R help - Aug 2009 - rJava error for large XML object return in StatET plugin

Hi R List,
I get this error using StatET R plugin in Eclipse.
>sessionInfo()
R version 2.9.0 (2009-04-17)
i386-pc-mingw32

locale:
LC_COLLATE=English_United States.1252;LC_CTYPE=English_United
States.1252;LC_MONETARY=English_United
States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252

I am running Eclipse Platform Version: 3.4.1 Build id: M20080911-1700 on
Windows XP

My R process creates a XML object which when I cat, gives the error below.
The XML object is large, containing 1000+ rows  like the one below.

  <data name="subset" y="1.0121137732"
x="0.8018022766" ypred="0.86"
yloess="1.0472"/>

The XML object when created with less than 800 rows does get created.

Does it have anything to do with the size of xml.


org.eclipse.core.runtime.CoreException: Communication error
    at
de.walware.statet.r.nico.impl.RjsController.rjsRunMainLoop(RjsController.java:191)
    at
de.walware.statet.r.nico.impl.RjsController.doSubmit(RjsController.java:410)
    at
de.walware.statet.nico.core.runtime.ToolController.submitToConsole(ToolController.java:1009)
    at
de.walware.statet.nico.core.runtime.ToolController$ConsoleCommandRunnable.run(ToolController.java:124)
    at
de.walware.statet.nico.core.runtime.ToolController.loopRunTask(ToolController.java:822)
    at
de.walware.statet.nico.core.runtime.ToolController.loop(ToolController.java:767)
    at
de.walware.statet.nico.core.runtime.ToolController.run(ToolController.java:293)
    at
de.walware.statet.nico.core.runtime.ToolRunner.run(ToolRunner.java:37)
    at
de.walware.statet.nico.core.runtime.ToolRunner.access$0(ToolRunner.java:35)
    at
de.walware.statet.nico.core.runtime.ToolRunner$1.run(ToolRunner.java:47)
Caused by: java.rmi.UnmarshalException: error unmarshalling return; nested
exception is:
    java.io.UTFDataFormatException
    at sun.rmi.server.UnicastRef.invoke(Unknown Source)
    at
java.rmi.server.RemoteObjectInvocationHandler.invokeRemoteMethod(Unknown
Source)
    at java.rmi.server.RemoteObjectInvocationHandler.invoke(Unknown Source)
    at $Proxy0.runMainLoop(Unknown Source)
    at
de.walware.statet.r.nico.impl.RjsController.rjsRunMainLoop(RjsController.java:172)
    ... 9 more
Caused by: java.io.UTFDataFormatException
    at java.io.ObjectInputStream$BlockDataInputStream.readUTFSpan(Unknown
Source)
    at java.io.ObjectInputStream$BlockDataInputStream.readUTFBody(Unknown
Source)
    at java.io.ObjectInputStream$BlockDataInputStream.readUTF(Unknown
Source)
    at java.io.ObjectInputStream.readUTF(Unknown Source)
    at de.walware.rj.server.ConsoleCmdItem.<init>(ConsoleCmdItem.java:58)
    at de.walware.rj.server.MainCmdList.readExternal(MainCmdList.java:70)
    at java.io.ObjectInputStream.readExternalData(Unknown Source)
    at java.io.ObjectInputStream.readOrdinaryObject(Unknown Source)
    at java.io.ObjectInputStream.readObject0(Unknown Source)
    at java.io.ObjectInputStream.readObject(Unknown Source)
    at sun.rmi.server.UnicastRef.unmarshalValue(Unknown Source)
    ... 14 more


Thanks and regards,
Harsh

	[[alternative HTML version deleted]]

Hi,

On Aug 26, 2009, at 1:31 PM, Harsh wrote:
> Hi R List,
> I get this error using StatET R plugin in Eclipse.
You might have more luck asking the StatET user mailing list:

https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/statet-user

-steve

--
Steve Lianoglou
Graduate Student: Computational Systems Biology
   |  Memorial Sloan-Kettering Cancer Center
   |  Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact