Différences

Ci-dessous, les différences entre deux révisions de la page.

--- notes_compil_r [2008/01/20 09:31] – créée gerard
+++ notes_compil_r [2017/08/25 09:56] (Version actuelle) – modification externe 127.0.0.1
@@ Ligne 1: / Ligne 1: @@
-====== Version 2.4.1 ======
+====== Installation de packages ======
+===== package aplpack =====
+<code>
+w2100-henry% ssh devel1@nemo
+> echo $PATH
+/usr/local/wrapper/bin:/usr/bin
+> setenv PATH /opt/csw/gcc3/bin:/opt/csw/bin:${PATH}:/usr/ccs/bin
+> /local/apps/R-2.6.1_gcc/bin/R CMD INSTALL  downloads/aplpack_1.1.1.tar.gz
+* Installing to library '/local/apps/R-2.6.1_gcc/lib/R/library'
+* Installing *source* package 'aplpack' ...
+** R
+** inst
+** preparing package for lazy loading
+Loading required package: tcltk
+Error in firstlib(which.lib.loc, package) :
+  Tcl/Tk support is not available on this system
+Error: package 'tcltk' could not be loaded
+Execution halted
+ERROR: lazy loading failed for package 'aplpack'
+** Removing '/local/apps/R-2.6.1_gcc/lib/R/library/aplpack'
+</code>
+===== astuce pour installer un package dans le compte user =====
+il faut créer un répertoire tel qu'indiqué dans la doc de R:
+<code>
+nemo-henry% mkdir -p R/i386-pc-solaris2.10-library/2.6
+nemo-henry% pwd
+/local/henry
+nemo-henry% /local/apps/R-2.6.1_gcc_new/bin/R CMD INSTALL /local/apps/downloads/aplpack_1.1.1.tar.gz
+* Installing to library '/local/henry/R/i386-pc-solaris2.10-library/2.6'
+* Installing *source* package 'aplpack' ...
+** R
+** inst
+** preparing package for lazy loading
+Loading required package: tcltk
+Loading Tcl/Tk interface ... done
+** help
+ >>> Building/Updating help pages for package 'aplpack'
+     Formats: text html latex example
+  aplpack.package                   text    html    latex   example
+  bagplot                           text    html    latex   example
+  boxplot2D                         text    html    latex   example
+  faces                             text    html    latex   example
+  spin3R                            text    html    latex   example
+  stem.leaf                         text    html    latex   example
+** building package indices ...
+* DONE (aplpack)
+</code>
+====== Notes de compilation ======
+===== Version 2.4.1 =====
   * [[http://www.latp.univ-mrs.fr/~henry/doku.php?id=problemes_rjava|Problèmes rJava]]
-====== Version 2.6.1 ======
+===== Version 2.6.1 =====
+==== compilation avec gcc ====
+voir /local/apps/src/gcc/R-2.6.1/ pour les logs de la compilation
+<code>
+> ~/R-2.6.1_gcc/bin/R CMD javareconf
+Java interpreter : /usr/bin/java
+Java version     : 1.6.0_04
+Java home path   : /usr/jdk/instances/jdk1.6.0_04/jre
+Java compiler    : /usr/bin/javac
+Java headers gen.: /usr/bin/javah
+Java archive tool: /usr/bin/jar
+Java library path: $(JAVA_HOME)/lib/i386/server:$(JAVA_HOME)/lib/i386:$(JAVA_HOME)/../lib/i386:.:/usr/jdk/packages/lib/i386:/lib:/usr/lib
+JNI linker flags : -L$(JAVA_HOME)/lib/i386/server -L$(JAVA_HOME)/lib/i386 -L$(JAVA_HOME)/../lib/i386 -L. -L/usr/jdk/packages/lib/i386 -L/lib -L/usr/lib -ljvm
+JNI cpp flags    : -I/usr/jdk/instances/jdk1.6.0_04/jre/../include -I/usr/jdk/instances/jdk1.6.0_04/jre/../include/solaris
+Updating Java configuration in /local/apps/R-2.6.1_gcc/lib/R
+Done.
