@cyanheads/brapi-mcp-server 0.7.12 → 0.7.13

package/dist/mcp-server/tools/definitions/index.d.ts

@@ -107,6 +107,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_get_study.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'study_not_found';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
@@ -160,6 +161,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_export_genotype_matrix.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'no_filters';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
@@ -228,11 +230,13 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_find_locations.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'all_filters_dropped';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
     readonly when: 'The active dialect dropped every filter the agent supplied — the upstream server does not honor any of the requested scope filters on this endpoint, so the call would silently widen to the unfiltered baseline.';
     readonly recovery: 'Drop the unsupported filters and rescope by locations, locationNames, countryCodes, locationTypes, abbreviations, or bbox — these filter paths are honored on the active dialect.';
+    readonly thrownBy: 'service';
 }], {
     readonly totalCount: import("zod").ZodNumber;
     readonly returnedCount: import("zod").ZodNumber;
@@ -289,11 +293,13 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_find_variants.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'all_filters_dropped';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
     readonly when: 'The active dialect dropped every filter the agent supplied — the upstream server does not honor any of the requested scope filters on this endpoint, so the call would silently widen to the unfiltered baseline.';
     readonly recovery: 'Drop the unsupported filters and rescope by variants, variantSets, references, or referenceName + start/end — these filter paths are honored on the active dialect.';
+    readonly thrownBy: 'service';
 }], {
     readonly totalCount: import("zod").ZodNumber;
     readonly returnedCount: import("zod").ZodNumber;
@@ -336,6 +342,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_raw_get.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'cross_origin_path';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
@@ -482,11 +489,13 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_build_phenotype_matrix.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'all_filters_dropped';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
     readonly when: 'The active dialect dropped every filter supplied — the call would silently widen to the unfiltered baseline';
     readonly recovery: 'Drop unsupported filters or use studies / germplasm / variables to scope the query to supported filter paths on the active dialect.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'no_observation_path';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ServiceUnavailable;
@@ -563,6 +572,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_server_info.';
+    readonly thrownBy: 'service';
 }], undefined> | import("@cyanheads/mcp-ts-core").ToolDefinition<import("zod").ZodObject<{
     alias: import("zod").ZodOptional<import("zod").ZodString>;
     crop: import("zod").ZodOptional<import("zod").ZodString>;
@@ -620,11 +630,13 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_find_studies.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'all_filters_dropped';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
     readonly when: 'The active dialect dropped every filter the agent supplied — the upstream server does not honor any of the requested scope filters on this endpoint, so the call would silently widen to the unfiltered baseline.';
     readonly recovery: 'Drop the unsupported filters and rescope by crop, trialTypes, seasons, programs, trials, studyNames, or active — these filter paths are honored on the active dialect.';
+    readonly thrownBy: 'service';
 }], {
     readonly totalCount: import("zod").ZodNumber;
     readonly returnedCount: import("zod").ZodNumber;
@@ -694,11 +706,13 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_find_germplasm.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'all_filters_dropped';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
     readonly when: 'The active dialect dropped every filter the agent supplied — the upstream server does not honor any of the requested scope filters on this endpoint, so the call would silently widen to the unfiltered baseline.';
     readonly recovery: 'Drop the unsupported filters and rescope by names, germplasmDbIds, germplasmPUIs, accessionNumbers, crops, synonyms, genus, or species — these filter paths are honored on the active dialect.';
+    readonly thrownBy: 'service';
 }], {
     readonly totalCount: import("zod").ZodNumber;
     readonly returnedCount: import("zod").ZodNumber;
@@ -753,6 +767,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_get_germplasm.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'germplasm_not_found';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
@@ -831,6 +846,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_walk_pedigree.';
+    readonly thrownBy: 'service';
 }], undefined> | import("@cyanheads/mcp-ts-core").ToolDefinition<import("zod").ZodObject<{
     alias: import("zod").ZodOptional<import("zod").ZodString>;
     germplasmDbId: import("zod").ZodString;
@@ -861,6 +877,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_germplasm_performance.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'germplasm_not_found';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
@@ -942,11 +959,13 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_find_variables.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'all_filters_dropped';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
     readonly when: 'The active dialect dropped every filter the agent supplied — the upstream server does not honor any of the requested scope filters on this endpoint, so the call would silently widen to the unfiltered baseline.';
     readonly recovery: 'Drop the unsupported filters and rescope by variables, traitClasses, ontologyDbIds, methodDbIds, scaleDbIds, or text — these filter paths are honored on the active dialect.';
+    readonly thrownBy: 'service';
 }], {
     readonly totalCount: import("zod").ZodNumber;
     readonly returnedCount: import("zod").ZodNumber;
@@ -1012,11 +1031,13 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_find_observations.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'all_filters_dropped';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
     readonly when: 'The active dialect dropped every filter the agent supplied — the upstream server does not honor any of the requested scope filters on this endpoint, so the call would silently widen to the unfiltered baseline.';
     readonly recovery: 'Drop the unsupported filters and rescope by germplasm, variables, observationUnits, observations, seasons, programs, or trials — these filter paths are honored on the active dialect.';
+    readonly thrownBy: 'service';
 }], {
     readonly totalCount: import("zod").ZodNumber;
     readonly returnedCount: import("zod").ZodNumber;
@@ -1079,11 +1100,13 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_find_images.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'all_filters_dropped';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
     readonly when: 'The active dialect dropped every filter the agent supplied — the upstream server does not honor any of the requested scope filters on this endpoint, so the call would silently widen to the unfiltered baseline.';
     readonly recovery: 'Drop the unsupported filters and rescope by images, observationUnits, observations, studies, descriptiveOntologyTerms, imageFileNames, or mimeTypes — these filter paths are honored on the active dialect.';
+    readonly thrownBy: 'service';
 }], {
     readonly totalCount: import("zod").ZodNumber;
     readonly returnedCount: import("zod").ZodNumber;
@@ -1135,6 +1158,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_get_image.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'images_unsupported';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
@@ -1197,6 +1221,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_find_genotype_calls.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'no_filters';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
@@ -1300,6 +1325,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_raw_search.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'search_endpoint_disabled';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
@@ -1364,6 +1390,7 @@ export declare const exportToolDefinitions: import("@cyanheads/mcp-ts-core").Too
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
     readonly when: 'filename contains path separators or traversal segments';
     readonly recovery: 'Provide a filename without "/", "\\", or ".." — leave it unset to use the default.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'mutually_exclusive_projection';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
@@ -1449,6 +1476,7 @@ export declare const writeToolDefinitions: import("@cyanheads/mcp-ts-core").Tool
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
     readonly when: 'No connection has been registered under the requested alias';
     readonly recovery: 'Run brapi_connect with this alias (or omit `alias` to use the default connection) before calling brapi_submit_observations.';
+    readonly thrownBy: 'service';
 }, {
     readonly reason: 'observations_unsupported';
     readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;

