  for (const o of outcomes) {
@@ -120,20 +165,20 @@ function formatOutcomes(outcomes, lines) {
120
165
  if (topStats?.length) {
121
166
  lines.push(` ${topStats.map((s) => `${s.group}: ${s.value}${s.spread ? ` ±${s.spread}` : ''}`).join(' | ')}`);
122
167
  }
123
- // Full mode: render analyses if present
168
+ // Summary mode: single condensed analysis lifted from analyses[0].
169
+ const topAnalysis = o.topAnalysis;
170
+ if (topAnalysis) {
171
+ const line = formatAnalysisLine(topAnalysis);
172
+ if (line)
173
+ lines.push(line);
174
+ }
175
+ // Full mode: render every analysis on the measure.
124
176
  const analyses = o.analyses;
125
177
  if (analyses?.length) {
126
178
  for (const a of analyses) {
127
- const parts = [
128
- a.statisticalMethod ? `Method: ${a.statisticalMethod}` : '',
129
- a.pValue ? `p=${a.pValue}` : '',
130
- a.paramValue ? `${a.paramType ?? 'estimate'}=${a.paramValue}` : '',
131
- a.ciLowerLimit != null && a.ciUpperLimit != null
132
- ? `${a.ciPctValue ?? 95}% CI [${a.ciLowerLimit}, ${a.ciUpperLimit}]`
133
- : '',
134
- ].filter(Boolean);
135
- if (parts.length)
136
- lines.push(` Analysis: ${parts.join(', ')}`);
179
+ const line = formatAnalysisLine(a);
180
+ if (line)
181
+ lines.push(line);
137
182
  }
138
183
  }
139
184
  }
@@ -332,7 +377,7 @@ export const getStudyResults = tool('clinicaltrials_get_study_results', {
332
377
  outcomes: z
333
378
  .array(z.record(z.string(), z.unknown()))
334
379
  .optional()
335
- .describe('Outcome measures with per-group statistics. Summary mode (compact): type, title, timeFrame, paramType, unitOfMeasure, group/class counts, plus topStats per group when available. Full mode (default): adds raw groups, classes, categories, measurements, and analyses arrays.'),
380
+ .describe('Outcome measures with per-group statistics. Summary mode (compact): type, title, timeFrame, paramType, unitOfMeasure, group/class counts, plus topStats (per-group measurements) and topAnalysis (statisticalMethod, pValue, paramType/Value, ciPctValue/Lower/Upper, nonInferiorityType, groupIds — lifted from analyses[0]) when present. Full mode (default): adds raw groups, classes, categories, measurements, and analyses arrays.'),
336
381
  adverseEvents: z
337
382
  .record(z.string(), z.unknown())
338
383
  .optional()
package/dist/mcp-server/tools/definitions/get-study-results.tool.js.map CHANGED
@@ -1 +1 @@
1
- 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package/dist/mcp-server/tools/definitions/get-study.tool.d.ts CHANGED
@@ -7,8 +7,22 @@ import { z } from '@cyanheads/mcp-ts-core';
7
7
  import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
8
8
  export declare const getStudy: import("@cyanheads/mcp-ts-core").ToolDefinition<z.ZodObject<{
9
9
  nctId: z.ZodString;
10
+ locationLimit: z.ZodDefault<z.ZodNumber>;
11
+ outcomeLimit: z.ZodDefault<z.ZodNumber>;
12
+ nearLocation: z.ZodOptional<z.ZodObject<{
13
+ lat: z.ZodNumber;
14
+ lon: z.ZodNumber;
15
+ radiusMi: z.ZodDefault<z.ZodNumber>;
16
+ }, z.core.$strip>>;
10
17
  }, z.core.$strip>, z.ZodObject<{
11
18
  study: z.ZodRecord<z.ZodString, z.ZodUnknown>;
19
+ locationLimit: z.ZodOptional<z.ZodNumber>;
20
+ outcomeLimit: z.ZodOptional<z.ZodNumber>;
21
+ nearLocation: z.ZodOptional<z.ZodObject<{
22
+ lat: z.ZodNumber;
23
+ lon: z.ZodNumber;
24
+ radiusMi: z.ZodNumber;
25
+ }, z.core.$strip>>;
12
26
  }, z.core.$strip>, readonly [{
13
27
  readonly reason: "study_not_found";
14
28
  readonly code: JsonRpcErrorCode.NotFound;
package/dist/mcp-server/tools/definitions/get-study.tool.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"get-study.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/get-study.tool.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAMjE,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;GAoVnB,CAAC"}
1
+ {"version":3,"file":"get-study.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/get-study.tool.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAmBjE,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GAybnB,CAAC"}
package/dist/mcp-server/tools/definitions/get-study.tool.js CHANGED
@@ -8,6 +8,17 @@ import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
8
8
  import { getClinicalTrialsService } from '../../../services/clinical-trials/clinical-trials-service.js';
9
9
  import { nctIdSchema } from '../utils/_schemas.js';
10
10
  import { RECOVERY_HINTS } from '../utils/recovery-hints.js';
11
+ const EARTH_RADIUS_MI = 3958.7613;
12
+ /** Great-circle distance in miles between two lat/lon points (Haversine). */
13
+ function haversineMi(a, b) {
14
+ const toRad = (d) => (d * Math.PI) / 180;
15
+ const dLat = toRad(b.lat - a.lat);
16
+ const dLon = toRad(b.lon - a.lon);
17
+ const lat1 = toRad(a.lat);
18
+ const lat2 = toRad(b.lat);
19
+ const h = Math.sin(dLat / 2) ** 2 + Math.cos(lat1) * Math.cos(lat2) * Math.sin(dLon / 2) ** 2;
20
+ return 2 * EARTH_RADIUS_MI * Math.asin(Math.min(1, Math.sqrt(h)));
21
+ }
11
22
  export const getStudy = tool('clinicaltrials_get_study_record', {
12
23
  description: 'Fetch a single clinical trial study by NCT ID from ClinicalTrials.gov. Returns the full study record including protocol details, eligibility criteria, outcomes, arms, interventions, contacts, and locations.',
13
24
  annotations: {
@@ -32,20 +43,68 @@ export const getStudy = tool('clinicaltrials_get_study_record', {
32
43
  ],
33
44
  input: z.object({
34
45
  nctId: nctIdSchema.describe('NCT identifier (e.g., NCT03722472).'),
46
+ locationLimit: z
47
+ .number()
48
+ .int()
49
+ .min(0)
50
+ .max(500)
51
+ .default(10)
52
+ .describe('Max locations to render in the formatted output. 0 = unlimited. Default 10. Pairs naturally with nearLocation for narrowing a large multi-site trial.'),
53
+ outcomeLimit: z
54
+ .number()
55
+ .int()
56
+ .min(0)
57
+ .max(100)
58
+ .default(5)
59
+ .describe('Max secondary and other outcomes to render in the formatted output. 0 = unlimited. Default 5. Primary outcomes always render in full.'),
60
+ nearLocation: z
61
+ .object({
62
+ lat: z.number().min(-90).max(90).describe('Latitude in decimal degrees.'),
63
+ lon: z.number().min(-180).max(180).describe('Longitude in decimal degrees.'),
64
+ radiusMi: z.number().min(1).max(500).default(50).describe('Radius in miles. Default 50.'),
65
+ })
66
+ .optional()
67
+ .describe('Filter rendered locations to those within radius of (lat, lon) and sort by distance. Only locations with upstream coordinates are returned — most US sites carry them; international sites less reliably so. Use clinicaltrials_search_studies with geoFilter for upstream-side geographic filtering.'),
35
68
  }),
36
69
  output: z.object({
37
70
  study: z
38
71
  .record(z.string(), z.unknown())
39
72
  .describe('Full study record. Top-level keys: protocolSection (identification, status, sponsor, conditions, design, arms/interventions, outcomes, eligibility, contacts/locations), derivedSection (MeSH-normalized terms), hasResults, resultsSection, documentSection. Use clinicaltrials_get_field_definitions to explore the schema.'),
73
+ locationLimit: z
74
+ .number()
75
+ .int()
76
+ .optional()
77
+ .describe('Echo of the locationLimit input; drives format() truncation.'),
78
+ outcomeLimit: z
79
+ .number()
80
+ .int()
81
+ .optional()
82
+ .describe('Echo of the outcomeLimit input; drives format() truncation.'),
83
+ nearLocation: z
84
+ .object({
85
+ lat: z.number().describe('Latitude in decimal degrees.'),
86
+ lon: z.number().describe('Longitude in decimal degrees.'),
87
+ radiusMi: z.number().describe('Radius in miles.'),
88
+ })
89
+ .optional()
90
+ .describe('Echo of the nearLocation input; drives format() geo filter.'),
40
91
  }),
41
92
  async handler(input, ctx) {
42
93
  const service = getClinicalTrialsService();
43
94
  const study = await service.getStudy(input.nctId, ctx);
44
95
  ctx.log.info('Study fetched', { nctId: input.nctId });
45
- return { study };
96
+ return {
97
+ study,
98
+ locationLimit: input.locationLimit,
99
+ outcomeLimit: input.outcomeLimit,
100
+ ...(input.nearLocation ? { nearLocation: input.nearLocation } : {}),
101
+ };
46
102
  },
47
103
  format: (result) => {
48
104
  const s = result.study;
105
+ const locationLimit = result.locationLimit ?? 10;
106
+ const outcomeLimit = result.outcomeLimit ?? 5;
107
+ const nearLocation = result.nearLocation;
49
108
  const ps = s.protocolSection ?? {};
50
109
  const id = ps.identificationModule ?? {};
51
110
  const status = ps.statusModule ?? {};
@@ -221,24 +280,30 @@ export const getStudy = tool('clinicaltrials_get_study_record', {
221
280
  lines.push(`- **${arm.label}** (${arm.type ?? 'unknown'})${desc2}`);
222
281
  }
223
282
  }
224
- // Outcomes
283
+ // Outcomes — primaries always render in full; secondary/other honor outcomeLimit (0 = unlimited).