+</code>
+On utilise le gcc de blastwave, mais le f95 de SunStudio12:
+<code>
+> setenv PATH /opt/csw/gcc3/bin:${PATH}:/opt/studio12/SUNWspro/bin
+</code>
+puis on installe JGR:
+<code>
+> /local/apps/R-2.6.1_gcc/bin/R
+</code>
+==== compilation sunstudio12 32 bits ====
 Le script pour compiler
 <code>
@@ Ligne 31: / Ligne 117: @@
 echo "make install"; make install
 if [ $? -ne 0 ];then echo "make install failed"; exit; fi
+</code>
+<code>
+/local/apps/lib/lib/R/library
+* Installing *source* package 'rJava' ...
+checking for gcc... cc
+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... no
+checking whether cc accepts -g... yes
+checking for cc option to accept ISO C89... none needed
+checking how to run the C preprocessor... cc -E
+checking for grep that handles long lines and -e... /usr/xpg4/bin/grep
+checking for egrep... /usr/xpg4/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 cc supports static inline...
+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/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris'
+java libs   : '-L/usr/jdk/instances/jdk1.5.0/jre/lib/i386/server -L/usr/jdk/instances/jdk1.5.0/jre/lib/i386 -L/usr/jdk/instances/jdk1.5.0/jre/../lib/i386 -L/opt/csw/lib -L/usr/lib -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/R.INSTALL.q3ayQx/rJava/jri)
+configure: running /bin/bash ./configure '--prefix=/usr/local'  --cache-file=/dev/null --srcdir=.
+checking build system type... i386-pc-solaris2.10
+checking host system type... i386-pc-solaris2.10
+checking for gcc... cc
+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... no
+checking whether cc accepts -g... yes
+checking for cc option to accept ISO C89... none needed
+checking how to run the C preprocessor... cc -E
+checking for grep that handles long lines and -e... /usr/xpg4/bin/grep
+checking for egrep... /usr/xpg4/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
+cc -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include  -I/opt/csw/include   -I. -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris -KPIC  -g -c Rglue.c -o Rglue.o
+cc -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include  -I/opt/csw/include   -I. -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris -KPIC  -g -c arrayc.c -o arrayc.o
+cc -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include  -I/opt/csw/include   -I. -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris -KPIC  -g -c callJNI.c -o callJNI.o
+cc -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include  -I/opt/csw/include   -I. -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris -KPIC  -g -c callback.c -o callback.o
+cc -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include  -I/opt/csw/include   -I. -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris -KPIC  -g -c fields.c -o fields.o
+cc -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include  -I/opt/csw/include   -I. -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris -KPIC  -g -c init.c -o init.o
+"init.c", line 106: warning: assignment type mismatch:
+        pointer to void "=" pointer to function(pointer to struct __FILE {int _cnt, pointer to unsigned char _ptr, pointer to unsigned char _base, unsigned char _flag, unsigned char _file, unsigned int __orientation :2, unsigned int __ionolock :1, unsigned int __seekable :1, unsigned int __extendedfd :1, unsigned int __xf_nocheck :1, unsigned int __filler :10}, pointer to const char, pointer to void) returning int
+"init.c", line 110: warning: assignment type mismatch:
+        pointer to void "=" pointer to function(int) returning void
+cc -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include  -I/opt/csw/include   -I. -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris -KPIC  -g -c jri_glue.c -o jri_glue.o
+cc -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include  -I/opt/csw/include   -I. -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris -KPIC  -g -c loader.c -o loader.o
+cc -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include  -I/opt/csw/include   -I. -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris -KPIC  -g -c rJava.c -o rJava.o
+cc -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include  -I/opt/csw/include   -I. -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris -KPIC  -g -c tools.c -o tools.o
+cc -G -R/opt/csw/lib -L/opt/csw/lib -o rJava.so Rglue.o arrayc.o callJNI.o callback.o fields.o init.o jri_glue.o loader.o rJava.o tools.o -L/usr/jdk/instances/jdk1.5.0/jre/lib/i386/server -L/usr/jdk/instances/jdk1.5.0/jre/lib/i386 -L/usr/jdk/instances/jdk1.5.0/jre/../lib/i386 -L/opt/csw/lib -L/usr/lib -ljvm  -L/local/apps/lib/lib/R/lib -lR
