npm - @cyanheads/brapi-mcp-server - Versions diffs - 0.4.5 → 0.4.7 - Mend

@cyanheads/brapi-mcp-server 0.4.5 → 0.4.7

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Files changed (85) hide show

package/CLAUDE.md CHANGED Viewed

@@ -1,7 +1,7 @@
 # Agent Protocol
 **Server:** brapi-mcp-server
-**Version:** 0.4.5
+**Version:** 0.4.7
 **Framework:** [@cyanheads/mcp-ts-core](https://www.npmjs.com/package/@cyanheads/mcp-ts-core)
 > **Read the framework docs first:** `node_modules/@cyanheads/mcp-ts-core/CLAUDE.md` contains the full API reference — builders, Context, error codes, exports, patterns. This file covers server-specific conventions only.

package/README.md CHANGED Viewed

@@ -7,7 +7,7 @@
 <div align="center">
-[![npm](https://img.shields.io/npm/v/@cyanheads/brapi-mcp-server?style=flat-square&logo=npm&logoColor=white)](https://www.npmjs.com/package/@cyanheads/brapi-mcp-server) [![Version](https://img.shields.io/badge/Version-0.4.5-blue.svg?style=flat-square)](./CHANGELOG.md) [![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) [![MCP SDK](https://img.shields.io/badge/MCP%20SDK-^1.29.0-green.svg?style=flat-square)](https://modelcontextprotocol.io/)
+[![npm](https://img.shields.io/npm/v/@cyanheads/brapi-mcp-server?style=flat-square&logo=npm&logoColor=white)](https://www.npmjs.com/package/@cyanheads/brapi-mcp-server) [![Version](https://img.shields.io/badge/Version-0.4.7-blue.svg?style=flat-square)](./CHANGELOG.md) [![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) [![MCP SDK](https://img.shields.io/badge/MCP%20SDK-^1.29.0-green.svg?style=flat-square)](https://modelcontextprotocol.io/)
 [![License](https://img.shields.io/badge/License-Apache%202.0-orange.svg?style=flat-square)](./LICENSE) [![TypeScript](https://img.shields.io/badge/TypeScript-^6.0.3-3178C6.svg?style=flat-square)](https://www.typescriptlang.org/) [![Bun](https://img.shields.io/badge/Bun-v1.3.11-blueviolet.svg?style=flat-square)](https://bun.sh/) [![Status](https://img.shields.io/badge/Status-Beta-yellow.svg?style=flat-square)](./CHANGELOG.md)

