Re: [R-SIG-Mac] JGR, JAva and Macintosh

Tue, 28 Apr 2009 12:29:02 -0700 

Note: On Mac OS X we strongly recommend using iplots from within JGR.
Proceed at your own risk as iplots cannot resolve potential ev.loop deadlocks. 'Yes' is assumed for all dialogs as they cannot be shown without a deadlock, 
also ievent.wait() is disabled.
2009-04-28 16:15:50.630 R[64570:c13] Apple AWT Java VM was loaded on first thread -- can't start AWT. Exception in thread "main" java.lang.InternalError: Can't start the AWT because Java was started on the first thread. Make sure StartOnFirstThread is not specified in your application's Info.plist or on the command line 
        at java.lang.ClassLoader$NativeLibrary.load(Native Method)
        at java.lang.ClassLoader.loadLibrary0(ClassLoader.java:1822)
        at java.lang.ClassLoader.loadLibrary(ClassLoader.java:1723)
        at java.lang.Runtime.loadLibrary0(Runtime.java:822)
        at java.lang.System.loadLibrary(System.java:993)
        at sun.security.action.LoadLibraryAction.run(LoadLibraryAction.java:50)
        at java.security.AccessController.doPrivileged(Native Method)
        at java.awt.Toolkit.loadLibraries(Toolkit.java:1509)
        at java.awt.Toolkit.<clinit>(Toolkit.java:1530)
        at java.awt.Color.<clinit>(Color.java:250)
        at org.rosuda.ibase.Common.<clinit>(Common.java:47)
        at org.rosuda.iplots.Framework.<init>(Framework.java:43)
Error in .jnew("org/rosuda/iplots/Framework") :
  Failed to create object of class `org/rosuda/iplots/Framework'
Além disso: Warning message:
In .jnew("org/rosuda/iplots/Framework") :
  NewObject("org/rosuda/iplots/Framework","()V",...) failed

after require(JGR)...
Leonard Assis
lmas...@yahoo.com.br
"An approximate answer to the right problem is worth a good deal more than an exact answer to an approximate problem." - J. W. Tukey
"I like working on applied and theoretical problems at the same time and one thing nice about statistics is that you can be useful in a wide variety of areas. So my current applications include biostatistics and also astrophysical applications. The surprising thing is that the methods used are similar in both areas." - Bradley Efron 

On 27/04/2009, at 11:17, Simon Urbanek wrote:



On Apr 27, 2009, at 9:58 , Simon Urbanek wrote:



On Apr 27, 2009, at 9:42 , Beckmann Lars wrote:


Then the first error in the original message occurs:
The error message after a double click on JGR.app is a popup- windows with following message: 

Cannot find JRI library

Cannot find java/R interface (JRI) library (libjri.jnilib)
Please make sure you start JGR  by double-clicking the JGR
application
If you upgraded R or used a custom package path before, you'll have to remove your JGR preferences 
rm ~/.JGRprefsrc
and re-try. If that doesn't help, please run JGR from the command line (Terminal) as follows and post the output: 
/Applications/JGR.app/Contents/MacOS/JGR
BTW: please use stats-rosuda-devel mailing list for JGR-related questions. 
http://mailman.rz.uni-augsburg.de/mailman/listinfo/stats-rosuda-devel

Thanks,
Simon







________________________________
Von: r-sig-mac-boun...@stat.math.ethz.ch im Auftrag von Simon Urbanek 
Gesendet: Mo 2009-04-27 15:24
An: Beckmann Lars
Cc: r-sig-mac@stat.math.ethz.ch
Betreff: Re: [R-SIG-Mac] JGR, JAva and Macintosh




On Apr 26, 2009, at 6:48 , Beckmann Lars wrote:


Some additional notes:

It looks like a Java problem. The preinstalled version on the Mac
was 1.5.0_16, but I switched to 1.6.0_07. Below are error messages for 
library(JGR) and library(iplots)



You cannot load JGR from within an R session due to Os X 10.5
limitation - you should use the launcher supplied on the JGR website. 