225
284
  const renderOutcomeList = (heading, list, limit) => {
226
285
  lines.push('');
227
- lines.push(`## ${heading}`);
228
- const shown = limit != null ? list.slice(0, limit) : list;
286
+ const cap = limit && limit > 0 ? limit : list.length;
287
+ const headerSuffix = limit != null && list.length > cap
288
+ ? ` (showing ${cap} of ${list.length}, outcomeLimit=${limit})`
289
+ : limit != null && limit === 0
290
+ ? ` (${list.length} total, outcomeLimit=0 — unlimited)`
291
+ : '';
292
+ lines.push(`## ${heading}${headerSuffix}`);
293
+ const shown = list.slice(0, cap);
229
294
  for (const o of shown) {
230
295
  lines.push(`- ${o.measure}${o.timeFrame ? ` [${o.timeFrame}]` : ''}`);
231
296
  }
232
- if (limit != null && list.length > limit) {
233
- lines.push(`... and ${list.length - limit} more`);
297
+ if (list.length > cap) {
298
+ lines.push(`... and ${list.length - cap} more`);
234
299
  }
235
300
  };
236
301
  if (outcomes.primaryOutcomes?.length)
237
302
  renderOutcomeList('Primary Outcomes', outcomes.primaryOutcomes);
238
303
  if (outcomes.secondaryOutcomes?.length)
239
- renderOutcomeList('Secondary Outcomes', outcomes.secondaryOutcomes, 5);
304
+ renderOutcomeList('Secondary Outcomes', outcomes.secondaryOutcomes, outcomeLimit);
240
305
  if (outcomes.otherOutcomes?.length)
241
- renderOutcomeList('Other Outcomes', outcomes.otherOutcomes, 5);
306
+ renderOutcomeList('Other Outcomes', outcomes.otherOutcomes, outcomeLimit);
242
307
  // Results summary stub — counts only; full data via clinicaltrials_get_study_results
243
308
  if (s.hasResults && s.resultsSection) {
244
309
  const rs = s.resultsSection;
@@ -269,20 +334,41 @@ export const getStudy = tool('clinicaltrials_get_study_record', {
269
334
  lines.push(`- ${parts.join(' | ')}`);
270
335
  }
271
336
  }
272
- // Locations
337
+ // Locations — optional geo filter, then RECRUITING-first preference, then locationLimit cap.
273
338
  if (contacts.locations?.length) {
274
339
  const locs = contacts.locations;
340
+ const cap = locationLimit > 0 ? locationLimit : locs.length;
275
341
  lines.push('');
276
- lines.push(`## Locations (${locs.length} total)`);
277
- const recruiting = locs.filter((l) => l.status === 'RECRUITING');
278
- const toShow = (recruiting.length > 0 ? recruiting : locs).slice(0, 10);
342
+ let scoped = locs;
343
+ if (nearLocation) {
344
+ const { lat, lon, radiusMi } = nearLocation;
345
+ const withGeo = locs.filter((l) => l.geoPoint != null);
346
+ const droppedNoGeo = locs.length - withGeo.length;
347
+ scoped = withGeo
348
+ .map((l) => ({ ...l, _distMi: haversineMi({ lat, lon }, l.geoPoint) }))
349
+ .filter((l) => l._distMi <= radiusMi)
350
+ .sort((a, b) => a._distMi - b._distMi);
351
+ lines.push(`## Locations (${scoped.length} within ${radiusMi} mi of ${lat.toFixed(3)},${lon.toFixed(3)} — of ${locs.length} total${droppedNoGeo > 0 ? `, ${droppedNoGeo} without coordinates skipped` : ''})`);
352
+ }
353
+ else {
354
+ const recruiting = locs.filter((l) => l.status === 'RECRUITING');
355
+ scoped = recruiting.length > 0 ? recruiting : locs;
356
+ const capNote = locationLimit === 0
357
+ ? ` — locationLimit=0 (unlimited)`
358
+ : scoped.length > cap
359
+ ? ` — showing ${cap}, locationLimit=${locationLimit}`
360
+ : '';
361
+ lines.push(`## Locations (${locs.length} total${capNote})`);
362
+ }
363
+ const toShow = scoped.slice(0, cap);
279
364
  for (const loc of toShow) {
280
365
  const parts = [loc.facility, loc.city, loc.state, loc.country].filter(Boolean);
281
366
  const statusNote = loc.status ? ` [${loc.status}]` : '';
282
- lines.push(`- ${parts.join(', ')}${statusNote}`);
367
+ const distNote = loc._distMi != null ? ` (${loc._distMi.toFixed(1)} mi)` : '';
368
+ lines.push(`- ${parts.join(', ')}${statusNote}${distNote}`);
283
369
  }
284
- if (locs.length > 10)
285
- lines.push(`... and ${locs.length - 10} more`);
370
+ if (scoped.length > cap)
371
+ lines.push(`... and ${scoped.length - cap} more`);
286
372
  }
287
373
  // IPD sharing
288
374
  if (ipd.ipdSharing || ipd.description || ipd.timeFrame) {
@@ -329,6 +415,15 @@ export const getStudy = tool('clinicaltrials_get_study_record', {
329
415
  lines.push(`- See also: ${link.label ?? link.url}${link.url ? ` — ${link.url}` : ''}`);
330
416
  }
331
417
  }
418
+ // Render-settings footer guarantees every output field appears in the
419
+ // text surface (format-parity), even when the conditional location/outcome
420
+ // sections aren't reached for a sparse study record.
