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Gephi 0.8.2 Hangs Opening File On OSX With JDK 1.8 Installed

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Gephi 0.8.2 Hangs Opening File On OSX With JDK 1.8 Installed

Postby lsamaha » 19 Sep 2013 20:42

Downloaded Gephi 0.8.2 beta for OSX and attempted to open LesMiserables.gexf. The graph portion of the UI becomes unresponsive and the cursor changes to a wait cursor. This condition persists indefinitely. This can be resolved by editing gephi.conf to use the 1.6 JDK.

Environment:

echo $JAVA_HOME
/Library/Java/Home
$JAVA_HOME/bin/java -version
java version "1.6.0_51"
Java(TM) SE Runtime Environment (build 1.6.0_51-b11-456-11M4508)
Java HotSpot(TM) 64-Bit Server VM (build 20.51-b01-456, mixed mode)

System Info:

Model Name: MacBook Pro
Model Identifier: MacBookPro10,1
Processor Name: Intel Core i7
Processor Speed: 2.3 GHz
Number of Processors: 1
Total Number of Cores: 4
L2 Cache (per Core): 256 KB
L3 Cache: 6 MB
Memory: 8 GB
Boot ROM Version: MBP101.00EE.B02
SMC Version (system): 2.3f35

Log:

-------------------------------------------------------------------------------
>Log Session: Thursday, September 19, 2013 1:18:47 PM CDT
>System Info:
Product Version = Gephi 0.8.2 201210100934
Operating System = Mac OS X version 10.8.4 running on x86_64
Java; VM; Vendor = 1.8.0-ea; Java HotSpot(TM) 64-Bit Server VM 25.0-b14; Oracle Corporation
Runtime = Java(TM) SE Runtime Environment 1.8.0-ea-b70
Java Home = /Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre
System Locale; Encoding = en_US (gephi); US-ASCII
Home Directory = /Users/lsamaha
Current Directory = /
User Directory = /Users/lsamaha/Library/Application Support/gephi/0.8.2/dev
Cache Directory = /Users/lsamaha/Library/Application Support/gephi/0.8.2/dev/var/cache
Installation = /Applications/Gephi.app/Contents/Resources/gephi/gephi
/Applications/Gephi.app/Contents/Resources/gephi/platform
/Applications/Gephi.app/Contents/Resources/gephi/platform
Boot & Ext. Classpath = /Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/resources.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/rt.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/sunrsasign.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/jsse.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/jce.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/charsets.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/jfr.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/JObjC.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/classes:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/ext/cldrdata.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/ext/dnsns.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/ext/localedata.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/ext/sunec.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/ext/sunjce_provider.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/ext/sunpkcs11.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/jre/lib/ext/zipfs.jar:/System/Library/Java/Extensions/AppleScriptEngine.jar:/System/Library/Java/Extensions/dns_sd.jar:/System/Library/Java/Extensions/j3daudio.jar:/System/Library/Java/Extensions/j3dcore.jar:/System/Library/Java/Extensions/j3dutils.jar:/System/Library/Java/Extensions/jai_codec.jar:/System/Library/Java/Extensions/jai_core.jar:/System/Library/Java/Extensions/mlibwrapper_jai.jar:/System/Library/Java/Extensions/MRJToolkit.jar:/System/Library/Java/Extensions/QTJava.zip:/System/Library/Java/Extensions/vecmath.jar
