@cyanheads/brapi-mcp-server 0.7.0 → 0.7.2
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/CLAUDE.md +5 -1
- package/README.md +4 -4
- package/changelog/0.7.x/0.7.1.md +17 -0
- package/changelog/0.7.x/0.7.2.md +14 -0
- package/dist/mcp-server/tools/definitions/brapi-build-phenotype-matrix.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/brapi-build-phenotype-matrix.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-export-genotype-matrix.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/brapi-export-genotype-matrix.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-find-genotype-calls.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/brapi-find-genotype-calls.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-find-germplasm.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/brapi-find-germplasm.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-find-images.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/brapi-find-images.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-find-locations.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/brapi-find-locations.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-find-observations.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/brapi-find-observations.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-find-studies.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/brapi-find-studies.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-find-variables.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/brapi-find-variables.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-find-variants.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/brapi-find-variants.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-raw-get.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/brapi-raw-get.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-raw-search.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/brapi-raw-search.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-walk-pedigree.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/brapi-walk-pedigree.tool.js +19 -6
- package/dist/mcp-server/tools/definitions/brapi-walk-pedigree.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/index.d.ts +12 -0
- package/dist/mcp-server/tools/definitions/index.d.ts.map +1 -1
- package/dist/mcp-server/tools/shared/canvas-columns.d.ts +23 -0
- package/dist/mcp-server/tools/shared/canvas-columns.d.ts.map +1 -1
- package/dist/mcp-server/tools/shared/canvas-columns.js +53 -0
- package/dist/mcp-server/tools/shared/canvas-columns.js.map +1 -1
- package/dist/mcp-server/tools/shared/find-helpers.d.ts +1 -0
- package/dist/mcp-server/tools/shared/find-helpers.d.ts.map +1 -1
- package/dist/mcp-server/tools/shared/find-helpers.js +12 -0
- package/dist/mcp-server/tools/shared/find-helpers.js.map +1 -1
- package/dist/services/canvas-bridge/canvas-bridge.d.ts +6 -0
- package/dist/services/canvas-bridge/canvas-bridge.d.ts.map +1 -1
- package/dist/services/canvas-bridge/canvas-bridge.js +10 -2
- package/dist/services/canvas-bridge/canvas-bridge.js.map +1 -1
- package/manifest.json +1 -1
- package/package.json +3 -2
- package/server.json +3 -3
package/CLAUDE.md
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# Agent Protocol
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**Server:** brapi-mcp-server
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**Version:** 0.7.
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**Version:** 0.7.2
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**Framework:** [@cyanheads/mcp-ts-core](https://www.npmjs.com/package/@cyanheads/mcp-ts-core)
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> **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.
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| `git-wrapup` | Land working-tree changes as a versioned commit + annotated tag — version bump, changelog, verify, tag. Local only. |
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| `release-and-publish` | Push + npm + MCP Registry + GH Release + Docker. Picks up from `git-wrapup` |
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| `maintenance` | Investigate changelogs, adopt upstream changes, sync skills to agent dirs |
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| `orchestrations` | Chain task skills into a gated multi-phase pipeline — build-out, QA-fix, update-ship — when you can spawn sub-agents |
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| `report-issue-framework` | File a bug or feature request against `@cyanheads/mcp-ts-core` via `gh` CLI |
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| `report-issue-local` | File a bug or feature request against this server's own repo via `gh` CLI |
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| `api-auth` | Auth modes, scopes, JWT/OAuth |
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| `api-config` | AppConfig, parseConfig, env vars |
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| `api-context` | Context interface, logger, state, progress |
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| `api-errors` | McpError, JsonRpcErrorCode, error patterns |
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| `api-mirror` | MirrorService: persistent SQLite-backed local mirror of a bulk upstream dataset with FTS5 — Tier 3 opt-in |
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| `api-services` | LLM, Speech, Graph services |
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| `api-telemetry` | OTel catalog: spans, metrics, completion logs, env config, cardinality rules |
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| `api-testing` | createMockContext, test patterns |
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| `api-utils` | Formatting, parsing, security, pagination, scheduling, telemetry helpers |
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| `api-workers` | Cloudflare Workers runtime |
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**Chaining skills into pipelines.** When the user wants a multi-phase effort — build this server out, QA-and-fix the surface, update-and-ship — *and you can spawn sub-agents*, `skills/orchestrations/SKILL.md` sequences the task skills above into a gated pipeline with verification at each step. Read it to drive the run. Optional: skip it if you can't orchestrate sub-agents, and ignore it entirely if you were *spawned* as one — you've already been scoped to a single phase.
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When you complete a skill's checklist, check the boxes and add a completion timestamp at the end (e.g., `Completed: 2026-03-11`).
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---
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package/README.md
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<div align="center">
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[](https://www.npmjs.com/package/@cyanheads/brapi-mcp-server) [](https://www.npmjs.com/package/@cyanheads/brapi-mcp-server) [](./CHANGELOG.md) [](https://modelcontextprotocol.io/) [](./LICENSE) [](https://www.typescriptlang.org/) [](https://bun.sh/) [](./CHANGELOG.md)
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</div>
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- **Dialect adaptation** — `spec` / `brapi-test` / `breedbase` / `cassavabase` / `bms` dialects translate v2.1 plural filter keys to the singular form each server family honors, drop filters known to be broken, normalize sparse-shape encodings, and escalate to POST `/search/{noun}` when GET would silently downcast multi-value filters. Detected from `/serverinfo` (server-name / organization-name); pin per-alias via `BRAPI_<ALIAS>_DIALECT`. Verified-vs-inferred mapping counts surface on the orientation envelope so agents see the confidence floor at a glance.
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- **DuckDB required** — `@duckdb/node-api` is a regular dependency; startup fails closed when the framework canvas is unavailable. Not supported on Cloudflare Workers (no native binary in that runtime).
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- **Async-search transparency** — `brapi_find_genotype_calls` and `brapi_raw_search` handle the `POST /search/{noun}` → `GET /search/{noun}/{id}` 202-retry pattern automatically.
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- **Pedigree DAG walks** — `brapi_walk_pedigree` BFS-traverses ancestry / descendancy with cycle detection (BrAPI only exposes one generation per call).
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- **Pedigree DAG walks** — `brapi_walk_pedigree` BFS-traverses ancestry / descendancy with cycle detection (BrAPI only exposes one generation per call); a 1,000-node safety cap bounds the walk and sets `truncated` when reached.
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- **Image content** — `brapi_get_image` fetches bytes inline as MCP `type: image` blocks, preferring `/images/{id}/imagecontent` with `imageURL` fallback.
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- **Free-text variable ranking** — `OntologyResolver` scores variables against a query (PUI / name / synonym / trait-class) so `find_variables text:"..."` returns ranked candidates even without `/ontologies`.
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- **Auth variants in one schema** — tagged-union covers `none` / `bearer` / `api_key` / `sgn` (session-token exchange) / `oauth2` (client-credentials).
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## Working with dataframes
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When a `find_*` tool's upstream total exceeds `loadLimit`, the full union materializes as a canvas dataframe and the response carries an inline `dataframe` handle (`{ tableName, rowCount, columns, createdAt, expiresAt, … }`). SQL is the paging idiom — use `LIMIT/OFFSET` to walk pages, projection (`SELECT col1, col2`) to trim columns, and aggregation (`COUNT`, `GROUP BY`, `AVG`) to summarize without materializing every row.
