The easiest and fastest way to install and run MiToBo is to activate MiToBo's update site in Fiji:
To enable this site in your Fiji installation refer to the Fiji documentation.
For installing MiToBo this way you need to activate the following site:
For some operators additional sites are required:
- Biomedgroup (e.g., for PaCeQuant)
More details how to install and run MiToBo can be found on our Installation page.
Downloads and Releases
The current release of the MiToBo core distribution and also of the extended MiToBo-Plugins distribution is 2.3.1.
Since release 1.3 we support Maven for managing MiToBo's resources.
You can download the MiToBo distributions as well as the Maven artifacts from our Maven server:
There are two MiToBo distributions available:
this package contains the core of MiToBo, i.e. all operators, the MiToBo runners for operator execution and also Grappa;
not included are the plugins to run MiToBo from within ImageJ 1.x, hence, this distribution is mainly for stand-alone usage of MiToBo and development purposes
this package contains the complete MiToBo distribution, some special plugins like the MTB Cell Counter, and in addition some ImageJ plugins to run MiToBo operators from within ImageJ; you should download the MiToBo-Plugins distribution if you like to use MiToBo with ImageJ
Since release 1.8 MiToBo's implementation requires at least Java 1.8.
At the bottom of this page additional files are available for download:
- Old distributions: complete distributions including all dependencies, scripts, documentation, etc.
- Binaries only: only the jar archives, no dependencies neither documentation
- APIs: Javadoc APIs
Maven Project Template
Using MiToBo as a library for own developments can best be done by making use of Maven.
Particularly, Maven automatically resolves all dependencies which otherwise would have to be installed manually.
For getting started with MiToBo and Maven a project template is provided:
The project is readily configured and you can immediately start with own developments.
It also contains a demo operator showing the basic usage of MiToBo data types and operators on the code level.
Make sure that you have installed Maven and a Java Develpoment Kit (JDK) in version 1.8 or higher.
You can check the Java version by running 'mvn --version' from command line.
If an older Java version is used, let the 'JAVA_HOME' environment variable point to a folder containing a more recent JDK.
You can run Maven directly from within the extracted folder. Alternatively the Maven template project can easily be imported into an IDE like Eclipse.
The zip file contains a README file containing more information about installing and configuring the project template.
Detailed information about MiToBo, its API and usage, can be found in MiToBo's User and Programmer Guide.
- MiToBo-Guide, Version 1.0 pdf
- Chipory - a graph visualization tool for displaying MiToBo history graphs
Chipory is an extended version of the Chisio software developed at the Bilkent University in Turkey.
The zip file below contains all necessary files. Download this file and unpack it into a folder of your choice.
- To use Chipory on a Linux system with 32-bit architecture just type './Chipory.sh'.
- In case that your machine has a 64-bit architecture running Linux, call './Chipory_64.sh'.
- For Windows with 32-bit architecture a self extracting installer including an executable of Chipory is available.
Download the current release:
Source code for Chipory is available upon request.
Earlier releases of MiToBo (< 1.5)
Since release 1.3 MiToBo's resources are available from our Maven archive server: 
Binaries, sources and documentation for versions older than the current release, but at least of version 1.3 or newer can be found there.
All other releases can be accessed via the list below.
|1.4.3||zip||jar||jar||March 31st, 2015 (Support for callbacks)|
|1.4.2||zip||jar||jar||Jan 7th, 2015|
|1.4.1||zip||jar||jar||Dec 1st, 2014|
|1.2||zip||zip||zip||May 17th, 2013|
|1.1||zip||zip||zip||March 1st, 2013|
|1.0.5||zip||zip||zip||October 23rd, 2012|
|1.0.1||zip||zip||zip||July 6th, 2012|
|1.0.0||zip||zip||zip||April 26th, 2012|
|0.96||zip||zip||zip||September 01, 2011|
|0.95||zip||zip||zip||June 08, 2011 (updated June 22nd, 2011)|
|0.9||zip tar.gz||zip tar.gz||zip tar.gz||October 26, 2010|
Requirements (for MiToBo < 1.3)
MiToBo requires Java 1.6 or later.
Note: Java 1.7 is currently not fully supported!
The following external jars are needed to run MiToBo plugins and use the code.
Note that the binary zip file already includes all jars required, there is no need for explicit download!
MiToBo depends on the following external jars:
- ImageJ, >= Version 1.47d
- XMLBeans, Version 2.5.0
- XStream, Version 1.3.1
- LIBSVM, Version 3.1
- Loci Tools, Version 4.3.3
- Jama, Version 1.0.2
- JavaHelp, Version 2.0_05
- SezPoz, Version 1.9
- JGraph, Version 184.108.40.206
- JAI ImageIO, Version 1.1 (only required for MiToBo 0.9)
Project internal libraries
MiToBo also relies on some libraries provided by the MiToBo project itself.
In particular XML schemes for representing the history graphs and MiToBo's online help are included in separate jar archives.
You do not need to download these libraries explicitly. If you download the binary zip file all jars and libraries are already included.
The MiToBo internal archive files included in the zip file are the following ones:
- ALDGraphml, Version 1.0.0 (Alida extensions for graphML):
- Binary jar
- MTBXml, Version 1.0.0 (MiToBo XML I/O for several datatypes, based on XMLBeans):
- Binary jar
- MiToBo-Help, Version 1.0.0 (MiToBo JavaHelp pages):
- Binary jar
The following library is only required for MiToBo-0.9:
- MTBImageIO-Ext, Version 0.9 (improved image I/O based on ImageIO-Ext):