R help - Mar 2012 - rJava / RCMD javareconf fails

Hi All,

Running R CMD javareconf -e (or R CMD javareconf as root I am rot on my
machines) Fails.  
/
[root at penguins1lanalt etc]# R CMD javareconf
Java interpreter : /usr/bin/java
Java version     : 1.6.0_30
Java home path   : /usr/java/jre1.6.0_30
Java compiler    : not present
Java headers gen.: 
Java archive tool: 
Java library path:
$(JAVA_HOME)/lib/i386/server:$(JAVA_HOME)/lib/i386:$(JAVA_HOME)/../lib/i386:/usr/java/packages/lib/i386:/lib:/usr/lib
JNI linker flags : -L$(JAVA_HOME)/lib/i386/server -L$(JAVA_HOME)/lib/i386
-L$(JAVA_HOME)/../lib/i386 -L/usr/java/packages/lib/i386 -L/lib -L/usr/lib
-ljvm
JNI cpp flags    : 

Updating Java configuration in /usr/lib/R
Done.
[user at penguins1lanalt java]$ echo $JAVA_HOME
/usr/java
[user at penguins1lanalt java]$ R CMD javareconf -e
Java interpreter : /usr/bin/java
Java version     : 1.6.0_30
Java home path   : /usr/java
Java compiler    : not present
Java headers gen.: 
Java archive tool: 
Java library path:
$(JAVA_HOME)/lib/i386/server:$(JAVA_HOME)/lib/i386:$(JAVA_HOME)/../lib/i386:/usr/java/packages/lib/i386:/lib:/usr/lib
JNI linker flags : -L$(JAVA_HOME)/lib/i386/server -L$(JAVA_HOME)/lib/i386
-L$(JAVA_HOME)/../lib/i386 -L/usr/java/packages/lib/i386 -L/lib -L/usr/lib
-ljvm
JNI cpp flags    : 

The following Java variables have been exported:
JAVA_HOME JAVA JAVAC JAVAH JAR JAVA_LIBS JAVA_CPPFLAGS JAVA_LD_LIBRARY_PATH
Runnig: /bin/bash
[user at penguins1lanalt java]$ ls /usr/java
default  jdk1.6.0_25  jre1.6.0_30  latest
/

Help please?

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solved   grrr

I had to set JAVA_HOME to point to the jdk directory not the parent.
This had to be done as root not user otherwise the rJava is fails.

At the end of the day its installed.  




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