npm - @cyanheads/brapi-mcp-server - Versions diffs - 0.4.8 → 0.4.10 - Mend

@cyanheads/brapi-mcp-server 0.4.8 → 0.4.10

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (96) hide show

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

@@ -68,6 +68,7 @@ export declare const brapiFindObservations: import("@cyanheads/mcp-ts-core").Too
         expiresAt: z.ZodString;
         truncated: z.ZodOptional<z.ZodBoolean>;
         maxRows: z.ZodOptional<z.ZodNumber>;
+        dataframe: z.ZodOptional<z.ZodString>;
     }, z.core.$strip>>;
     warnings: z.ZodArray<z.ZodString>;
     appliedFilters: z.ZodRecord<z.ZodString, z.ZodUnknown>;

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

	@@ -1 +1 @@
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1	+ {"version":3,"file":"brapi-find-observations.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-find-observations.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,EAAsB,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAC/D,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAwLjE,eAAO,MAAM,qBAAqB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GAqThC,CAAC"}

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

@@ -120,6 +120,7 @@ const OutputSchema = z.object({
  * ~5k rows stall past the default request timeout.
  */
 const PREFLIGHT_BULK_THRESHOLD = 5_000;
+const OBSERVATION_PREFLIGHT_RECOVERY = "Narrow with `studies: ['…']`, `trials: ['…']`, or scope to specific `observationUnits` / `observations`. On SGN/Breedbase servers, a practical path is: first find studies containing the germplasm, then call this tool again with both `studies: ['<studyDbId>']` and `germplasm: ['<germplasmDbId>']`.";
 const SERVER_TO_USER = {
     // Plurals — BrAPI v2.1 spec, used by the `spec` dialect.
     studyDbIds: 'studies',
@@ -252,13 +253,13 @@ export const brapiFindObservations = tool('brapi_find_observations', {
                 ctx,
             });
             if (probe === null) {
-                warnings.push("Observations preflight count probe stalled — the upstream count operation appears unbounded for this query shape, indicating a likely full-table scan. Bulk pull skipped to avoid a long hang. Narrow with `studies: ['…']`, `trials: ['…']`, or scope to specific `observationUnits` / `observations`.");
+                warnings.push(`Observations preflight count probe stalled — the upstream count operation appears unbounded for this query shape, indicating a likely full-table scan. Bulk pull skipped to avoid a long hang. ${OBSERVATION_PREFLIGHT_RECOVERY}`);
                 firstPage = { rows: [], hasMore: false, pagesFetched: 0, totalCount: 0 };
                 bulkPullSkipped = true;
             }
             else if (typeof probe.totalCount === 'number' &&
                 probe.totalCount > PREFLIGHT_BULK_THRESHOLD) {
-                warnings.push(`Preflight detected ${probe.totalCount} observations matching this query (no study / trial / observationUnit / observation anchor). Bulk pull skipped to avoid an upstream timeout — narrow with \`studies: ['…']\`, \`trials: ['…']\`, or scope to specific \`observationUnits\` / \`observations\`. Returning the 1-row preflight as the only in-context observation.`);
+                warnings.push(`Preflight detected ${probe.totalCount} observations matching this query (no study / trial / observationUnit / observation anchor). Bulk pull skipped to avoid an upstream timeout. ${OBSERVATION_PREFLIGHT_RECOVERY} Returning the 1-row preflight as the only in-context observation.`);
                 firstPage = probe;
                 bulkPullSkipped = true;
             }
@@ -277,6 +278,11 @@ export const brapiFindObservations = tool('brapi_find_observations', {
                 loadLimit,
                 ctx,
                 store: datasetStore,
+                warnings,
+                spillRequestOptions: {
+                    timeoutMs: config.companionTimeoutMs,
+                    retryMaxAttempts: 0,
+                },
             });
         const distributions = {
             observationVariableName: computeDistribution(fullRows, (r) => asString(r.observationVariableName)),
@@ -292,11 +298,20 @@ export const brapiFindObservations = tool('brapi_find_observations', {
                 requestedValues: input.observationLevels,
                 distribution: distributions.observationLevel,
                 caseInsensitive: true,
+                requireEveryRowMatch: true,
             },
-            fkMatchCheck('studies', input.studies, fullRows, 'studyDbId'),
-            fkMatchCheck('germplasm', input.germplasm, fullRows, 'germplasmDbId'),
-            fkMatchCheck('variables', input.variables, fullRows, 'observationVariableDbId'),
-            fkMatchCheck('observationUnits', input.observationUnits, fullRows, 'observationUnitDbId'),
+            fkMatchCheck('studies', input.studies, fullRows, 'studyDbId', {
+                requireEveryRowMatch: true,
+            }),
+            fkMatchCheck('germplasm', input.germplasm, fullRows, 'germplasmDbId', {
+                requireEveryRowMatch: true,
+            }),
+            fkMatchCheck('variables', input.variables, fullRows, 'observationVariableDbId', {
+                requireEveryRowMatch: true,
+            }),
+            fkMatchCheck('observationUnits', input.observationUnits, fullRows, 'observationUnitDbId', {
+                requireEveryRowMatch: true,
+            }),
         ]);
         const totalCount = firstPage.totalCount ?? firstPage.rows.length;
         const refinementHint = buildRefinementHint(totalCount, loadLimit, distributions, {