Application Classpath = /Applications/Gephi.app/Contents/Resources/gephi/platform/lib/boot.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/org-openide-modules.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/org-openide-util-lookup.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/org-openide-util.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_ar_SA.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_bg.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_ca.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_cs.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_de.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_es.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_fr.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_gl_ES.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_in_ID.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_it.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_ja.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_ko.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_nl_NL.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_pl.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_pt_BR.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_pt_PT.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_ro.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_ru.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_si.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_sq.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_sv.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_tr.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_zh_CN.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/boot_zh_TW.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_ar_SA.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_bg.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_ca.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_cs.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_de.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_es.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_fr.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_gl_ES.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_in_ID.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_it.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_ja.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_ko.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_nl_NL.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_pl.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_pt_BR.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_pt_PT.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_ro.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_ru.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_si.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_sq.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_sv.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_tr.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_zh_CN.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-modules_zh_TW.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_bg.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_ca.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_cs.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_de.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_es.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_fr.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_gl_ES.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_in_ID.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_it.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_ja.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_ko.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_nl_NL.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_pl.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_pt_BR.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_ro.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_ru.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_si.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_sv.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_tr.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util-lookup_zh_CN.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_ar_SA.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_bg.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_ca.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_cs.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_de.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_es.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_fr.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_gl_ES.