421
+ const settingsParts = [`locationLimit=${locationLimit}`, `outcomeLimit=${outcomeLimit}`];
422
+ if (nearLocation) {
423
+ settingsParts.push(`nearLocation=(lat=${nearLocation.lat}, lon=${nearLocation.lon}, radiusMi=${nearLocation.radiusMi})`);
424
+ }
425
+ lines.push('');
426
+ lines.push(`*Rendering: ${settingsParts.join(', ')}*`);
332
427
  return [{ type: 'text', text: lines.join('\n') }];
333
428
  },
334
429
  });
package/dist/mcp-server/tools/definitions/get-study.tool.js.map CHANGED
@@ -1 +1 @@
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1
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package/dist/mcp-server/tools/definitions/search-studies.tool.d.ts CHANGED
@@ -38,8 +38,13 @@ export declare const searchStudies: import("@cyanheads/mcp-ts-core").ToolDefinit
38
38
  }, {
39
39
  readonly reason: "field_invalid";
40
40
  readonly code: JsonRpcErrorCode.ValidationError;
41
- readonly when: "A field name in the fields parameter is invalid (often a module name instead of a piece name).";
41
+ readonly when: "A field name in the fields parameter or AREA[] expression is invalid (often a module name instead of a piece name).";
42
42
  readonly recovery: "Call clinicaltrials_get_field_definitions to browse the field tree; use PascalCase piece names like OverallStatus, Phase, or StudyType.";
43
+ }, {
44
+ readonly reason: "query_parse_error";
45
+ readonly code: JsonRpcErrorCode.ValidationError;
46
+ readonly when: "A free-text query or advancedFilter expression uses syntax the upstream Essie parser rejects — typically a reserved character ([, ], (, ), or comma) in a query/conditionQuery/etc. value.";
47
+ readonly recovery: "Field-scoped search uses advancedFilter with AREA[FieldName]value (call clinicaltrials_get_field_definitions to look up the right FieldName); free-text fields (query, conditionQuery, etc.) take plain words plus AND, OR, NOT — brackets, parentheses, and commas are reserved by the upstream parser.";
43
48
  }, {
44
49
  readonly reason: "rate_limited";
45
50
  readonly code: JsonRpcErrorCode.RateLimited;
package/dist/mcp-server/tools/definitions/search-studies.tool.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"search-studies.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/search-studies.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAsBjE,eAAO,MAAM,aAAa;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GAmSxB,CAAC"}
1
+ {"version":3,"file":"search-studies.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/search-studies.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAsBjE,eAAO,MAAM,aAAa;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GA+TxB,CAAC"}
package/dist/mcp-server/tools/definitions/search-studies.tool.js CHANGED
@@ -38,9 +38,15 @@ export const searchStudies = tool('clinicaltrials_search_studies', {
38
38
  {
39
39
  reason: 'field_invalid',
40
40
  code: JsonRpcErrorCode.ValidationError,
41
- when: 'A field name in the fields parameter is invalid (often a module name instead of a piece name).',
41
+ when: 'A field name in the fields parameter or AREA[] expression is invalid (often a module name instead of a piece name).',
42
42
  recovery: RECOVERY_HINTS.field_invalid,
43
43
  },
44
+ {
45
+ reason: 'query_parse_error',
46
+ code: JsonRpcErrorCode.ValidationError,
47
+ when: 'A free-text query or advancedFilter expression uses syntax the upstream Essie parser rejects — typically a reserved character ([, ], (, ), or comma) in a query/conditionQuery/etc. value.',
48
+ recovery: RECOVERY_HINTS.query_parse_error,
49
+ },
44
50
  {
45
51
  reason: 'rate_limited',
46
52
  code: JsonRpcErrorCode.RateLimited,
@@ -50,22 +56,34 @@ export const searchStudies = tool('clinicaltrials_search_studies', {
50
56
  },
51
57
  ],
52
58
  input: z.object({
53
- query: z.string().optional().describe('General full-text search across all fields.'),
59
+ query: z
60
+ .string()
61
+ .optional()
62
+ .describe('General free-text search across all fields. Plain words plus AND, OR, NOT only — brackets, parentheses, and commas are reserved by the upstream Essie parser and will fail. For field-scoped searches, use the dedicated *Query parameters (conditionQuery, interventionQuery, etc.) or advancedFilter with AREA[FieldName]value.'),
54
63
  conditionQuery: z
55
64
  .string()
56
65
  .optional()
57
- .describe('Condition/disease-specific search. E.g., "Type 2 Diabetes", "non-small cell lung cancer".'),
66
+ .describe('Condition/disease-specific search. E.g., "Type 2 Diabetes", "non-small cell lung cancer". Plain words plus AND/OR/NOT only — reserved chars: [ ] ( ) ,'),
58
67
  interventionQuery: z
59
68
  .string()
60
69
  .optional()
61
- .describe('Intervention/treatment search. E.g., "pembrolizumab", "cognitive behavioral therapy".'),
70
+ .describe('Intervention/treatment search. E.g., "pembrolizumab", "cognitive behavioral therapy". Plain words plus AND/OR/NOT only — reserved chars: [ ] ( ) ,'),
62
71
  locationQuery: z
63
72
  .string()
64
73
  .optional()
65
- .describe('Location search — city, state, country, or facility name.'),
66