package/dist/mcp-server/tools/definitions/index.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/index.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AA4BH;;;;GAIG;AACH,eAAO,MAAM,uBAAuB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;iBAuBnC,CAAC;AAEF;;;;;GAKG;AACH,eAAO,MAAM,mBAAmB;;;;;yDAAuB,CAAC;AAExD;;;;GAIG;AACH,eAAO,MAAM,qBAAqB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;gBAAyB,CAAC;AAE5D,qEAAqE;AACrE,eAAO,MAAM,oBAAoB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;gBAA4B,CAAC"}

package/dist/services/brapi-client/brapi-client.d.ts

@@ -72,6 +72,13 @@ export declare class BrapiClient {
      * sleeps `searchPollIntervalMs` and retries until `searchPollTimeoutMs`.
      */
     getSearchResults<T>(baseUrl: string, noun: string, searchResultsDbId: string, ctx: Context, options?: BrapiRequestOptions): Promise<BrapiEnvelope<T>>;
+    /**
+     * `init.signal` lets a `withRetry` caller pass the per-attempt
+     * `RetryAttempt.signal` — `AbortSignal.any` over the caller abort and the
+     * retry deadline clock — so an expiry firing mid-attempt aborts the request
+     * already in flight instead of overshooting it. Callers outside a retry
+     * ladder omit it and fall back to the caller signal.
+     */
     private doFetch;
     private buildUrl;
     private buildHeaders;