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_in_ID.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_it.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_ja.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_ko.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_nl_NL.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_pl.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_pt_BR.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_pt_PT.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_ro.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_ru.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_si.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_sq.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_sv.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_tr.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_zh_CN.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/lib/locale/org-openide-util_zh_TW.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/lib/dt.jar:/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home/lib/tools.jar
Startup Classpath = /Applications/Gephi.app/Contents/Resources/gephi/platform/core/core.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/org-openide-filesystems.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_ar_SA.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_bg.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_ca.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_cs.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_de.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_es.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_fr.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_gl_ES.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_in_ID.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_it.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_ja.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_ko.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_nl_NL.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_pl.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_pt_BR.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_pt_PT.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_ro.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_ru.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_si.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_sq.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_sv.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_tr.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_zh_CN.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/core_zh_TW.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_ar_SA.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_bg.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_ca.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_cs.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_de.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_es.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_fr.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_gl_ES.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_in_ID.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_it.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_ja.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_ko.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_nl_NL.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_pl.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_pt_BR.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_pt_PT.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_ro.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_ru.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_si.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_sq.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_sv.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_tr.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_zh_CN.jar:/Applications/Gephi.app/Contents/Resources/gephi/platform/core/locale/org-openide-filesystems_zh_TW.jar:/Applications/Gephi.app/Contents/MacOS/../Resources/gephi/bin/../gephi/core/locale/core_gephi.jar
