TogoMCP

from .server import * import httpx _client = httpx.AsyncClient(base_url="https://api.togoid.dbcls.jp") @mcp.tool() async def convertId( ids: str, route: str, limit: int = 10000, offset: int = 0, ) -> list: """Convert IDs from one database to another. Args: ids: Comma-separated list of source IDs route: Comma-separated list of datasets (source to target) limit: Maximum number of results (max 10000) offset: Pagination offset Returns: Dictionary with ids, route, and result arrays """ params = { "ids": ids, "route": route, "report": "target", "format": "json", "limit": limit, "offset": offset, "noheader": "0" } response = await _client.get("/convert", params=params) response.raise_for_status() return response.json() .get("results") @mcp.tool() async def countId( source: str, target: str, ids: str ) -> dict: """Count how many IDs can be converted between databases. Args: source: Source database key target: Target database key ids: Comma-separated list of IDs Returns: Dictionary with source and target counts """ response = await _client.get( f"/count/{source}-{target}", params={"ids": ids} ) response.raise_for_status() return response.json() @mcp.tool() async def getAllDataset() -> dict: """Get configuration for all available datasets. Returns: Dictionary mapping dataset names to their configurations including labels, regex patterns, prefixes, examples, etc. """ response = await _client.get("/config/dataset") response.raise_for_status() return response.json() @mcp.tool() async def getDataset(dataset: str) -> dict: """Get configuration for a specific dataset. Args: dataset: Dataset key (e.g., 'uniprot', 'ncbigene') Returns: Dictionary with dataset configuration including: - label: Human-readable name - regex: ID validation pattern - prefix: URI prefixes for linking - examples: Sample IDs - annotations: Available annotation types """ response = await _client.get(f"/config/dataset/{dataset}") response.raise_for_status() return response.json() @mcp.tool() async def getAllRelation() -> dict: """Get all possible conversion relationships between databases. Returns: Dictionary mapping database pairs to their relationships """ response = await _client.get("/config/relation") response.raise_for_status() return response.json() @mcp.tool() async def getRelation(source: str, target: str) -> list: """Get relationship details between two specific databases. Args: source: Source database key target: Target database key Returns: List of relationship objects with forward, reverse, and description """ response = await _client.get(f"/config/relation/{source}-{target}") response.raise_for_status() return response.json() @mcp.tool() async def getDescription() -> dict: """Get descriptions for all databases. Returns: Dictionary with English and Japanese descriptions, names, and organization info for each database """ response = await _client.get("/config/descriptions") response.raise_for_status() return response.json()