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

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

@@ -62,6 +62,7 @@ export declare const brapiFindStudies: import("@cyanheads/mcp-ts-core").ToolDefi
         expiresAt: z.ZodString;
         truncated: z.ZodOptional<z.ZodBoolean>;
         maxRows: z.ZodOptional<z.ZodNumber>;
+        dataframe: z.ZodOptional<z.ZodString>;
     }, z.core.$strip>>;
     warnings: z.ZodArray<z.ZodString>;
     appliedFilters: z.ZodRecord<z.ZodString, z.ZodUnknown>;

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

	@@ -1 +1 @@
1	- {"version":3,"file":"brapi-find-studies.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-find-studies.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AA4HjE,eAAO,MAAM,gBAAgB~~;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;~~GAkP3B,CAAC"}
1	+ {"version":3,"file":"brapi-find-studies.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-find-studies.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AA4HjE,eAAO,MAAM,gBAAgB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GAkP3B,CAAC"}

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

@@ -81,6 +81,7 @@ export declare const brapiFindVariables: import("@cyanheads/mcp-ts-core").ToolDe
         expiresAt: z.ZodString;
         truncated: z.ZodOptional<z.ZodBoolean>;
         maxRows: z.ZodOptional<z.ZodNumber>;
+        dataframe: z.ZodOptional<z.ZodString>;
     }, z.core.$strip>>;
     warnings: z.ZodArray<z.ZodString>;
     appliedFilters: z.ZodRecord<z.ZodString, z.ZodUnknown>;

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

	@@ -1 +1 @@
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1	+ {"version":3,"file":"brapi-find-variables.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-find-variables.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAiLjE,eAAO,MAAM,kBAAkB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GAgS7B,CAAC"}

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

@@ -53,6 +53,7 @@ export declare const brapiFindVariants: import("@cyanheads/mcp-ts-core").ToolDef
         expiresAt: z.ZodString;
         truncated: z.ZodOptional<z.ZodBoolean>;
         maxRows: z.ZodOptional<z.ZodNumber>;
+        dataframe: z.ZodOptional<z.ZodString>;
     }, z.core.$strip>>;
     warnings: z.ZodArray<z.ZodString>;
     appliedFilters: z.ZodRecord<z.ZodString, z.ZodUnknown>;

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

	@@ -1 +1 @@
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1	+ {"version":3,"file":"brapi-find-variants.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-find-variants.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AA+HjE,eAAO,MAAM,iBAAiB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GAkM5B,CAAC"}

package/dist/mcp-server/tools/definitions/brapi-manage-dataset.tool.d.ts CHANGED Viewed

