Eclipse: java.lang.OutOfMemoryError: Java heap space - eclipse

Question

I am using Eclipse 4.4.1 and i always encounter this error, i can not work with eclipse.
Is there any way to fix it?
My eclipse.ini:
-startup
plugins/org.eclipse.equinox.launcher_1.3.0.v20140415-2008.jar
--launcher.library
plugins/org.eclipse.equinox.launcher.gtk.linux.x86_64_1.1.200.v20140603-1326
-product
org.eclipse.epp.package.jee.product
--launcher.defaultAction
openFile
-showsplash
org.eclipse.platform
--launcher.XXMaxPermSize
2048m
--launcher.defaultAction
openFile
--launcher.appendVmargs
-vmargs
-Dosgi.requiredJavaVersion=1.6
-XX:+UseParallelGC
-XX:PermSize=512M
-XX:MaxPermSize=2048m
-Xms512m
-Xmx2048m
Exception stack trace:
java.lang.OutOfMemoryError: Java heap space
at org.eclipse.ui.part.ResourceTransfer.nativeToJava(ResourceTransfer.java:162)
at org.eclipse.swt.dnd.Clipboard.getContents(Clipboard.java:330)
at org.eclipse.swt.dnd.Clipboard.getContents(Clipboard.java:241)
at org.eclipse.ui.internal.navigator.resources.actions.PasteAction$1.run(PasteAction.java:192)
at org.eclipse.swt.widgets.Synchronizer.syncExec(Synchronizer.java:187)
at org.eclipse.ui.internal.UISynchronizer.syncExec(UISynchronizer.java:156)
at org.eclipse.swt.widgets.Display.syncExec(Display.java:4590)
at org.eclipse.ui.internal.navigator.resources.actions.PasteAction.updateSelection(PasteAction.java:186)
at org.eclipse.ui.actions.BaseSelectionListenerAction.selectionChanged(BaseSelectionListenerAction.java:124)
at org.eclipse.ui.internal.navigator.resources.actions.EditActionGroup.updateActionBars(EditActionGroup.java:153)
at org.eclipse.ui.internal.navigator.resources.actions.EditActionGroup.fillActionBars(EditActionGroup.java:99)
at org.eclipse.ui.internal.navigator.resources.actions.EditActionProvider.fillActionBars(EditActionProvider.java:49)
at org.eclipse.ui.navigator.NavigatorActionService$3.run(NavigatorActionService.java:259)
at org.eclipse.core.runtime.SafeRunner.run(SafeRunner.java:42)
at org.eclipse.ui.navigator.NavigatorActionService.fillActionBars(NavigatorActionService.java:253)
at org.eclipse.ui.navigator.CommonNavigatorManager.selectionChanged(CommonNavigatorManager.java:222)
at org.eclipse.jface.viewers.Viewer$2.run(Viewer.java:163)
at org.eclipse.core.runtime.SafeRunner.run(SafeRunner.java:42)
at org.eclipse.ui.internal.JFaceUtil$1.run(JFaceUtil.java:50)
at org.eclipse.jface.util.SafeRunnable.run(SafeRunnable.java:178)
at org.eclipse.jface.viewers.Viewer.fireSelectionChanged(Viewer.java:160)
at org.eclipse.jface.viewers.StructuredViewer.updateSelection(StructuredViewer.java:2171)
at org.eclipse.jface.viewers.StructuredViewer.handleSelect(StructuredViewer.java:1202)
at org.eclipse.ui.navigator.CommonViewer.handleSelect(CommonViewer.java:478)
at org.eclipse.jface.viewers.StructuredViewer$4.widgetSelected(StructuredViewer.java:1231)
at org.eclipse.jface.util.OpenStrategy.fireSelectionEvent(OpenStrategy.java:242)
at org.eclipse.jface.util.OpenStrategy.access$4(OpenStrategy.java:236)
at org.eclipse.jface.util.OpenStrategy$1.handleEvent(OpenStrategy.java:408)
at org.eclipse.swt.widgets.EventTable.sendEvent(EventTable.java:84)
at org.eclipse.swt.widgets.Display.sendEvent(Display.java:4454)
at org.eclipse.swt.widgets.Widget.sendEvent(Widget.java:1388)
at org.eclipse.swt.widgets.Display.runDeferredEvents(Display.java:3799)
Session data:
eclipse.buildId=4.4.1.M20140925-0400
java.version=1.7.0_71
java.vendor=Oracle Corporation
BootLoader constants: OS=linux, ARCH=x86_64, WS=gtk, NL=en_US
Framework arguments: -product org.eclipse.epp.package.jee.product
Command-line arguments: -os linux -ws gtk -arch x86_64 -product org.eclipse.epp.package.jee.product

Answer 1

I noticed this behavior after i installed https://extensions.gnome.org/extension/779/clipboard-indicator/. Do you also have this extension installed? When I disable this extension (and restart gnome-shell) the exception in Eclipse is gone. Can you confirm this?
I have made a bug report here: https://bugs.eclipse.org/bugs/show_bug.cgi?id=449902.

Answer 2

You don't say how much memory you have on your computer, but you are very likely specifying overly large memory requirements.
Check this excellent answer:
What are the best JVM settings for Eclipse?
Per your settings, I believe you would need 1GB of free memory to start, and could use much more than that if loading a large project.
If that does not help, then I also noticed that the exception is occurring in a method that would appear to be related to clipboard transfer. Is it possible you have a very large data set in your clipboard? That's just a guess and I don't know why Eclipse would want to transfer data from the clipboard on load.