Zenodo MCP Server for AutoGenGive AutoGen instant access to 14 tools to Create Deposition, Delete Deposition, Delete Deposition File, and more

Name: Zenodo
Price: 29 USD
Availability: InStock
Rating: 0.2 (1 reviews)
Author: Vinkius

GDPR Free for Subscribers

Microsoft AutoGen enables multi-agent conversations where agents negotiate, delegate, and execute tasks collaboratively. Add Zenodo as an MCP tool provider through Vinkius and every agent in the group can access live data and take action.

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The Zenodo MCP Server for AutoGen is a standout in the Knowledge Management category — giving your AI agent 14 tools to work with, ready to go from day one.

Built for AI Agents by Vinkius

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python

import asyncio
from autogen_agentchat.agents import AssistantAgent
from autogen_ext.tools.mcp import McpWorkbench

async def main():
    # Your Vinkius token. get it at cloud.vinkius.com
    async with McpWorkbench(
        server_params={"url": "https://edge.vinkius.com/[YOUR_TOKEN_HERE]/mcp"},
        transport="streamable_http",
    ) as workbench:
        tools = await workbench.list_tools()
        agent = AssistantAgent(
            name="zenodo_agent",
            tools=tools,
            system_message=(
                "You help users with Zenodo. "
                "14 tools available."
            ),
        )
        print(f"Agent ready with {len(tools)} tools")

asyncio.run(main())

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About Zenodo MCP Server

Connect your Zenodo account to any AI agent to streamline your scientific research workflows and data management through natural conversation.

AutoGen enables multi-agent conversations where agents negotiate, delegate, and collaboratively use Zenodo tools. Connect 14 tools through Vinkius and assign role-based access. a data analyst queries while a reviewer validates, with optional human-in-the-loop approval for sensitive operations.

What you can do

Deposition Management — Create new unpublished depositions, update metadata, and manage your research drafts directly from the AI.
Record Discovery — Search and list public records across the entire Zenodo database to find relevant research, software, or datasets.
File Inspection — List all files attached to specific depositions to understand the contents of a research package.
Metadata Control — Precisely update titles, creators, descriptions, licenses, and access rights for your unpublished work.
Version Tracking — Retrieve specific deposition details using unique IDs to monitor the status of your submissions.

The Zenodo MCP Server exposes 14 tools through the Vinkius. Connect it to AutoGen in under two minutes — credentials fully managed, no infrastructure to provision, no vendor lock-in. Your configuration, your data, your control.

All 14 Zenodo tools available for AutoGen

When AutoGen connects to Zenodo through Vinkius, your AI agent gets direct access to every tool listed below — spanning open-access, research-data, metadata-management, and more. Every call runs in a secure, isolated environment with full audit visibility. Beyond a simple connection, you get real-time monitoring of agent activity, enterprise governance, and optimized token usage.

create

Create deposition on Zenodo

You can optionally provide metadata. Create a new Zenodo deposition

delete

Delete deposition on Zenodo

Note: Only unpublished depositions can be deleted. Delete an unpublished Zenodo deposition

delete

Delete deposition file on Zenodo

Delete a file from a Zenodo deposition

discard

Discard deposition on Zenodo

Discard edits on a Zenodo deposition

edit

Edit deposition on Zenodo

Edit a published Zenodo deposition

get

Get deposition on Zenodo

Retrieve a Zenodo deposition by ID

get

Get record on Zenodo

Retrieve a published Zenodo record by ID

list

List deposition files on Zenodo

List files in a Zenodo deposition

list

List depositions on Zenodo

List Zenodo depositions

list

List records on Zenodo

Search published Zenodo records

new

New version deposition on Zenodo

Create a new version of a Zenodo deposition

publish

Publish deposition on Zenodo

WARNING: Once published, a deposition cannot be deleted. Publish a Zenodo deposition

update

Update deposition on Zenodo

Update a Zenodo deposition

upload

Upload deposition file on Zenodo

Upload a text file to a Zenodo deposition

Connect Zenodo to AutoGen via MCP

Follow these steps to wire Zenodo into AutoGen. The entire setup takes under two minutes — your credentials stay safe behind Vinkius.

Install AutoGen

Run pip install "autogen-ext[mcp]"

Replace the token

Replace [YOUR_TOKEN_HERE] with your Vinkius token

Integrate into workflow

Use the agent in your AutoGen multi-agent orchestration

Explore tools

The workbench discovers 14 tools from Zenodo automatically

Why Use AutoGen with the Zenodo MCP Server

AutoGen provides unique advantages when paired with Zenodo through the Model Context Protocol.

Multi-agent conversations: multiple AutoGen agents discuss, delegate, and collaboratively use Zenodo tools to solve complex tasks

Role-based architecture lets you assign Zenodo tool access to specific agents. a data analyst queries while a reviewer validates

Human-in-the-loop support: agents can pause for human approval before executing sensitive Zenodo tool calls

Code execution sandbox: AutoGen agents can write and run code that processes Zenodo tool responses in an isolated environment

Zenodo + AutoGen Use Cases

Practical scenarios where AutoGen combined with the Zenodo MCP Server delivers measurable value.

Collaborative analysis: one agent queries Zenodo while another validates results and a third generates the final report

Automated review pipelines: a researcher agent fetches data from Zenodo, a critic agent evaluates quality, and a writer produces the output

Interactive planning: agents negotiate task allocation using Zenodo data to make informed decisions about resource distribution

Code generation with live data: an AutoGen coder agent writes scripts that process Zenodo responses in a sandboxed execution environment

Example Prompts for Zenodo in AutoGen

Ready-to-use prompts you can give your AutoGen agent to start working with Zenodo immediately.

"Search for public Zenodo records related to 'machine learning in healthcare'."

"Create a new Zenodo deposition for a dataset titled 'Global Temperature Trends 2023'."

"List all files currently attached to my deposition with ID 987654."

Troubleshooting Zenodo MCP Server with AutoGen

Common issues when connecting Zenodo to AutoGen through Vinkius, and how to resolve them.

McpWorkbench not found

Install: pip install "autogen-ext[mcp]"

Zenodo + AutoGen FAQ

Common questions about integrating Zenodo MCP Server with AutoGen.

How does AutoGen connect to MCP servers?

Create an MCP tool adapter and assign it to one or more agents in the group chat. AutoGen agents can then call Zenodo tools during their conversation turns.

Can different agents have different MCP tool access?

Yes. AutoGen's role-based architecture lets you assign specific MCP tools to specific agents, so a querying agent has different capabilities than a reviewing agent.