Installation problems: Linux Java and R not working together

    Dear community,

    I almost tried for 3 days now to install rJava and package FSelector on my
    Linux machine but couldn't do so.
    I  searched all the forums and tried some tricks ... but unfortunately
    couldn't find any solution.
    First of all I did try to install rJava in my rkward without any changes ,
    that gave me the following error :

    configure: error: One or more JNI types differ from the corresponding native
    type.  You  may need to use non-standard compiler flags or a different
    compiler in order to fix this.

    ERROR: configuration failed for package ?rJava?

    * removing ?/home/uwe/.rkward/library/rJava?

    Warnmeldung:

    In install.packages(pkgs = c("rJava"), lib = "/home/uwe/.rkward/library", :

    Installation des Pakets ?rJava? hatte Exit-Status ungleich 0


    So then I started searching and found a tip. I did run the following;



    uwe at linux-k2a8:~> sudo R CMD javareconf
    Java interpreter : /usr/bin/java
    Java version     : 1.7.0_45
    Java home path   : /usr/lib/jdk1.7.0_45/jre
    Java compiler    : /usr/bin/javac
    Java headers gen.: /usr/bin/javah
    Java archive tool: /usr/bin/jar
    NOTE: Your JVM has a bogus java.library.path system property!
          Trying a heuristic via sun.boot.library.path to find jvm library...
    Java library path: $(JAVA_HOME)/lib/i386/client
    JNI linker flags : -L$(JAVA_HOME)/lib/i386/client -ljvm
    JNI cpp flags    : -I$(JAVA_HOME)/../include -I$(JAVA_HOME)/../include/linux
    Updating Java configuration in /usr/lib/R
    Done.



    And also did check


    uwe at linux-k2a8:~> java -version
    java version "1.7.0_45"
    Java(TM) SE Runtime Environment (build 1.7.0_45-b18)
    Java HotSpot(TM) Server VM (build 24.45-b08, mixed mode)
    uwe at linux-k2a8:~> sudo /usr/sbin/update-alternatives --config java
    There are 4 choices for the alternative java (providing /usr/bin/java).
      Selection    Path                                     Priority   Status
    ------------------------------------------------------------
      0            /usr/lib/jvm/jre-1.7.0-openjdk/bin/java   17147     auto mode
      1            /usr/java/latest/bin/java                 1         manual
    mode
    * 2            /usr/lib/jdk_Oracle/bin/java              3         manual
    mode
      3            /usr/lib/jvm/jre-1.5.0-gcj/bin/java       1500      manual
    mode
      4            /usr/lib/jvm/jre-1.7.0-openjdk/bin/java   17147     manual
    mode
    Press enter to keep the current choice[*], or type selection number:



    I absolutely don't know what is wrong with that setup since my Java seems to
    have JDK and all the other things needed for R.

    For your Information here my system:
    uwe at linux-k2a8:~> uname -rm
    3.4.63-2.44-desktop i686

    uwe at linux-k2a8:~> cat /proc/version
    Linux version 3.4.63-2.44-desktop (geeko at buildhost) (gcc version 4.7.1
    20120723 [gcc-4_7-branch revision 189773] (S Linux) ) #1 SMP PREEMPT Wed Oct
    2 11:18:32 UTC 2013 (d91a619)



    I would be really thankful for any advise to get rJava (and FSelector)
    running soon.

    Best wishes

    Uwe