package/changelog/0.4.x/0.4.6.md ADDED Viewed

@@ -0,0 +1,26 @@
+---
+summary: "BrAPI Test Server v2.0 dialect, shared singularizing engine, and typed all_filters_dropped guard across find_* tools."
+breaking: false
+---
+# 0.4.6 — 2026-05-01
+Real-server dialect work. The BrAPI Community Test Server advertises v2.1 but its GET list endpoints honor only the older v2.0 singular filter names — `studyDbIds` is silently ignored, `studyDbId` filters correctly. Two Issues surfaced from live probing: `find_observations` returned the unfiltered set when scoped by study, and `get_germplasm`'s studyCount probe returned the global studies total instead of the per-germplasm count. Both root in the same v2.0/v2.1 mismatch. This release adds a real `brapi-test` dialect, factors the SGN/Breedbase translation engine into a shared module, and wires a typed `all_filters_dropped` failure across the `find_*` surface so an upstream that drops every supplied scope filter no longer silently widens to the unfiltered baseline.
+## Added
+- **`brapi-test` dialect** — was a stub that passed filters through verbatim; now translates v2.1 plurals to v2.0 singulars on `/studies`, `/germplasm`, `/observations`, `/locations`, `/variables`, `/images`, `/variants`, `/trials`, `/programs`. Drops `searchText` on `/germplasm` and `observationLevel(s)` + `studyDbId(s)` on `/observations` (broken upstream in both forms — verified empirically). POST `/search/{noun}` routes are NOT marked disabled — the test server serves them correctly with v2.1 plurals, so multi-value queries can still escalate to `/search`.
+- **`createSingularizingDialect` factory** — `src/services/brapi-dialect/singularizing-dialect.ts`. Generic engine for dialects that translate plural BrAPI v2.1 filter names to v2.0 singulars, drop blacklisted keys, and downcast multi-value arrays to the first element with a loud warning. Used by both the SGN/Breedbase family and the BrAPI Community Test Server — the engine is shared, only the per-server data (mapping, drop list, disabled-search list, notes) lives in each dialect module.
+- **Typed `all_filters_dropped` error contract** — declared on every `find_*` tool (`brapi_find_germplasm`, `brapi_find_images`, `brapi_find_locations`, `brapi_find_observations`, `brapi_find_studies`, `brapi_find_variables`, `brapi_find_variants`). When the active dialect drops every agent-supplied scope filter, the tool now throws a `ValidationError` with `data.reason = 'all_filters_dropped'`, the dropped filter list, and a per-tool recovery hint listing the supported filter paths — instead of silently widening the query to the unfiltered baseline. Bare-baseline calls (no filters supplied) are exempt.
+## Changed
+- **CassavaBase dialect refactor** — the per-endpoint translation engine moved out of `cassavabase-dialect.ts` into the shared `singularizing-dialect.ts` factory. CassavaBase now supplies only its SGN-specific data (mapping, drop list, disabled-search list, notes) and delegates the engine. No behavior change for SGN-family servers; the same plural→singular translation, search-route gating, and warning text apply.
+- **`DialectAdaptation`** now carries a structured `dropped: readonly string[]` alongside `filters` and `warnings`. Lets callers detect "agent intended to scope, dialect couldn't honor any of it" without parsing warning strings.
+- **`get_germplasm` studyCount probe** routes through the dialect adapter so per-server key translation takes effect. Previously sent `germplasmDbIds` (plural) verbatim, which the BrAPI Test Server silently ignored — the probe returned the global studies total instead of the per-germplasm count. Now sends the dialect-translated key (`germplasmDbId` on the test server, the relevant v2.0 form on SGN-family servers) and skips the probe entirely with a warning when the dialect drops the filter.
+- **`applyDialectFiltersOrFail` helper** in `src/mcp-server/tools/shared/find-helpers.ts` consolidates the dialect-apply + all-dropped-throw block that was previously duplicated 13 lines per tool across all seven `find_*` tools. ~85 lines net removed.
+## Fixed
+- **`find_observations` on the BrAPI Test Server** — `studies: ['studyN']` no longer returns the unfiltered observation set. The dialect now drops `studyDbId(s)` entirely (broken in both GET singular and POST `/search` plural forms upstream — neither shape narrows the result set), surfaces a warning, and the typed `all_filters_dropped` guard prevents the query from running unfiltered when `studies` was the only filter supplied. Agents should scope by `germplasm`, `observationUnits`, or `variables` instead — all of which DO filter correctly on the test server.
+- **`get_germplasm` studyCount on the BrAPI Test Server** — was returning the global studies total because `/studies?germplasmDbIds=X` is silently ignored upstream; now sends `germplasmDbId=X` (singular) via the dialect adapter and the cross-check confirms the filtered count differs from the unfiltered baseline.

