search for: java_libs

R CMD config exports the following variables: JAR Java archive tool command JAVA Java interpreter command JAVAC Java compiler command JAVAH Java header and stub generator command JAVA_HOME path to the home of Java distribution JAVA_LIBS flags needed for linking against Java libraries JAVA_CPPFLAGS C preprocessor flags needed for compiling JNI programs JAVA_LD_LIBRARY_PATH is defined in Makeconf, but not exported. Specifically, src/scripts/config includes the following line: ok_java_vars="JAVA JAVAC JAVAH JAR JAVA_HOM...

attempting to install rJava on R-2.7.0, x86_64 platform, config.log shows the following error: configure:3880: checking whether JNI programs can be compiled configure:3898: gcc -m64 -std=gnu99 -o conftest -g -O2 -I/path/to/x86-64-linux/jdk-1.6.0_06/jre/../include conftest.c -L/path/to/x86-64-linux/jdk-1.6.0_06/jre/lib/amd64/server -L/path/to/x86-64-linux/jdk-1.6.0_06/jre/lib/amd64

I am building from source on RHEL 4 and have run into a problem while running "make check": running code in 'lapack.R' ...make[3]: *** [lapack.Rout] Error 1 make[3]: Leaving directory `/opt/R/R-2.9.1/tests' make[2]: *** [test-Specific] Error 2 make[2]: Leaving directory `/opt/R/R-2.9.1/tests' make[1]: *** [test-all-basics] Error 1 make[1]: Leaving

...-1.5.0-gcj-4.3-1.5.0.0/jre/../bin/javah Java archive tool: /usr/bin/jar Java library path: /usr/lib/../lib/gcj-4.3-90:/usr/lib/jni JNI linker flags : -L/usr/lib/../lib/gcj-4.3-90 -L/usr/lib/jni -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 > sessionInfo() R version 2.9.1 (2009-06-26) x86_64-unknown-linux-gnu locale: LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEAS...

...6:/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? -- View this message in context: http://r.789695.n4.nabble.com/rJava-RCMD-javareconf-fails-tp4488961p4488961.html Sent from the R help mailing...

Dear list, When compiling the R-2.3.0 on FC4 x86_64, I got the following errors: make[3]: Entering directory `/project/scratch3/ligroup/wuming/src/R-2.3.0/src/main' gcc -Wl,--export-dynamic -L/usr/local/lib64 -o R.bin Rmain.o CConverters.o CommandLineArgs.o Rdynload.o Renviron.o RNG.o apply.o arithmetic.o apse.o array.o attrib.o base.o bind.o builtin.o character.o coerce.o colors.o complex.o

(I asked an earlier question on the rpy2 installation to the rpy2 list, the solution there was to edit the setup.py script, but this looks beyond what I can do unless someone tells me exactly what to modify). I have R 2.8.1 on 2 machines running ubuntu 8.04 (packages R-base and R-base-dev, among others, installed using Synaptic) and while the installation of rpy2 went fine on machine1, failed on

...ia callNextMethod() and (sometimes) as() were being cached as directly specified although in fact they were inherited. Caused problems in later search for inherited methods. o str() works properly for method definitions and other S4-classed function objects. o JAVA_LIBS are now set correctly on MacOS X. o Fix null-termination issue suspected of causing crash with Fedora Extra RPMS (PR#9339, Justin Harrington, analysis and fix from Bill Dunlap). o Namespaces restored via a saved session silently failed to cache their methods be...

...ia callNextMethod() and (sometimes) as() were being cached as directly specified although in fact they were inherited. Caused problems in later search for inherited methods. o str() works properly for method definitions and other S4-classed function objects. o JAVA_LIBS are now set correctly on MacOS X. o Fix null-termination issue suspected of causing crash with Fedora Extra RPMS (PR#9339, Justin Harrington, analysis and fix from Bill Dunlap). o Namespaces restored via a saved session silently failed to cache their methods be...

Before I do that, I would need to remove the gcj stuff that are in /usr/bin. If I know how to remove gcj, I'd gladly do that. However, for the particular version of the OS, the entire GCC seems to be bundled into one rpm, and I could not remove just the gcj component. Neither do I wish to mess with files that are part of some RPMs--- in my experience that's invitation for trouble later.

Hi, I would like to test the new package RGG (R Gui Generator). This package requires the installation of several other package. One of them is rJava. I installed sun-java6-jdk and run the R CMD javareconf but the installation still fails ! Do you have any ideas ? * Installing *source* package ‘rJava’ ... checking for gcc... gcc -std=gnu99 checking for C compiler default output file

...ackages don't need to provide their own Java detection. Newly added make variables are JAVAC, JAVAH, JAR and JAVA_CPPFLAGS. R CMD javareconf was updated to look for the corresponding Java tools as well. In addition, Java detection honors user-supplied environment variables JAVA_CPPFLAGS, JAVA_LIBS and JAVA_LD_LIBRARY_PATH. o Added workaround for reported non-POSIX sh on OSF1. (PR#9375) o 'make install-strip' now works, stripping the executables and also the shared libraries and modules on platforms where 'libtool' knows how to do so. o Building R as a shared...

...ackages don't need to provide their own Java detection. Newly added make variables are JAVAC, JAVAH, JAR and JAVA_CPPFLAGS. R CMD javareconf was updated to look for the corresponding Java tools as well. In addition, Java detection honors user-supplied environment variables JAVA_CPPFLAGS, JAVA_LIBS and JAVA_LD_LIBRARY_PATH. o Added workaround for reported non-POSIX sh on OSF1. (PR#9375) o 'make install-strip' now works, stripping the executables and also the shared libraries and modules on platforms where 'libtool' knows how to do so. o Building R as a shared...

...64/server -L$(JAVA_HOME)jre/lib/amd64 -L$(JAVA_HOME)jre/../lib/amd64 -L -L/usr/java/packages/lib/amd64 -L/usr/lib64 -L/lib64 -L/lib -L/usr/lib -ljvm JNI cpp flags : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux The following Java variables have been exported: JAVA_HOME JAVA JAVAC JAVAH JAR JAVA_LIBS JAVA_CPPFLAGS JAVA_LD_LIBRARY_PATH And the installation halts with the following error (please see below for the details): rJava.h:19:17: error: jni.h: No such file or directory I would appreciate very much your kindly help Servet install.packages("rJava",dep=T) Installing package(s...

...ave 'system' in the name. o If a Java runtime environment is detected at configure time its library path is appended to LD_LIBRARY_PATH or equivalent. New Java-related variables JAVA_HOME (path to JRE/JDK), JAVA_PROG (path to Java interpreter), JAVA_LD_PATH (Java library path) and JAVA_LIBS (flags to link against JNI) are made available in Makeconf. o Ei-ji Nakama was contributed a patch for FPU control with the Intel compilers on ix86 Linux. MAC OS X INSTALLATION o --with-blas="-framework vecLib" --with-lapack and --with-aqua are now the default configure opt...

...ave 'system' in the name. o If a Java runtime environment is detected at configure time its library path is appended to LD_LIBRARY_PATH or equivalent. New Java-related variables JAVA_HOME (path to JRE/JDK), JAVA_PROG (path to Java interpreter), JAVA_LD_PATH (Java library path) and JAVA_LIBS (flags to link against JNI) are made available in Makeconf. o Ei-ji Nakama was contributed a patch for FPU control with the Intel compilers on ix86 Linux. MAC OS X INSTALLATION o --with-blas="-framework vecLib" --with-lapack and --with-aqua are now the default configure opt...