+make -C ../jri/
+make[1]: Entering directory `/tmp/R.INSTALL.q3ayQx/rJava/jri'
+make -C src JRI.jar
+make[2]: Entering directory `/tmp/R.INSTALL.q3ayQx/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
+/usr/bin/javah -d . -classpath . org.rosuda.JRI.Rengine
+cc -c -o Rengine.o Rengine.c -g -Iinclude  -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g  -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris  -KPIC -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include
+cc -c -o jri.o jri.c -g -Iinclude  -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g  -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris  -KPIC -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include
+cc -c -o Rcallbacks.o Rcallbacks.c -g -Iinclude  -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g  -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris  -KPIC -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include
+cc -c -o Rinit.o Rinit.c -g -Iinclude  -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g  -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris  -KPIC -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include -I/local/apps/lib/lib/R/include
+cc -c -o globals.o globals.c -g -Iinclude  -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g  -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris  -KPIC -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris
+cc -c -o rjava.o rjava.c -g -Iinclude  -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -g  -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris  -KPIC -I/usr/jdk/instances/jdk1.5.0/jre/../include -I/usr/jdk/instances/jdk1.5.0/jre/../include/solaris
+cc -o libjri.so Rengine.o jri.o Rcallbacks.o Rinit.o globals.o rjava.o  -G -L/usr/jdk/instances/jdk1.5.0/jre/lib/i386/server -L/usr/jdk/instances/jdk1.5.0/jre/lib/i386 -L/usr/jdk/instances/jdk1.5.0/jre/../lib/i386 -L/opt/csw/lib -L/usr/lib -ljvm -L/local/apps/lib/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
+/usr/bin/jar fc JRI.jar org libjri.so
+make[2]: Leaving directory `/tmp/R.INSTALL.q3ayQx/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
+Note: examples/rtest.java uses or overrides a deprecated API.
+Note: Recompile with -Xlint:deprecation for details.
+/usr/bin/javac -target 1.4 -source 1.4 -classpath src/JRI.jar -d examples examples/rtest2.java
+Note: examples/rtest2.java uses or overrides a deprecated API.
+Note: Recompile with -Xlint:deprecation for details.
+make[1]: Leaving directory `/tmp/R.INSTALL.q3ayQx/rJava/jri'
+** R
+** inst
+** preparing package for lazy loading
+** help
+ >>> Building/Updating help pages for package 'rJava'
+     Formats: text html latex example
+  accessOp                          text    html    latex   example
+  jarray                            text    html    latex   example
+  jarrayRef-class                   text    html    latex
+  jcall                             text    html    latex   example
+  jcast                             text    html    latex   example
+  jcastToArray                      text    html    latex   example
+  jcheck                            text    html    latex   example
+  jengine                           text    html    latex   example
+  jequals                           text    html    latex   example
+  jfield                            text    html    latex   example
+  jfloat-class                      text    html    latex
+  jfloat                            text    html    latex
+  jinit                             text    html    latex   example
+  jmemprof                          text    html    latex   example
+  jnew                              text    html    latex   example
+  jnull                             text    html    latex   example
+  jobjRef-class                     text    html    latex
+  jpackage                          text    html    latex   example
+  jreflection                       text    html    latex   example
+  jsimplify                         text    html    latex   example
+  loader                            text    html    latex   example
+  show                              text    html    latex
+** building package indices ...
+* DONE (rJava)
+The downloaded packages are in
+        /tmp/Rtmp2l3U0E/downloaded_packages
+Updating HTML index of packages in '.Library'
 </code>
 Le check échoue!?
 Pour lancer, voir le script /bin/R26
+==== Hacks ====
+dans /local/apps/lib/lib/R/bin/javareconf, on remplace /bin/sh par /bin/bash
+\\
+dans /local/apps/lib/bin/R, on remplace /bin/sh par /bin/bash (est ce nécessaire?)