package/changelog/0.4.x/0.4.7.md ADDED Viewed

@@ -0,0 +1,35 @@
+---
+summary: "Foundational dialect-bypass fix — every BrAPI client GET routes through the dialect adapter, with tight companion-call budgets so slow upstreams no longer 4× the response time."
+breaking: false
+---
+# 0.4.7 — 2026-05-01
+The v0.4.6 release wired the dialect adapter into the `find_*` surface and one `get_germplasm` probe. Every other call site that built GET filter params — `ReferenceDataCache` (programs / trials / locations), `get_study`'s observation / observation-unit / variable count probes, and `submit_observations`'s preflight — bypassed the dialect entirely and shipped the v2.1 plurals to the wire. On SGN-family servers (CassavaBase, Breedbase) those plurals are silently ignored: `/trials?trialDbIds=7526` returns the unfiltered set's row zero (`5CP_Kenya / trialDbId 1911`), and `/observations?studyDbIds=X` triggers a full table scan that exceeds the 30 s timeout. With the global retry budget that meant 4 × 30 s ≈ 2 minutes of waiting per failing companion, every time.
+This release pushes the dialect adapter to the `BrapiClient` edge so every GET — current and future — translates plurals to per-server singulars without each call site having to remember. Companion enrichments now run with their own tight budget (8 s timeout, 0 retries) so a slow upstream surfaces as a single warning instead of stretching the response.
+## Added
+- **`BrapiRequestOptions.dialect`** — when supplied, `BrapiClient.get` extracts the endpoint segment from the path and routes `params` through `dialect.adaptGetFilters` before serializing. Single source of truth for plural/singular translation across every call site. `raw_get` continues to opt out by omitting the field.
+- **`BrapiRequestOptions.warnings`** — sink for dialect translation warnings (downcast, dropped). Threaded through to the same `warnings[]` array the calling tool surfaces in its envelope.
+- **`BrapiRequestOptions.retryMaxAttempts`** — per-call override of the global retry budget. Companion calls set it to `0` so a slow upstream surfaces as one warning rather than 4× the per-attempt timeout.
+- **`DIALECT_ALL_DROPPED_REASON`** + `isDialectAllDropped(err)` — stable error-code constant and type guard. Companion call sites catch and convert to "skip with warning" instead of propagating; find-style call sites continue to throw via their `all_filters_dropped` typed contract.
+- **`companionRequestOptions(connection, dialect, config, warnings, params?)`** in `find-helpers` — bundles the companion-call shape (tight timeout + zero retries + dialect + warnings) so future companion sites stay consistent.
+- **`BRAPI_COMPANION_TIMEOUT_MS`** env var (default 8 s) — per-call timeout for non-critical enrichments. Falls under the existing `BRAPI_REQUEST_TIMEOUT_MS` (30 s) which still governs the main path.
+- **`observationunits` mapping** added to the `cassavabase` and `brapi-test` dialects — `studyDbIds → studyDbId` plus the rest of the cross-FK plurals so observation-unit count probes reach the wire as singulars.
+## Changed
+- **`ReferenceDataCache.fetchBatch`** threads `dialect` through to the client. On `dialect_all_filters_dropped` returns an empty Map and pushes a warning into the supplied sink — caller treats the FK as unavailable instead of receiving a page-zero row keyed off the wrong ID. Retry budget set to 0; timeout to `companionTimeoutMs`. **CassavaBase trial/program/location FK lookups now actually filter** instead of returning row zero.
+- **`brapi_get_study`** companion probes (`/observations`, `/observationunits`, `/variables`) now use `companionRequestOptions(...)` and route through the dialect. The screenshot-class failure mode is fixed: where v0.4.6 burned ~2 minutes retrying `?studyDbIds=12642` on cassavabase (silently ignored, full table scan), v0.4.7 sends `?studyDbId=12642` (15 s on cassavabase, no retry). Total wall time on the same study drops from ≥120 s to <20 s on the worst path. The companion failure mode also reverts cleanly — when the upstream is genuinely slow the call surfaces a "probe failed" warning instead of pinning the response.
+- **`brapi_submit_observations`** post-write count probe routes through the dialect with the same companion budget. `ApplyBranchSchema` gains an optional `warnings: string[]` field for connection-level diagnostics from the dialect translation.
+- **`BrapiClient.get`** is now `async` so synchronous throws from the dialect adapter (the all-dropped throw) become rejected promises rather than escaping the call stack.
+## Fixed
+- **CassavaBase trial / program / location FK lookups** no longer return wrong rows. Before: `GET /trials?trialDbIds=7526` upstream-ignored, returned `5CP_Kenya / trialDbId 1911`, ReferenceDataCache cached under the wrong key, `getTrials([7526])` returned undefined. After: dialect translates to `?trialDbId=7526`, returns the correct row, FK enrichment lands.
+- **CassavaBase observation count probe** no longer triggers a full table scan that times out. Before: `GET /observations?studyDbIds=X` ≥ 180 s (timeout × 4 retries). After: `GET /observations?studyDbId=X` ~15 s, no retry.
+- **CassavaBase observation-unit count probe** same shape, same fix — singular `studyDbId` honored, plural ignored.
+- **`get_study` response time** on cassavabase drops from ~2 min worst-case (the screenshot) to <20 s when companion endpoints are responsive, or <10 s with a single "probe failed" warning when they aren't. Companion failures no longer pin the main response.
+- **Tests** — `BrapiClient` gains 5 new specs covering dialect translation, warnings sink, all-dropped throw, raw_get passthrough, and retry override. `ReferenceDataCache` gains 3 new specs covering dialect threading, all-dropped graceful degradation, and non-dialect error propagation. `get_study` gains a cassavabase-shape end-to-end spec verifying every companion call reaches the wire as a singular key.