@@ -38,6 +38,7 @@ export declare const brapiManageDataset: import("@cyanheads/mcp-ts-core").ToolDe
             expiresAt: z.ZodString;
             truncated: z.ZodOptional<z.ZodBoolean>;
             maxRows: z.ZodOptional<z.ZodNumber>;
+            dataframe: z.ZodOptional<z.ZodString>;
         }, z.core.$strip>>;
         cursor: z.ZodOptional<z.ZodString>;
     }, z.core.$strip>, z.ZodObject<{
@@ -54,6 +55,7 @@ export declare const brapiManageDataset: import("@cyanheads/mcp-ts-core").ToolDe
             expiresAt: z.ZodString;
             truncated: z.ZodOptional<z.ZodBoolean>;
             maxRows: z.ZodOptional<z.ZodNumber>;
+            dataframe: z.ZodOptional<z.ZodString>;
         }, z.core.$strip>;
     }, z.core.$strip>, z.ZodObject<{
         mode: z.ZodLiteral<"load">;

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

	@@ -1 +1 @@
1	- {"version":3,"file":"brapi-manage-dataset.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-manage-dataset.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;GASG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;~~AA0HjE~~,eAAO,MAAM,kBAAkB~~;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;~~GA8G7B,CAAC"}
1	+ {"version":3,"file":"brapi-manage-dataset.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-manage-dataset.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;GASG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAgIjE,eAAO,MAAM,kBAAkB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GA8G7B,CAAC"}

package/dist/mcp-server/tools/definitions/brapi-manage-dataset.tool.js CHANGED Viewed

@@ -33,6 +33,10 @@ const DatasetMetadataSchema = z.object({
         .positive()
         .optional()
         .describe('Cap that was applied at create time, when truncation occurred.'),
+    dataframe: z
+        .string()
+        .optional()
+        .describe('Dataframe name when this dataset was auto-registered as a SQL-queryable dataframe. Use with brapi_dataframe_query to run SQL across the rows.'),
 });
 const ListResultSchema = z
     .object({
@@ -248,6 +252,9 @@ function renderList(result) {
         lines.push(`- baseUrl: ${ds.baseUrl}`);
         lines.push(`- columns: ${ds.columns.join(', ')}`);
         lines.push(`- query: \`${JSON.stringify(ds.query)}\``);
+        if (ds.dataframe) {
+            lines.push(`- dataframe: \`${ds.dataframe}\` (queryable via brapi_dataframe_query)`);
+        }
     }
     return lines.join('\n');
 }
@@ -264,6 +271,9 @@ function renderSummary(dataset) {
     if (dataset.truncated) {
         lines.push(`- truncated: true (cap=${dataset.maxRows ?? '?'} rows)`);
     }
+    if (dataset.dataframe) {
+        lines.push(`- dataframe: \`${dataset.dataframe}\` (queryable via brapi_dataframe_query)`);
+    }
     lines.push(`- columns: ${dataset.columns.join(', ')}`);
     lines.push(`- query: \`${JSON.stringify(dataset.query)}\``);
     return lines.join('\n');

package/dist/mcp-server/tools/definitions/brapi-manage-dataset.tool.js.map CHANGED Viewed

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

@@ -42,6 +42,7 @@ export declare const brapiServerInfo: import("@cyanheads/mcp-ts-core").ToolDefin
         id: z.ZodString;
         source: z.ZodEnum<{
             "env-override": "env-override";
+            "url-pattern": "url-pattern";
             "server-name": "server-name";
             "organization-name": "organization-name";
             fallback: "fallback";

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

	@@ -1 +1 @@
1	- {"version":3,"file":"brapi-server-info.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-server-info.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAUjD,eAAO,MAAM,eAAe~~;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;~~6BAkC1B,CAAC"}
1	+ {"version":3,"file":"brapi-server-info.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-server-info.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAUjD,eAAO,MAAM,eAAe;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;6BAkC1B,CAAC"}

