How to integrate Affinda MCP with Claude Code

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Introduction

Manage your Affinda directly from Claude Code with zero worries about OAuth hassles, API-breaking issues, or reliability and security concerns.

You can do this in two different ways:

  1. Via Rube - Direct and easiest approach
  2. Via Composio SDK - Programmatic approach with more control

Why Rube?

Rube is a universal MCP server with access to 850+ SaaS apps. It ensures just-in-time tool loading so Claude can access the tools it needs, a remote workbench for programmatic tool calling and handling large tool responses out of the LLM context window, ensuring the LLM context window remains clean.

Connect Affinda to Claude Code with Rube

1. Get the MCP URL

Copy and paste the below command in Claude Code to add Rube MCP.

Terminal

2. Authenticate Rube

Run /mcp to view Rube

bash
/mcp
Run /mcp to view Rube in Claude Code
Click on Rube to authenticate
Authentication flow complete

3. Ensure it's connected

Run /mcp again to verify the connection. Now, do whatever you want with Claude Code and Affinda.

Rube connected successfully

Supported Tools & Triggers

Tools
Batch Update AnnotationsTool to update multiple annotations in one request.
Create CollectionTool to create a new collection.
Create DocumentTool to upload a new document for parsing.
Create OrganizationTool to create a new organization.
Create RESTHook SubscriptionTool to create a new resthook subscription.
Create TagTool to create a new tag.
Create Validation ResultTool to create a validation result.
Create WorkspaceTool to create a new workspace.
Delete CollectionTool to delete a specific collection by its id.
Delete DocumentTool to delete a specific document by its id.
Delete OrganizationTool to delete a specific organization by its id.
Delete Resthook SubscriptionTool to delete a specific resthook subscription by id.
Delete WorkspaceTool to delete a specific workspace by its id.
Delete Workspace MembershipTool to remove a user from a workspace by membership id.
Get TagsTool to list all tags.
Get All Validation ResultsTool to list validation results for documents.
Get Workspace MembershipsTool to list all workspace memberships for the authenticated user.
Get AnnotationsTool to retrieve a list of all annotations.
Get CollectionTool to retrieve details of a specific collection by its id.
Get CollectionsTool to retrieve a list of all collections.
Get DocumentTool to retrieve details of a specific document by its id.
Get DocumentsTool to retrieve a list of all documents.
Get Document TypeTool to retrieve details of a specific document type by its id.
Get Document TypesTool to retrieve a list of all document types.
Get ExtractorsTool to retrieve a list of all extractors.
Get OrganizationTool to retrieve details of a specific organization by its id.
Get OrganizationsTool to retrieve a list of all organizations.
Get Resthook SubscriptionTool to retrieve details of a specific resthook subscription by its id.
Get RESTHook SubscriptionsTool to retrieve a list of all resthook subscriptions.
Get Usage by WorkspaceTool to retrieve monthly credits consumption for a workspace.
Get WorkspaceTool to retrieve details of a specific workspace by its id.
Get Workspace MembershipTool to retrieve details of a specific workspace membership by its id.
Get WorkspacesTool to retrieve a list of all workspaces.
Update CollectionTool to update specific fields of a collection.
Update DocumentTool to update specific fields of a document.
Update Document DataTool to update parsed data for a resume or job description document.
Update OrganizationTool to update specific fields of an organization.
Update RESTHook SubscriptionTool to update an existing resthook subscription.
Update WorkspaceTool to update specific fields of a workspace.

What is the Affinda MCP server, and what's possible with it?

The Affinda MCP server is an implementation of the Model Context Protocol that connects your AI agent and assistants like Claude, Cursor, etc directly to your Affinda account. It provides structured and secure access to your document processing workflows, so your agent can upload files, extract data, organize workspaces, label documents, and automate annotation management on your behalf.

