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__NOTOC__
__NOTOC__
== Current release (v0.9.6)==
 
* MiToBo Binaries [http://www.informatik.uni-halle.de/mitobo/downloads/MiToBo-0.9.6.zip zip] (includes MiToBo binaries, license information and additional jars provided by the MiToBo project)
Here you can find the current release of MiToBo for download. Likewise older versions and additional libraries required to run MiToBo can be found here.
* MiToBo Sources [http://www.informatik.uni-halle.de/mitobo/downloads/MiToBo_src-0.9.6.zip zip] (includes only the MiToBo sources)
 
* MiToBo API [http://www.informatik.uni-halle.de/mitobo/downloads/MiToBo_api-0.9.6.zip zip]
For detailed information on the installation process take a look at the [[Installation]] page.
 
== Current release (v1.0.0)==
* the new release is coming very soon...
<!--
* MiToBo Binaries [http://www.informatik.uni-halle.de/mitobo/downloads/MiToBo-1.0.0.zip zip] (includes MiToBo binaries, license information and all jars required)
* MiToBo Sources [http://www.informatik.uni-halle.de/mitobo/downloads/MiToBo_src-1.0.0.zip zip] (includes only the MiToBo sources)
* MiToBo API [http://www.informatik.uni-halle.de/mitobo/downloads/MiToBo_api-1.0.0.zip zip]
<br/>
<br/>
-->


== All versions of MiToBo ==
== All versions of MiToBo ==
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! API  
! API  
! Date
! Date
|-
| 1.0.0
| <!-- [http://www.informatik.uni-halle.de/mitobo/downloads/MiToBo-1.0.0.zip zip]-->
| <!-- [http://www.informatik.uni-halle.de/mitobo/downloads/MiToBo_src-1.0.0.zip zip]-->
| <!--[http://www.informatik.uni-halle.de/mitobo/downloads/MiToBo_api-1.0.0.zip zip]-->
| April 26th, 2012
|-
|-
| 0.96
| 0.96
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== Manual ==
== Manual ==


Detailed information about MiToBo, its API and usage, can be found in the user and programmer manual.  
Detailed information about MiToBo, its API and usage, can be found in the user and programmer manual.


* MiToBo-Manual, Version 0.9.6 [http://www.informatik.uni-halle.de/mitobo/downloads/manual/MiToBoManual.pdf pdf]
* MiToBo-Manual, Version 0.9.6 [http://www.informatik.uni-halle.de/mitobo/downloads/manual/MiToBoManual.pdf pdf]
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MiToBo requires Java 1.6 or later.  
MiToBo requires Java 1.6 or later.  


The following external jars are needed to run MiToBo plugins and use the code:
The following external jars are needed to run MiToBo plugins and use the code.<br/>
<b>Note that the binary zip file already includes all jars required, there is no need for explicit download!</b>


* [http://rsbweb.nih.gov/ij/ ImageJ], Version 1.44
MiToBo depends on the following external jars:
 
* [http://rsbweb.nih.gov/ij/ ImageJ], Version 1.46g
* [http://xmlbeans.apache.org/ XMLBeans], Version 2.5.0
* [http://xmlbeans.apache.org/ XMLBeans], Version 2.5.0
* [http://xstream.codehaus.org/ XStream], Version 1.3.1
* [http://xstream.codehaus.org/ XStream], Version 1.3.1
* [http://www.csie.ntu.edu.tw/~cjlin/libsvm/ LIBSVM], Version 3.1
* [http://www.csie.ntu.edu.tw/~cjlin/libsvm/ LIBSVM], Version 3.1
* [http://www.loci.wisc.edu/software/bio-formats/ Loci Tools], Version 4.2.2
* [http://www.loci.wisc.edu/software/bio-formats/ Loci Tools], Version 4.3.3
* [http://math.nist.gov/javanumerics/jama/ Jama], Version 1.0.2  
* [http://javahelp.java.net/ JavaHelp], Version 2.0_05
* [http://sezpoz.java.net/ SezPoz], Version 1.9
 
* [https://jai-imageio.dev.java.net/ JAI ImageIO], Version 1.1 (only required for MiToBo 0.9)
* [https://jai-imageio.dev.java.net/ JAI ImageIO], Version 1.1 (only required for MiToBo 0.9)