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When a `find_*` tool's upstream total exceeds `loadLimit`, the full union materializes as a canvas dataframe and the response carries an inline `dataframe` handle (`{ tableName, rowCount, columns, createdAt, expiresAt, … }`). Upstream column names that aren't SQL-safe identifiers — reserved words like `end`, digit-leading IDs — are sanitized for the dataframe, and a `columnLegend` on the handle maps each renamed column back to its original key. SQL is the paging idiom — use `LIMIT/OFFSET` to walk pages, projection (`SELECT col1, col2`) to trim columns, and aggregation (`COUNT`, `GROUP BY`, `AVG`) to summarize without materializing every row.
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Dataframe names are session-scoped capability tokens by default — pass `tableName` to any other agent on the same MCP session (or a downstream step in the same workflow) and they query the same workspace by name without re-pulling from the upstream. The `brapi_dataframe_*` tools offer SQL manipulation and more. See [Multi-agent workflows](#multi-agent-workflows) for cross-session / cross-tenant rules.
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```json
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{
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"mcpServers": {
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"brapi": {
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"brapi-mcp-server": {
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"type": "stdio",
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"command": "bunx",
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"args": ["@cyanheads/brapi-mcp-server@latest"],
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---
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summary: "fix: find_* dataframe spillover survives reserved-word columns (end, order, etc.) via centralized sanitization; brapi_walk_pedigree now enforces its 1,000-node cap mid-traversal as a hard ceiling"
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breaking: false
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security: false
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---
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# 0.7.1 — 2026-06-01
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## Added
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- **`DataframeHandleSchema.columnLegend`** — optional `Record<string, string>` mapping each sanitized SQL column name back to its original upstream key (e.g. `end_` → `end`). Present only when one or more columns were renamed; absent otherwise. Surfaces in `brapi_dataframe_query`/`brapi_dataframe_describe` consumers so agents know which columns to reference in SQL. ([#37](https://github.com/cyanheads/brapi-mcp-server/issues/37))
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- **`brapi_walk_pedigree` truncation warning** — emits a warning when the 1,000-node cap cuts a walk short; `truncated: true` propagates to the result. ([#17](https://github.com/cyanheads/brapi-mcp-server/issues/17))
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## Fixed
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- **`find_*` dataframe spillover** no longer throws `Canvas column name "end" is a reserved SQL keyword` when an upstream row carries a reserved word or invalid identifier shape. Sanitization is centralized in `CanvasBridge.registerDataframe` via `sanitizeRowColumns`, covering germplasm, studies, observations, locations, images, variables, variants, and any future `find_*` tool automatically. ([#37](https://github.com/cyanheads/brapi-mcp-server/issues/37))
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- **`brapi_walk_pedigree` node cap** was enforced only at the start of each depth iteration; a single high-fan-out expansion could overshoot to ~4× the limit before the next check. The cap is now a hard per-registration ceiling enforced inside the expansion loop. ([#17](https://github.com/cyanheads/brapi-mcp-server/issues/17))
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---
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summary: "Adopt @cyanheads/mcp-ts-core 0.9.21 — HTTP log context fix, secret-safe error messages, fail-fast retries"
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breaking: false
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security: false
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---
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# 0.7.2 — 2026-06-02
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## Changed
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- **`@cyanheads/mcp-ts-core`** `^0.9.16` → `^0.9.21` — framework adoption covering three fixes: per-request logs and traces now carry fresh request and trace/span IDs instead of the frozen boot context (HTTP transport); `fetchWithTimeout` strips query-string secrets (e.g. `?api_key=`) from error messages and logs; `withRetry` fails fast on non-retryable errors and `ctx.fail` auto-populates the `retryable` flag.
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- **`skills/`** — 8 updated (`add-tool`, `add-service`, `api-canvas`, `api-context`, `api-linter`, `api-utils`, `design-mcp-server`, `release-and-publish`) + 2 new (`api-mirror`, `orchestrations`); synced to `.claude/skills/` and `.agents/skills/`.
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- **`CLAUDE.md` / `AGENTS.md`** — skill table updated with `orchestrations` and `api-mirror` entries.
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- **`scripts/`** — added `devcheck.ts`, `check-skill-versions.ts`, and `release-github.ts`; `release:github` script added to `package.json`.
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tableName: z.ZodString;
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rowCount: z.ZodNumber;
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columns: z.ZodArray<z.ZodString>;
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columnLegend: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodString>>;
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{"version":3,"file":"brapi-build-phenotype-matrix.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-build-phenotype-matrix.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;GAiBG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAoEjE,eAAO,MAAM,yBAAyB
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{"version":3,"file":"brapi-build-phenotype-matrix.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-build-phenotype-matrix.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;GAiBG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAoEjE,eAAO,MAAM,yBAAyB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;cAgPpC,CAAC"}
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rowCount: z.ZodNumber;
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columns: z.ZodArray<z.ZodString>;
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columnLegend: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodString>>;
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{"version":3,"file":"brapi-export-genotype-matrix.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-export-genotype-matrix.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;;;;;;;;;;;;GA4BG;AAGH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AA2GjE,eAAO,MAAM,yBAAyB
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{"version":3,"file":"brapi-export-genotype-matrix.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-export-genotype-matrix.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;;;;;;;;;;;;GA4BG;AAGH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AA2GjE,eAAO,MAAM,yBAAyB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;cAyNpC,CAAC"}
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{"version":3,"file":"brapi-find-genotype-calls.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-find-genotype-calls.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;GAYG;AAEH,OAAO,EAAsB,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAC/D,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAgHjE,eAAO,MAAM,sBAAsB
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{"version":3,"file":"brapi-find-genotype-calls.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-find-genotype-calls.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;GAYG;AAEH,OAAO,EAAsB,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAC/D,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAgHjE,eAAO,MAAM,sBAAsB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;EAqQjC,CAAC"}
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{"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;AAmIjE,eAAO,MAAM,kBAAkB
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{"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;AAmIjE,eAAO,MAAM,kBAAkB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;EAwW7B,CAAC"}
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{"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
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{"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;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;EAgS1B,CAAC"}
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{"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;AAiHjE,eAAO,MAAM,kBAAkB
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{"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;AAiHjE,eAAO,MAAM,kBAAkB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;EA8W7B,CAAC"}
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{"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;AA+JjE,eAAO,MAAM,qBAAqB
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{"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;AA+JjE,eAAO,MAAM,qBAAqB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;EA8WhC,CAAC"}
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@@ -54,6 +54,7 @@ export declare const brapiFindStudies: import("@cyanheads/mcp-ts-core").ToolDefi
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{"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;AAyHjE,eAAO,MAAM,gBAAgB
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{"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;AAyHjE,eAAO,MAAM,gBAAgB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;EAoS3B,CAAC"}
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{"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;AAsKjE,eAAO,MAAM,kBAAkB
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{"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;AAsKjE,eAAO,MAAM,kBAAkB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;EAoW7B,CAAC"}
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@@ -45,6 +45,7 @@ export declare const brapiFindVariants: import("@cyanheads/mcp-ts-core").ToolDef
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{"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;AAsHjE,eAAO,MAAM,iBAAiB
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1
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{"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;AAsHjE,eAAO,MAAM,iBAAiB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;EAwP5B,CAAC"}
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{"version":3,"file":"brapi-raw-get.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-raw-get.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;GAYG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAuDjE,eAAO,MAAM,WAAW
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1
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+
{"version":3,"file":"brapi-raw-get.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-raw-get.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;GAYG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAuDjE,eAAO,MAAM,WAAW;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;cAoItB,CAAC"}
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{"version":3,"file":"brapi-raw-search.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-raw-search.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AA6DjE,eAAO,MAAM,cAAc
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1
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+
{"version":3,"file":"brapi-raw-search.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-raw-search.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AA6DjE,eAAO,MAAM,cAAc;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;cAmKzB,CAAC"}
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1
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-
{"version":3,"file":"brapi-walk-pedigree.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-walk-pedigree.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;GASG;AAEH,OAAO,EAAsB,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAC/D,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAmGjE,eAAO,MAAM,iBAAiB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;
|
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1
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+
{"version":3,"file":"brapi-walk-pedigree.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/brapi-walk-pedigree.tool.ts"],"names":[],"mappings":"AAAA;;;;;;;;;GASG;AAEH,OAAO,EAAsB,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAC/D,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAmGjE,eAAO,MAAM,iBAAiB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;cAmP5B,CAAC"}
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@@ -150,8 +150,9 @@ export const brapiWalkPedigree = tool('brapi_walk_pedigree', {
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|
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@@ -166,7 +167,6 @@ export const brapiWalkPedigree = tool('brapi_walk_pedigree', {
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walkAncestors: wantsAncestors && hasPedigree,
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})));
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let producedEdge = false;
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@@ -174,6 +174,14 @@ export const brapiWalkPedigree = tool('brapi_walk_pedigree', {
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// Hard ceiling: one high-fertility germplasm can enumerate thousands
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// per-registration — a depth-boundary check alone lets nodes.size
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// overshoot MAX_NODES before the next iteration runs.
