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 <[email protected]> wro > On Dec 28, 2012, at 3:05 PM, peter dalgaard <[email protected]> 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 > ********************** "The contents of this message do not reflect any position of the U.S. Government or NOAA." ********************** Roy Mendelssohn Supervisory Operations Research Analyst NOAA/NMFS Environmental Research Division Southwest Fisheries Science Center 1352 Lighthouse Avenue Pacific Grove, CA 93950-2097 e-mail: [email protected] (Note new e-mail address) voice: (831)-648-9029 fax: (831)-648-8440 www: http://www.pfeg.noaa.gov/ "Old age and treachery will overcome youth and skill." "From those who have been given much, much will be expected" "the arc of the moral universe is long, but it bends toward justice" -MLK Jr. _______________________________________________ R-SIG-Mac mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/r-sig-mac
