On Aug 21, 2011, at 10:31 AM, Bhima Pandava wrote: > Hi, > > I'm using R.app on Mac OS Lion and when I attempt to build the > rJava package from source I get the following error: > > Checking whether JNI programs can be compiled... configure: error: > Cannot compile a simple JNI program. See *config.log* for details. > > Make sure you have Java Development Kit installed and correctly > registered in R. > If in doubt, re-run "R CMD javareconf" as root. > > ERROR: configuration failed for package 'rJava' > * removing > '/Library/Frameworks/R.framework/Versions/2.14/Resources/library/rJava' > > On a fresh Mac OS install, executing the command: sudo R CMD javareconf > fails with: > > "No Java runtime present, requesting install. Java interpreter doesn't > work properly." and then initiates fetching of Apple's Java runtime. > > executing the command, once the Java runtime is finished completes with > the following output > > Java interpreter : /usr/bin/java > Java version : 1.6.0_26 > Java home path : > /System/Library/Java/JavaVirtualMachines/1.6.0.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 > > Updating Java configuration in /Library/Frameworks/R.framework/Resources > Done. > > Attempting to build the rJava package again results in the same error as > before. > > This causes me to ask a few questions: > > 1) Is the Java package that my Mac automatically downloaded from Apple > the right package?
Yes > If not which one should I use? > 2) Above there is no Java Library path listed, is this part of my problem? No, OS X doesn't need it > 3) Where is the config.log that R.app generates? Dredging around the > Console.app and the likely places did not reveal it. > It is deleted after the installation. You want to use the unpacked tar ball. But to your real issue - Apple doesn't provide headers inside the Java home anymore, so you want to re-run javareconf pointing to the framework: R CMD javareconf JAVA_CPPFLAGS=-I/System/Library/Frameworks/JavaVM.framework/Headers (normally you don' t need sudo but if you used it once, you have to use it from then on). Cheers, Simon > For what it is worth I have tried 3 different version of R at this > point: (R-2.13-branch, > <http://r.research.att.com/R-2.13-branch-leopard.pkg>R-2.13-patched for > Lion, R-devel) > > Thanks for any help! > > [[alternative HTML version deleted]] > > _______________________________________________ > R-SIG-Mac mailing list > R-SIG-Mac@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-mac > > _______________________________________________ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