- sponsorQuery: z.string().optional().describe('Sponsor/collaborator name search.'),
67
- titleQuery: z.string().optional().describe('Search within study titles and acronyms only.'),
68
- outcomeQuery: z.string().optional().describe('Search within outcome measure fields.'),
74
+ .describe('Location search — city, state, country, or facility name. Plain words plus AND/OR/NOT only — reserved chars: [ ] ( ) ,'),
75
+ sponsorQuery: z
76
+ .string()
77
+ .optional()
78
+ .describe('Sponsor/collaborator name search. Plain words plus AND/OR/NOT only — reserved chars: [ ] ( ) ,'),
79
+ titleQuery: z
80
+ .string()
81
+ .optional()
82
+ .describe('Search within study titles and acronyms only. Plain words plus AND/OR/NOT only — reserved chars: [ ] ( ) ,'),
83
+ outcomeQuery: z
84
+ .string()
85
+ .optional()
86
+ .describe('Search within outcome measure fields. Plain words plus AND/OR/NOT only — reserved chars: [ ] ( ) ,'),
69
87
  statusFilter: z
70
88
  .union([
71
89
  z.string().describe('A single status value.'),
package/dist/mcp-server/tools/definitions/search-studies.tool.js.map CHANGED
@@ -1 +1 @@
1
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+ 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package/dist/mcp-server/tools/utils/recovery-hints.d.ts CHANGED
@@ -10,6 +10,7 @@ export declare const RECOVERY_HINTS: {
10
10
  readonly study_not_found: "Verify the NCT ID at clinicaltrials.gov or call clinicaltrials_search_studies to discover a valid identifier.";
11
11
  readonly ids_not_found: "Verify each NCT ID exists at clinicaltrials.gov, or call clinicaltrials_search_studies first to discover valid identifiers.";
12
12
  readonly field_invalid: "Call clinicaltrials_get_field_definitions to browse the field tree; use PascalCase piece names like OverallStatus, Phase, or StudyType.";
13
+ readonly query_parse_error: "Field-scoped search uses advancedFilter with AREA[FieldName]value (call clinicaltrials_get_field_definitions to look up the right FieldName); free-text fields (query, conditionQuery, etc.) take plain words plus AND, OR, NOT — brackets, parentheses, and commas are reserved by the upstream parser.";
13
14
  readonly path_not_found: "Call clinicaltrials_get_field_definitions with no path to see top-level sections.";
14
15
  readonly rate_limited: "ClinicalTrials.gov rate-limited the request after several retries; wait about a minute before trying again.";
15
16
  };
package/dist/mcp-server/tools/utils/recovery-hints.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"recovery-hints.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/utils/recovery-hints.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,eAAO,MAAM,cAAc;;;;;;CAWjB,CAAC"}
1
+ {"version":3,"file":"recovery-hints.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/utils/recovery-hints.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,eAAO,MAAM,cAAc;;;;;;;CAajB,CAAC"}
package/dist/mcp-server/tools/utils/recovery-hints.js CHANGED
@@ -10,6 +10,7 @@ export const RECOVERY_HINTS = {
10
10
  study_not_found: 'Verify the NCT ID at clinicaltrials.gov or call clinicaltrials_search_studies to discover a valid identifier.',
11
11
  ids_not_found: 'Verify each NCT ID exists at clinicaltrials.gov, or call clinicaltrials_search_studies first to discover valid identifiers.',
12
12
  field_invalid: 'Call clinicaltrials_get_field_definitions to browse the field tree; use PascalCase piece names like OverallStatus, Phase, or StudyType.',
13
+ query_parse_error: 'Field-scoped search uses advancedFilter with AREA[FieldName]value (call clinicaltrials_get_field_definitions to look up the right FieldName); free-text fields (query, conditionQuery, etc.) take plain words plus AND, OR, NOT — brackets, parentheses, and commas are reserved by the upstream parser.',
13
14
  path_not_found: 'Call clinicaltrials_get_field_definitions with no path to see top-level sections.',
14
15
  rate_limited: 'ClinicalTrials.gov rate-limited the request after several retries; wait about a minute before trying again.',
15
16
  };
package/dist/mcp-server/tools/utils/recovery-hints.js.map CHANGED
@@ -1 +1 @@
1
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1
+ {"version":3,"file":"recovery-hints.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/utils/recovery-hints.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,MAAM,CAAC,MAAM,cAAc,GAAG;IAC5B,eAAe,EACb,+GAA+G;IACjH,aAAa,EACX,6HAA6H;IAC/H,aAAa,EACX,yIAAyI;IAC3I,iBAAiB,EACf,0SAA0S;IAC5S,cAAc,EACZ,mFAAmF;IACrF,YAAY,EACV,6GAA6G;CACvG,CAAC"}
package/dist/services/clinical-trials/clinical-trials-service.d.ts CHANGED
@@ -43,6 +43,14 @@ export declare class ClinicalTrialsService {
43
43
  searchFieldDefinitions(query: string, limit: number, ctx: Context): Promise<FieldIndexEntry[]>;
44
44
  /** Lazy-load and memoize the flattened field index from /studies/metadata. */
45
45
  private getFieldIndex;
46
+ /**
47
+ * Apply unambiguous fixes (whitespace, case-only) to field names before
48
+ * validation. Returns the corrected list — anything still invalid falls
49
+ * through to validateFields and surfaces the structured did-you-mean error.
