Package Details: cytoscape 3.7.1-1

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Package Base: cytoscape
Description: A software for visualizing molecular interaction networks and integration with gene expression profiles and other state data.
Upstream URL:
Licenses: LGPL2
Submitter: timdiels
Maintainer: lukaszimmermann
Last Packager: lukaszimmermann
Votes: 11
Popularity: 0.000086
First Submitted: 2015-09-22 13:00
Last Updated: 2019-03-19 15:06

Dependencies (2)

Required by (0)

Sources (4)

Latest Comments

essenceoffoo commented on 2020-07-13 08:48

FYI: I installed Cytoscape 3.8. with the official Linux installer from Java 8-openjdk did not work, but Java 11-openjdk does. I haven't tried Java 14-openjdk.

khughitt commented on 2020-02-06 23:45

One more suggestion -- Cytoscape is not compatible with recent versions of Java so you first have to install an earlier version (JDK-8 is the one currently listed as supported), and then you should be able to launch cytoscape with "JAVA_HOME=/usr/lib/jvm/java-8-openjdk cytoscape"

balwierz commented on 2019-07-10 16:11

Crash at startup

Error occurred during initialization of boot layer java.lang.module.FindException: Module java.transaction not found

alienzj commented on 2019-03-18 13:57

alienzj commented on 2019-03-18 13:57


timdiels commented on 2017-06-20 08:33

If you anyone still gets "JAVA_HOME not set", set it in your shell's login script (~/.bash_profile, /etc/profile.d):
export JAVA_HOME=/usr/lib/jvm/default

pwl commented on 2016-11-02 13:36

It doesn't work, I'm getting:

$ cytoscape
karaf: JAVA_HOME not set; results may vary
Exception in thread "main" java.lang.UnsupportedClassVersionError: org/cytoscape/launcher/internal/Launcher : Unsupported major.minor version 52.0
at java.lang.ClassLoader.defineClass1(Native Method)
at java.lang.ClassLoader.defineClass(
at Method)
at java.lang.ClassLoader.loadClass(
at sun.misc.Launcher$AppClassLoader.loadClass(
at java.lang.ClassLoader.loadClass(
at sun.launcher.LauncherHelper.checkAndLoadMain(