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URL: https://glama.ai/mcp/servers/sanshanjianke/scicompute-mcp

⇱ scicompute-mcp by sanshanjianke | Glama


SciCompute MCP Server

MCP server for scientific computing with multiple backends. Provides AI coding assistants with mathematical computation and visualization capabilities.

Features

  • Multiple computing backends (Mathematica, Octave, Python Scientific, R, SageMath)

  • Image output support (plots, graphics)

  • Automatic backend selection

  • Persistent session state (variables persist across calls)

  • Documentation query for unknown symbols

  • Multi-platform support (Claude Code, Claude Desktop, OpenCode/Crush)

  • Recommended: Use alongside official MATLAB MCP Server for MATLAB support

Related MCP server: mma-mcp

Supported Backends

Backend

Status

Capabilities

Mathematica

✅ Ready

symbolic, numeric, plot, image, audio

SageMath

✅ Ready

symbolic, numeric, plot

Python Scientific

✅ Ready

symbolic, numeric, plot

R

✅ Ready

numeric, plot

Octave

✅ Ready

numeric, plot

Julia

✅ Ready

numeric, plot

Maxima

✅ Ready

symbolic, numeric, plot

MATLAB Support

For MATLAB support, we recommend using the official MATLAB MCP Core Server from MathWorks alongside SciCompute:

Why use the official server?

  • No Python version restrictions (works with any Python version)

  • No library installation or patching required

  • Standalone Go binary with no dependencies

  • Additional features: code analysis, test running, toolbox detection

Installation:

  1. Download the MATLAB MCP Core Server binary from the latest release:

    # Linux x86_64
    curl -L -o ~/matlab-mcp-core-server https://github.com/matlab/matlab-mcp-core-server/releases/latest/download/matlab-mcp-core-server-glnxa64
    chmod +x ~/matlab-mcp-core-server
  2. Configure both servers in your MCP config:

    {
     "mcpServers": {
     "scicompute": {
     "command": "uvx",
     "args": ["scicompute-mcp"]
     },
     "matlab": {
     "command": "/home/username/matlab-mcp-core-server",
     "args": ["--matlab-root=/usr/local/MATLAB/R2024a"]
     }
     }
    }

See the MATLAB MCP Core Server documentation for more details.

Installation

Tip: Ask your AI assistant to install it for you! Just say "Install scicompute-mcp" and it will handle everything automatically.

Quick Start (Recommended)

# Install and run with uvx (auto-manages environment)
uvx scicompute-mcp

# Or install with pip
pip install scicompute-mcp
scicompute-mcp

Debian 12+ / Ubuntu 23.04+

These systems enable PEP 668 by default, which prevents direct pip installs. Use one of these methods:

# Method 1: Use --break-system-packages (quick)
pip install --break-system-packages scicompute-mcp

# Method 2: Use pipx (recommended for CLI tools)
sudo apt install -y pipx
pipx install scicompute-mcp

# Method 3: Use China mirror (faster in China)
pip install --break-system-packages -i https://pypi.tuna.tsinghua.edu.cn/simple scicompute-mcp

After installation, add ~/.local/bin to PATH if needed:

echo 'export PATH="$HOME/.local/bin:$PATH"' >> ~/.bashrc
source ~/.bashrc

Install with Optional Backends

# With Mathematica support
pip install scicompute-mcp[mathematica]

# With Octave support
pip install scicompute-mcp[octave]

# With all backends
pip install scicompute-mcp[all]

Environment Architecture

┌───────────────────────────────────────────────────────────────────────────┐
│ MCP Server (Python 3.10+) │
│ ┌─────────────┐ ┌─────────────┐ ┌─────────────┐ ┌────────────────────┐ │
│ │ Mathematica │ │ Octave │ │ MATLAB │ │ py_scientific │ │
│ │ Backend │ │ Backend │ │ Backend │ │ (same Python env) │ │
│ └──────┬──────┘ └──────┬──────┘ └──────┬──────┘ └────────────────────┘ │
│ │ │ │ │
│ ▼ ▼ ▼ │
│ ┌─────────────┐ ┌─────────────┐ ┌─────────────┐ ┌─────────────┐ │
│ │ Wolfram │ │ octave │ │ MATLAB │ │ R │ sage │
│ │ Kernel │ │ process │ │ process │ │ process │ process │
│ └─────────────┘ └─────────────┘ └─────────────┘ └─────────────┘ │
│ │ │ │ │ │ │
│ ▼ ▼ ▼ ▼ ▼ │
│ Independent Independent Independent Independent conda │
│ (official) (apt/brew) (official) (apt/brew) env │
└───────────────────────────────────────────────────────────────────────────┘