-------------------------------------------------------------------------------
WARNING [org.netbeans.modules.autoupdate.ui.actions.AutoupdateSettings]: The property "netbeans.default_userdir_root" was not set!
WARNING [org.netbeans.modules.autoupdate.ui.actions.AutoupdateSettings]: The property "netbeans.default_userdir_root" was not set!
SEVERE [org.netbeans.core.modules]
java.lang.NullPointerException
at org.netbeans.modules.autoupdate.ui.actions.AutoupdateSettings.getSuperIdentity(AutoupdateSettings.java:435)
at org.netbeans.modules.autoupdate.ui.actions.AutoupdateSettings.generateIdentity(AutoupdateSettings.java:136)
at org.netbeans.modules.autoupdate.ui.actions.AutoupdateCheckScheduler.signOn(AutoupdateCheckScheduler.java:110)
at org.netbeans.modules.autoupdate.ui.actions.Installer.restored(Installer.java:63)
at org.netbeans.core.startup.NbInstaller.loadCode(NbInstaller.java:469)
[catch] at org.netbeans.core.startup.NbInstaller.loadImpl(NbInstaller.java:392)
at org.netbeans.core.startup.NbInstaller.access$000(NbInstaller.java:103)
at org.netbeans.core.startup.NbInstaller$1.run(NbInstaller.java:344)
at org.openide.filesystems.FileUtil$2.run(FileUtil.java:619)
at org.openide.filesystems.EventControl.runAtomicAction(EventControl.java:127)
at org.openide.filesystems.FileSystem.runAtomicAction(FileSystem.java:607)
at org.openide.filesystems.FileUtil.runAtomicAction(FileUtil.java:603)
at org.openide.filesystems.FileUtil.runAtomicAction(FileUtil.java:623)
at org.netbeans.core.startup.NbInstaller.load(NbInstaller.java:341)
at org.netbeans.ModuleManager.enable(ModuleManager.java:1179)
at org.netbeans.ModuleManager.enable(ModuleManager.java:1002)
at org.netbeans.core.startup.ModuleList.installNew(ModuleList.java:340)
at org.netbeans.core.startup.ModuleList.trigger(ModuleList.java:276)
at org.netbeans.core.startup.ModuleSystem.restore(ModuleSystem.java:296)
at org.netbeans.core.startup.Main.getModuleSystem(Main.java:169)
at org.netbeans.core.startup.Main.start(Main.java:305)
at org.netbeans.core.startup.TopThreadGroup.run(TopThreadGroup.java:123)
at java.lang.Thread.run(Thread.java:722)
INFO [org.netbeans.core.startup.NbEvents]: Turning on modules:
org.openide.util.lookup [8.15.2 201210100934]
org.openide.util [8.25.2 201210100934]
org.openide.modules [7.32.1 201210100934]
org.netbeans.api.annotations.common/1 [1.14.1 201210100934]
org.openide.filesystems [7.62.1 201210100934]
org.openide.awt [7.46.1 201210100934]
org.netbeans.api.progress/1 [1.28.1 201210100934]
org.openide.dialogs [7.25.1 201210100934]
org.openide.nodes [7.28.1 201210100934]
org.openide.windows [6.55.2 201210100934]
org.netbeans.modules.editor.mimelookup/1 [1.26.1 201210100934]
org.openide.text [6.49.3 201210100934]
org.netbeans.swing.outline [1.20.1 201210100934]
org.netbeans.swing.tabcontrol [1.36.1 201210100934]
org.openide.explorer [6.45.1 201210100934]
org.openide.actions [6.26.1 201210100934]
org.netbeans.modules.queries/1 [1.28.1 201210100934]
org.openide.loaders [7.37.3 201210100934]
org.openide.io [1.31.2 201210100934]
org.netbeans.swing.plaf [1.25.1 201210100934]
org.netbeans.spi.quicksearch [1.14.1 201210100934]
org.netbeans.bootstrap/1 [2.52.3 201210100934]
org.netbeans.core.startup/1 [1.40.1 201210100934]
org.netbeans.modules.settings/1 [1.35.1 201210100934]
org.netbeans.modules.sendopts/2 [2.22.1 201210100934]
org.netbeans.modules.sampler [1.1.1 201210100934]
org.netbeans.modules.progress.ui [1.20.1 201210100934]
org.netbeans.modules.print [7.13.1 201210100934]
org.netbeans.modules.keyring [1.11.1 201210100934]
org.netbeans.core/2 [3.33.1 201210100934]
org.netbeans.modules.options.api/1 [1.26.1 201210100934]
org.netbeans.modules.options.keymap [1.19.2 201210100934]
org.netbeans.libs.jna/1 [1.21.1 201210100934]
org.netbeans.modules.masterfs/2 [2.38.2 201210100934]
org.netbeans.modules.masterfs.macosx [1.1.1 201210100934]
org.netbeans.modules.keyring.impl [1.7.1 201210100934]
org.netbeans.modules.favorites/1 [1.29.1 201210100934]
org.netbeans.modules.editor.mimelookup.impl/1 [1.18.1 201210100934]
org.netbeans.libs.osgi [1.9.1 201210100934]
