Run R CMD javareconf -e as the being suggest by the output. That will try to guess where is Java. Or you can install the JDK_HOME and JAVA_HOME variables.
Good luck. Caveman On Fri, Mar 18, 2011 at 4:39 PM, jcheng liu <jcheng....@gmail.com> wrote: > Dear all, > Installing rJava fails. The message was listed below. I wonder why cpp flag > could not be detected, although I had installed. Thanks!!! > -Jiacheng > > R CMD INSTALL rJava_0.9-0.tar.gz > * installing to library > /data1/mri_researchers/wexler_data/jiacheng/R-2.12.0/library > * installing *source* package rJava ... > checking for gcc... gcc -std=gnu99 > checking for C compiler default output file name... a.out > checking whether the C compiler works... yes > checking whether we are cross compiling... no > checking for suffix of executables... > checking for suffix of object files... o > checking whether we are using the GNU C compiler... yes > checking whether gcc -std=gnu99 accepts -g... yes > checking for gcc -std=gnu99 option to accept ISO C89... none needed > checking how to run the C preprocessor... gcc -std=gnu99 -E > checking for grep that handles long lines and -e... /bin/grep > checking for egrep... /bin/grep -E > checking for ANSI C header files... yes > checking for sys/wait.h that is POSIX.1 compatible... yes > checking for sys/types.h... yes > checking for sys/stat.h... yes > checking for stdlib.h... yes > checking for string.h... yes > checking for memory.h... yes > checking for strings.h... yes > checking for inttypes.h... yes > checking for stdint.h... yes > checking for unistd.h... yes > checking for string.h... (cached) yes > checking sys/time.h usability... yes > checking sys/time.h presence... yes > checking for sys/time.h... yes > checking for unistd.h... (cached) yes > checking for an ANSI C-conforming const... yes > checking whether time.h and sys/time.h may both be included... yes > configure: checking whether gcc -std=gnu99 supports static inline... > yes > checking whether setjmp.h is POSIX.1 compatible... yes > checking whether sigsetjmp is declared... yes > checking whether siglongjmp is declared... yes > checking Java support in R... present: > interpreter : '/usr/bin/java' > archiver : '/usr/bin/jar' > compiler : '/usr/bin/javac' > header prep.: '/usr/bin/javah' > cpp flags : '' > java libs : '-L/usr/java/jre1.6.0_24/lib/amd64/server > -L/usr/java/jre1.6.0_24/lib/amd64 -L/usr/java/jre1.6.0_24/../lib/amd64 > -L/usr/java/packages/lib/amd64 -L/usr/lib64 -L/lib64 -L/lib -L/usr/lib > -ljvm' > configure: error: One or more Java configuration variables are not set. > Make sure R is configured with full Java support (including JDK). Run > R CMD javareconf > as root to add Java support to R. > > If you don't have root privileges, run > R CMD javareconf -e > to set all Java-related variables and then install rJava. > > ERROR: configuration failed for package rJava > * removing /R-2.12.0/library/rJava > > [[alternative HTML version deleted]] > > > ______________________________________________ > R-help@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide > http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. > > [[alternative HTML version deleted]]
______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