Key Points:

  • MCP server only needs one Python environment

  • Each backend (except py_scientific) runs as independent process, not sharing Python environment

  • SageMath requires separate conda environment (Python < 3.13)

Step 1: Install Computing Backends

Install the computing backends you need (not all required):

Python Scientific Backend

Pre-installed with the main package, no additional configuration needed.

SageMath Backend

SageMath requires Python < 3.13, must be installed separately via conda:

# Configure mirror (optional, recommended for users in China)
conda config --add channels https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge/

# Create SageMath environment
conda create -n sage python=3.11 -y
conda install -n sage -c conda-forge sage -y

Configure path (choose one):

# Method A: Environment variable (recommended)
export SAGE_PATH="$HOME/miniconda3/envs/sage/bin/sage"

# Method B: Modify SAGE_PATH in code
# Edit src/scicompute_mcp/backends/sage.py

R Backend

# Ubuntu/Debian
sudo apt install r-base

# macOS
brew install r

# Windows: Download from CRAN

Octave Backend

# Ubuntu/Debian
sudo apt install octave gnuplot

# macOS
brew install octave gnuplot

# Windows: Download Octave installer

Julia Backend

# Install Julia (recommended: use juliaup)
curl -fsSL https://install.julialang.org | sh

# Or download from https://julialang.org/downloads/

# Install Python package
pip install juliacall

Mathematica Backend

  1. Purchase and install from Wolfram website

  2. Configure path:

export MATHEMATICA_KERNEL_PATH="/usr/local/Wolfram/Wolfram/14.3/Executables/WolframKernel"

Configuration

Environment Variables

Variable

Description

Example

SAGE_PATH

SageMath path

$HOME/miniconda3/envs/sage/bin/sage

MATHEMATICA_KERNEL_PATH

WolframKernel path

/usr/local/Wolfram/Wolfram/14.3/Executables/WolframKernel

JULIA_PATH

Julia executable path

$HOME/.juliaup/bin/julia

SCICOMPUTE_PRIORITY

Backend priority

mathematica,sage,julia,py_scientific

Claude Code (.mcp.json)

{
 "mcpServers": {
 "scicompute": {
 "command": "uvx",
 "args": ["scicompute-mcp"]
 }
 }
}

Claude Desktop (claude_desktop_config.json)

{
 "mcpServers": {
 "scicompute": {
 "command": "uvx",
 "args": ["scicompute-mcp"]
 }
 }
}

OpenCode / Crush

OpenCode 1.4.6+

OpenCode 1.4.6+ reads configuration from ~/.config/opencode/opencode.json:

{
 "$schema": "https://opencode.ai/config.json",
 "mcp": {
 "scicompute": {
 "type": "local",
 "command": ["/home/username/.local/bin/scicompute-mcp"]
 }
 }
}

Important: Use absolute path to scicompute-mcp (from pip install). Avoid uvx because it downloads dependencies on first run, which may timeout.

To verify:

opencode mcp list

Using opencode mcp add (Interactive)

Alternatively, add via interactive command:

opencode mcp add
# Name: scicompute
# Type: Local
# Command: /home/username/.local/bin/scicompute-mcp

Older OpenCode versions

For older versions, use ~/.opencode.json:

{
 "mcpServers": {
 "scicompute": {
 "type": "stdio",
 "command": "/home/username/.local/bin/scicompute-mcp"
 }
 }
}

Local Development

For development or if you want to use a local installation:

{
 "mcpServers": {
 "scicompute": {
 "command": "/path/to/.venv/bin/python",
 "args": ["-m", "scicompute_mcp.server"]
 }
 }
}

Multi-Platform Support

This project supports multiple AI assistant platforms. Configuration templates are provided in the configs/ directory:

File

Platform

configs/claude-code.json

Claude Code

configs/claude-desktop.json

Claude Desktop

configs/opencode.json

OpenCode / Crush

Custom Prompts / Skills

Each platform has its own way to provide custom instructions:

Platform

Directory

Format

Claude Code

.claude/skills/*.md

Markdown

OpenCode / Crush

.opencode/commands/*.md

Markdown

Users can create custom skill files if needed.