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|
+
break depthLoop;
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}
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|
const already = state.nodes.has(parent.germplasmDbId);
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registerNode(state, parent.germplasmDbId, parent.germplasmName, depth, 'ancestor');
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const edge = {
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@@ -185,7 +193,7 @@ export const brapiWalkPedigree = tool('brapi_walk_pedigree', {
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edge.parentType = parent.parentType;
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|
const inverseKnown = isInverseEdgeKnown(state, edge);
|
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if (addEdge(state, edge))
|
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-
|
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|
+
depthReached = depth;
|
|
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|
if (already) {
|
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|
// direction='both' walks BFS in two directions concurrently — we
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|
// expect to re-encounter nodes via the inverse relationship as the
|
|
@@ -198,6 +206,10 @@ export const brapiWalkPedigree = tool('brapi_walk_pedigree', {
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}
|
|
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|
}
|
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208
|
for (const child of result.children) {
|
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209
|
+
if (state.nodes.size >= MAX_NODES) {
|
|
210
|
+
truncated = true;
|
|
211
|
+
break depthLoop;
|
|
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|
+
}
|
|
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213
|
const already = state.nodes.has(child.germplasmDbId);
|
|
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|
registerNode(state, child.germplasmDbId, child.germplasmName, depth, 'descendant');
|
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|
const edge = {
|
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@@ -207,7 +219,7 @@ export const brapiWalkPedigree = tool('brapi_walk_pedigree', {
|
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|
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|
};
|
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|
const inverseKnown = isInverseEdgeKnown(state, edge);
|
|
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221
|
if (addEdge(state, edge))
|
|
210
|
-
|
|
222
|
+
depthReached = depth;
|
|
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223
|
if (already) {
|
|
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224
|
if (!inverseKnown)
|
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|
cycleCount++;
|
|
@@ -217,11 +229,12 @@ export const brapiWalkPedigree = tool('brapi_walk_pedigree', {
|
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|
217
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|
}
|
|
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|
}
|
|
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231
|
}
|
|
220
|
-
if (producedEdge)
|
|
221
|
-
depthReached = depth;
|
|
222
232
|
if (state.frontier.size === 0)
|
|
223
233
|
break;
|
|
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234
|
}
|
|
235
|
+
if (truncated) {
|
|
236
|
+
warnings.push(`Walk stopped at the ${MAX_NODES}-node safety cap; the returned DAG is partial. Re-run with fewer roots or a lower maxDepth to stay within the cap.`);
|
|
237
|
+
}
|
|
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238
|
const nodes = Array.from(state.nodes.values()).sort((a, b) => a.depth - b.depth || a.germplasmDbId.localeCompare(b.germplasmDbId));
|
|
226
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|
const edges = Array.from(state.edges.values());
|
|
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|
const leafCount = computeLeafCount(nodes, edges, input.direction);
|
|
@@ -1 +1 @@
|
|
|
1
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1
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+
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@@ -268,6 +268,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
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268
268
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tableName: import("zod").ZodString;
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269
269
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rowCount: import("zod").ZodNumber;
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270
270
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columns: import("zod").ZodArray<import("zod").ZodString>;
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271
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+
columnLegend: import("zod").ZodOptional<import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodString>>;
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271
272
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createdAt: import("zod").ZodString;
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columnLegend: import("zod").ZodOptional<import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodString>>;
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columnLegend: import("zod").ZodOptional<import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodString>>;
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createdAt: import("zod").ZodString;
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expiresAt: import("zod").ZodString;
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truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
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@@ -726,6 +731,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
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expiresAt: import("zod").ZodString;
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truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
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@@ -798,6 +804,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
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tableName: import("zod").ZodString;
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columns: import("zod").ZodArray<import("zod").ZodString>;
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+
columnLegend: import("zod").ZodOptional<import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodString>>;
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createdAt: import("zod").ZodString;
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expiresAt: import("zod").ZodString;
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truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
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@@ -865,6 +872,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
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columns: import("zod").ZodArray<import("zod").ZodString>;
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+
columnLegend: import("zod").ZodOptional<import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodString>>;
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createdAt: import("zod").ZodString;
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expiresAt: import("zod").ZodString;
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truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
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@@ -951,6 +959,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
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tableName: import("zod").ZodString;
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rowCount: import("zod").ZodNumber;
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columns: import("zod").ZodArray<import("zod").ZodString>;
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+
columnLegend: import("zod").ZodOptional<import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodString>>;
|
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createdAt: import("zod").ZodString;
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expiresAt: import("zod").ZodString;
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truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
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@@ -1010,6 +1019,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
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rowCount: import("zod").ZodNumber;
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|
columns: import("zod").ZodArray<import("zod").ZodString>;
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+
columnLegend: import("zod").ZodOptional<import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodString>>;
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expiresAt: import("zod").ZodString;
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truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
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|
@@ -1138,6 +1148,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
|
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1138
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|
tableName: import("zod").ZodString;
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|
rowCount: import("zod").ZodNumber;
|
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|
columns: import("zod").ZodArray<import("zod").ZodString>;
|
|
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|
+
columnLegend: import("zod").ZodOptional<import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodString>>;
|
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1141
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createdAt: import("zod").ZodString;
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|
expiresAt: import("zod").ZodString;
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|
truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
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|
@@ -1180,6 +1191,7 @@ export declare const readOnlyToolDefinitions: (import("@cyanheads/mcp-ts-core").
|
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1180
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|
tableName: import("zod").ZodString;
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|
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|
columns: import("zod").ZodArray<import("zod").ZodString>;
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|
+
columnLegend: import("zod").ZodOptional<import("zod").ZodRecord<import("zod").ZodString, import("zod").ZodString>>;
|
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|
createdAt: import("zod").ZodString;
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|
expiresAt: import("zod").ZodString;
|
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|
truncated: import("zod").ZodOptional<import("zod").ZodBoolean>;
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"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
|
|
1
|
+
{"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"}
|
|
@@ -9,6 +9,11 @@
|
|
|
9
9
|
* sanitized to SQL-safe identifiers before registration — paired with a legend
|
|
10
10
|
* mapping the safe name back to the original ID so the correlation is never lost.
|
|
11
11
|
*
|
|
12
|
+
* `sanitizeRowColumns` applies the same rules to whole spilled rows at the
|
|
13
|
+
* `CanvasBridge.registerDataframe` choke point, so every generic `find_*`
|
|
14
|
+
* spillover (not just the matrix pivots) is protected — a `/variants` row's
|
|
15
|
+
* reserved `end` key no longer fails registration.
