[R-SIG-Mac] R 2.15.2, OS X 10.8.2, JGR

[Marc Schwartz]

Roy,

Did you install the 1.7 JRE only, or did you also install the JDK?  

If you did not also install the JDK, I believe that you need to do so. It is available here:

  http://www.oracle.com/technetwork/java/javase/downloads/jdk7-downloads-1880260.html

Install that and then run the full javareconf command as I had in my reply below.

Regards,

Marc

On Dec 28, 2012, at 6:11 PM, Roy Mendelssohn - NOAA Federal <roy.mendelssohn at noaa.gov> wrote:

> Thanks.  But I am still stuck.  No matter which command I give, I  get the following:
> 
>> sudo R CMD javareconf
>> Password:
>> Java interpreter : /usr/bin/java
>> Java version     : 1.6.0_29
>> Java home path   : /Library/Java/JavaVirtualMachines/1.6.0_29-b11-402.jdk/Contents/Home
>> Java compiler    : /usr/bin/javac
>> Java headers gen.: /usr/bin/javah
>> Java archive tool: /usr/bin/jar
>> Java library path: 
>> JNI linker flags : -framework JavaVM
>> JNI cpp flags    : -I$(JAVA_HOME)/include
>> 
> 
> Note the Java home path.  But when I  do the following:
> 
>> bash-$ which java
>> /usr/bin/java
>> bash-$ java -version
>> java version "1.7.0_06"
>> Java(TM) SE Runtime Environment (build 1.7.0_06-b24)
>> Java HotSpot(TM) 64-Bit Server VM (build 23.2-b09, mixed mode)
>> 
> 
> So where is ti getting that the home path is to /Library/Java/JavaVirtualMachines/1.6.0_29-b11-402.jdk/Contents/Home?  Is there a file that I can hand edit to give R the correct values?
> 
> Thanks.
> 
> -Roy M.
> On Dec 28, 2012, at 1:28 PM, Marc Schwartz <marc_schwartz at me.com> wro
> 
>> On Dec 28, 2012, at 3:05 PM, peter dalgaard <pdalgd at gmail.com> wrote:
>> 
>>> 
>>> On Dec 28, 2012, at 20:40 , Roy Mendelssohn - NOAA Federal wrote:
>>> 
>>>> Hi All:
>>>> 
>>>> I recently upgraded my computer to 10.8.2, and my Java is now java 1.7 from Oracle.  I am running R 2.15.2, and now rjava and JGR don't work because what appears to be a problem with ipot.  I tried reinstalling rjava and got the following:
>>> 
>>> I can't remember this kind of stuff form one occasion to the next either, but wouldn't it be something with "sudo R CMD javareconf" ?
>> 
>> 
>> 
>> For Mountain Lion, it should be:
>> 
>> sudo R CMD javareconf JAVA_CPPFLAGS=-I/System/Library/Frameworks/JavaVM.framework/Headers
>> 
>> Regards,
>> 
>> Marc Schwartz