问题
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
回答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
回答2:
I got similar issue and was able to resolve it by running
R CMD javareconf -e
Output of the R CMD javareconf -e
Java interpreter : /export/apps/jdk/JDK-1_6_0_27/jre/bin/java
Java version : 1.6.0_27
Java home path : /export/apps/jdk/JDK-1_6_0_27
Java compiler : /export/apps/jdk/JDK-1_6_0_27/bin/javac
Java headers gen.: /export/apps/jdk/JDK-1_6_0_27/bin/javah
Java archive tool: /export/apps/jdk/JDK-1_6_0_27/bin/jar
Java library path: /export/apps/jdk/JDK-1_6_0_27/jre/lib/amd64/server:/export/apps/jdk/JDK-1_6_0_27/jre/lib/amd64:/export/apps/jdk/JDK-1_6_0_27/jre/../lib/amd64:/usr/java/packages/lib/amd64:/usr/lib64:/lib64:/lib:/usr/lib
JNI linker flags : -L/export/apps/jdk/JDK-1_6_0_27/jre/lib/amd64/server -L/export/apps/jdk/JDK-1_6_0_27/jre/lib/amd64 -L/export/apps/jdk/JDK-1_6_0_27/jre/../lib/amd64 -L/usr/java/packages/lib/amd64 -L/usr/lib64 -L/lib64 -L/lib -L/usr/lib -ljvm
JNI cpp flags : -I/export/apps/jdk/JDK-1_6_0_27/include -I/export/apps/jdk/JDK-1_6_0_27/include/linux
The following Java variables have been exported:
JAVA_HOME JAVA JAVAC JAVAH JAR JAVA_LIBS JAVA_CPPFLAGS JAVA_LD_LIBRARY_PATH
Running: /bin/bash
After setting LD_LIBRARY_PATH to the same value as JAVA_LD_LIBRARY_PATH as shown in the output above. I was able to install rj.
export LD_LIBRARY_PATH=/export/apps/jdk/JDK-1_6_0_27/jre/lib/amd64/server:/export/apps/jdk/JDK-1_6_0_27/jre/lib/amd64:/export/apps/jdk/JDK-1_6_0_27/jre/../lib/amd64:/usr/java/packages/lib/amd64:/usr/lib64:/lib64:/lib:/usr/lib
Run R and then install rj by
install.packages(c("rj", "rj.gd"), repos="http://download.walware.de/rj-1.1")
回答3:
I found the solution:
export LD_LIBRARY_PATH=/usr/lib/jvm/java-7-oracle/lib/amd64:/usr/lib/jvm/java-7-oracle/jre/lib/amd64/server
then
sudo R CMD javareconf
Note: The path (java-7-oracle) needs to be updated based on your Java installation.
回答4:
I did the following and it worked for me:
export LD_LIBRARY_PATH=$JAVA_LD_LIBRARY_PATH
sudo R CMD javareconf
I had to restart R then as well.
回答5:
Years later, I ended up on this question after searching for an error reported by R after I had unsuccessfully installed a package on that required shifting to Oracle's Java.
All I had to do to fix it was:
$ sudo R CMD javareconf
回答6:
or just set the library in R?
I just ran this command in R:
Sys.setenv(JAVA_HOME='/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/amd64/server')
(replace "/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/amd64/server" with your Java library path which can be found running "sudo R CMD javareconf")
Might not be the most elegant solution - but it worked for me!
回答7:
I did not had the jdk installed which I could fix with
sudo apt-get install jdk-*
After that i could run the sudo R CMD javareconf which always drew an error message before. Everything was set correctly and no manual tweeks where required, and after that package installation ran smootly in R (restart required).
回答8:
When facing missing limjvm.so errors make sure that the correct ldpaths is picked up from the standard configuration in /etc/R versus the one in /usr/lib/R/etc.
回答9:
This fixes the LD_LIBRARY_PATH problem for me (Linux, Debian 7.1.0, tc-shell, R version 3.0.2):
Add this line to .cshrc:
setenv LD_LIBRARY_PATH $JAVA_HOME/jre/lib/amd64:$JAVA_HOME/jre/lib/amd64/server
Adding this command to ~/.login was not enough; the environment variable LD_LIBRARY_PATH was still not known in new xterms: echo $LD_LIBRARY_PATH : LD_LIBRARY_PATH: Undefined variable. (Why??)
Curiously, when starting R as superuser, there was no problem with finding libjvm.so .
回答10:
I fixed this by just running R with sudo, and then running install.packages('rJava`).
回答11:
None of the above worked for me, the only solution that installed rJava on Linux Ubuntu without any problems was to pass RScript command after installation of the base R:
$ sudo Rscript -e 'install.packages("rJava", repos = "http://cran.r-project.org/")'
来源：https://stackoverflow.com/questions/12872699/error-unable-to-load-installed-packages-just-now