|
|
16
|
+
*
|
|
12
17
|
* @module mcp-server/tools/shared/canvas-columns
|
|
13
18
|
*/
|
|
14
19
|
/**
|
|
@@ -29,4 +34,22 @@ export declare function buildUniqueColumns(ids: readonly string[]): {
|
|
|
29
34
|
columns: string[];
|
|
30
35
|
toOriginal: Record<string, string>;
|
|
31
36
|
};
|
|
37
|
+
/**
|
|
38
|
+
* Sanitize every column key across a spilled row set into SQL-safe DuckDB
|
|
39
|
+
* identifiers, reusing {@link buildUniqueColumns}. Returns the (possibly
|
|
40
|
+
* rewritten) rows plus a legend mapping each *renamed* safe column back to its
|
|
41
|
+
* original upstream key — entries are added only for columns that actually
|
|
42
|
+
* changed. When every key is already a valid identifier the input rows are
|
|
43
|
+
* returned by reference and the legend is empty, so the common (all-safe) path
|
|
44
|
+
* stays allocation-free.
|
|
45
|
+
*
|
|
46
|
+
* Centralizing this at `CanvasBridge.registerDataframe` keeps every spill
|
|
47
|
+
* consumer safe by construction: a row carrying a reserved word (`end`,
|
|
48
|
+
* `order`, …) or a digit-leading key no longer trips the framework's
|
|
49
|
+
* `assertValidIdentifier` gate at table registration.
|
|
50
|
+
*/
|
|
51
|
+
export declare function sanitizeRowColumns(rows: ReadonlyArray<Record<string, unknown>>): {
|
|
52
|
+
legend: Record<string, string>;
|
|
53
|
+
rows: Record<string, unknown>[];
|
|
54
|
+
};
|
|
32
55
|
//# sourceMappingURL=canvas-columns.d.ts.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"canvas-columns.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/shared/canvas-columns.ts"],"names":[],"mappings":"AAAA
|
|
1
|
+
{"version":3,"file":"canvas-columns.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/shared/canvas-columns.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;GAiBG;AA+CH;;;;;;GAMG;AACH,wBAAgB,kBAAkB,CAAC,GAAG,EAAE,MAAM,GAAG,MAAM,CAStD;AAED;;;;;GAKG;AACH,wBAAgB,kBAAkB,CAAC,GAAG,EAAE,SAAS,MAAM,EAAE,GAAG;IAC1D,OAAO,EAAE,MAAM,EAAE,CAAC;IAClB,UAAU,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;CACpC,CAaA;AAED;;;;;;;;;;;;;GAaG;AACH,wBAAgB,kBAAkB,CAAC,IAAI,EAAE,aAAa,CAAC,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC,GAAG;IAChF,MAAM,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IAC/B,IAAI,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EAAE,CAAC;CACjC,CAmCA"}
|
|
@@ -9,6 +9,11 @@
|
|
|
9
9
|
* sanitized to SQL-safe identifiers before registration — paired with a legend
|
|
10
10
|
* mapping the safe name back to the original ID so the correlation is never lost.
|
|
11
11
|
*
|
|
12
|
+
* `sanitizeRowColumns` applies the same rules to whole spilled rows at the
|
|
13
|
+
* `CanvasBridge.registerDataframe` choke point, so every generic `find_*`
|
|
14
|
+
* spillover (not just the matrix pivots) is protected — a `/variants` row's
|
|
15
|
+
* reserved `end` key no longer fails registration.
|
|
16
|
+
*
|
|
12
17
|
* @module mcp-server/tools/shared/canvas-columns
|
|
13
18
|
*/
|
|
14
19
|
/**
|
|
@@ -95,4 +100,52 @@ export function buildUniqueColumns(ids) {
|
|
|
95
100
|
}
|
|
96
101
|
return { columns, toOriginal };
|
|
97
102
|
}
|
|
103
|
+
/**
|
|
104
|
+
* Sanitize every column key across a spilled row set into SQL-safe DuckDB
|
|
105
|
+
* identifiers, reusing {@link buildUniqueColumns}. Returns the (possibly
|
|
106
|
+
* rewritten) rows plus a legend mapping each *renamed* safe column back to its
|
|
107
|
+
* original upstream key — entries are added only for columns that actually
|
|
108
|
+
* changed. When every key is already a valid identifier the input rows are
|
|
109
|
+
* returned by reference and the legend is empty, so the common (all-safe) path
|
|
110
|
+
* stays allocation-free.
|
|
111
|
+
*
|
|
112
|
+
* Centralizing this at `CanvasBridge.registerDataframe` keeps every spill
|
|
113
|
+
* consumer safe by construction: a row carrying a reserved word (`end`,
|
|
114
|
+
* `order`, …) or a digit-leading key no longer trips the framework's
|
|
115
|
+
* `assertValidIdentifier` gate at table registration.
|
|
116
|
+
*/
|
|
117
|
+
export function sanitizeRowColumns(rows) {
|
|
118
|
+
// Ordered union of keys across all (sparse) rows — later rows may introduce
|
|
119
|
+
// columns the first row lacks.
|
|
120
|
+
const order = [];
|
|
121
|
+
const seen = new Set();
|
|
122
|
+
for (const row of rows) {
|
|
123
|
+
for (const key of Object.keys(row)) {
|
|
124
|
+
if (!seen.has(key)) {
|
|
125
|
+
seen.add(key);
|
|
126
|
+
order.push(key);
|
|
127
|
+
}
|
|
128
|
+
}
|
|
129
|
+
}
|
|
130
|
+
const { columns } = buildUniqueColumns(order);
|
|
131
|
+
const rename = new Map();
|
|
132
|
+
const legend = {};
|
|
133
|
+
order.forEach((original, i) => {
|
|
134
|
+
const safe = columns[i] ?? original;
|
|
135
|
+
rename.set(original, safe);
|
|
136
|
+
if (safe !== original)
|
|
137
|
+
legend[safe] = original;
|
|
138
|
+
});
|
|
139
|
+
if (Object.keys(legend).length === 0) {
|
|
140
|
+
return { rows: rows, legend: {} };
|
|
141
|
+
}
|
|
142
|
+
const rewritten = rows.map((row) => {
|
|
143
|
+
const out = {};
|
|
144
|
+
for (const [key, value] of Object.entries(row)) {
|
|
145
|
+
