<commit_before># scijava-jupyter-kernel
[![Build Status](https://travis-ci.org/hadim/scijava-jupyter-kernel.svg?branch=master)](https://travis-ci.org/hadim/scijava-jupyter-kernel)

`scijava-jupyter-kernel` aims to be a Jupyter kernel that integrate well with ImageJ. See https://imagej.net/Jupyter for more details.

Under the hood `scijava-jupyter-kernel` uses the [Beaker base kernel](https://github.com/twosigma/beakerx/tree/master/kernel/base).

Languages supported are :

- Groovy
- Python
- BeanShell
- Clojure
- Java
- JavaScript
- R
- Ruby
- Scala

See here for more details : https://imagej.net/Scripting#Supported_languages

![Scijava Jupyter Kernel Installation](teaser.gif)

## Installation - Standalone

**Note : Only for Linux and OSX for now.**

- Install Anaconda[Anaconda](https://www.continuum.io/downloads)
- Do the following : 

**Warning : This is NOT WORKING yet.**

```bash
conda config --add channels conda-forge
conda install scijava-jupyter-kernel
```

## Installation - ImageJ/Fiji

- Clone, compile and install Beakerx base kernel :

```bash
git clone https://github.com/twosigma/beakerx.git
cd beakerx/kernel/base/
gradle publishToMavenLocal
```
<commit_msg>Fix README<commit_after># scijava-jupyter-kernel
[![Build Status](https://travis-ci.org/hadim/scijava-jupyter-kernel.svg?branch=master)](https://travis-ci.org/hadim/scijava-jupyter-kernel)

`scijava-jupyter-kernel` aims to be a Jupyter kernel that integrate well with ImageJ. See https://imagej.net/Jupyter for more details.

Under the hood `scijava-jupyter-kernel` uses the [Beaker base kernel](https://github.com/twosigma/beakerx/tree/master/kernel/base).

Languages supported are :

- Groovy
- Python
- BeanShell
- Clojure
- Java
- JavaScript
- R
- Ruby
- Scala

See here for more details : https://imagej.net/Scripting#Supported_languages

![Scijava Jupyter Kernel Installation](teaser.gif)

## Installation - Standalone

**Note : Only for Linux and OSX for now.**

- Install [Anaconda](https://www.continuum.io/downloads)
- Do the following : 

**Warning : This is NOT WORKING yet.**

```bash
conda config --add channels conda-forge
conda install scijava-jupyter-kernel
```

## Installation - ImageJ/Fiji

- Clone, compile and install Beakerx base kernel :

```bash
git clone https://github.com/twosigma/beakerx.git
cd beakerx/kernel/base/
gradle publishToMavenLocal
```

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{'dir': 'git-commits-cleaned', 'id': '3533673', 'n_tokens_mistral': 858, 'n_tokens_neox': 833, 'n_words': 199}