package/dist/config/server-config.d.ts CHANGED Viewed

@@ -24,6 +24,7 @@ declare const ServerConfigSchema: z.ZodObject<{
     retryBaseDelayMs: z.ZodDefault<z.ZodCoercedNumber<unknown>>;
     referenceCacheTtlSeconds: z.ZodDefault<z.ZodCoercedNumber<unknown>>;
     requestTimeoutMs: z.ZodDefault<z.ZodCoercedNumber<unknown>>;
+    companionTimeoutMs: z.ZodDefault<z.ZodCoercedNumber<unknown>>;
     searchPollTimeoutMs: z.ZodDefault<z.ZodCoercedNumber<unknown>>;
     searchPollIntervalMs: z.ZodDefault<z.ZodCoercedNumber<unknown>>;
     allowPrivateIps: z.ZodPipe<z.ZodDefault<z.ZodEnum<{

package/dist/config/server-config.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ {"version":3,"file":"server-config.d.ts","sourceRoot":"","sources":["../../src/config/server-config.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAG3C,QAAA,MAAM,kBAAkB;;;;;;;;;;;;;;;;;;;;;;;;;;;iBAyGtB,CAAC;AAEH,MAAM,MAAM,YAAY,GAAG,CAAC,CAAC,KAAK,CAAC,OAAO,kBAAkB,CAAC,CAAC;AAI9D,wBAAgB,eAAe,IAAI,YAAY,CAwB9C;AAED,uDAAuD;AACvD,wBAAgB,iBAAiB,IAAI,IAAI,CAExC"}

package/dist/config/server-config.js CHANGED Viewed

@@ -79,6 +79,12 @@ const ServerConfigSchema = z.object({
         .positive()
         .default(30_000)
         .describe('Per-request HTTP timeout.'),
+    companionTimeoutMs: z.coerce
+        .number()
+        .int()
+        .positive()
+        .default(8_000)
+        .describe('Tighter timeout for non-critical companion enrichments (FK lookups, count probes). Companions also bypass the retry budget so a slow upstream surfaces a warning instead of stretching the response by 4×.'),
     searchPollTimeoutMs: z.coerce
         .number()
         .int()
@@ -120,6 +126,7 @@ export function getServerConfig() {
         retryBaseDelayMs: 'BRAPI_RETRY_BASE_DELAY_MS',
         referenceCacheTtlSeconds: 'BRAPI_REFERENCE_CACHE_TTL_SECONDS',
         requestTimeoutMs: 'BRAPI_REQUEST_TIMEOUT_MS',
+        companionTimeoutMs: 'BRAPI_COMPANION_TIMEOUT_MS',
         searchPollTimeoutMs: 'BRAPI_SEARCH_POLL_TIMEOUT_MS',
         searchPollIntervalMs: 'BRAPI_SEARCH_POLL_INTERVAL_MS',
         allowPrivateIps: 'BRAPI_ALLOW_PRIVATE_IPS',

package/dist/config/server-config.js.map CHANGED Viewed

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package/dist/mcp-server/tools/definitions/brapi-find-germplasm.tool.d.ts CHANGED Viewed

