[R] JGR, Java and Kubuntu 7.04 ...

[Dirk Eddelbuettel]

On 15 June 2007 at 12:32, Stefan Grosse wrote:
| You could download the latest R (2.5.0) directly from CRAN, this just as
| a side remark, You find instructions here:
| http://cran.au.r-project.org/bin/linux/ubuntu/README

Yes indeed, thanks for our fearless backporters.
 
| With java you should make sure that you have the Java 5 JDK installed. 
| I dont know how it is with Ubuntu but on fedora I have to set the java
| alternative (sun java installation does not change the default java
| there). Which java is installed you can check with java -version there
| you see it it is properly installed and a R CMD javareconf also
| indicates if your java is configured correctly. Additionally on Fedora I
| had to set JAVA_HOME to the JDK directory manually.

"It all worked" -- I don't run Java much myself, but I think starting with
the previous Ubuntu release and the actual Sun packages directly acessible
via apt-get, it worked.

However, with the current packages in my Kubuntu setup at work, I do get a
segfault once JGR is up and loaded.   I suspect, as Stefan said here, that
this is due to the Java 6 packages in Ubuntu.  As I said, sun-java5-jdk seems
to have work along with 'sudo R CMD javareconf', Simon's powerful Java
parameter setter for R.

In any event, we should carry this over to r-sig-debian.

Dirk

| 
| Stefan
| 
| -------- Original Message  --------
| Subject: [R] JGR, Java and Kubuntu 7.04 ...
| From: John Logsdon <j.logsdon at quantex-research.com>
| To: r-help at stat.math.ethz.ch
| Date: 14.06.2007 19:16
| > R-ists
| >
| > Yet again Java rears its ugly head.  
| >
| > I have Kubuntu 7.04 running the Kubuntu-repository version of R 2.4.1-1.      
| > Yes it isn't the  very latest version but this is not the issue here.  
| >
| > I want a Windows-like environment and everyone is talking about JGR.
| >
| > I downloaded it and installed it along with rJava.  Both compile and install 
| > satisfactorily.
| >
| > But when I come to run it:
| >
| >   
| >>> library('JGR')
| >>>       
| >> Loading required package: rJava
| >> Error in dyn.load(x, as.logical(local), as.logical(now)) :
| >>         unable to load shared library
| >> '/usr/local/lib/R/site-library/rJava/libs/rJava.so':
| >> /usr/local/lib/R/site-library/rJava/libs/rJava.so: undefined symbol:
| >> JNI_GetCreatedJavaVMs Error: .onLoad failed in 'loadNamespace' for 'rJava'
| >> Error: package 'rJava' could not be loaded
| >>     
| >
| >
| > When I first tried to run it without Java being installed, I got a message 
| > saying that JDK wasn't installed but mentioned 1.4.2.  The version of Java 
| > actually installed as the latest from the Ubuntu repository is Sun 1.5.0.11.  
| > I don't see the point in installing old versions of Java just for one 
| > application because the language, or at least the writing, should be 
| > backwards compatible.  
| >
| > In all aspects I have seen Kubuntu is a very impressive in checking 
| > compatibility.  Unfortunately this is frequently not the case with Java.  I 
| > steer clear of Java as much as possible.  
| >
| > Can anyone suggest what I should do?  Use Windows perhaps?  Run Windows in a 
| > kvm virtual machine just to run R?  Put my head in a bucket of cold water?  
| > Is there an alternative IDE?  Is there a later JGR somewhere that is not yet 
| > on CRAN?
| >
| > TIA
| >
| >
| 
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