For using explicite active contours (snakes) in MiToBo, additionally the following library is required:
=== Project internal libraries ===
 
* [http://math.nist.gov/javanumerics/jama/ Jama], Version 1.0.2


MiToBo also relies on some libraries provided by the MiToBo project itself.<br>
MiToBo also relies on some libraries provided by the MiToBo project itself.<br>
For using snakes in particular native C++ libraries are required.<br>
In particular XML schemes for representing the history graphs and MiToBo's online help are included in separate jar archives.
If you download the MiToBo binaries you will find all of them included in the zip file.<br/>
A list of all project libraries required can be found at the bottom of this page.<br/>
 
== Project internal libraries ==


'''[[Note]]:''' <br/>
'''[[Note]]:''' <br/>
''' You do not need to download these libraries explizitly if you downloaded the zip file from above.''' <br/>
''' You do not need to download these libraries explicitly. If you download the binary zip file all jars and libraries are already included.''' <br/>
''' All project internal libraries are included there!''' <br/>
 


The zip files contain a selection the following jars, depending on the version of MiToBo:
The MiToBo internal archive files included in the zip file are the following ones:


* ALDGraphml, Version 0.9.6 (Alida extensions for [http://graphml.graphdrawing.org/ graphML]):
* ALDGraphml, Version 1.0.0 (Alida extensions for [http://graphml.graphdrawing.org/ graphML]):
** Binary [http://www.informatik.uni-halle.de/mitobo/downloads/aldgraphml/aldgraphml.jar jar]
** Binary [http://www.informatik.uni-halle.de/mitobo/downloads/aldgraphml/aldgraphml.jar jar]
* MTBXml, Version 0.9.6 (MiToBo XML I/O for several datatypes, based on XMLBeans):
* MTBXml, Version 1.0.0 (MiToBo XML I/O for several datatypes, based on XMLBeans):
** Binary [http://www.informatik.uni-halle.de/mitobo/downloads/mtbxml/mtbxml.jar jar]
* MiToBo-Help, Version 1.0.0 (MiToBo JavaHelp pages):
** Binary [http://www.informatik.uni-halle.de/mitobo/downloads/mtbxml/mtbxml.jar jar]  
** Binary [http://www.informatik.uni-halle.de/mitobo/downloads/mtbxml/mtbxml.jar jar]  
* Native C++ library needed for using snakes, based on CGAL:
** 32-bit Linux [http://www.informatik.uni-halle.de/mitobo/downloads/native/lib32/libJNI_Cgal_Polygon2D.so lib], 64-bit Linux [http://www.informatik.uni-halle.de/mitobo/downloads/native/lib64/libJNI_Cgal_Polygon2D.so lib], 32-bit Windows [http://www.informatik.uni-halle.de/mitobo/downloads/native/libwin32/JNI_Cgal_Polygon2D.dll lib]


The following library is only required for MiToBo-0.9:  
The following library is only required for MiToBo-0.9:  

Revision as of 12:49, 25 April 2012


Here you can find the current release of MiToBo for download. Likewise older versions and additional libraries required to run MiToBo can be found here.

For detailed information on the installation process take a look at the Installation page.

Current release (v1.0.0)

  • the new release is coming very soon...

All versions of MiToBo

Version Binaries Sources API Date
1.0.0 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


Manual

Detailed information about MiToBo, its API and usage, can be found in the user and programmer manual.

  • MiToBo-Manual, Version 0.9.6 pdf


Requirements

MiToBo requires Java 1.6 or later.

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:

  • 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.

Note:
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):
  • MTBXml, Version 1.0.0 (MiToBo XML I/O for several datatypes, based on XMLBeans):
  • MiToBo-Help, Version 1.0.0 (MiToBo JavaHelp pages):

The following library is only required for MiToBo-0.9:

  • MTBImageIO-Ext, Version 0.9 (improved image I/O based on ImageIO-Ext):
    • Binary jar
    • Source code zip
    • Alternatively, the ImageIO-Ext library can be used, which depends on the JAI ImageIO library and the JAI library.
      MTBImageIO-Ext is simply the TIFF part of ImageIO-Ext with slight adjustments to remove dependency on the JAI library.


Additional resources

  • 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: [http

Source code for Chipory is available upon request.

Example images