@@ -7,6 +7,7 @@
  * @module mcp-server/tools/definitions/brapi-find-germplasm.tool
  */
 import { z } from '@cyanheads/mcp-ts-core';
+import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
 export declare const brapiFindGermplasm: import("@cyanheads/mcp-ts-core").ToolDefinition<z.ZodObject<{
     alias: z.ZodOptional<z.ZodString>;
     names: z.ZodOptional<z.ZodArray<z.ZodString>>;
@@ -68,5 +69,10 @@ export declare const brapiFindGermplasm: import("@cyanheads/mcp-ts-core").ToolDe
     }, z.core.$strip>>;
     warnings: z.ZodArray<z.ZodString>;
     appliedFilters: z.ZodRecord<z.ZodString, z.ZodUnknown>;
-}, z.core.$strip>, undefined>;
+}, z.core.$strip>, readonly [{
+    readonly reason: "all_filters_dropped";
+    readonly code: 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.";
+}]>;
 //# sourceMappingURL=brapi-find-germplasm.tool.d.ts.map

package/dist/mcp-server/tools/definitions/brapi-find-germplasm.tool.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"brapi-find-germplasm.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-find-germplasm.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;~~AA6IjD~~,eAAO,MAAM,kBAAkB~~;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;6BAwS7B~~,CAAC"}
1	+ {"version":3,"file":"brapi-find-germplasm.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-find-germplasm.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AA6IjE,eAAO,MAAM,kBAAkB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GAiT7B,CAAC"}

package/dist/mcp-server/tools/definitions/brapi-find-germplasm.tool.js CHANGED Viewed

@@ -7,13 +7,14 @@
  * @module mcp-server/tools/definitions/brapi-find-germplasm.tool
  */
 import { tool, z } from '@cyanheads/mcp-ts-core';
+import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
 import { getServerConfig } from '../../../config/server-config.js';
 import { getBrapiClient } from '../../../services/brapi-client/index.js';
 import { resolveDialect } from '../../../services/brapi-dialect/index.js';
 import { getCapabilityRegistry } from '../../../services/capability-registry/index.js';
 import { getDatasetStore } from '../../../services/dataset-store/index.js';
 import { DEFAULT_ALIAS, getServerRegistry } from '../../../services/server-registry/index.js';
-import { AliasInput, applyDialectFilters, asString, buildRefinementHint, checkFilterMatchRates, collectPassthroughParts, computeDistribution, DatasetHandleSchema, ExtraFiltersInput, LoadLimitInput, loadInitialFindPage, maybeSpill, mergeFilters, renderAppliedFilters, renderDatasetHandle, renderDistributions, renderFindHeader, resolveFindRoute, } from '../shared/find-helpers.js';
+import { AliasInput, applyDialectFiltersOrFail, asString, buildRefinementHint, checkFilterMatchRates, collectPassthroughParts, computeDistribution, DatasetHandleSchema, ExtraFiltersInput, LoadLimitInput, loadInitialFindPage, maybeSpill, mergeFilters, renderAppliedFilters, renderDatasetHandle, renderDistributions, renderFindHeader, resolveFindRoute, } from '../shared/find-helpers.js';
 const GermplasmRowSchema = z
     .object({
     germplasmDbId: z.string().describe('Server-side identifier for the germplasm.'),
@@ -118,6 +119,14 @@ const SERVER_TO_USER = {
 export const brapiFindGermplasm = tool('brapi_find_germplasm', {
     description: 'Find germplasm by name, synonym, accession number, PUI, crop, or free-text query. Matches across registered synonyms. Returns a dataset handle when the upstream total exceeds loadLimit.',
     annotations: { readOnlyHint: true, openWorldHint: true },
+    errors: [
+        {
+            reason: 'all_filters_dropped',
+            code: JsonRpcErrorCode.ValidationError,
+            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.',
+            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.',
+        },
+    ],
     input: z.object({
         alias: AliasInput,
         names: z.array(z.string()).optional().describe('Filter by germplasm display names.'),
@@ -164,7 +173,7 @@ export const brapiFindGermplasm = tool('brapi_find_germplasm', {
             genus: input.genus,
             species: input.species,
         }, input.extraFilters, warnings);
-        const filters = applyDialectFilters(dialect, 'germplasm', merged, warnings);
+        const filters = applyDialectFiltersOrFail(ctx, dialect, 'germplasm', merged, warnings);
         const route = resolveFindRoute({
             profile,
             dialect,