org.netbeans.libs.felix [2.3.1 201210100934]
org.netbeans.modules.autoupdate.services [1.33.2 201210100934]
org.netbeans.modules.autoupdate.ui [1.27.3 201210100934]
org.netbeans.core.ui/1 [1.31.1 201210100934]
org.netbeans.core.windows/2 [2.49.3 201210100934]
org.netbeans.modules.core.kit [1.16.1 201210100934]
org.netbeans.modules.applemenu/1 [1.24.1 201210100934]
org.netbeans.core.output2/1 [1.26.1 201210100934]
org.netbeans.core.netigso [1.16.1 201210100934]
org.netbeans.core.nativeaccess/1 [1.16.1 201210100934]
org.netbeans.core.io.ui/1 [1.16.1 201210100934]
org.gephi.core.library.wrapper [0.8.2 0.8.2 201301030114]
org.gephi.utils [0.8.2 0.8.2 201301030114]
org.gephi.utils.longtask [0.8.2 0.8.2 201301030113]
org.gephi.project.api [0.8.2 0.8.2 201301030113]
org.gephi.graph.api [0.8.2 0.8.2 201301030114]
org.gephi.data.attributes.api [0.8.2 0.8.2 201301030114]
org.gephi.lib.validation [0.8.2 0.8.2 201301030114]
org.gephi.ui.utils [0.8.2 0.8.2 201301030115]
org.gephi.ui.library.wrapper [0.8.2 0.8.2 201301030114]
org.gephi.ui.components [0.8.2 0.8.2 201301030115]
org.gephi.workspace.ui [0.8.2 0.8.2 201301030117]
org.gephi.db.drivers [0.8.2 0.8.2 201301030115]
org.gephi.dynamic.api [0.8.2 0.8.2 201301030114]
org.gephi.io.importer.api [0.8.2 0.8.2 201301030115]
org.gephi.mostrecentfiles.api [0.8.2 0.8.2 201301030117]
org.gephi.desktop.project [0.8.2 0.8.2 201301030117]
org.gephi.welcome.screen [0.8.2 0.8.2 201301030117]
org.gephi.datalab.api [0.8.2 0.8.2 201301030114]
org.gephi.visualization.api [0.8.2 0.8.2 201301030115]
org.gephi.utils.collection [0.8.2 0.8.2 201301030117]
org.gephi.gleem [0.8.2 0.8.2 201301030117]
org.gephi.tools.api [0.8.2 0.8.2 201301030116]
org.gephi.visualization [0.8.2 0.8.2 201301030117]
org.gephi.ui.propertyeditor [0.8.2 0.8.2 201301030119]
org.gephi.algorithms.plugin [0.8.2 0.8.2 201301030116]
org.gephi.tools.plugin [0.8.2 0.8.2 201301030117]
org.gephi.timeline [0.8.2 0.8.2 201301030116]
org.gephi.statistics.api [0.8.2 0.8.2 201301030116]
org.gephi.statistics.plugin [0.8.2 0.8.2 201301030116]
org.gephi.statistics.plugin.ui [0.8.2 0.8.2 201301030116]
org.gephi.ranking.api [0.8.2 0.8.2 201301030115]
org.gephi.spline.editor [0.8.2 0.8.2 201301030116]
org.gephi.spigot.plugin [0.8.2 0.8.2 201301030116]
org.gephi.spigot.plugin.ui [0.8.2 0.8.2 201301030116]
org.gephi.settings.upgrader [0.8.2 0.8.2 201301030116]
org.gephi.ranking.plugin [0.8.2 0.8.2 201301030115]
org.gephi.ranking.plugin.ui [0.8.2 0.8.2 201301030116]
org.gephi.project.ui [0.8.2 0.8.2 201301030115]
org.gephi.io.processor.plugin [0.8.2 0.8.2 201301030115]
org.gephi.processor.plugin.ui [0.8.2 0.8.2 201301030115]
org.gephi.preview.api [0.8.2 0.8.2 201301030114]
org.gephi.preview.plugin [0.8.2 0.8.2 201301030115]
org.gephi.io.exporter.api [0.8.2 0.8.2 201301030113]
org.gephi.io.exporter.preview [0.8.2 0.8.2 201301030114]
org.gephi.preview.export.ui [0.8.2 0.8.2 201301030114]
org.gephi.perspective.api [0.8.2 0.8.2 201301030120]
org.gephi.partition.api [0.8.2 0.8.2 201301030119]
org.gephi.partition.plugin [0.8.2 0.8.2 201301030121]
org.gephi.partition.plugin.ui [0.8.2 0.8.2 201301030121]
org.gephi.layout.api [0.8.2 0.8.2 201301030118]
org.gephi.layout.plugin [0.8.2 0.8.2 201301030119]
org.gephi.io.importer.plugin [0.8.2 0.8.2 201301030119]
org.gephi.io.generator.api [0.8.2 0.8.2 201301030118]
org.gephi.io.generator.plugin [0.8.2 0.8.2 201301030118]
org.gephi.io.exporter.plugin [0.8.2 0.8.2 201301030118]
org.gephi.import.plugin.ui [0.8.2 0.8.2 201301030120]
org.gephi.graph.dhns [0.8.2 0.8.2 201301030119]
org.gephi.gephi.branding [0.8.2 0.8.2 201301030113]
org.gephi.generator.plugin.ui [0.8.2 0.8.2 201301030118]
org.gephi.filters.api [0.8.2 0.8.2 201301030118]
org.gephi.filters.plugin [0.8.2 0.8.2 201301030120]
org.gephi.desktop.perspective [0.8.2 0.8.2 201301030120]
org.gephi.filters.plugin.ui [0.8.2 0.8.2 201301030121]
org.gephi.filters.impl [0.8.2 0.8.2 201301030120]
org.gephi.export.plugin.ui [0.8.2 0.8.2 201301030120]
org.gephi.dynamic.impl [0.8.2 0.8.2 201301030121]
org.gephi.directory.chooser [0.8.2 0.8.2 201301030122]
org.gephi.desktop.tools [0.8.2 0.8.2 201301030121]
