10. August 2016

Download

Latest Version 3.06: Bugfix saving model in Omero, Bioformats 5.9.2 (for Omero 5.4.x or standalone)

Version 3.05: Omero configuration dialog, HiDPI bugfix, Deep Learning improvements (for Omero 5.4.x or standalone)

Recommended Hardware: Quadcore / Hexacore (e.g. I7/I9), 32 GB RAM (or 64 GB if possible).

Before updating an existing installation, please close Orbit first.

Windows, Linux and Macintosh downloads are for 64bit OS. For 32bit OS (and other platforms) please use the JAR distribution.

Starting from version 2.8 Spark scaleout is not included anymore. If you want to use Spark scaleout, please download the Spark jars and copy them into the lib folder.

Windows (x64), Omero 5.4.x

orbit_win

The current version only supports Omero 5.4.x, for Omero 5.3.x, please download the old version.

Download the orbit_win_xxx.exe and execute it. Follow the installation instructions. Afterwards you should have a desktop icon which you can use to start Orbit.

Hint: Orbit supports high-DPI displays (e.g. 4k monitors) and is able to scale UI elements by itself smoothly. Thus, for high-res displays please right-click the Orbit icon, Properties -> Compatibility and check ‘disable DPI scaling’.

For Zeiss CZI files with JPEG-XR compression Visual Studio 2015 C++ Redistributable is needed.
This distribution contains the native lib for NDPI(s) files.

MD5: fde112344e739eec05a320e9b7eaf3ec

Linux (x64), Omero 5.4.x

orbit_linux

The current version only supports Omero 5.4.x, for Omero 5.3.x, please download the old version.

Download orbit_linux_xxx.tar.gz into a temp folder, extract archive and install the application with the install script:
(do this in an empty folder, ensure that no ‘orbit’ subfolder exists – because it will be created)

tar -xzf orbit_linux_xxx.tar.gz
sudo ./install.sh

you should find a shortcut on your desktop and in your main menu (under graphics and education) after installation.

Alternatively: start orbit directly without installing to /opt/orbit and without desktop shortcut:

./orbit-start.sh

Hint: This package come with an Oracle JRE. If you want to use your own JRE please be sure to use a 64bit JRE >=1.7. (Tested with Oracle JRE, but OpenJDK should work, too.)
This distribution contains the native lib for NDPI(s) files.

MD5: 2d7de3421c8471b1f36e286b77d7777d

Macintosh, Omero 5.4.x

orbit_mac

The current version only supports Omero 5.4.x, for Omero 5.3.x, please download the old version.

Download the orbit_mac_xxx.zip to your desktop and double-click to extract its contents. Then you should have the OrbitImageAnalysis.app icon on your desktop which you can double-click to start Orbit.

The zip file can be deleted then.

MD5: 49cf08951b690eb9fddc1b859dcb1802

JAR, Omero 5.4.x

orbit_jar

The current version only supports Omero 5.4.x, for Omero 5.3.x, please download the old version.

Tested with Oracle JRE >= 1.7. However, OpenJDK should work, too.

Extract the zip into a folder and start the program with

java -Xmx3g -XX:MaxPermSize=150m -Djavax.xml.parsers.DocumentBuilderFactory=com.sun.org.apache.xerces.internal.jaxp.DocumentBuilderFactoryImpl -cp "*" com.actelion.research.orbit.imageAnalysis.components.OrbitImageAnalysis

Set the -Xmx to a proper value according to your system memory.
No native libs are included here, you might copy them from a win or linux dist (.dll / .so).
If you realize display issues (white frames), please add this option: -Dsun.java2d.d3d=false

MD5: 03de8dcf83c20d7183c27e64f1591da3

 

Post Installation

If you have an image server like Omero you should configure Orbit to connect to it.

Source Code

The source code is available via Github. See the development page for details on how to build Orbit.