package/dist/mcp-server/tools/definitions/brapi-find-germplasm.tool.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/dist/mcp-server/tools/definitions/brapi-find-images.tool.d.ts CHANGED Viewed

@@ -7,6 +7,7 @@
  * @module mcp-server/tools/definitions/brapi-find-images.tool
  */
 import { z } from '@cyanheads/mcp-ts-core';
+import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
 export declare const brapiFindImages: import("@cyanheads/mcp-ts-core").ToolDefinition<z.ZodObject<{
     alias: z.ZodOptional<z.ZodString>;
     images: z.ZodOptional<z.ZodArray<z.ZodString>>;
@@ -61,5 +62,10 @@ export declare const brapiFindImages: import("@cyanheads/mcp-ts-core").ToolDefin
     }, z.core.$strip>>;
     warnings: z.ZodArray<z.ZodString>;
     appliedFilters: z.ZodRecord<z.ZodString, z.ZodUnknown>;
-}, z.core.$strip>, undefined>;
+}, z.core.$strip>, readonly [{
+    readonly reason: "all_filters_dropped";
+    readonly code: 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.";
+}]>;
 //# sourceMappingURL=brapi-find-images.tool.d.ts.map

package/dist/mcp-server/tools/definitions/brapi-find-images.tool.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"brapi-find-images.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-find-images.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;~~AA4HjD~~,eAAO,MAAM,eAAe~~;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;6BAoO1B~~,CAAC"}
1	+ {"version":3,"file":"brapi-find-images.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-find-images.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AA4HjE,eAAO,MAAM,eAAe;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GA6O1B,CAAC"}

package/dist/mcp-server/tools/definitions/brapi-find-images.tool.js CHANGED Viewed