out[rename.get(key) ?? key] = value;
|
|
146
|
+
}
|
|
147
|
+
return out;
|
|
148
|
+
});
|
|
149
|
+
return { rows: rewritten, legend };
|
|
150
|
+
}
|
|
98
151
|
//# sourceMappingURL=canvas-columns.js.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"canvas-columns.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/shared/canvas-columns.ts"],"names":[],"mappings":"AAAA
|
|
1
|
+
{"version":3,"file":"canvas-columns.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/shared/canvas-columns.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;GAiBG;AAEH;;;;;GAKG;AACH,MAAM,oBAAoB,GAAG,IAAI,GAAG,CAAC;IACnC,QAAQ;IACR,MAAM;IACN,OAAO;IACP,OAAO;IACP,OAAO;IACP,QAAQ;IACR,OAAO;IACP,QAAQ;IACR,OAAO;IACP,WAAW;IACX,QAAQ;IACR,KAAK;IACL,UAAU;IACV,IAAI;IACJ,KAAK;IACL,IAAI;IACJ,KAAK;IACL,MAAM;IACN,MAAM;IACN,OAAO;IACP,MAAM;IACN,MAAM;IACN,MAAM;IACN,MAAM;IACN,KAAK;IACL,MAAM;IACN,OAAO;IACP,OAAO;IACP,MAAM;IACN,OAAO;IACP,MAAM;IACN,OAAO;IACP,IAAI;IACJ,OAAO;IACP,MAAM;IACN,WAAW;CACZ,CAAC,CAAC;AAEH;;;;;;GAMG;AACH,MAAM,UAAU,kBAAkB,CAAC,GAAW;IAC5C,IAAI,IAAI,GAAG,GAAG,CAAC,OAAO,CAAC,gBAAgB,EAAE,GAAG,CAAC,CAAC;IAC9C,IAAI,QAAQ,CAAC,IAAI,CAAC,IAAI,CAAC;QAAE,IAAI,GAAG,KAAK,IAAI,EAAE,CAAC;IAC5C,IAAI,IAAI,CAAC,MAAM,GAAG,EAAE;QAAE,IAAI,GAAG,IAAI,CAAC,KAAK,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC;IAC/C,IAAI,IAAI,CAAC,MAAM,KAAK,CAAC;QAAE,IAAI,GAAG,WAAW,CAAC;IAC1C,IAAI,oBAAoB,CAAC,GAAG,CAAC,IAAI,CAAC,WAAW,EAAE,CAAC,EAAE,CAAC;QACjD,IAAI,GAAG,IAAI,CAAC,MAAM,IAAI,EAAE,CAAC,CAAC,CAAC,GAAG,IAAI,CAAC,KAAK,CAAC,CAAC,EAAE,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,GAAG,IAAI,GAAG,CAAC;IAClE,CAAC;IACD,OAAO,IAAI,CAAC;AACd,CAAC;AAED;;;;;GAKG;AACH,MAAM,UAAU,kBAAkB,CAAC,GAAsB;IAIvD,MAAM,IAAI,GAAG,IAAI,GAAG,EAAkB,CAAC;IACvC,MAAM,OAAO,GAAa,EAAE,CAAC;IAC7B,MAAM,UAAU,GAA2B,EAAE,CAAC;IAC9C,KAAK,MAAM,EAAE,IAAI,GAAG,EAAE,CAAC;QACrB,MAAM,IAAI,GAAG,kBAAkB,CAAC,EAAE,CAAC,CAAC;QACpC,MAAM,KAAK,GAAG,CAAC,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC;QACxC,IAAI,CAAC,GAAG,CAAC,IAAI,EAAE,KAAK,CAAC,CAAC;QACtB,MAAM,OAAO,GAAG,KAAK,KAAK,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,GAAG,IAAI,IAAI,KAAK,EAAE,CAAC;QACxD,OAAO,CAAC,IAAI,CAAC,OAAO,CAAC,CAAC;QACtB,UAAU,CAAC,OAAO,CAAC,GAAG,EAAE,CAAC;IAC3B,CAAC;IACD,OAAO,EAAE,OAAO,EAAE,UAAU,EAAE,CAAC;AACjC,CAAC;AAED;;;;;;;;;;;;;GAaG;AACH,MAAM,UAAU,kBAAkB,CAAC,IAA4C;IAI7E,4EAA4E;IAC5E,+BAA+B;IAC/B,MAAM,KAAK,GAAa,EAAE,CAAC;IAC3B,MAAM,IAAI,GAAG,IAAI,GAAG,EAAU,CAAC;IAC/B,KAAK,MAAM,GAAG,IAAI,IAAI,EAAE,CAAC;QACvB,KAAK,MAAM,GAAG,IAAI,MAAM,CAAC,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC;YACnC,IAAI,CAAC,IAAI,CAAC,GAAG,CAAC,GAAG,CAAC,EAAE,CAAC;gBACnB,IAAI,CAAC,GAAG,CAAC,GAAG,CAAC,CAAC;gBACd,KAAK,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC;YAClB,CAAC;QACH,CAAC;IACH,CAAC;IAED,MAAM,EAAE,OAAO,EAAE,GAAG,kBAAkB,CAAC,KAAK,CAAC,CAAC;IAC9C,MAAM,MAAM,GAAG,IAAI,GAAG,EAAkB,CAAC;IACzC,MAAM,MAAM,GAA2B,EAAE,CAAC;IAC1C,KAAK,CAAC,OAAO,CAAC,CAAC,QAAQ,EAAE,CAAC,EAAE,EAAE;QAC5B,MAAM,IAAI,GAAG,OAAO,CAAC,CAAC,CAAC,IAAI,QAAQ,CAAC;QACpC,MAAM,CAAC,GAAG,CAAC,QAAQ,EAAE,IAAI,CAAC,CAAC;QAC3B,IAAI,IAAI,KAAK,QAAQ;YAAE,MAAM,CAAC,IAAI,CAAC,GAAG,QAAQ,CAAC;IACjD,CAAC,CAAC,CAAC;IAEH,IAAI,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;QACrC,OAAO,EAAE,IAAI,EAAE,IAAiC,EAAE,MAAM,EAAE,EAAE,EAAE,CAAC;IACjE,CAAC;IAED,MAAM,SAAS,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,GAAG,EAAE,EAAE;QACjC,MAAM,GAAG,GAA4B,EAAE,CAAC;QACxC,KAAK,MAAM,CAAC,GAAG,EAAE,KAAK,CAAC,IAAI,MAAM,CAAC,OAAO,CAAC,GAAG,CAAC,EAAE,CAAC;YAC/C,GAAG,CAAC,MAAM,CAAC,GAAG,CAAC,GAAG,CAAC,IAAI,GAAG,CAAC,GAAG,KAAK,CAAC;QACtC,CAAC;QACD,OAAO,GAAG,CAAC;IACb,CAAC,CAAC,CAAC;IACH,OAAO,EAAE,IAAI,EAAE,SAAS,EAAE,MAAM,EAAE,CAAC;AACrC,CAAC"}
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@@ -239,6 +239,7 @@ export declare const DataframeHandleSchema: z.ZodObject<{
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|
239
239
|
tableName: z.ZodString;
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240
240
|
rowCount: z.ZodNumber;
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241
241
|
columns: z.ZodArray<z.ZodString>;
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242
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+
columnLegend: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodString>>;
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242
243
|
createdAt: z.ZodString;
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243
244
|
expiresAt: z.ZodString;
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|
244
245
|
truncated: z.ZodOptional<z.ZodBoolean>;
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@@ -1 +1 @@
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|
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1
|
-
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|
|
1
|
+
