error: unable to load installed packages just now

Question

When I tried to run the R console in Eclipse, I got this error:

....Please make sure that R package 'rj' (1.1 or compatible) is installed...

So I tried to install it in the R console like this:

install.packages(c("rj", "rj.gd"), repos="http://download.walware.de/rj-1.1")

and got this error:

 ** testing if installed package can be loaded
 Error : .onLoad failed in loadNamespace() for 'rj.gd', details:
 call: dyn.load(file, DLLpath = DLLpath, ...)
 error: unable to load shared object '/home/alex/R/x86_64-pc-linux-gnu-library/2.15/rj.gd/libs/rj.gd.so':
 libjvm.so: cannot open shared object file: No such file or directory
 Error: loading failed
 Execution halted
 ERROR: loading failed

and I found that when installing rJava using: install.packages("rJava") gets a similar error:

** testing if installed package can be loaded
Error : .onLoad failed in loadNamespace() for 'rJava', details:
call: dyn.load(file, DLLpath = DLLpath, ...)
error: unable to load shared object '/home/alex/R/x86_64-pc-linux-gnu-library/2.15/rJava/libs/rJava.so':
libjvm.so: cannot open shared object file: No such file or directory
Error: loading failed
Execution halted
ERROR: loading failed

When I run sudo R CMD javareconf,I got this output:

Java interpreter : /usr/bin/java
Java version     : 1.7.0
Java home path   : /usr/lib/jvm/java-7-oracle/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: $(JAVA_HOME)/lib/amd64:$(JAVA_HOME)/lib/amd64/server
JNI linker flags : -L$(JAVA_HOME)/lib/amd64 -L$(JAVA_HOME)/lib/amd64/server -ljvm
JNI cpp flags    : -I$(JAVA_HOME)/../include -I$(JAVA_HOME)/../include/linux

Updating Java configuration in /etc/R
Done.

by the way,my configuration is:

Ubuntu 11.10 64bit
Eclipse 3.7
Oracle-1.7-jdk
R version 2.15.1 

Answer 1

For Linux(Ubuntu) users: If you have oracle-java (7/8) installed. It'll be at this location /usr/lib/jvm and sudo access is required.

Create the file /etc/ld.so.conf.d/java.conf with the following entries:

/usr/lib/jvm/java-8-oracle/jre/lib/amd64
/usr/lib/jvm/java-8-oracle/jre/lib/amd64/server

(Replace java-8-oracle with java-7-oracle depending on your java version)

Then:

sudo ldconfig

Restart RStudio and then install the rJava package.

OR

Also an alternative method is to export LD_LIBRARY_PATH with the value of Java library path obtained from the command R CMD javareconf -e and run install.packages