  • AI-powered document upload and extraction: Instantly have your agent upload new documents for parsing and extract structured data from various formats using Affinda's advanced AI models.
  • Workspace and collection management: Let your agent create, group, and organize documents into collections and workspaces, keeping your document processing streamlined and organized.
  • Automated annotation updates: Empower your agent to batch update or modify multiple document annotations in a single request, saving you time on manual corrections.
  • Document tagging and organization: Direct your agent to create tags and label documents, making it easy to categorize and quickly retrieve important files.
  • Effortless cleanup and resource management: Have your agent delete unwanted documents or collections, ensuring your Affinda account stays tidy and relevant at all times.

Connecting Affinda via Tool Router

Tool Router is the underlying tech that powers Rube. It's a universal gateway that does everything Rube does but with much more programmatic control. You can programmatically generate an MCP URL with the app you need (here Affinda) for even more tool search precision. It's secure and reliable.

How the Tool Router works

The Tool Router follows a three-phase workflow:

  1. Discovery: Searches for tools matching your task and returns relevant toolkits with their details.
  2. Authentication: Checks for active connections. If missing, creates an auth config and returns a connection URL via Auth Link.
  3. Execution: Executes the action using the authenticated connection.

Step-by-step Guide

Prerequisites

Before starting, make sure you have:
  • Claude Pro, Max, or API billing enabled Anthropic account
  • Composio API Key
  • A Affinda account
  • Basic knowledge of Python or TypeScript

Install Claude Code

bash
# macOS, Linux, WSL
curl -fsSL https://claude.ai/install.sh | bash

# Windows PowerShell
irm https://claude.ai/install.ps1 | iex

# Windows CMD
curl -fsSL https://claude.ai/install.cmd -o install.cmd && install.cmd && del install.cmd

To install Claude Code, use one of the following methods based on your operating system:

Set up Claude Code

bash
cd your-project-folder
claude

Open a terminal, go to your project folder, and start Claude Code:

  • Claude Code will open in your terminal
  • Follow the prompts to sign in with your Anthropic account
  • Complete the authentication flow
  • Once authenticated, you can start using Claude Code
Claude Code initial setup showing sign-in prompt
Claude Code terminal after successful login

Set up environment variables

bash
COMPOSIO_API_KEY=your_composio_api_key_here
USER_ID=your_user_id_here

Create a .env file in your project root with the following variables:

  • COMPOSIO_API_KEY authenticates with Composio (get it from Composio dashboard)
  • USER_ID identifies the user for session management (use any unique identifier)

Install Composio library

pip install composio-core python-dotenv

Install the Composio Python library to create MCP sessions.

  • composio-core provides the core Composio functionality
  • python-dotenv loads environment variables from your .env file

Generate Composio MCP URL

import os
from composio import Composio
from dotenv import load_dotenv

load_dotenv()

COMPOSIO_API_KEY = os.getenv("COMPOSIO_API_KEY")
USER_ID = os.getenv("USER_ID")

composio_client = Composio(api_key=COMPOSIO_API_KEY)

composio_session = composio_client.create(
    user_id=USER_ID,
    toolkits=["affinda"],
)

COMPOSIO_MCP_URL = composio_session.mcp.url

print(f"MCP URL: {COMPOSIO_MCP_URL}")
print(f"\nUse this command to add to Claude Code:")
print(f'claude mcp add --transport http affinda-composio "{COMPOSIO_MCP_URL}" --headers "X-API-Key:{COMPOSIO_API_KEY}"')

Create a script to generate a Composio MCP URL for Affinda. This URL will be used to connect Claude Code to Affinda.

What's happening:
  • We import the Composio client and load environment variables
  • Create a Composio instance with your API key
  • Call create() to create a Tool Router session for Affinda
  • The returned mcp.url is the MCP server URL that Claude Code will use
  • The script prints this URL so you can copy it

Run the script and copy the MCP URL

python generate_mcp_url.py

Run your Python script to generate the MCP URL.