50
+ * Logs corrections via ctx.log.notice so operators can spot recurring LLM
51
+ * mistakes without forcing a tool-call round-trip.
52
+ */
53
+ private normalizeFields;
46
54
  /** Reject invalid field names locally with did-you-mean suggestions. */
47
55
  private validateFields;
48
56
  private buildSearchQuery;
package/dist/services/clinical-trials/clinical-trials-service.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"clinical-trials-service.d.ts","sourceRoot":"","sources":["../../../src/services/clinical-trials/clinical-trials-service.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAC;AAUtD,OAAO,EAAmB,KAAK,YAAY,EAAE,MAAM,2BAA2B,CAAC;AAC/E,OAAO,EACL,KAAK,eAAe,EAIrB,MAAM,mBAAmB,CAAC;AAC3B,OAAO,KAAK,EACV,SAAS,EACT,eAAe,EACf,oBAAoB,EACpB,YAAY,EACZ,KAAK,EACN,MAAM,YAAY,CAAC;AAepB,kGAAkG;AAClG,MAAM,WAAW,4BAA4B;IAC3C,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,YAAY,CAAC,EAAE,MAAM,CAAC;IACtB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB;;;;OAIG;IACH,qBAAqB,CAAC,EAAE,OAAO,CAAC;CACjC;AAED,qBAAa,qBAAqB;IAChC,OAAO,CAAC,QAAQ,CAAC,OAAO,CAAS;IACjC,OAAO,CAAC,QAAQ,CAAC,SAAS,CAAS;IACnC,OAAO,CAAC,QAAQ,CAAC,WAAW,CAAS;IACrC,OAAO,CAAC,QAAQ,CAAC,UAAU,CAAS;IACpC,OAAO,CAAC,QAAQ,CAAC,aAAa,CAAS;IACvC,OAAO,CAAC,QAAQ,CAAC,YAAY,CAAS;IACtC,OAAO,CAAC,QAAQ,CAAC,qBAAqB,CAAU;IAChD,OAAO,CAAC,aAAa,CAAK;IAC1B,OAAO,CAAC,iBAAiB,CAEX;gBAEF,MAAM,EAAE,YAAY,EAAE,OAAO,GAAE,4BAAiC;IAU5E,2EAA2E;IACrE,aAAa,CAAC,MAAM,EAAE,YAAY,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,oBAAoB,CAAC;IAStF,sCAAsC;IACtC,QAAQ,CAAC,KAAK,EAAE,MAAM,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,KAAK,CAAC;IAKrD,8GAA8G;IACxG,eAAe,CAAC,MAAM,EAAE,MAAM,EAAE,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,KAAK,EAAE,CAAC;IAevE,iEAAiE;IACjE,WAAW,CAAC,kBAAkB,EAAE,OAAO,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,SAAS,EAAE,CAAC;IAO5E,2DAA2D;IACrD,cAAc,CAAC,MAAM,EAAE,MAAM,EAAE,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,eAAe,EAAE,CAAC;IAsChF,wFAAwF;IAClF,sBAAsB,CAC1B,KAAK,EAAE,MAAM,EACb,KAAK,EAAE,MAAM,EACb,GAAG,EAAE,OAAO,GACX,OAAO,CAAC,eAAe,EAAE,CAAC;IAU7B,8EAA8E;IAC9E,OAAO,CAAC,aAAa;IAmBrB,wEAAwE;YAC1D,cAAc;IAwC5B,OAAO,CAAC,gBAAgB;YA+BV,QAAQ;YAMR,SAAS;CA4IxB;AAQD,0EAA0E;AAC1E,wBAAgB,yBAAyB,IAAI,IAAI,CAEhD;AAED,2DAA2D;AAC3D,wBAAgB,wBAAwB,IAAI,qBAAqB,CAMhE"}
1
+ {"version":3,"file":"clinical-trials-service.d.ts","sourceRoot":"","sources":["../../../src/services/clinical-trials/clinical-trials-service.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAC;AAUtD,OAAO,EAAmB,KAAK,YAAY,EAAE,MAAM,2BAA2B,CAAC;AAC/E,OAAO,EACL,KAAK,eAAe,EAIrB,MAAM,mBAAmB,CAAC;AAC3B,OAAO,KAAK,EACV,SAAS,EACT,eAAe,EACf,oBAAoB,EACpB,YAAY,EACZ,KAAK,EACN,MAAM,YAAY,CAAC;AAepB,kGAAkG;AAClG,MAAM,WAAW,4BAA4B;IAC3C,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,YAAY,CAAC,EAAE,MAAM,CAAC;IACtB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB;;;;OAIG;IACH,qBAAqB,CAAC,EAAE,OAAO,CAAC;CACjC;AAED,qBAAa,qBAAqB;IAChC,OAAO,CAAC,QAAQ,CAAC,OAAO,CAAS;IACjC,OAAO,CAAC,QAAQ,CAAC,SAAS,CAAS;IACnC,OAAO,CAAC,QAAQ,CAAC,WAAW,CAAS;IACrC,OAAO,CAAC,QAAQ,CAAC,UAAU,CAAS;IACpC,OAAO,CAAC,QAAQ,CAAC,aAAa,CAAS;IACvC,OAAO,CAAC,QAAQ,CAAC,YAAY,CAAS;IACtC,OAAO,CAAC,QAAQ,CAAC,qBAAqB,CAAU;IAChD,OAAO,CAAC,aAAa,CAAK;IAC1B,OAAO,CAAC,iBAAiB,CAMX;gBAEF,MAAM,EAAE,YAAY,EAAE,OAAO,GAAE,4BAAiC;IAU5E,2EAA2E;IACrE,aAAa,CAAC,MAAM,EAAE,YAAY,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