package/dist/services/brapi-client/brapi-client.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"brapi-client.d.ts","sourceRoot":"","sources":["../../../src/services/brapi-client/brapi-client.ts"],"names":[],"mappings":"AAAA;;;;;;;;;GASG;AAEH,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAC;AACtD,OAAO,EAGL,QAAQ,EAQT,MAAM,+BAA+B,CAAC;AACvC,OAAO,KAAK,EAAE,uBAAuB,EAAE,MAAM,8BAA8B,CAAC;AAE5E,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,2BAA2B,CAAC;AAC9D,OAAO,KAAK,EACV,cAAc,EACd,aAAa,EACb,mBAAmB,EAEnB,cAAc,EACf,MAAM,YAAY,CAAC;AAGpB;;;GAGG;AACH,MAAM,MAAM,OAAO,GAAG,CACpB,GAAG,EAAE,MAAM,GAAG,GAAG,EACjB,SAAS,EAAE,MAAM,EACjB,OAAO,EAAE,OAAO,EAChB,OAAO,CAAC,EAAE,uBAAuB,KAC9B,OAAO,CAAC,QAAQ,CAAC,CAAC;AAKvB,qBAAa,WAAW;IAEpB,OAAO,CAAC,QAAQ,CAAC,YAAY;IAC7B,OAAO,CAAC,QAAQ,CAAC,OAAO;IAF1B,YACmB,YAAY,EAAE,YAAY,EAC1B,OAAO,GAAE,OAAwB,EAChD;IAEJ;;;;;;;;OAQG;IACG,GAAG,CAAC,CAAC,EACT,OAAO,EAAE,MAAM,EACf,IAAI,EAAE,MAAM,EACZ,GAAG,EAAE,OAAO,EACZ,OAAO,GAAE,mBAAwB,GAChC,OAAO,CAAC,aAAa,CAAC,CAAC,CAAC,CAAC,CAqB3B;IAED;;;;OAIG;IACH,SAAS,CACP,OAAO,EAAE,MAAM,EACf,IAAI,EAAE,MAAM,EACZ,GAAG,EAAE,OAAO,EACZ,OAAO,GAAE,mBAAmB,GAAG;QAAE,MAAM,CAAC,EAAE,MAAM,CAAA;KAAO,GACtD,OAAO,CAAC,cAAc,CAAC,CAuBzB;IAED;;;;;;OAMG;IACG,cAAc,CAAC,GAAG,EAAE,MAAM,EAAE,GAAG,EAAE,OAAO,EAAE,MAAM,SAAY,GAAG,OAAO,CAAC,cAAc,CAAC,CAU3F;IAED;;;;OAIG;IACH,UAAU,CAAC,CAAC,EACV,OAAO,EAAE,MAAM,EACf,IAAI,EAAE,MAAM,EACZ,IAAI,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EAC7B,GAAG,EAAE,OAAO,EACZ,OAAO,GAAE,mBAAwB,GAChC,OAAO,CAAC,cAAc,CAAC,CAAC,CAAC,CAAC,CAgC5B;IAED;;;;OAIG;IACH,IAAI,CAAC,CAAC,EACJ,OAAO,EAAE,MAAM,EACf,IAAI,EAAE,MAAM,EACZ,IAAI,EAAE,OAAO,EACb,GAAG,EAAE,OAAO,EACZ,OAAO,GAAE,mBAAwB,GAChC,OAAO,CAAC,aAAa,CAAC,CAAC,CAAC,CAAC,CAE3B;IAED;;;OAGG;IACH,GAAG,CAAC,CAAC,EACH,OAAO,EAAE,MAAM,EACf,IAAI,EAAE,MAAM,EACZ,IAAI,EAAE,OAAO,EACb,GAAG,EAAE,OAAO,EACZ,OAAO,GAAE,mBAAwB,GAChC,OAAO,CAAC,aAAa,CAAC,CAAC,CAAC,CAAC,CAE3B;IAED,OAAO,CAAC,QAAQ;IAoChB;;;;OAIG;IACG,gBAAgB,CAAC,CAAC,EACtB,OAAO,EAAE,MAAM,EACf,IAAI,EAAE,MAAM,EACZ,iBAAiB,EAAE,MAAM,EACzB,GAAG,EAAE,OAAO,EACZ,OAAO,GAAE,mBAAwB,GAChC,OAAO,CAAC,aAAa,CAAC,CAAC,CAAC,CAAC,CAqC3B;IAED;;;;;;OAMG;YACW,OAAO;IAuBrB,OAAO,CAAC,QAAQ;IAiBhB,OAAO,CAAC,YAAY;YAQN,aAAa;CAyB5B;AAoGD;;;;GAIG;AACH,wBAAgB,mBAAmB,CAAC,GAAG,EAAE,OAAO,GAAG,GAAG,IAAI,QAAQ,CAQjE;AAoCD,wBAAgB,eAAe,CAAC,YAAY,EAAE,YAAY,EAAE,OAAO,CAAC,EAAE,OAAO,GAAG,IAAI,CAEnF;AAED,wBAAgB,cAAc,IAAI,WAAW,CAK5C;AAED,yEAAyE;AACzE,wBAAgB,gBAAgB,IAAI,IAAI,CAEvC"}

