Hi, I'm using Cytoscape 2.8.3 with Ubuntu and found the same error. Can you describe step by step how to resolve this error? I am Ubuntu novice user.
Thank you! Alvaro -- You received this bug notification because you are a member of OpenJDK, which is subscribed to openjdk-7 in Ubuntu. https://bugs.launchpad.net/bugs/1041543 Title: openjdk has become incompatible to Cytoscape2.8.3 with the latest updates Status in openjdk-7 package in Ubuntu: Invalid Bug description: With the latest updates to Ubuntu12.10 Quantal Cytoscape 2.8.3 has become unusable. You can get Cytoscape from: http://cytoscape.org/ download it as tar.gz for Linux. Extract it and run from terminal in the Cytoscape directory: java -Xmx2000m -Xss500m -jar cytoscape.jar -p plugins after this you get the error : cytoscape.CytoscapeInit[ERROR]: Plugin system initialization error: java.lang.NumberFormatException: Cytoscape version numbers must be in the format: "^\d+\.\d+(\.\d+(-[a-zA-Z]+)?)?$"! (Bad version is "".) Caused by: Cytoscape version numbers must be in the format: "^\d+\.\d+(\.\d+(-[a-zA-Z]+)?)?$"! (Bad version is "".) at cytoscape.plugin.DownloadableInfo.addCytoscapeVersion(DownloadableInfo.java:176) at cytoscape.plugin.PluginTracker.createBasicObject(PluginTracker.java:508) at cytoscape.plugin.PluginTracker.createPluginObject(PluginTracker.java:600) at cytoscape.plugin.PluginTracker.getPluginContent(PluginTracker.java:569) at cytoscape.plugin.PluginTracker.getDownloadableContent(PluginTracker.java:588) at cytoscape.plugin.PluginTracker.getDownloadableListByStatus(PluginTracker.java:196) at cytoscape.plugin.PluginManager.getDownloadables(PluginManager.java:313) at cytoscape.CytoscapeInit.loadPlugins(CytoscapeInit.java:636) at cytoscape.CytoscapeInit.init(CytoscapeInit.java:209) at cytoscape.CyMain.(CyMain.java:144) at cytoscape.CyMain.main(CyMain.java:108) Some days ago this Cytoscape version was working, so the error must be on Ubuntu. ProblemType: Bug DistroRelease: Ubuntu 12.10 Package: openjdk-7-jre 7~u3-2.1.1~pre1-1ubuntu4 ProcVersionSignature: Ubuntu 3.5.0-11.11-generic 3.5.2 Uname: Linux 3.5.0-11-generic x86_64 ApportVersion: 2.5.1-0ubuntu2 Architecture: amd64 Date: Sat Aug 25 14:18:26 2012 InstallationMedia: Ubuntu 12.10 "Quantal Quetzal" - Alpha amd64 (20120722) ProcEnviron: PATH=(custom, no username) LANG=de_DE.UTF-8 SHELL=/bin/bash SourcePackage: openjdk-7 UpgradeStatus: No upgrade log present (probably fresh install) To manage notifications about this bug go to: https://bugs.launchpad.net/ubuntu/+source/openjdk-7/+bug/1041543/+subscriptions _______________________________________________ Mailing list: https://launchpad.net/~openjdk Post to : [email protected] Unsubscribe : https://launchpad.net/~openjdk More help : https://help.launchpad.net/ListHelp