Cheers,
Simon



# load JGR


library(JGR)

Lade nötiges Paket: rJava
Lade nötiges Paket: JavaGD
Lade nötiges Paket: iplots
Note: On Mac OS X we strongly recommend using iplots from within JGR. 
Proceed at your own risk as iplots cannot resolve potential ev.loop
deadlocks.
'Yes' is assumed for all dialogs as they cannot be shown without a
deadlock,
also ievent.wait() is disabled.
Exception in thread "main" Error in .jnew("org/rosuda/iplots/
Framework") :
Failed to create object of class `org/rosuda/iplots/Framework'
Zusätzlich: Warning message:
In .jnew("org/rosuda/iplots/Framework") :
NewObject("org/rosuda/iplots/Framework","()V",...) failed
Fehler: Paket 'iplots' konnte nicht geladen werden
java.lang.InternalError: Can't start the AWT because Java was
started on the first thread.  Make sure StartOnFirstThread is not
specified in your application's Info.plist or on the command line
   at java.lang.ClassLoader$NativeLibrary.load(Native Method)
   at java.lang.ClassLoader.loadLibrary0(ClassLoader.java:1822)
   at java.lang.ClassLoader.loadLibrary(ClassLoader.java:1723)
   at java.lang.Runtime.loadLibrary0(Runtime.java:822)
   at java.lang.System.loadLibrary(System.java:993)
at sun.security.action.LoadLibraryAction.run(LoadLibraryAction.java: 
50)
   at java.security.AccessController.doPrivileged(Native Method)
   at java.awt.Toolkit.loadLibraries(Toolkit.java:1509)
   at java.awt.Toolkit.<clinit>(Toolkit.java:1530)
   at java.awt.Color.<clinit>(Color.java:250)
   at org.rosuda.ibase.Common.<clinit>(Common.java:47)
   at org.rosuda.iplots.Framework.<init>(Framework.java:43)




# load iplots


library(iplots)
Note: On Mac OS X we strongly recommend using iplots from within JGR. 
Proceed at your own risk as iplots cannot resolve potential ev.loop
deadlocks.
'Yes' is assumed for all dialogs as they cannot be shown without a
deadlock,
also ievent.wait() is disabled.
Exception in thread "main" Error in .jnew("org/rosuda/iplots/
Framework") :
Failed to create object of class `org/rosuda/iplots/Framework'
Zusätzlich: Warning message:
In .jnew("org/rosuda/iplots/Framework") :
NewObject("org/rosuda/iplots/Framework","()V",...) failed
Fehler in library(iplots) : .First.lib fehlgeschlagen für 'iplots'
java.lang.NoClassDefFoundError
   at org.rosuda.iplots.Framework.<init>(Framework.java:43)






-----Ursprüngliche Nachricht-----
Von: r-sig-mac-boun...@stat.math.ethz.ch im Auftrag von Beckmann Lars 
Gesendet: Sa 2009-04-25 18:46
An: r-sig-mac@stat.math.ethz.ch
Betreff: [R-SIG-Mac] JGR, JAva and Macintosh

Hey,

I ahve a Mac book pro with Mac OS 10.5.6. Recently I installed
Xtools, since then I cannot work with JGR. I reinstalled R (now
2.9.0) and rJava. The error message after a double click on JGR.app is 


Cannot find JRI library

Cannot find java/R interface (JRI) library (libjri.jnilib)
Please make sure you start JGR  by double -clicking teh JGR
application


any help?
Lars

----------------------------------
German Cancer Research Center DKFZ Heidelberg, Germany
Unit of Genetic Epidemiology
Division of Cancer Epidemiology
Im Neuenheimer Feld 280
69120 Heidelberg
Phone  49-6221-422214
Fax    49-6221-422203
e-mail: l.beckm...@dkfz.de

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