,oBAAoB,CAAC;IAWtF,sCAAsC;IACtC,QAAQ,CAAC,KAAK,EAAE,MAAM,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,KAAK,CAAC;IAKrD,8GAA8G;IACxG,eAAe,CAAC,MAAM,EAAE,MAAM,EAAE,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,KAAK,EAAE,CAAC;IAevE,iEAAiE;IACjE,WAAW,CAAC,kBAAkB,EAAE,OAAO,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,SAAS,EAAE,CAAC;IAO5E,2DAA2D;IACrD,cAAc,CAAC,MAAM,EAAE,MAAM,EAAE,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,eAAe,EAAE,CAAC;IAuChF,wFAAwF;IAClF,sBAAsB,CAC1B,KAAK,EAAE,MAAM,EACb,KAAK,EAAE,MAAM,EACb,GAAG,EAAE,OAAO,GACX,OAAO,CAAC,eAAe,EAAE,CAAC;IAU7B,8EAA8E;IAC9E,OAAO,CAAC,aAAa;IAoCrB;;;;;;OAMG;YACW,eAAe;IA+B7B,wEAAwE;YAC1D,cAAc;IAwC5B,OAAO,CAAC,gBAAgB;YA+BV,QAAQ;YAMR,SAAS;CA6JxB;AAQD,0EAA0E;AAC1E,wBAAgB,yBAAyB,IAAI,IAAI,CAEhD;AAED,2DAA2D;AAC3D,wBAAgB,wBAAwB,IAAI,qBAAqB,CAMhE"}
package/dist/services/clinical-trials/clinical-trials-service.js CHANGED
@@ -40,7 +40,9 @@ export class ClinicalTrialsService {
40
40
  /** Search studies with query, filters, pagination, and field selection. */
41
41
  async searchStudies(params, ctx) {
42
42
  if (this.validateFieldsLocally && params.fields?.length) {
43
- await this.validateFields(params.fields, ctx);
43
+ const normalized = await this.normalizeFields(params.fields, ctx);
44
+ await this.validateFields(normalized, ctx);
45
+ params = { ...params, fields: normalized };
44
46
  }
45
47
  const q = this.buildSearchQuery(params);
46
48
  ctx.log.debug('searchStudies', { paramKeys: Object.keys(q) });
@@ -75,6 +77,7 @@ export class ClinicalTrialsService {
75
77
  async getFieldValues(fields, ctx) {
76
78
  ctx.log.debug('getFieldValues', { fields });
77
79
  if (this.validateFieldsLocally) {
80
+ fields = await this.normalizeFields(fields, ctx);
78
81
  await this.validateFields(fields, ctx);
79
82
  }
80
83
  try {
@@ -116,8 +119,24 @@ export class ClinicalTrialsService {
116
119
  const tree = await this.getMetadata(false, ctx);
117
120
  const entries = flattenMetadata(tree);
118
121
  const pieceSet = new Set(entries.map((e) => e.piece));
119
- ctx.log.debug('Field index built', { entryCount: entries.length });
120
- return { entries, pieceSet };
122
+ // Case-fold index — skip any lowered form that collides across canonicals
123
+ // so normalization stays ambiguity-free.
124
+ const lowerCounts = new Map();
125
+ for (const p of pieceSet) {
126
+ const lp = p.toLowerCase();
127
+ lowerCounts.set(lp, (lowerCounts.get(lp) ?? 0) + 1);
128
+ }
129
+ const caseFold = new Map();
130
+ for (const p of pieceSet) {
131
+ const lp = p.toLowerCase();
132
+ if (lowerCounts.get(lp) === 1)
133
+ caseFold.set(lp, p);
134
+ }
135
+ ctx.log.debug('Field index built', {
136
+ entryCount: entries.length,
137
+ caseFoldable: caseFold.size,
138
+ });
139
+ return { entries, pieceSet, caseFold };
121
140
  })().catch((err) => {
122
141
  // Reset on failure so the next call can retry the metadata fetch
123
142
  this.fieldIndexPromise = undefined;
@@ -126,6 +145,45 @@ export class ClinicalTrialsService {
126
145
  }
127
146
  return this.fieldIndexPromise;
128
147
  }
148
+ /**
149
+ * Apply unambiguous fixes (whitespace, case-only) to field names before
150
+ * validation. Returns the corrected list — anything still invalid falls
151
+ * through to validateFields and surfaces the structured did-you-mean error.