+===== R 2.7.1 avec studio 12 =====
+voir le répertoire /local/apps/src/R-2.7.1
+<code>
+setenv PATH /usr/local/wrapper/bin:/opt/studio12/SUNWspro/bin:/usr/xpg4/bin:/opt/SUNWhpc/bin:/usr/bin:/usr/ccs/bin:/opt/csw/bin:/usr/sfw/bin
+</code>
+et le fichier do_work32.sh
+\\
+les tests échouent, mais on peut faire l'install, et l'utiliser. Pour tester, on installe le package aplpack, et ça passe.
+===== Problèmes =====
+==== avec JGR et Studio12 ====
+[[http://stats.math.uni-augsburg.de/JGR/linux.shtml|JGR]]
+<code>
+> library(JGR)
+Loading required package: rJava
+Loading required package: JavaGD
+Loading required package: iplots
+Java Accessibility Bridge for GNOME loaded.
+Please use the corresponding JGR launcher to start JGR.
+Run JGR() for details. You can also use JGR(update=TRUE) to update JGR.
+> JGR()
+Starting JGR ...
+(You can use /local/apps/lib/lib/R/library/JGR/scripts/run to start JGR directly)
+> Exception in thread "main" java.lang.NoClassDefFoundError: org/rosuda/JRI/RMainLoopCallbacks
+        at java.lang.ClassLoader.defineClass1(Native Method)
+        at java.lang.ClassLoader.defineClass(ClassLoader.java:620)
+        at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:124)
+        at java.net.URLClassLoader.defineClass(URLClassLoader.java:260)
+        at java.net.URLClassLoader.access$100(URLClassLoader.java:56)
+        at java.net.URLClassLoader$1.run(URLClassLoader.java:195)
+        at java.security.AccessController.doPrivileged(Native Method)
+        at java.net.URLClassLoader.findClass(URLClassLoader.java:188)
+        at RJavaClassLoader.findClass(RJavaClassLoader.java:137)
+        at java.lang.ClassLoader.loadClass(ClassLoader.java:306)
+        at java.lang.ClassLoader.loadClass(ClassLoader.java:251)
+        at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:319)
+        at java.lang.Class.getDeclaredMethods0(Native Method)
+        at java.lang.Class.privateGetDeclaredMethods(Class.java:2395)
+        at java.lang.Class.getMethod0(Class.java:2642)
+        at java.lang.Class.getMethod(Class.java:1579)
+        at RJavaClassLoader.bootClass(RJavaClassLoader.java:289)
+        at RJavaClassLoader.main(RJavaClassLoader.java:326)
+</code>
+pourtant, il est installé:
+<code>
+> find  /local/apps/lib/ -name "JRI*"
+/local/apps/lib/lib/R/library/rJava/jri/JRI.jar
+</code>
+Après avoir hacké le script de lancement (voir [[hacks]]), il y a un problème au lancement:
+<code>
+> bash /local/apps/lib/lib/R/library/JGR/scripts/run
+Java Accessibility Bridge for GNOME loaded.
+Cannot find JRI native library!
+java.lang.UnsatisfiedLinkError: /local/apps/lib/lib/R/library/rJava/jri/libjri.so: Can't load IA 32-bit .so on a IA 32-bit platform
+        at java.lang.ClassLoader$NativeLibrary.load(Native Method)
+        at java.lang.ClassLoader.loadLibrary0(ClassLoader.java:1751)
+        at java.lang.ClassLoader.loadLibrary(ClassLoader.java:1660)
+        at java.lang.Runtime.loadLibrary0(Runtime.java:822)
+        at java.lang.System.loadLibrary(System.java:993)
+        at org.rosuda.JGR.JGR.<init>(JGR.java:173)
+        at org.rosuda.JGR.JGR.main(JGR.java:514)
+        at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
+        at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
+        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
+        at java.lang.reflect.Method.invoke(Method.java:585)
+        at RJavaClassLoader.bootClass(RJavaClassLoader.java:290)
+        at RJavaClassLoader.main(RJavaClassLoader.java:326)
+>
+et pourtant, la lib est bien présente!