package/dist/services/brapi-client/brapi-client.js

@@ -30,8 +30,8 @@ export class BrapiClient {
      */
     async get(baseUrl, path, ctx, options = {}) {
         const params = applyDialectToParams(path, options);
-        return await withRetry(async () => {
-            const response = await this.doFetch(this.buildUrl(baseUrl, path, params), ctx, { method: 'GET', headers: this.buildHeaders(options.auth) }, options.timeoutMs, options.singleton === true);
+        return await withRetry(async ({ signal }) => {
+            const response = await this.doFetch(this.buildUrl(baseUrl, path, params), ctx, { method: 'GET', headers: this.buildHeaders(options.auth), signal }, options.timeoutMs, options.singleton === true);
             return this.parseEnvelope(response);
         }, {
             operation: `brapi.get ${path}`,
@@ -47,10 +47,10 @@ export class BrapiClient {
      * overrides the default `image/*`.
      */
     getBinary(baseUrl, path, ctx, options = {}) {
-        return withRetry(async () => {
+        return withRetry(async ({ signal }) => {
             const headers = this.buildHeaders(options.auth);
             headers.Accept = options.accept ?? 'image/*';
-            const response = await this.doFetch(this.buildUrl(baseUrl, path, options.params), ctx, { method: 'GET', headers }, options.timeoutMs);
+            const response = await this.doFetch(this.buildUrl(baseUrl, path, options.params), ctx, { method: 'GET', headers, signal }, options.timeoutMs);
             const buffer = await response.arrayBuffer();
             const contentType = response.headers.get('Content-Type') ?? 'application/octet-stream';
             return { bytes: new Uint8Array(buffer), contentType };
@@ -81,7 +81,7 @@ export class BrapiClient {
      * `searchResultsDbId` the caller must poll via `getSearchResults`.
      */
     postSearch(baseUrl, noun, body, ctx, options = {}) {
-        return withRetry(async () => {
+        return withRetry(async ({ signal }) => {
             const response = await this.doFetch(this.buildUrl(baseUrl, `/search/${noun}`), ctx, {
                 method: 'POST',
                 headers: {
@@ -89,6 +89,7 @@ export class BrapiClient {
                     'Content-Type': 'application/json',
                 },
                 body: JSON.stringify(body),
+                signal,
             }, options.timeoutMs);
             const envelope = await this.parseEnvelope(response);
             const asyncId = extractAsyncId(envelope);
@@ -120,7 +121,7 @@ export class BrapiClient {
         return this.sendJson('PUT', baseUrl, path, body, ctx, options);
     }
     sendJson(method, baseUrl, path, body, ctx, options = {}) {
-        return withRetry(async () => {
+        return withRetry(async ({ signal }) => {
             const response = await this.doFetch(this.buildUrl(baseUrl, path, options.params), ctx, {
                 method,
                 headers: {
@@ -128,6 +129,7 @@ export class BrapiClient {
                     'Content-Type': 'application/json',
                 },
                 body: JSON.stringify(body),
+                signal,
             }, options.timeoutMs);
             return this.parseEnvelope(response);
         }, {
@@ -166,11 +168,18 @@ export class BrapiClient {
             return this.parseEnvelope(response);
         }
     }
+    /**
+     * `init.signal` lets a `withRetry` caller pass the per-attempt
+     * `RetryAttempt.signal` — `AbortSignal.any` over the caller abort and the
+     * retry deadline clock — so an expiry firing mid-attempt aborts the request
+     * already in flight instead of overshooting it. Callers outside a retry
+     * ladder omit it and fall back to the caller signal.
+     */
     async doFetch(url, ctx, init, timeoutMs, singleton = false) {
         try {
             return await this.fetcher(url, timeoutMs ?? this.serverConfig.requestTimeoutMs, ctx, {
                 ...init,
-                signal: ctx.signal,
+                signal: init.signal ?? ctx.signal,
                 rejectPrivateIPs: !this.serverConfig.allowPrivateIps,
                 // Every singleton caller catches the not-found and reports it as an
                 // absent record, so a 404 here is an outcome, not an incident — log it