152
+ * Logs corrections via ctx.log.notice so operators can spot recurring LLM
153
+ * mistakes without forcing a tool-call round-trip.
154
+ */
155
+ async normalizeFields(fields, ctx) {
156
+ let pieceSet;
157
+ let caseFold;
158
+ try {
159
+ ({ pieceSet, caseFold } = await this.getFieldIndex(ctx));
160
+ }
161
+ catch {
162
+ // Fall through silently — validateFields runs next and emits the
163
+ // metadata-unavailable warning + fail-open behavior on the same failure.
164
+ return fields;
165
+ }
166
+ const corrections = [];
167
+ const normalized = fields.map((f) => {
168
+ if (pieceSet.has(f))
169
+ return f;
170
+ const trimmed = f.trim();
171
+ if (trimmed !== f && pieceSet.has(trimmed)) {
172
+ corrections.push({ from: f, to: trimmed });
173
+ return trimmed;
174
+ }
175
+ const folded = caseFold.get(trimmed.toLowerCase());
176
+ if (folded) {
177
+ corrections.push({ from: f, to: folded });
178
+ return folded;
179
+ }
180
+ return f;
181
+ });
182
+ if (corrections.length > 0) {
183
+ ctx.log.notice('Field names auto-corrected', { corrections });
184
+ }
185
+ return normalized;
186
+ }
129
187
  /** Reject invalid field names locally with did-you-mean suggestions. */
130
188
  async validateFields(fields, ctx) {
131
189
  let entries;
@@ -295,6 +353,20 @@ export class ClinicalTrialsService {
295
353
  }
296
354
  throw validationError(`Invalid request format. API response: ${text}`);
297
355
  }
356
+ // Essie parser errors share the `Error parsing query in <where>: …` prefix.
357
+ // Two shapes show up: `Unknown area name: \`X\`` (bad field in AREA[X])
358
+ // and `no viable alternative at input '… ['` (reserved char like [ ] ( ) ,
359
+ // in a free-text field).
360
+ if (text.startsWith('Error parsing query in')) {
361
+ const areaMatch = text.match(/Unknown area name:\s*`([^`]+)`/);
362
+ if (areaMatch) {
363
+ throw validationError(`${text.trim()} '${areaMatch[1]}' is not a recognized AREA[]-compatible field. Call clinicaltrials_get_field_definitions to look up valid PascalCase piece names.`, { reason: 'field_invalid', ...ctx.recoveryFor('field_invalid') });
364
+ }
365
+ throw validationError(text.trim(), {
366
+ reason: 'query_parse_error',
367
+ ...ctx.recoveryFor('query_parse_error'),
368
+ });
369
+ }
298
370
  throw validationError(text || `Bad request: ${path}`);
299
371
  }
300
372
  if (RETRYABLE_STATUS.has(res.status)) {
package/dist/services/clinical-trials/clinical-trials-service.js.map CHANGED
@@ -1 +1 @@
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package/dist/services/clinical-trials/types.d.ts CHANGED
@@ -35,6 +35,10 @@ export interface StudyLocation {
35
35
  city?: string;
36
36
  country?: string;
37
37
  facility?: string;
38
+ geoPoint?: {
39
+ lat: number;
40
+ lon: number;
41
+ };
38
42
  state?: string;
39
43
  status?: string;
40
44
  }
package/dist/services/clinical-trials/types.d.ts.map CHANGED
@@ -1 +1 @@
1
- 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package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "clinicaltrialsgov-mcp-server",
3
- "version": "2.4.8",
3
+ "version": "2.4.9",
4
4
  "mcpName": "io.github.cyanheads/clinicaltrialsgov-mcp-server",
5
5
  "description": "MCP server for the ClinicalTrials.gov v2 API. Search trials, retrieve study details and results, and match patients to eligible trials.",
6
6
  "main": "dist/index.js",
@@ -104,10 +104,10 @@
104
104
  },
105
105
  "devDependencies": {
106
106
  "@biomejs/biome": "^2.4.15",
107
- "@cloudflare/workers-types": "^4.20260516.1",
107
+ "@cloudflare/workers-types": "^4.20260521.1",
108
108
  "@types/bun": "^1.3.14",
109
- "@types/node": "^25.8.0",
110
- "@vitest/coverage-istanbul": "^4.1.6",
109
+ "@types/node": "^25.9.1",
110
+ "@vitest/coverage-istanbul": "^4.1.7",
111
111
  "depcheck": "^1.4.7",
112
112
  "fast-check": "^4.8.0",
113
113
  "husky": "^9.1.7",
@@ -116,7 +116,7 @@
116
116
  "typedoc": "^0.28.19",
117
117
  "typescript": "^6.0.3",
118
118
  "vite": "^8.0.13",
119
- "vitest": "^4.1.6"
119
+ "vitest": "^4.1.7"
120
120
  },
121
121
  "publishConfig": {
122
122
  "access": "public"