+</code>
+voir [[http://forum.java.sun.com/thread.jspa?threadID=792436|Can't load IA 32-bit .so on a IA 32-bit platform]]
+==== JGR et Java ====
+Ne marche pas avec java 1.5 livré avec l'os:
+<code>
+nemo-root% ls -l /usr/java
+lrwxrwxrwx   1 root     other         15 Jan 20 11:12 /usr/java -> jdk/jdk1.5.0_13
+</code>
+On installe la version 1.6 et on teste:
+<code>
+nemo-root% ls -l
+total 12
+drwxr-xr-x   4 root     bin          512 Jan 21 17:05 instances
+lrwxrwxrwx   1 root     other          7 Jan  4  2007 j2sdk1.4.2_12 -> ../j2se
+lrwxrwxrwx   1 root     other         18 Jan 20 11:12 jdk1.5.0_13 -> instances/jdk1.5.0
+lrwxrwxrwx   1 root     root          21 Jan 21 17:05 jdk1.6.0_04 -> instances/jdk1.6.0_04
+nemo-root% cd /usr
+/usr
+nemo-root% rm java
+rm: remove java (yes/no)? y
+nemo-root% ln -s jdk/jdk1.6.0_04/ java
+nemo-root% ls -l java
+lrwxrwxrwx   1 root     root          16 Jan 21 17:08 java -> jdk/jdk1.6.0_04/
+>  /local/apps/lib/bin/R CMD javareconf
+Java interpreter : /usr/bin/java
+Java version     : 1.6.0_04
+Java home path   : /usr/jdk/instances/jdk1.6.0_04/jre
+Java compiler    : /usr/bin/javac
+Java headers gen.: /usr/bin/javah
+Java archive tool: /usr/bin/jar
+Java library path: $(JAVA_HOME)/lib/i386/server:$(JAVA_HOME)/lib/i386:$(JAVA_HOME)/../lib/i386:.:/usr/jdk/packages/lib/i386:/lib:/usr/lib
+JNI linker flags : -L$(JAVA_HOME)/lib/i386/server -L$(JAVA_HOME)/lib/i386 -L$(JAVA_HOME)/../lib/i386 -L. -L/usr/jdk/packages/lib/i386 -L/lib -L/usr/lib -ljvm
+JNI cpp flags    : -I/usr/jdk/instances/jdk1.6.0_04/jre/../include -I/usr/jdk/instances/jdk1.6.0_04/jre/../include/solaris
+Updating Java configuration in /local/apps/lib/lib/R
+Done.
+</code>
+mais quand on le lance, plante:
+<code>
+Starting JGR ...
+(You can use /local/apps/lib/lib/R/library/JGR/scripts/run to start JGR directly)
+> Cannot find JRI native library!
+java.lang.UnsatisfiedLinkError: /local/apps/lib/lib/R/library/rJava/jri/libjri.so: ld.so.1: java: fatal: relocation error: file /local/apps/lib/lib/R/lib/libR.so: symbol dcopy_: referenced symbol not found
+        at java.lang.ClassLoader$NativeLibrary.load(Native Method)
+</code>
+====== references ======
+  * [[http://tolstoy.newcastle.edu.au/R/e2/help/07/01/9464.html|Re: [R] Solaris 10 compilation issue]]
+  * [[http://tolstoy.newcastle.edu.au/R/e2/devel/06/11/1099.html|Re: [Rd] Making Solaris 10 x86/x64 build of R available?]]
+  * [[http://tolstoy.newcastle.edu.au/R/e3/help/07/12/6195.html|Re: [R] Building R on Sun Solaris 10 (SPARC) using Sun Studio 12]]
+  * [[http://vegdave.wordpress.com/2006/12/02/builld-project-r-with-hdf5-on-solaris-10-x64-in-32bit/|Builld Project R with HDF5 on Solaris 10 x64 in 32bit]]