@@ -7,13 +7,14 @@
  * @module mcp-server/tools/definitions/brapi-find-images.tool
  */
 import { tool, z } from '@cyanheads/mcp-ts-core';
+import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
 import { getServerConfig } from '../../../config/server-config.js';
 import { getBrapiClient } from '../../../services/brapi-client/index.js';
 import { resolveDialect } from '../../../services/brapi-dialect/index.js';
 import { getCapabilityRegistry } from '../../../services/capability-registry/index.js';
 import { getDatasetStore } from '../../../services/dataset-store/index.js';
 import { DEFAULT_ALIAS, getServerRegistry } from '../../../services/server-registry/index.js';
-import { AliasInput, applyDialectFilters, asString, buildRefinementHint, checkFilterMatchRates, collectPassthroughParts, computeDistribution, DatasetHandleSchema, ExtraFiltersInput, fkMatchCheck, LoadLimitInput, loadInitialFindPage, maybeSpill, mergeFilters, renderAppliedFilters, renderDatasetHandle, renderDistributions, renderFindHeader, resolveFindRoute, } from '../shared/find-helpers.js';
+import { AliasInput, applyDialectFiltersOrFail, asString, buildRefinementHint, checkFilterMatchRates, collectPassthroughParts, computeDistribution, DatasetHandleSchema, ExtraFiltersInput, fkMatchCheck, LoadLimitInput, loadInitialFindPage, maybeSpill, mergeFilters, renderAppliedFilters, renderDatasetHandle, renderDistributions, renderFindHeader, resolveFindRoute, } from '../shared/find-helpers.js';
 const ImageRowSchema = z
     .object({
     imageDbId: z.string().describe('Server-side identifier for the image.'),
@@ -105,6 +106,14 @@ const SERVER_TO_USER = {
 export const brapiFindImages = tool('brapi_find_images', {
     description: 'Filter images by observation unit, observation, study, descriptive ontology term, file name, or MIME type. Returns metadata only — use brapi_get_image to fetch bytes inline. Returns a dataset handle when the upstream total exceeds loadLimit.',
     annotations: { readOnlyHint: true, openWorldHint: true },
+    errors: [
+        {
+            reason: 'all_filters_dropped',
+            code: JsonRpcErrorCode.ValidationError,
+            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.',
+            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.',
+        },
+    ],
     input: z.object({
         alias: AliasInput,
         images: z.array(z.string()).optional().describe('Filter by imageDbIds.'),
@@ -146,7 +155,7 @@ export const brapiFindImages = tool('brapi_find_images', {
             mimeTypes: input.mimeTypes,
             descriptiveOntologyTerms: input.descriptiveOntologyTerms,
         }, input.extraFilters, warnings);
-        const filters = applyDialectFilters(dialect, 'images', merged, warnings);
+        const filters = applyDialectFiltersOrFail(ctx, dialect, 'images', merged, warnings);
         const route = resolveFindRoute({
             profile,
             dialect,

package/dist/mcp-server/tools/definitions/brapi-find-images.tool.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/dist/mcp-server/tools/definitions/brapi-find-locations.tool.d.ts CHANGED Viewed

@@ -8,6 +8,7 @@
  * @module mcp-server/tools/definitions/brapi-find-locations.tool
  */
 import { z } from '@cyanheads/mcp-ts-core';
+import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
 export declare const brapiFindLocations: import("@cyanheads/mcp-ts-core").ToolDefinition<z.ZodObject<{
     alias: z.ZodOptional<z.ZodString>;
     locations: z.ZodOptional<z.ZodArray<z.ZodString>>;
@@ -64,5 +65,10 @@ export declare const brapiFindLocations: import("@cyanheads/mcp-ts-core").ToolDe
         spec: "spec";
         swapped: "swapped";
     }>;
-}, z.core.$strip>, undefined>;
+}, z.core.$strip>, readonly [{
+    readonly reason: "all_filters_dropped";
+    readonly code: 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.";
+}]>;
 //# sourceMappingURL=brapi-find-locations.tool.d.ts.map

package/dist/mcp-server/tools/definitions/brapi-find-locations.tool.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"brapi-find-locations.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-find-locations.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;~~AAsIjD~~,eAAO,MAAM,kBAAkB~~;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;6BAoR7B~~,CAAC"}
1	+ {"version":3,"file":"brapi-find-locations.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-find-locations.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAsIjE,eAAO,MAAM,kBAAkB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GA6R7B,CAAC"}

package/dist/mcp-server/tools/definitions/brapi-find-locations.tool.js CHANGED Viewed

