Decimer Mcp Server

Name: Decimer Mcp Server
Author: DocMinus

by DocMinuscommunityv0.1.4

This MCP server exposes DECIMER image-to-SMILES functionality as tool calls, acting as an adapter over the existing FastAPI service in DecimerServerAPI.

From the registry: MCP server for DECIMER image-to-SMILES chemical structure recognition

GitHub Repository

Install & configure

Prerequisites

required
Running DECIMER API server
Start the DECIMER FastAPI backend (GitHub DocMinus/DecimerServerAPI or docminus/decimer_api on Docker Hub).
https://github.com/DocMinus/DecimerServerAPI

required

Clone and sync DecimerMCPServer

Clone the repo and install deps via uv.

$ git clone https://github.com/DocMinus/DecimerMCPServer && cd DecimerMCPServer && uv venv && uv sync

Install in your client

Paste into the AI you're chatting with — it will figure out the rest

Please install the `decimer-mcp-server` MCP server into my current AI client (that's you).

Required prerequisites (do these first if not already done):
- **Running DECIMER API server** — Start the DECIMER FastAPI backend (GitHub DocMinus/DecimerServerAPI or docminus/decimer_api on Docker Hub). (https://github.com/DocMinus/DecimerServerAPI)
- **Clone and sync DecimerMCPServer** — Clone the repo and install deps via uv. Run: `git clone https://github.com/DocMinus/DecimerMCPServer && cd DecimerMCPServer && uv venv && uv sync`

Canonical MCP server config (stdio transport):
- command: `uv`
- args: ["run","python","-m","decimer_mcp_server"]
- optional environment variables:
  - `DECIMER_API_BASE_URL`: URL of the DECIMER FastAPI server (example: `http://localhost:8099`)
  - `DECIMER_API_TIMEOUT_SECONDS`: Request timeout in seconds (example: `60`)
  - `DECIMER_MAX_IMAGE_BYTES`: Max image size in bytes (example: `10000000`)
  - `DECIMER_MCP_LOG_LEVEL`: Log level (example: `INFO`)

Add this MCP server to my current client's config in the correct format for you. If you need secrets or credentials I haven't provided, ASK me — do not invent values or leave raw placeholders. After adding it, tell me how to verify the server is connected.