{"version":3,"file":"find-helpers.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/shared/find-helpers.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,EAAE,KAAK,OAAO,EAAE,KAAK,cAAc,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAE9E,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,2BAA2B,CAAC;AAC9D,OAAO,KAAK,EACV,WAAW,EACX,aAAa,EACb,eAAe,EACf,mBAAmB,EACnB,YAAY,EACb,MAAM,kCAAkC,CAAC;AAC1C,OAAO,KAAK,EAAE,YAAY,EAAE,iBAAiB,EAAE,MAAM,mCAAmC,CAAC;AACzF,OAAO,KAAK,EACV,YAAY,EAEZ,uBAAuB,EACxB,MAAM,mCAAmC,CAAC;AAC3C,OAAO,KAAK,EAAE,iBAAiB,EAAE,MAAM,yCAAyC,CAAC;AACjF,OAAO,KAAK,EAAE,gBAAgB,EAAE,MAAM,qCAAqC,CAAC;AAG5E,kFAAkF;AAClF,wBAAgB,kBAAkB,CAAC,GAAG,EAAE,OAAO,GAAG,OAAO,CAExD;AAED;;;;;;;;;;GAUG;AACH,wBAAsB,2BAA2B,CAC/C,GAAG,EAAE,cAAc,CAAC,eAAe,CAAC,EACpC,KAAK,EAAE,MAAM,GAAG,SAAS,GACxB,OAAO,CAAC,gBAAgB,CAAC,CAY3B;AAED,qFAAqF;AACrF,eAAO,MAAM,kBAAkB,QAAS,CAAC;AAEzC,iFAAiF;AACjF,eAAO,MAAM,mBAAmB,KAAK,CAAC;AAEtC,eAAO,MAAM,UAAU,4BAMpB,CAAC;AAEJ,eAAO,MAAM,cAAc,4BAOxB,CAAC;AAEJ,eAAO,MAAM,iBAAiB,uDAK3B,CAAC;AAEJ;;;GAGG;AACH,wBAAgB,YAAY,CAC1B,KAAK,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EAC9B,KAAK,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,GAAG,SAAS,EAC1C,QAAQ,EAAE,MAAM,EAAE,GACjB,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAiBzB;AAED;;;;;;;;;;;;;;GAcG;AACH,wBAAgB,yBAAyB,CACvC,GAAG,EAAE,cAAc,CAAC,qBAAqB,CAAC,EAC1C,OAAO,EAAE,YAAY,EACrB,QAAQ,EAAE,MAAM,EAChB,OAAO,EAAE,QAAQ,CAAC,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC,EAC1C,QAAQ,EAAE,MAAM,EAAE,GACjB,iBAAiB,CAenB;AAED,MAAM,MAAM,SAAS,GACjB;IACE,OAAO,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;IACjC,IAAI,EAAE,KAAK,CAAC;IACZ,IAAI,EAAE,MAAM,CAAC;IACb,OAAO,EAAE,MAAM,CAAC;CACjB,GACD;IACE,IAAI,EAAE,QAAQ,CAAC;IACf,IAAI,EAAE,MAAM,CAAC;IACb,UAAU,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;IACpC,OAAO,EAAE,MAAM,CAAC;CACjB,CAAC;AAEN,MAAM,WAAW,qBAAqB;IACpC,OAAO,EAAE,YAAY,CAAC;IACtB,QAAQ,EAAE,MAAM,CAAC;IACjB,OAAO,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;IACjC,OAAO,EAAE,iBAAiB,CAAC;IAC3B;;;;;;;OAOG;IACH,kBAAkB,CAAC,EAAE,OAAO,CAAC;IAC7B,UAAU,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;IACpC,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,QAAQ,EAAE,MAAM,EAAE,CAAC;CACpB;AAED;;;;;;;;;;;GAWG;AACH,wBAAgB,gBAAgB,CAAC,KAAK,EAAE,qBAAqB,GAAG,SAAS,CAuDxE;AA6BD,gDAAgD;AAChD,wBAAgB,mBAAmB,CACjC,UAAU,EAAE,gBAAgB,EAC5B,MAAM,CAAC,EAAE,mBAAmB,CAAC,QAAQ,CAAC,EACtC,SAAS,GAAE,mBAAwB,GAClC,mBAAmB,CAKrB;AAED;;;;;;;;;;;GAWG;AACH,wBAAgB,uBAAuB,CACrC,UAAU,EAAE,gBAAgB,EAC5B,OAAO,EAAE,YAAY,EACrB,MAAM,EAAE,YAAY,EACpB,QAAQ,EAAE,MAAM,EAAE,EAClB,MAAM,CAAC,EAAE,mBAAmB,CAAC,QAAQ,CAAC,GACrC,mBAAmB,CAUrB;AAED;;;;GAIG;AACH,wBAAgB,mBAAmB,CAAC,CAAC,EACnC,IAAI,EAAE,SAAS,CAAC,EAAE,EAClB,QAAQ,EAAE,CAAC,GAAG,EAAE,CAAC,KAAK,MAAM,GAAG,SAAS,MAAM,EAAE,GAAG,SAAS,GAAG,IAAI,GAClE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAYxB;AAED;;;;;;GAMG;AACH,wBAAgB,gBAAgB,CAAC,IAAI,EAAE;IACrC,IAAI,EAAE,MAAM,CAAC;IACb,KAAK,EAAE,MAAM,CAAC;IACd,aAAa,EAAE,MAAM,CAAC;IACtB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,SAAS,CAAC,EAAE;QAAE,QAAQ,EAAE,MAAM,CAAC;QAAC,SAAS,CAAC,EAAE,MAAM,CAAA;KAAE,GAAG,SAAS,CAAC;CAClE,GAAG,MAAM,CAaT;AAED;;;;;;;;GAQG;AACH,wBAAgB,oBAAoB,CAClC,OAAO,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EAChC,YAAY,GAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAM,GACxC,MAAM,CAUR;AAED,iEAAiE;AACjE,wBAAgB,mBAAmB,CAAC,aAAa,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC,GAAG,MAAM,CAajG;AAED,MAAM,WAAW,UAAU,CAAC,CAAC;IAC3B,iEAAiE;IACjE,OAAO,EAAE,OAAO,CAAC;IACjB,sDAAsD;IACtD,YAAY,EAAE,MAAM,CAAC;IACrB,IAAI,EAAE,CAAC,EAAE,CAAC;IACV,8EAA8E;IAC9E,UAAU,CAAC,EAAE,MAAM,CAAC;CACrB;AAED;;;;;GAKG;AACH,wBAAgB,gBAAgB,CAAC,CAAC,SAAS,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EAChE,OAAO,EAAE,YAAY,EACrB,QAAQ,EAAE,MAAM,GACf,CAAC,CAAC,GAAG,EAAE,CAAC,KAAK,CAAC,CAAC,GAAG,SAAS,CAI7B;AAED;;;;GAIG;AACH,wBAAsB,eAAe,CAAC,CAAC,EACrC,MAAM,EAAE,WAAW,EACnB,UAAU,EAAE,gBAAgB,EAC5B,IAAI,EAAE,MAAM,EACZ,OAAO,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EAChC,SAAS,EAAE,MAAM,EACjB,GAAG,EAAE,OAAO,GACX,OAAO,CAAC,UAAU,CAAC,CAAC,CAAC,CAAC,CAQxB;AAED;;;;;GAKG;AACH,wBAAsB,mBAAmB,CAAC,CAAC,EACzC,MAAM,EAAE,WAAW,EACnB,UAAU,EAAE,gBAAgB,EAC5B,KAAK,EAAE,SAAS,EAChB,SAAS,EAAE,MAAM,EACjB,GAAG,EAAE,OAAO,EACZ,OAAO,GAAE;IAAE,YAAY,CAAC,EAAE,CAAC,GAAG,EAAE,CAAC,KAAK,CAAC,CAAA;CAAO,GAC7C,OAAO,CAAC,UAAU,CAAC,CAAC,CAAC,CAAC,CAaxB;AA8CD,MAAM,WAAW,UAAU,CAAC,CAAC;IAC3B,MAAM,EAAE,YAAY,CAAC;IACrB,MAAM,EAAE,WAAW,CAAC;IACpB,UAAU,EAAE,gBAAgB,CAAC;IAC7B,GAAG,EAAE,OAAO,CAAC;IACb,OAAO,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;IACjC,yDAAyD;IACzD,SAAS,EAAE,CAAC,EAAE,CAAC;IACf,SAAS,EAAE,MAAM,CAAC;IAClB;;;;;;;OAOG;IACH,YAAY,CAAC,EAAE,CAAC,GAAG,EAAE,CAAC,KAAK,CAAC,CAAC;IAC7B,2DAA2D;IAC3D,kBAAkB,CAAC,EAAE,mBAAmB,CAAC;IACzC,IAAI,EAAE,MAAM,CAAC;IACb,mFAAmF;IACnF,KAAK,CAAC,EAAE,SAAS,CAAC;IAClB;;;;;;OAMG;IACH,SAAS,CAAC,EAAE,CAAC,GAAG,EAAE,CAAC,KAAK,OAAO,CAAC;IAChC;;;;;;OAMG;IACH,SAAS,CAAC,EAAE,CAAC,GAAG,EAAE,CAAC,KAAK,CAAC,CAAC;IAC1B,MAAM,EAAE,MAAM,CAAC;IACf,sDAAsD;IACtD,UAAU,EAAE,MAAM,CAAC;CACpB;AAED,MAAM,WAAW,WAAW,CAAC,CAAC;IAC5B,SAAS,EAAE,uBAAuB,CAAC;IACnC,6EAA6E;IAC7E,QAAQ,EAAE,CAAC,EAAE,CAAC;IACd,YAAY,EAAE,MAAM,CAAC;CACtB;AAED;;;;;GAKG;AACH,eAAO,MAAM,qBAAqB;;;;;;;;;iBAoChC,CAAC;AAEH,MAAM,MAAM,eAAe,GAAG,CAAC,CAAC,KAAK,CAAC,OAAO,q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|
|
@@ -367,6 +367,10 @@ export const DataframeHandleSchema = z.object({
|
|
|
367
367
|
columns: z
|
|
368
368
|
.array(z.string().describe('Column name from the materialized rows.'))