package/dist/services/brapi-client/brapi-client.js.map

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package/manifest.json

@@ -1,7 +1,7 @@
 {
   "manifest_version": "0.3",
   "name": "brapi-mcp-server",
-  "version": "0.7.12",
+  "version": "0.7.13",
   "description": "Collaborative BrAPI v2.1 MCP workspace — studies, germplasm, genotypes across Breedbase, T3, more.",
   "author": {
     "name": "cyanheads",

package/package.json

@@ -1,7 +1,7 @@
 {
   "name": "@cyanheads/brapi-mcp-server",
   "mcpName": "io.github.cyanheads/brapi-mcp-server",
-  "version": "0.7.12",
+  "version": "0.7.13",
   "description": "A collaborative BrAPI v2.1 workspace for multi-agent research via MCP. Search studies, germplasm, genotypes, & more - across Breedbase, T3, Sweetpotatobase, & any BrAPI v2-compliant server.",
   "author": "Casey Hand <casey@caseyjhand.com> (https://caseyjhand.com)",
   "type": "module",
@@ -16,6 +16,7 @@
     "README.md",
     "LICENSE",
     "CLAUDE.md",
+    "AGENTS.md",
     "Dockerfile",
     "manifest.json",
     "server.json"
@@ -72,6 +73,16 @@
   "bugs": {
     "url": "https://github.com/cyanheads/brapi-mcp-server/issues"
   },
+  "funding": [
+    {
+      "type": "github",
+      "url": "https://github.com/sponsors/cyanheads"
+    },
+    {
+      "type": "buy_me_a_coffee",
+      "url": "https://www.buymeacoffee.com/cyanheads"
+    }
+  ],
   "license": "Apache-2.0",
   "engines": {
     "node": ">=24.0.0",
@@ -82,19 +93,19 @@
     "access": "public"
   },
   "dependencies": {
-    "@cyanheads/mcp-ts-core": "^0.13.0",
-    "@duckdb/node-api": "^1.5.5-r.4",
+    "@cyanheads/mcp-ts-core": "^0.13.6",
+    "@duckdb/node-api": "^1.5.5-r.5",
     "pino-pretty": "^13.1.3",
-    "zod": "^4.6.1"
+    "zod": "^4.6.5"
   },
   "devDependencies": {
-    "@biomejs/biome": "^2.5.13",
+    "@biomejs/biome": "^2.5.14",
     "@socketsecurity/bun-security-scanner": "^1.1.2",
     "@types/node": "^26.5.1",
     "depcheck": "^1.4.7",
     "ignore": "^7.0.9",
-    "tsc-alias": "^1.9.4",
+    "tsc-alias": "^1.9.5",
     "typescript": "^7.0.2",
-    "vitest": "^5.0.0"
+    "vitest": "^5.0.1"
   }
 }

package/server.json

@@ -6,14 +6,14 @@
     "url": "https://github.com/cyanheads/brapi-mcp-server",
     "source": "github"
   },
-  "version": "0.7.12",
+  "version": "0.7.13",
   "packages": [
     {
       "registryType": "npm",
       "registryBaseUrl": "https://registry.npmjs.org",
       "identifier": "@cyanheads/brapi-mcp-server",
       "runtimeHint": "bun",
-      "version": "0.7.12",
+      "version": "0.7.13",
       "packageArguments": [
         { "type": "positional", "value": "run" },
         { "type": "positional", "value": "start:stdio" }
@@ -56,7 +56,7 @@
       "registryBaseUrl": "https://registry.npmjs.org",
       "identifier": "@cyanheads/brapi-mcp-server",
       "runtimeHint": "bun",
-      "version": "0.7.12",
+      "version": "0.7.13",
       "packageArguments": [
         { "type": "positional", "value": "run" },
         { "type": "positional", "value": "start:http" }
@@ -123,5 +123,11 @@
         "url": "http://localhost:3010/mcp"
       }
     }
+  ],
+  "remotes": [
+    {
+      "type": "streamable-http",
+      "url": "https://brapi.caseyjhand.com/mcp"
+    }
   ]
 }