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| Cytoscape 3.2 requires Java 7 to run. Unfortunately Java 7 is not available for Snow Leopard (10.6.8). We found a version of Java 7 (Update 25) that works with Mac OS X 10.6.8. | Cytoscape 3.2 requires Java 7 to run. Unfortunately Java 7 is not officially available for Snow Leopard (10.6.8). We found a version of Java 7 (Update 25) that works with Mac OS X 10.6.8. Note, later versions of Java 7 do not work on OS X 10.6.8 even if you manage to install them. |
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| * Download the modified Java 7 (Update 25) package from here - this version will allow you install Java 7 even though it is technically not supported. | * Download the modified Java 7 (Update 25) package from [[attachment:JDK7_update25_forSnowLeopard.pkg|here]] - this version will allow you install Java 7 even though it is technically not supported. * ''Only the installer has been modified using package maker in Apple Dev tools. The modification removes the restriction that only those with OSX 10.7.3 or higher can install it. With apple dev tools this can easily be done for later updates but please not that with later updates of Java 7 we had issues with thread exceptions while using cytoscape.'' |
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| * Set your Java Home as described here : [[http://www.cytoscape.org/release_notes_3_1_1.html|Set JAVA_HOME]] | * Set your Java Home as described here : [[http://www.cytoscape.org/release_notes_3_1_1.html#known_issues|heading:Java 6 used on Mac, even with Java 7 installed]] |
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| * Download Cytoscape 3.2 from [[http://chianti.ucsd.edu/cytoscape-3.2.0-rc2/|here]] '''Currently this link is set to RC2 link. Once 3.2 is released need to update link''' | * Download Cytoscape 3.2 from [[http://chianti.ucsd.edu/cytoscape-3.2.0-rc3/|here]] '''Currently this link is set to RC3 link. Once 3.2 is released need to update link''' |
Installing Cytoscape 3.2 on Mac OSX Snow Leopard (10.6.8)
Cytoscape 3.2 requires Java 7 to run. Unfortunately Java 7 is not officially available for Snow Leopard (10.6.8). We found a version of Java 7 (Update 25) that works with Mac OS X 10.6.8. Note, later versions of Java 7 do not work on OS X 10.6.8 even if you manage to install them.
Install Java 7
Download the modified Java 7 (Update 25) package from here - this version will allow you install Java 7 even though it is technically not supported.
Only the installer has been modified using package maker in Apple Dev tools. The modification removes the restriction that only those with OSX 10.7.3 or higher can install it. With apple dev tools this can easily be done for later updates but please not that with later updates of Java 7 we had issues with thread exceptions while using cytoscape.
- Install Java 7.
Set your Java Home as described here : heading:Java 6 used on Mac, even with Java 7 installed
verify that you are now using Java 7. Open a terminal window (Applications -> Utilities -> Terminal , Run the command "java -version")
MacPro:~$java -version java version "1.7.0_25" Java(TM) SE Runtime Environment (build 1.7.0_25-b15) Java HotSpot(TM) 64-Bit Server VM (build 23.25-b01, mixed mode)
Download Cytoscape 3.2
Download Cytoscape 3.2 from here Currently this link is set to RC3 link. Once 3.2 is released need to update link
Download file cytoscape-3.2.0.tar.gz (Can't download the DMG for Mac because it too has a restriction on it requiring minimally OS X version 10.7.3)
- Double click on file to unzip and extract contents.
Copy cytoscape-unix-3.2.0 and paste into Applications directory.
Launching Cytoscape 3.2
- Launch Cytoscape from command line
* Open a terminal window (Applications -> Utilities -> Terminal * Run ''/Applications/cytoscape-unix-3.2.0/cytoscape.sh''