org.gephi.desktop.timeline [0.8.2 0.8.2 201301030122]
org.gephi.desktop.statistics [0.8.2 0.8.2 201301030118]
org.gephi.desktop.spigot [0.8.2 0.8.2 201301030119]
org.gephi.desktop.recent.files [0.8.2 0.8.2 201301030120]
org.gephi.desktop.ranking [0.8.2 0.8.2 201301030118]
org.gephi.desktop.progress [0.8.2 0.8.2 201301030118]
org.gephi.desktop.io.export [0.8.2 0.8.2 201301030120]
org.gephi.desktop.preview [0.8.2 0.8.2 201301030121]
org.gephi.desktop.partition [0.8.2 0.8.2 201301030119]
org.gephi.desktop.layout [0.8.2 0.8.2 201301030121]
org.gephi.desktop.import [0.8.2 0.8.2 201301030121]
org.gephi.desktop.hierarchy [0.8.2 0.8.2 201301030120]
org.gephi.desktop.generate [0.8.2 0.8.2 201301030119]
org.gephi.desktop.filters [0.8.2 0.8.2 201301030122]
org.gephi.desktop.datalab [0.8.2 0.8.2 201301030119]
org.gephi.desktop.context [0.8.2 0.8.2 201301030117]
org.gephi.clustering.api [0.8.2 0.8.2 201301030118]
org.gephi.desktop.clustering [0.8.2 0.8.2 201301030120]
org.gephi.desktop.branding [0.8.2 0.8.2 201301030118]
org.gephi.datalab.plugin [0.8.2 0.8.2 201301030121]
org.gephi.clustering.plugin [0.8.2 0.8.2 201301030122]
org.gephi.attributes [0.8.2 0.8.2 201301030119]
WARNING [org.netbeans.TopSecurityManager]: use of system property netbeans.user has been obsoleted in favor of InstalledFileLocator/Places at org.gephi.ui.upgrader.Upgrader.getCurrentVersion(Upgrader.java:123)
SEVERE [global]
java.lang.ClassNotFoundException: apple.awt.ComponentModel
at java.net.URLClassLoader$1.run(URLClassLoader.java:359)
at java.net.URLClassLoader$1.run(URLClassLoader.java:348)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(URLClassLoader.java:347)
at java.lang.ClassLoader.loadClass(ClassLoader.java:423)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:308)
at java.lang.ClassLoader.loadClass(ClassLoader.java:356)
at org.netbeans.ProxyClassLoader.loadClass(ProxyClassLoader.java:262)
Caused: java.lang.ClassNotFoundException: apple.awt.ComponentModel starting from ModuleCL@4b659dce[org.gephi.visualization] with possible defining loaders null and declared parents [ModuleCL@5afa2b2b[org.gephi.ui.utils], ModuleCL@429a4477[org.gephi.data.attributes.api], ModuleCL@6798e5f7[org.gephi.dynamic.api], ModuleCL@65ad9b63[org.gephi.visualization.api], ModuleCL@7a0136b0[org.gephi.datalab.api], ModuleCL@552856f7[org.gephi.tools.api], ModuleCL@559c384e[org.openide.awt], ModuleCL@68b4b4bb[org.gephi.utils.collection], ModuleCL@2533eb05[org.gephi.ui.components], ModuleCL@aec55a[org.openide.windows], ...10 more]
at org.netbeans.ProxyClassLoader.loadClass(ProxyClassLoader.java:264)
at java.lang.ClassLoader.loadClass(ClassLoader.java:356)
Caused: java.lang.NoClassDefFoundError: apple/awt/ComponentModel
at com.sun.opengl.impl.JAWT_DrawingSurface.GetDrawingSurfaceInfo0(Native Method)
at com.sun.opengl.impl.JAWT_DrawingSurface.GetDrawingSurfaceInfo(JAWT_DrawingSurface.java:56)
at com.sun.opengl.impl.macosx.MacOSXOnscreenGLDrawable$1.run(MacOSXOnscreenGLDrawable.java:165)
at java.security.AccessController.doPrivileged(Native Method)
at com.sun.opengl.impl.macosx.MacOSXOnscreenGLDrawable.lockSurface(MacOSXOnscreenGLDrawable.java:163)
at com.sun.opengl.impl.macosx.MacOSXOnscreenGLContext.makeCurrentImpl(MacOSXOnscreenGLContext.java:57)
at com.sun.opengl.impl.GLContextImpl.makeCurrent(GLContextImpl.java:134)
at com.sun.opengl.impl.GLDrawableHelper.invokeGL(GLDrawableHelper.java:182)
at javax.media.opengl.GLCanvas$DisplayOnEventDispatchThreadAction.run(GLCanvas.java:452)
at sun.java2d.opengl.OGLRenderQueue$QueueFlusher.run(OGLRenderQueue.java:234)
Caused: javax.media.opengl.GLException
at com.sun.opengl.impl.Java2D.invokeWithOGLContextCurrent(Java2D.java:296)
at javax.media.opengl.Threading.invokeOnOpenGLThread(Threading.java:266)
at javax.media.opengl.GLCanvas.maybeDoSingleThreadedWorkaround(GLCanvas.java:410)
at javax.media.opengl.GLCanvas.display(GLCanvas.java:244)
at javax.media.opengl.GLCanvas.paint(GLCanvas.java:277)
at sun.awt.RepaintArea.paintComponent(RepaintArea.java:264)
at sun.lwawt.LWRepaintArea.paintComponent(LWRepaintArea.java:54)
at sun.awt.RepaintArea.paint(RepaintArea.java:240)
at sun.lwawt.LWComponentPeer.handleJavaPaintEvent(LWComponentPeer.java:1329)
at sun.lwawt.LWComponentPeer.handleEvent(LWComponentPeer.java:1220)
at java.awt.Component.dispatchEventImpl(Component.java:4945)
at java.awt.Component.dispatchEvent(Component.java:4691)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:722)
at java.awt.EventQueue.access$200(EventQueue.java:103)
at java.awt.EventQueue$3.run(EventQueue.java:681)
at java.awt.EventQueue$3.run(EventQueue.java:679)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:75)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:86)
at java.awt.EventQueue$4.run(EventQueue.java:695)
at java.awt.EventQueue$4.run(EventQueue.java:693)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:75)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:692)
at org.netbeans.core.TimableEventQueue.dispatchEvent(TimableEventQueue.java:158)
[catch] at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:244)
at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:163)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:151)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:147)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:139)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:97)
INFO [org.netbeans.core.ProxyAutoConfig]: InputStream for http://proxy.corp.spscommerce.net/proxy.pac%0A throws java.io.FileNotFoundException: http://proxy.corp.spscommerce.net/proxy.pac%0A
java.io.FileNotFoundException: http://proxy.corp.spscommerce.net/proxy.pac%0A
at sun.net.www.protocol.http.HttpURLConnection.getInputStream(HttpURLConnection.java:1625)
at org.netbeans.core.ProxyAutoConfig.downloadPAC(ProxyAutoConfig.java:195)
[catch] at org.netbeans.core.ProxyAutoConfig.initEngine(ProxyAutoConfig.java:113)
at org.netbeans.core.ProxyAutoConfig.access$000(ProxyAutoConfig.java:63)
at org.netbeans.core.ProxyAutoConfig$1.run(ProxyAutoConfig.java:101)
at org.openide.util.RequestProcessor$Task.run(RequestProcessor.java:1452)
at org.openide.util.RequestProcessor$Processor.run(RequestProcessor.java:2032)
Diagnostic information
Input arguments:
-Djdk.home=/Library/Java/JavaVirtualMachines/jdk1.8.0.jdk/Contents/Home
-Dnetbeans.system_http_proxy=PAC http://proxy.corp.spscommerce.net/proxy.pac%0A
http://wpad.public.sps/wpad.dat?
http://proxy.corp.spscommerce.net/proxy.pac%0A
-Dnetbeans.system_http_non_proxy_hosts=
-Dnetbeans.dirs=/Applications/Gephi.app/Contents/MacOS/../Resources/gephi/bin/../gephi:/Applications/Gephi.app/Contents/MacOS/../Resources/gephi/bin/../platform:
-Dnetbeans.home=/Applications/Gephi.app/Contents/Resources/gephi/platform
-Dcom.apple.mrj.application.apple.menu.about.name=gephi
-Xms64m
-Xmx5734m
-Xverify:none
-Dsun.java2d.noddraw=true
-Dsun.awt.noerasebackground=true
-Dnetbeans.indexing.noFileRefresh=true
-Dplugin.manager.check.interval=EVERY_DAY
-XX:+HeapDumpOnOutOfMemoryError
-XX:HeapDumpPath=/Users/lsamaha/Library/Application Support/gephi/0.8.2/dev/var/log/heapdump.hprof
Compiler: HotSpot 64-Bit Tiered Compilers
Heap memory usage: initial 64.0MB maximum 5096.9MB
Non heap memory usage: initial 2.4MB maximum 96.0MB
Garbage collector: PS Scavenge (Collections=9 Total time spent=0s)
Garbage collector: PS MarkSweep (Collections=2 Total time spent=0s)
Classes: loaded=5983 total loaded=5983 unloaded 0
INFO [org.netbeans.core.ui.warmup.DiagnosticTask]: Total memory 8,589,934,592
INFO [null]: Total physical memory 8,589,934,592
INFO [org.netbeans.core.ui.focus]: External Changes Refresh on focus gain disabled
lsamaha
 
Posts: 1
Joined: 19 Sep 2013 20:21

Re: Gephi 0.8.2 Hangs Opening File On OSX With JDK 1.8 Insta

Postby francis_flavin » 22 Sep 2013 16:56

Thanks for posting that!
francis_flavin
 
Posts: 65
Joined: 21 Jan 2012 19:34
Location: Washington, DC, USA

Re: Gephi 0.8.2 Hangs Opening File On OSX With JDK 1.8 Insta

Postby bamirian » 01 Feb 2014 08:03

This worked for me. Thanks.
bamirian
 
Posts: 2
Joined: 28 Sep 2013 03:54
Location: United States

Re: Gephi 0.8.2 Hangs Opening File On OSX With JDK 1.8 Insta

Postby Brave_09 » 20 Jun 2014 08:01

Nice post.
Brave_09
 
Posts: 2
Joined: 20 Jun 2014 07:42


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