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

@@ -116,6 +116,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
         id: import("zod").ZodString;
         source: import("zod").ZodEnum<{
             "env-override": "env-override";
+            "url-pattern": "url-pattern";
             "server-name": "server-name";
             "organization-name": "organization-name";
             fallback: "fallback";
@@ -251,6 +252,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
         id: import("zod").ZodString;
         source: import("zod").ZodEnum<{
             "env-override": "env-override";
+            "url-pattern": "url-pattern";
             "server-name": "server-name";
             "organization-name": "organization-name";
             fallback: "fallback";
@@ -286,12 +288,11 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     callSetDbIds: import("zod").ZodOptional<import("zod").ZodArray<import("zod").ZodString>>;
     variantDbIds: import("zod").ZodOptional<import("zod").ZodArray<import("zod").ZodString>>;
     callFormat: import("zod").ZodOptional<import("zod").ZodEnum<{
+        JSON: "JSON";
         VCF: "VCF";
         FLAPJACK: "FLAPJACK";
         DARTSEQ: "DARTSEQ";
-        JSON: "JSON";
     }>>;
-    maxCalls: import("zod").ZodOptional<import("zod").ZodNumber>;
     loadLimit: import("zod").ZodOptional<import("zod").ZodNumber>;
 }, import("zod/v4/core").$strip>, import("zod").ZodObject<{
     alias: import("zod").ZodString;
@@ -330,6 +331,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
         expiresAt: import("zod").ZodString;
         truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
         maxRows: import("zod").ZodOptional<import("zod").ZodNumber>;
+        dataframe: import("zod").ZodOptional<import("zod").ZodString>;
     }, import("zod/v4/core").$strip>>;
     truncated: import("zod").ZodBoolean;
     warnings: import("zod").ZodArray<import("zod").ZodString>;
@@ -402,6 +404,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
         expiresAt: import("zod").ZodString;
         truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
         maxRows: import("zod").ZodOptional<import("zod").ZodNumber>;
+        dataframe: import("zod").ZodOptional<import("zod").ZodString>;
     }, import("zod/v4/core").$strip>>;
     warnings: import("zod").ZodArray<import("zod").ZodString>;
     appliedFilters: import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodUnknown>;
@@ -461,6 +464,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
         expiresAt: import("zod").ZodString;
         truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
         maxRows: import("zod").ZodOptional<import("zod").ZodNumber>;
+        dataframe: import("zod").ZodOptional<import("zod").ZodString>;
     }, import("zod/v4/core").$strip>>;
     warnings: import("zod").ZodArray<import("zod").ZodString>;
     appliedFilters: import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodUnknown>;
@@ -518,6 +522,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
         expiresAt: import("zod").ZodString;
         truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
         maxRows: import("zod").ZodOptional<import("zod").ZodNumber>;
+        dataframe: import("zod").ZodOptional<import("zod").ZodString>;
     }, import("zod/v4/core").$strip>>;
     warnings: import("zod").ZodArray<import("zod").ZodString>;
     appliedFilters: import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodUnknown>;
@@ -589,6 +594,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
         expiresAt: import("zod").ZodString;
         truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
         maxRows: import("zod").ZodOptional<import("zod").ZodNumber>;
+        dataframe: import("zod").ZodOptional<import("zod").ZodString>;
     }, import("zod/v4/core").$strip>>;
     warnings: import("zod").ZodArray<import("zod").ZodString>;
     appliedFilters: import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodUnknown>;
@@ -650,6 +656,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
         expiresAt: import("zod").ZodString;
         truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
         maxRows: import("zod").ZodOptional<import("zod").ZodNumber>;
+        dataframe: import("zod").ZodOptional<import("zod").ZodString>;
     }, import("zod/v4/core").$strip>>;
     warnings: import("zod").ZodArray<import("zod").ZodString>;
     appliedFilters: import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodUnknown>;
@@ -730,6 +737,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
         expiresAt: import("zod").ZodString;
         truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
         maxRows: import("zod").ZodOptional<import("zod").ZodNumber>;
+        dataframe: import("zod").ZodOptional<import("zod").ZodString>;
     }, import("zod/v4/core").$strip>>;
     warnings: import("zod").ZodArray<import("zod").ZodString>;
     appliedFilters: import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodUnknown>;
@@ -783,6 +791,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
         expiresAt: import("zod").ZodString;
         truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
         maxRows: import("zod").ZodOptional<import("zod").ZodNumber>;
+        dataframe: import("zod").ZodOptional<import("zod").ZodString>;
     }, import("zod/v4/core").$strip>>;
     warnings: import("zod").ZodArray<import("zod").ZodString>;
     appliedFilters: import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodUnknown>;
@@ -863,6 +872,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