Tools

Calling Convention

Different MCP clients have different naming conventions for calling tools:

Client

Format

Example

Claude Code

mcp__{server}__{tool}

mcp__scicompute__compute(code="1+1")

OpenCode

{server}_{tool}

scicompute_compute(code="1+1")

The examples below use the base tool names (compute, list_backends, stop). Your AI assistant will automatically use the correct format for its client.

compute(code, backend?)

Execute scientific computing code.

# Plot with Octave
compute("x = 0:0.1:10; y = sin(x); plot(x, y)", "octave")

# Symbolic computation with SageMath
compute("integrate(sin(x), x)", "sage")
compute("diff(x^3 * exp(x), x)", "sage")

# Mathematica
compute("Plot[Sin[x], {x, 0, 2 Pi}]", "mathematica")
compute("Integrate[x^2, x]", "mathematica")

# R Statistics
compute("mean(rnorm(1000))", "r")
compute("hist(rnorm(1000))", "r")

# Python Scientific
compute("sp.integrate(sp.sin(sp.Symbol('x')), sp.Symbol('x'))", "py_scientific")

# Julia
compute("plot(rand(10))", "julia")
compute("sqrt(2.0)", "julia")

# MATLAB
compute("plot(1:10, rand(1,10))", "matlab")
compute("[V,D] = eig(magic(3))", "matlab")

list_backends()

List all available backends and their capabilities.

stop(backend?)

Stop backend process and clear all state. Useful to reset variables or free memory.

stop() # List running backends (does NOT stop any)
stop("octave") # Stop specific backend
stop("ALL") # Stop all running backends

Safety design: Calling stop() without arguments will NOT stop any backends. It returns a list of running backends. This prevents accidental data loss.

doc(backend?, symbol?)

Get documentation URLs for computing backends. Use this to find where to look up function documentation.

# List all backends with documentation
doc()

# Get URLs for a specific backend
doc(backend="mathematica")
doc(backend="numpy")

# Get URL for a specific function
doc(backend="mathematica", symbol="Plot3D")
doc(backend="octave", symbol="linspace")

Supported backends: mathematica, numpy, scipy, matplotlib, sympy, pandas, python, r, julia, octave, sage, maxima, matlab

Usage Examples

Ask your AI assistant:

Plot sin(x) from 0 to 2π

Calculate ∫x²dx from 0 to 1

Solve x² - 4 = 0

Look up NDSolve documentation

Getting Documentation

When you need detailed documentation for a function:

  1. Use the doc tool to get documentation URLs

  2. Launch a subagent with Task tool to fetch and extract documentation

  3. Supported backends: Mathematica, NumPy, SciPy, Matplotlib, SymPy, Pandas, R, Julia, Octave, SageMath, Maxima, MATLAB

Example:

# Get documentation URL
doc(backend="mathematica", symbol="Plot3D")

# Then fetch the documentation
Task(
 description="Fetch Plot3D docs",
 prompt="Fetch Mathematica documentation for Plot3D from the URL returned by doc tool",
 subagent_type="general"
)

Documentation

  • docs/sage.md - SageMath collaboration guide

  • docs/r.md - R collaboration guide

  • docs/maxima.md - Maxima collaboration guide

  • docs/octave.md - Octave collaboration guide

  • Use doc() tool for documentation URLs

Requirements

  • Miniconda (recommended) or Python 3.10+

  • For SageMath backend: conda environment with Python 3.11

  • For R backend: R installation

  • For Octave backend: GNU Octave + gnuplot

  • For Mathematica backend: Wolfram Mathematica

  • For MATLAB backend: MATLAB + MATLAB Engine for Python

License

Unlicense - Public Domain

A
license - permissive license
-
quality - not tested
B
maintenance

Maintenance

Maintainers
Response time
Release cycle
Releases (12mo)
Commit activity

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