|
|
369
369
|
.describe('Full column list of the dataframe.'),
|
|
370
|
+
columnLegend: z
|
|
371
|
+
.record(z.string(), z.string())
|
|
372
|
+
.optional()
|
|
373
|
+
.describe('Maps a sanitized column name back to its original upstream key, for columns renamed to clear the SQL-safe-identifier gate (e.g. `end` → `end_`). Present only when a column was renamed — write SQL against the sanitized (left-hand) names.'),
|
|
370
374
|
createdAt: z.string().describe('ISO 8601 timestamp the dataframe was created.'),
|
|
371
375
|
expiresAt: z
|
|
372
376
|
.string()
|
|
@@ -396,6 +400,12 @@ export function renderDataframeHandle(handle) {
|
|
|
396
400
|
`- createdAt: ${handle.createdAt}`,
|
|
397
401
|
`- expiresAt: ${handle.expiresAt} (${formatExpiresIn(handle.expiresAt)})`,
|
|
398
402
|
];
|
|
403
|
+
if (handle.columnLegend && Object.keys(handle.columnLegend).length > 0) {
|
|
404
|
+
const pairs = Object.entries(handle.columnLegend)
|
|
405
|
+
.map(([safe, original]) => `${safe} → ${original}`)
|
|
406
|
+
.join(', ');
|
|
407
|
+
lines.push(`- renamedColumns: ${pairs} (query using the left-hand names)`);
|
|
408
|
+
}
|
|
399
409
|
if (handle.truncated)
|
|
400
410
|
lines.push(`- truncated: true`);
|
|
401
411
|
if (typeof handle.maxRows === 'number')
|
|
@@ -436,6 +446,8 @@ export function toDataframeHandle(result) {
|
|
|
436
446
|
createdAt: result.createdAt,
|
|
437
447
|
expiresAt: result.expiresAt,
|
|
438
448
|
};
|
|
449
|
+
if (result.columnLegend)
|
|
450
|
+
handle.columnLegend = result.columnLegend;
|
|
439
451
|
if (result.truncated)
|
|
440
452
|
handle.truncated = true;
|
|
441
453
|
if (typeof result.maxRows === 'number')
|
|
@@ -1 +1 @@
|
|
|
1
|
-
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1
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+
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@@ -35,6 +35,12 @@ export interface RegisterDataframeInput {
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35
35
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}
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36
36
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/** Result of {@link CanvasBridge.registerDataframe} — the dataframe handle. */
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37
37
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export interface RegisterDataframeResult {
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38
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+
/**
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39
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+
* Maps each sanitized column name back to its original upstream key, for
|
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40
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+
* columns renamed to clear the SQL-safe-identifier gate (e.g. `end` → `end_`).
|
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41
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+
* Present only when at least one column was renamed.
|
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42
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+
*/
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43
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+
columnLegend?: Record<string, string>;
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38
44
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columns: string[];
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39
45
|
createdAt: string;
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40
46
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expiresAt: string;
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@@ -1 +1 @@
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1
|
-
{"version":3,"file":"canvas-bridge.d.ts","sourceRoot":"","sources":["../../../src/services/canvas-bridge/canvas-bridge.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;GAeG;AAGH,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAC;AACtD,OAAO,KAAK,EACV,cAAc,EAGd,UAAU,EACV,YAAY,EACZ,YAAY,EACZ,WAAW,EACX,mBAAmB,EAEpB,MAAM,+BAA+B,CAAC;AAGvC,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,2BAA2B,CAAC;
|
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1
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+
{"version":3,"file":"canvas-bridge.d.ts","sourceRoot":"","sources":["../../../src/services/canvas-bridge/canvas-bridge.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;GAeG;AAGH,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAC;AACtD,OAAO,KAAK,EACV,cAAc,EAGd,UAAU,EACV,YAAY,EACZ,YAAY,EACZ,WAAW,EACX,mBAAmB,EAEpB,MAAM,+BAA+B,CAAC;AAGvC,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,2BAA2B,CAAC;AAE9D,OAAO,KAAK,EAAmB,cAAc,EAAE,MAAM,YAAY,CAAC;AAiClE,uDAAuD;AACvD,MAAM,WAAW,sBAAsB;IACrC,iCAAiC;IACjC,OAAO,EAAE,MAAM,CAAC;IAChB,gFAAgF;IAChF,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,oEAAoE;IACpE,KAAK,EAAE,OAAO,CAAC;IACf,kCAAkC;IAClC,IAAI,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EAAE,CAAC;IAChC,mDAAmD;IACnD,MAAM,EAAE,MAAM,CAAC;IACf,4EAA4E;IAC5E,SAAS,CAAC,EAAE,OAAO,CAAC;CACrB;AAED,+EAA+E;AAC/E,MAAM,WAAW,uBAAuB;IACtC;;;;OAIG;IACH,YAAY,CAAC,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IACtC,OAAO,EAAE,MAAM,EAAE,CAAC;IAClB,SAAS,EAAE,MAAM,CAAC;IAClB,SAAS,EAAE,MAAM,CAAC;IAClB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,QAAQ,EAAE,MAAM,CAAC;IACjB,SAAS,EAAE,MAAM,CAAC;IAClB,SAAS,CAAC,EAAE,OAAO,CAAC;CACrB;AAED;;;;GAIG;AACH,qBAAa,YAAY;IAErB,OAAO,CAAC,QAAQ,CAAC,MAAM;IACvB,OAAO,CAAC,QAAQ,CAAC,YAAY;gBADZ,MAAM,EAAE,UAAU,EAClB,YAAY,EAAE,YAAY;IAG7C;;;;;;;;;;;;;;OAcG;IACG,WAAW,CAAC,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,cAAc,CAAC;IAoBxD;;;;OAIG;IACH,OAAO,CAAC,gBAAgB;IAOxB;;;;;OAKG;IACG,iBAAiB,CACrB,GAAG,EAAE,OAAO,EACZ,KAAK,EAAE,sBAAsB,GAC5B,OAAO,CAAC,uBAAuB,CAAC;IAoDnC;;;;;;;;;;;;;OAaG;IACG,KAAK,CACT,GAAG,EAAE,OAAO,EACZ,GAAG,EAAE,MAAM,EACX,OAAO,GAAE;QAAE,OAAO,CAAC,EAAE,MAAM,CAAC;QAAC,UAAU,CAAC,EAAE,MAAM,CAAC;QAAC,QAAQ,CAAC,EAAE,MAAM,CAAA;KAAO,GACzE,OAAO,CAAC,WAAW,CAAC;IAmBvB;;;OAGG;IACG,aAAa,CACjB,GAAG,EAAE,OAAO,EACZ,IAAI,EAAE,MAAM,EACZ,IAAI,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EAAE,GAC9B,OAAO,CAAC,mBAAmB,CAAC;IAK/B,+EAA+E;IACzE,IAAI,CAAC,GAAG,EAAE,OAAO,EAAE,IAAI,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC;IAUxD;;;;;;;;;;;;OAYG;IACG,MAAM,CACV,GAAG,EAAE,OAAO,EACZ,SAAS,EAAE,MAAM,EACjB,MAAM,EAAE,YAAY,EACpB,OAAO,GAAE;QAAE,MAAM,CAAC,EAAE,WAAW,CAAA;KAAO,GACrC,OAAO,CAAC,YAAY,CAAC;IAOxB;;;;;;OAMG;IACG,WAAW,CAAC,GAAG,EAAE,OAAO,EAAE,UAAU,EAAE,MAAM,EAAE,IAAI,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC;YAYlE,oBAAoB;IAoBlC;;;OAGG;IACG,QAAQ,CAAC,GAAG,EAAE,OAAO,EAAE,OAAO,GAAE;QAAE,SAAS,CAAC,EAAE,MAAM,CAAA;KAAO,GAAG,OAAO,CAAC,cAAc,EAAE,CAAC;YAQ/E,gBAAgB;CAiB/B;AAeD;;;;;GAKG;AACH,eAAO,MAAM,4BAA4B,EAAG,uBAAgC,CAAC;AA2K7E;;;;GAIG;AACH,wBAAgB,gBAAgB,CAAC,MAAM,EAAE,UAAU,EAAE,YAAY,EAAE,YAAY,GAAG,YAAY,CAG7F;AAED,wBAAgB,eAAe,IAAI,YAAY,CAK9C;AAED,sDAAsD;AACtD,wBAAgB,iBAAiB,IAAI,IAAI,CAExC"}
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@@ -17,6 +17,7 @@
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17
17
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import { unlink } from 'node:fs/promises';
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import { JsonRpcErrorCode, McpError, validationError } from '@cyanheads/mcp-ts-core/errors';
|
|
19
19
|
import { idGenerator } from '@cyanheads/mcp-ts-core/utils';
|
|
20
|
+
import { sanitizeRowColumns } from '../../mcp-server/tools/shared/canvas-columns.js';
|
|
20
21
|
/**
|
|
21
22
|
* State keys holding the default canvasId (opaque 10-char token).
|
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23
|
*
|
|
@@ -124,8 +125,13 @@ export class CanvasBridge {
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|
124
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// that column. Sniffed schemas can never prove non-nullability from a
|
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125
126
|
// sample, so we walk every row, classify types ourselves, and emit
|
|
126
127
|
// `nullable: true` for every column.
|
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127
|
-
|
|
128
|
-
|
|
128
|
+
// Sanitize raw upstream column keys to SQL-safe identifiers before
|
|
129
|
+
// registration — a reserved word (`end` on /variants) or digit-leading key
|
|
130
|
+
// would otherwise be rejected by the framework's assertValidIdentifier gate.
|
|
131
|
+
// `columnLegend` records any rename so callers can map safe → original.
|
|
132
|
+
const { rows: safeRows, legend: columnLegend } = sanitizeRowColumns(input.rows);
|
|
133
|
+
const schema = deriveAllNullableSchema(safeRows);
|
|
134
|
+
const registered = await instance.registerTable(tableName, safeRows, { schema });
|
|
129
135
|
const tableMeta = {
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|
130
136
|
source: input.source,
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131
137
|
baseUrl: input.baseUrl,
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|
@@ -150,6 +156,8 @@ export class CanvasBridge {
|
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|
150
156
|
result.truncated = true;
|
|
151
157
|
if (typeof input.maxRows === 'number')
|
|
152
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|
result.maxRows = input.maxRows;
|
|
159
|
+
if (Object.keys(columnLegend).length > 0)
|
|
160
|
+
result.columnLegend = columnLegend;
|
|
153
161
|
return result;
|
|
154
162
|
}
|
|
155
163
|
/**
|
|
@@ -1 +1 @@
|
|
|
1
|
-
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1
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|
package/manifest.json
CHANGED
package/package.json
CHANGED
|
@@ -1,7 +1,7 @@
|
|
|
1
1
|
{
|
|
2
2
|
"name": "@cyanheads/brapi-mcp-server",
|
|
3
3
|
"mcpName": "io.github.cyanheads/brapi-mcp-server",
|
|
4
|
-
"version": "0.7.
|
|
4
|
+
"version": "0.7.2",
|
|
5
5
|
"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.",
|
|
6
6
|
"author": "Casey Hand @cyanheads (https://github.com/cyanheads/brapi-mcp-server#readme)",
|
|
7
7
|
"type": "module",
|
|
@@ -35,6 +35,7 @@
|
|
|
35
35
|
"audit:refresh": "rm -f bun.lock && bun install && bun audit",
|
|
36
36
|
"changelog:build": "bun run scripts/build-changelog.ts",
|
|
37
37
|
"changelog:check": "bun run scripts/build-changelog.ts --check",
|
|
38
|
+
"release:github": "bun run scripts/release-github.ts",
|
|
38
39
|
"test": "bunx --bun vitest run",
|
|
39
40
|
"publish-mcp": "mcp-publisher login github -token \"$(security find-generic-password -a \"$USER\" -s mcp-publisher-github-pat -w)\" && mcp-publisher publish",
|
|
40
41
|
"start": "bun ./dist/index.js",
|
|
@@ -80,7 +81,7 @@
|
|
|
80
81
|
"access": "public"
|
|
81
82
|
},
|
|
82
83
|
"dependencies": {
|
|
83
|
-
"@cyanheads/mcp-ts-core": "^0.9.
|
|
84
|
+
"@cyanheads/mcp-ts-core": "^0.9.21",
|
|
84
85
|
"@duckdb/node-api": "^1.5.3-r.3",
|
|
85
86
|
"pino-pretty": "^13.1.3",
|
|
86
87
|
"zod": "^4.4.3"
|
package/server.json
CHANGED
|
@@ -6,14 +6,14 @@
|
|
|
6
6
|
"url": "https://github.com/cyanheads/brapi-mcp-server",
|
|
7
7
|
"source": "github"
|
|
8
8
|
},
|
|
9
|
-
"version": "0.7.
|
|
9
|
+
"version": "0.7.2",
|
|
10
10
|
"packages": [
|
|
11
11
|
{
|
|
12
12
|
"registryType": "npm",
|
|
13
13
|
"registryBaseUrl": "https://registry.npmjs.org",
|
|
14
14
|
"identifier": "@cyanheads/brapi-mcp-server",
|
|
15
15
|
"runtimeHint": "bun",
|
|
16
|
-
"version": "0.7.
|
|
16
|
+
"version": "0.7.2",
|
|
17
17
|
"packageArguments": [
|
|
18
18
|
{ "type": "positional", "value": "run" },
|
|
19
19
|
{ "type": "positional", "value": "start:stdio" }
|
|
@@ -49,7 +49,7 @@
|
|
|
49
49
|
"registryBaseUrl": "https://registry.npmjs.org",
|
|
50
50
|
"identifier": "@cyanheads/brapi-mcp-server",
|
|
51
51
|
"runtimeHint": "bun",
|
|
52
|
-
"version": "0.7.
|
|
52
|
+
"version": "0.7.2",
|
|
53
53
|
"packageArguments": [
|
|
54
54
|
{ "type": "positional", "value": "run" },
|
|
55
55
|
{ "type": "positional", "value": "start:http" }
|