CLIO Hdf5

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README

# CLIO Kit

<!-- mcp-name: io.github.iowarp/adios-mcp -->
<!-- mcp-name: io.github.iowarp/arxiv-mcp -->
<!-- mcp-name: io.github.iowarp/chronolog-mcp -->
<!-- mcp-name: io.github.iowarp/compression-mcp -->
<!-- mcp-name: io.github.iowarp/darshan-mcp -->
<!-- mcp-name: io.github.iowarp/hdf5-mcp -->
<!-- mcp-name: io.github.iowarp/jarvis-mcp -->
<!-- mcp-name: io.github.iowarp/lmod-mcp -->
<!-- mcp-name: io.github.iowarp/ndp-mcp -->
<!-- mcp-name: io.github.iowarp/node-hardware-mcp -->
<!-- mcp-name: io.github.iowarp/pandas-mcp -->
<!-- mcp-name: io.github.iowarp/parallel-sort-mcp -->
<!-- mcp-name: io.github.iowarp/paraview-mcp -->
<!-- mcp-name: io.github.iowarp/parquet-mcp -->
<!-- mcp-name: io.github.iowarp/plot-mcp -->
<!-- mcp-name: io.github.iowarp/slurm-mcp -->

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**CLIO Kit** - Part of the IoWarp platform's tooling layer for AI agents. A comprehensive collection of tools, skills, plugins, and extensions. Currently featuring 15+ Model Context Protocol (MCP) servers for scientific computing, with plans to expand to additional agent capabilities. Enables AI agents to interact with HPC resources, scientific data formats, and research datasets.

[**Website**](https://docs.iowarp.ai/) | [**IOWarp**](https://iowarp.ai)

Chat with us on [**Zulip**](https://iowarp.zulipchat.com/#narrow/channel/543872-Agent-Toolkit) or [**join us**](https://iowarp.zulipchat.com/join/e4wh24du356e4y2iw6x6jeay/)

Developed by <img src="https://grc.iit.edu/img/logo.png" alt="GRC Logo" width="18" height="18"> [**Gnosis Research Center**](https://grc.iit.edu/)

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## ❌ Without CLIO Kit

Working with scientific data and HPC resources requires manual scripting and tool-specific knowledge:

- ❌ Write custom scripts for every HDF5/Parquet file exploration
- ❌ Manually craft Slurm job submission scripts
- ❌ Switch between multiple tools for data analysis
- ❌ No AI assistance for scientific workflows
- ❌ Repetitive coding for common research tasks

## ✅ With CLIO Kit

AI agents handle scientific computing tasks through natural language:

- ✅ **"Analyze the temperature dataset in this HDF5 file"** - HDF5 MCP does it
- ✅ **"Submit this simulation to Slurm with 32 cores"** - Slurm MCP handles it
- ✅ **"Find papers on neural networks from ArXiv"** - ArXiv MCP searches
- ✅ **"Plot the results from this CSV file"** - Plot MCP visualizes
- ✅ **"Optimize memory usage for this pandas DataFrame"** - Pandas MCP optimizes
- ✅ **"Find all documents where pressure exceeds 200 kPa"** - Agentic Search retrieves

**One unified interface. 16 MCP servers. Hybrid search engine. 150+ specialized tools. Built for research.**

CLIO Kit is part of the IoWarp platform's comprehensive tooling ecosystem for AI agents. It brings AI assistance to your scientific computing workflow—whether you're analyzing terabytes of HDF5 data, managing Slurm jobs across clusters, or exploring research papers. Built by researchers, for researchers, at Illinois Institute of Technology with NSF support.

> **Part of IoWarp Platform**: CLIO Kit is the tooling layer of the IoWarp platform, providing skills, plugins, and extensions for AI agents working in scientific computing environments.

> **One simple command.** Production-ready, fully typed, MIT licensed, and beta-tested in real HPC environments.

## 🚀 Quick Installation

### One Command for Any Server

```bash
# List all 16 available MCP servers
uvx clio-kit mcp-servers

# Run any server instantly
uvx clio-kit mcp-server hdf5
uvx clio-kit mcp-server pandas
uvx clio-kit mcp-server slurm

# Agentic search — hybrid retrieval for scientific corpora
uvx clio-kit search serve               # Start search API server
uvx clio-kit se