             expiresAt: import("zod").ZodString;
             truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
             maxRows: import("zod").ZodOptional<import("zod").ZodNumber>;
+            dataframe: import("zod").ZodOptional<import("zod").ZodString>;
         }, import("zod/v4/core").$strip>>;
         cursor: import("zod").ZodOptional<import("zod").ZodString>;
     }, import("zod/v4/core").$strip>, import("zod").ZodObject<{
@@ -879,6 +889,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
             expiresAt: import("zod").ZodString;
             truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
             maxRows: import("zod").ZodOptional<import("zod").ZodNumber>;
+            dataframe: import("zod").ZodOptional<import("zod").ZodString>;
         }, import("zod/v4/core").$strip>;
     }, import("zod/v4/core").$strip>, import("zod").ZodObject<{
         mode: import("zod").ZodLiteral<"load">;
@@ -998,6 +1009,70 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
     truncated: import("zod").ZodBoolean;
     warnings: import("zod").ZodArray<import("zod").ZodString>;
 }, import("zod/v4/core").$strip>, undefined>)[];
+/**
+ * Dataframe tools — registered only when both the framework canvas service
+ * and BRAPI_CANVAS_ENABLED are on. The dataframe surface is opt-in (Tier 3,
+ * requires the optional `@duckdb/node-api` peer dep). Hidden from
+ * `tools/list` when disabled so the agent doesn't see capabilities it can't
+ * use.
+ */
+export declare const dataframeToolDefinitions: (import("@cyanheads/mcp-ts-core").ToolDefinition<import("zod").ZodObject<{
+    dataframe: import("zod").ZodOptional<import("zod").ZodString>;
+}, import("zod/v4/core").$strip>, import("zod").ZodObject<{
+    tables: import("zod").ZodArray<import("zod").ZodObject<{
+        name: import("zod").ZodString;
+        rowCount: import("zod").ZodNumber;
+        columns: import("zod").ZodArray<import("zod").ZodObject<{
+            name: import("zod").ZodString;
+            type: import("zod").ZodString;
+            nullable: import("zod").ZodOptional<import("zod").ZodBoolean>;
+        }, import("zod/v4/core").$strip>>;
+        approxSizeBytes: import("zod").ZodOptional<import("zod").ZodNumber>;
+        provenance: import("zod").ZodOptional<import("zod").ZodObject<{
+            datasetId: import("zod").ZodString;
+            source: import("zod").ZodString;
+            baseUrl: import("zod").ZodString;
+            query: import("zod").ZodUnknown;
+            createdAt: import("zod").ZodString;
+            expiresAt: import("zod").ZodString;
+        }, import("zod/v4/core").$strip>>;
+    }, import("zod/v4/core").$strip>>;
+}, import("zod/v4/core").$strip>, readonly [{
+    readonly reason: "dataframe_disabled";
+    readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ServiceUnavailable;
+    readonly when: "Dataframe surface is gated off by env (CANVAS_PROVIDER_TYPE != duckdb or BRAPI_CANVAS_ENABLED=false)";
+    readonly recovery: "Set CANVAS_PROVIDER_TYPE=duckdb and BRAPI_CANVAS_ENABLED=true on the deployment, or use brapi_manage_dataset to enumerate datasets directly.";
+}]> | import("@cyanheads/mcp-ts-core").ToolDefinition<import("zod").ZodObject<{
+    dataframe: import("zod").ZodString;
+}, import("zod/v4/core").$strip>, import("zod").ZodObject<{
+    dataframe: import("zod").ZodString;
+    dropped: import("zod").ZodBoolean;
+}, import("zod/v4/core").$strip>, readonly [{
+    readonly reason: "dataframe_disabled";
+    readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ServiceUnavailable;
+    readonly when: "Dataframe surface is gated off by env (CANVAS_PROVIDER_TYPE != duckdb or BRAPI_CANVAS_ENABLED=false)";
+    readonly recovery: "Set CANVAS_PROVIDER_TYPE=duckdb and BRAPI_CANVAS_ENABLED=true on the deployment, or use brapi_manage_dataset for the underlying dataset.";
+}]> | import("@cyanheads/mcp-ts-core").ToolDefinition<import("zod").ZodObject<{
+    sql: import("zod").ZodString;
+    registerAs: import("zod").ZodOptional<import("zod").ZodString>;
+    preview: import("zod").ZodOptional<import("zod").ZodNumber>;
+    rowLimit: import("zod").ZodOptional<import("zod").ZodNumber>;
+}, import("zod/v4/core").$strip>, import("zod").ZodObject<{
+    rowCount: import("zod").ZodNumber;
+    columns: import("zod").ZodArray<import("zod").ZodString>;
+    rows: import("zod").ZodArray<import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodUnknown>>;
+    dataframe: import("zod").ZodOptional<import("zod").ZodString>;
+}, import("zod/v4/core").$strip>, readonly [{
+    readonly reason: "dataframe_disabled";
+    readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ServiceUnavailable;
+    readonly when: "Dataframe surface is gated off by env (CANVAS_PROVIDER_TYPE != duckdb or BRAPI_CANVAS_ENABLED=false)";
+    readonly recovery: "Set CANVAS_PROVIDER_TYPE=duckdb and BRAPI_CANVAS_ENABLED=true on the deployment, or use brapi_manage_dataset for the underlying dataset.";
+}, {
+    readonly reason: "sql_rejected";
+    readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ValidationError;
+    readonly when: "SQL violated read-only rules (multi-statement, non-SELECT, or disallowed operation)";
+    readonly recovery: "Submit a single SELECT statement using only registered dataframes. For changes, use `registerAs` in this tool to materialize a result, or brapi_dataframe_drop to remove a dataframe.";
+}]>)[];
 /** Write tools — registered only when `BRAPI_ENABLE_WRITES=true`. */
 export declare const writeToolDefinitions: import("@cyanheads/mcp-ts-core").ToolDefinition<import("zod").ZodObject<{
     alias: import("zod").ZodOptional<import("zod").ZodString>;

