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[R-es] Help: rJava ubuntu 12.04
3 messages · Javier Villacampa González, Carlos J. Gil Bellosta
Hola, ¿qué tal? ¿Has probado a ejecutar "R CMD javareconf" después de instalar Java? Un saludo, Carlos J. Gil Bellosta http://www.datanalytics.com 2013/2/24 Javier Villacampa González <javier.villacampa.gonzalez en gmail.com>:
Hola buenas, utlimamente estoy teniendo más problemas con mi equipo de los que deberÃa. Bajo windows no me funciona bien Rstudio y bajo linux soy incapaz de instalar rJava. ¿Alguien que sepa de Linux me podrÃa ayudar? He probado a instalar los openJDK y nada. También he probado, para instalar Java, a hacer un: sudo add-apt-repository ppa:webupd8team/java sudo apt-get update && sudo apt-get install oracle-java7-installer Y luego cuando le digo a R (vamos que no me lo instala):
install.packages("rJava")
Installing package(s) into ?/home/hermesh/R/x86_64-pc-linux-gnu-library/2.15? (as ?lib? is unspecified) probando la URL 'http://cran.rstudio.com/src/contrib/rJava_0.9-3.tar.gz' Content type 'application/x-gzip' length 537153 bytes (524 Kb) URL abierta ================================================== downloaded 524 Kb * installing *source* package ?rJava? ... ** package ?rJava? successfully unpacked and MD5 sums checked 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 : '-I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include' java libs : '-L/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/amd64 -L/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/amd64/server -ljvm' checking whether JNI programs can be compiled... yes checking JNI data types... ok checking whether JRI should be compiled (autodetect)... yes checking whether debugging output should be enabled... no checking whether memory profiling is desired... no checking whether threads support is requested... no checking whether callbacks support is requested... no checking whether JNI cache support is requested... no checking whether JRI is requested... yes configure: creating ./config.status config.status: creating src/Makevars config.status: creating R/zzz.R config.status: creating src/config.h === configuring in jri (/tmp/RtmpCErgmn/R.INSTALL57e71df9a069/rJava/jri) configure: running /bin/bash ./configure '--prefix=/usr/local' --cache-file=/dev/null --srcdir=. checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu 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 whether Java interpreter works... checking whether JNI programs can be compiled... yes checking whether JNI programs can be run... yes checking JNI data types... ok checking whether Rinterface.h exports R_CStackXXX variables... yes checking whether Rinterface.h exports R_SignalHandlers... yes configure: creating ./config.status config.status: creating src/Makefile config.status: creating Makefile config.status: creating run config.status: creating src/config.h ** libs gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -O2 -pipe -g -c Rglue.c -o Rglue.o gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -O2 -pipe -g -c arrayc.c -o arrayc.o gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -O2 -pipe -g -c callJNI.c -o callJNI.o gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -O2 -pipe -g -c callback.c -o callback.o gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -O2 -pipe -g -c fields.c -o fields.o gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -O2 -pipe -g -c init.c -o init.o gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -O2 -pipe -g -c jri_glue.c -o jri_glue.o gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -O2 -pipe -g -c loader.c -o loader.o gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -O2 -pipe -g -c otables.c -o otables.o gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -O2 -pipe -g -c rJava.c -o rJava.o gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -O2 -pipe -g -c tools.c -o tools.o gcc -std=gnu99 -shared -o rJava.so Rglue.o arrayc.o callJNI.o callback.o fields.o init.o jri_glue.o loader.o otables.o rJava.o tools.o -L/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/amd64 -L/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/amd64/server -ljvm -L/usr/lib/R/lib -lR (cd ../jri && make) make[1]: se ingresa al directorio «/tmp/RtmpCErgmn/R.INSTALL57e71df9a069/rJava/jri» make -C src JRI.jar make[2]: se ingresa al directorio «/tmp/RtmpCErgmn/R.INSTALL57e71df9a069/rJava/jri/src» /usr/bin/javac -target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java warning: [options] bootstrap class path not set in conjunction with -source 1.4 1 warning /usr/bin/javah -d . -classpath . org.rosuda.JRI.Rengine gcc -std=gnu99 -c -o Rengine.o Rengine.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -O2 -pipe -g -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -I/usr/share/R/include -I/usr/share/R/include gcc -std=gnu99 -c -o jri.o jri.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -O2 -pipe -g -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -I/usr/share/R/include -I/usr/share/R/include gcc -std=gnu99 -c -o Rcallbacks.o Rcallbacks.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -O2 -pipe -g -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -I/usr/share/R/include -I/usr/share/R/include gcc -std=gnu99 -c -o Rinit.o Rinit.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -O2 -pipe -g -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -I/usr/share/R/include -I/usr/share/R/include gcc -std=gnu99 -c -o globals.o globals.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -O2 -pipe -g -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include gcc -std=gnu99 -c -o rjava.o rjava.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -O2 -pipe -g -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include -fpic -I/usr/lib/jvm/java-7-openjdk-amd64/jre/../include rjava.c: En la función ?RJava_init_ctrl?: rjava.c:51:8: aviso: se descarta el valor de devolución de ?write?, se declaró con el atributo warn_unused_result [-Wunused-result] rjava.c:52:7: aviso: se descarta el valor de devolución de ?read?, se declaró con el atributo warn_unused_result [-Wunused-result] rjava.c: En la función ?RJava_request_callback?: rjava.c:39:8: aviso: se descarta el valor de devolución de ?write?, se declaró con el atributo warn_unused_result [-Wunused-result] rjava.c: En la función ?RJava_clear_lock?: rjava.c:30:8: aviso: se descarta el valor de devolución de ?write?, se declaró con el atributo warn_unused_result [-Wunused-result] rjava.c: En la función ?RJava_request_lock?: rjava.c:22:8: aviso: se descarta el valor de devolución de ?write?, se declaró con el atributo warn_unused_result [-Wunused-result] gcc -std=gnu99 -o libjri.so Rengine.o jri.o Rcallbacks.o Rinit.o globals.o rjava.o -shared -L/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/amd64 -L/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/amd64/server -ljvm -L/usr/lib/R/lib -lR /usr/bin/javac -target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java ../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java ../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java warning: [options] bootstrap class path not set in conjunction with -source 1.4 1 warning /usr/bin/jar fc JRI.jar org libjri.so make[2]: se sale del directorio «/tmp/RtmpCErgmn/R.INSTALL57e71df9a069/rJava/jri/src» rm -f libjri.so cp src/libjri.so libjri.so /usr/bin/javac -target 1.4 -source 1.4 -classpath src/JRI.jar -d examples examples/rtest.java warning: [options] bootstrap class path not set in conjunction with -source 1.4 Note: examples/rtest.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. 1 warning /usr/bin/javac -target 1.4 -source 1.4 -classpath src/JRI.jar -d examples examples/rtest2.java warning: [options] bootstrap class path not set in conjunction with -source 1.4 Note: examples/rtest2.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. 1 warning make[1]: se sale del directorio «/tmp/RtmpCErgmn/R.INSTALL57e71df9a069/rJava/jri» installing via 'install.libs.R' to /home/hermesh/R/x86_64-pc-linux-gnu-library/2.15/rJava ** R ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded * DONE (rJava) The downloaded source packages are in ?/tmp/RtmpRQzD0x/downloaded_packages? [[alternative HTML version deleted]]
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