  • The script connects to Composio and creates a Tool Router session
  • It prints the MCP URL and the exact command you need to run
  • Copy the entire claude mcp add command from the output

Add Affinda MCP to Claude Code

bash
claude mcp add --transport http affinda-composio "YOUR_MCP_URL_HERE" --headers "X-API-Key:YOUR_COMPOSIO_API_KEY"

# Then restart Claude Code
exit
claude

In your terminal, add the MCP server using the command from the previous step. The command format is:

  • claude mcp add registers a new MCP server with Claude Code
  • --transport http specifies that this is an HTTP-based MCP server
  • The server name (affinda-composio) is how you'll reference it
  • The URL points to your Composio Tool Router session
  • --headers includes your Composio API key for authentication

After running the command, close the current Claude Code session and start a new one for the changes to take effect.

Verify the installation

bash
claude mcp list

Check that your Affinda MCP server is properly configured.

  • This command lists all MCP servers registered with Claude Code
  • You should see your affinda-composio entry in the list
  • This confirms that Claude Code can now access Affinda tools

If everything is wired up, you should see your affinda-composio entry listed:

Claude Code MCP list showing the toolkit MCP server

Authenticate Affinda

The first time you try to use Affinda tools, you'll be prompted to authenticate.

  • Claude Code will detect that you need to authenticate with Affinda
  • It will show you an authentication link
  • Open the link in your browser (or copy/paste it)
  • Complete the Affinda authorization flow
  • Return to the terminal and start using Affinda through Claude Code

Once authenticated, you can ask Claude Code to perform Affinda operations in natural language. For example:

  • "Extract invoice data from uploaded PDF"
  • "Delete a document no longer needed"
  • "Create a new tag for HR documents"

Complete Code

Here's the complete code to get you started with Affinda and Claude Code:

import os
from composio import Composio
from dotenv import load_dotenv

load_dotenv()

COMPOSIO_API_KEY = os.getenv("COMPOSIO_API_KEY")
USER_ID = os.getenv("USER_ID")

composio_client = Composio(api_key=COMPOSIO_API_KEY)

composio_session = composio_client.create(
    user_id=USER_ID,
    toolkits=["affinda"],
)

COMPOSIO_MCP_URL = composio_session.mcp.url

print(f"MCP URL: {COMPOSIO_MCP_URL}")
print(f"\nUse this command to add to Claude Code:")
print(f'claude mcp add --transport http affinda-composio "{COMPOSIO_MCP_URL}" --headers "X-API-Key:{COMPOSIO_API_KEY}"')

Conclusion

You've successfully integrated Affinda with Claude Code using Composio's MCP server. Now you can interact with Affinda directly from your terminal using natural language commands.

Key features of this setup:

  • Terminal-native experience without switching contexts
  • Natural language commands for Affinda operations
  • Secure authentication through Composio's managed MCP
  • Tool Router for dynamic tool discovery and execution

Next steps:

  • Try asking Claude Code to perform various Affinda operations
  • Add more toolkits to your Tool Router session for multi-app workflows
  • Integrate this setup into your development workflow for increased productivity

You can extend this by adding more toolkits, implementing custom workflows, or building automation scripts that leverage Claude Code's capabilities.

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FAQ

What are the differences in Tool Router MCP and Affinda MCP?

With a standalone Affinda MCP server, the agents and LLMs can only access a fixed set of Affinda tools tied to that server. However, with the Composio Tool Router, agents can dynamically load tools from Affinda and many other apps based on the task at hand, all through a single MCP endpoint.

Can I use Tool Router MCP with Claude Code?

Yes, you can. Claude Code fully supports MCP integration. You get structured tool calling, message history handling, and model orchestration while Tool Router takes care of discovering and serving the right Affinda tools.

Can I manage the permissions and scopes for Affinda while using Tool Router?

Yes, absolutely. You can configure which Affinda scopes and actions are allowed when connecting your account to Composio. You can also bring your own OAuth credentials or API configuration so you keep full control over what the agent can do.

How safe is my data with Composio Tool Router?

All sensitive data such as tokens, keys, and configuration is fully encrypted at rest and in transit. Composio is SOC 2 Type 2 compliant and follows strict security practices so your Affinda data and credentials are handled as safely as possible.

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