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

	@@ -1 +1 @@
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1	+ {"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/index.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAyBH,kEAAkE;AAClE,eAAO,MAAM,uBAAuB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;+CAmBnC,CAAC;AAEF;;;;;;GAMG;AACH,eAAO,MAAM,wBAAwB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;MAIpC,CAAC;AAEF,qEAAqE;AACrE,eAAO,MAAM,oBAAoB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;KAA4B,CAAC"}

package/dist/mcp-server/tools/definitions/index.js CHANGED Viewed

@@ -6,6 +6,9 @@
  * @module mcp-server/tools/definitions/index
  */
 import { brapiConnect } from './brapi-connect.tool.js';
+import { brapiDataframeDescribe } from './brapi-dataframe-describe.tool.js';
+import { brapiDataframeDrop } from './brapi-dataframe-drop.tool.js';
+import { brapiDataframeQuery } from './brapi-dataframe-query.tool.js';
 import { brapiDescribeFilters } from './brapi-describe-filters.tool.js';
 import { brapiFindGenotypeCalls } from './brapi-find-genotype-calls.tool.js';
 import { brapiFindGermplasm } from './brapi-find-germplasm.tool.js';
@@ -45,6 +48,18 @@ export const readOnlyToolDefinitions = [
     brapiRawGet,
     brapiRawSearch,
 ];
+/**
+ * Dataframe tools — registered only when both the framework canvas service
+ * and BRAPI_CANVAS_ENABLED are on. The dataframe surface is opt-in (Tier 3,
+ * requires the optional `@duckdb/node-api` peer dep). Hidden from
+ * `tools/list` when disabled so the agent doesn't see capabilities it can't
+ * use.
+ */
+export const dataframeToolDefinitions = [
+    brapiDataframeQuery,
+    brapiDataframeDescribe,
+    brapiDataframeDrop,
+];
 /** Write tools — registered only when `BRAPI_ENABLE_WRITES=true`. */
 export const writeToolDefinitions = [brapiSubmitObservations];
 //# sourceMappingURL=index.js.map

package/dist/mcp-server/tools/definitions/index.js.map CHANGED Viewed

	@@ -1 +1 @@
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