@@ -8,13 +8,14 @@
  * @module mcp-server/tools/definitions/brapi-find-locations.tool
  */
 import { tool, z } from '@cyanheads/mcp-ts-core';
+import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
 import { getServerConfig } from '../../../config/server-config.js';
 import { getBrapiClient } from '../../../services/brapi-client/index.js';
 import { resolveDialect } from '../../../services/brapi-dialect/index.js';
 import { getCapabilityRegistry } from '../../../services/capability-registry/index.js';
 import { getDatasetStore } from '../../../services/dataset-store/index.js';
 import { DEFAULT_ALIAS, getServerRegistry } from '../../../services/server-registry/index.js';
-import { AliasInput, applyDialectFilters, asString, buildRefinementHint, checkFilterMatchRates, collectPassthroughParts, computeDistribution, DatasetHandleSchema, ExtraFiltersInput, extractCoordinates, hasPointGeometry, LoadLimitInput, loadInitialFindPage, maybeSpill, mergeFilters, renderAppliedFilters, renderDatasetHandle, renderDistributions, renderFindHeader, resolveFindRoute, } from '../shared/find-helpers.js';
+import { AliasInput, applyDialectFiltersOrFail, asString, buildRefinementHint, checkFilterMatchRates, collectPassthroughParts, computeDistribution, DatasetHandleSchema, ExtraFiltersInput, extractCoordinates, hasPointGeometry, LoadLimitInput, loadInitialFindPage, maybeSpill, mergeFilters, renderAppliedFilters, renderDatasetHandle, renderDistributions, renderFindHeader, resolveFindRoute, } from '../shared/find-helpers.js';
 const LocationRowSchema = z
     .object({
     locationDbId: z.string().describe('Server-side identifier for the location.'),
@@ -104,6 +105,14 @@ const SERVER_TO_USER = {
 export const brapiFindLocations = tool('brapi_find_locations', {
     description: 'Find research stations / field sites by country, abbreviation, type, location ID, or free-text. Optional bbox parameter restricts rows to a latitude/longitude window. When the spec-correct GeoJSON [lon, lat, alt] reading produces zero matches and at least one row carries a Point geometry, the bbox filter retries once with axes swapped (handles non-conformant servers that store [lat, lon, alt]) and surfaces a warning + `coordinateAxisOrder: "swapped"`. Returns a dataset handle when the upstream total exceeds loadLimit.',
     annotations: { readOnlyHint: true, openWorldHint: true },
+    errors: [
+        {
+            reason: 'all_filters_dropped',
+            code: JsonRpcErrorCode.ValidationError,
+            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.',
+            recovery: 'Drop the unsupported filters and rescope by locations, locationNames, countryCodes, locationTypes, abbreviations, or bbox — these filter paths are honored on the active dialect.',
+        },
+    ],
     input: z.object({
         alias: AliasInput,
         locations: z.array(z.string()).optional().describe('Filter by locationDbIds.'),
@@ -167,7 +176,7 @@ export const brapiFindLocations = tool('brapi_find_locations', {
             locationTypes: input.locationTypes,
             abbreviations: input.abbreviations,
         }, input.extraFilters, warnings);
-        const filters = applyDialectFilters(dialect, 'locations', merged, warnings);
+        const filters = applyDialectFiltersOrFail(ctx, dialect, 'locations', merged, warnings);
         const route = resolveFindRoute({
             profile,
             dialect,

package/dist/mcp-server/tools/definitions/brapi-find-locations.tool.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/dist/mcp-server/tools/definitions/brapi-find-observations.tool.d.ts CHANGED Viewed

@@ -8,6 +8,7 @@
  * @module mcp-server/tools/definitions/brapi-find-observations.tool
  */
 import { z } from '@cyanheads/mcp-ts-core';
+import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
 export declare const brapiFindObservations: import("@cyanheads/mcp-ts-core").ToolDefinition<z.ZodObject<{
     alias: z.ZodOptional<z.ZodString>;
     studies: z.ZodOptional<z.ZodArray<z.ZodString>>;
@@ -70,5 +71,10 @@ export declare const brapiFindObservations: import("@cyanheads/mcp-ts-core").Too
     }, z.core.$strip>>;
     warnings: z.ZodArray<z.ZodString>;
     appliedFilters: z.ZodRecord<z.ZodString, z.ZodUnknown>;
-}, z.core.$strip>, undefined>;
+}, z.core.$strip>, readonly [{
+    readonly reason: "all_filters_dropped";
+    readonly code: 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.";
+}]>;
 //# sourceMappingURL=brapi-find-observations.tool.d.ts.map

package/dist/mcp-server/tools/definitions/brapi-find-observations.tool.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
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