I'm trying to set up R and Tomcat on RHEL6 (6.4)
I have installed R and can run it. I have installed Tomcat 7 and can host
files file. I have packaged an application as a WAR file and deployed it
using tomcat. The application runs fine in all aspects until it uses any R
component.
This is where it crashes out with the following error as seen in
catalina.out:
<code>
Cannot find JRI native library!
Please make sure that the JRI native library is in a directory listed in
java.library.path.
java.lang.UnsatisfiedLinkError:
/usr/local/lib64/R-2.15.3/library/rJava/jri/libj
ri.so: libR.so: cannot open shared object file: Too many levels of symbolic
links
at java.lang.ClassLoader$NativeLibrary.load(Native Method)
at java.lang.ClassLoader.loadLibrary0(ClassLoader.java:1750)
at java.lang.ClassLoader.loadLibrary(ClassLoader.java:1675)
at java.lang.Runtime.loadLibrary0(Runtime.java:840)
at java.lang.System.loadLibrary(System.java:1047)
at org.rosuda.JRI.Rengine.<clinit>(Rengine.java:19)
</code>
I do have rJava installed under R: install.packages("rJava") It installed
fine and I have rJava inside the R's library folder.
I have defined the following in /etc/profile:
<code>
export JAVA_HOME=/usr/lib/jvm/java-1.6.0-openjdk-1.6.0.0.x86_64/jre
export R_HOME=/usr/local/lib64/R-2.15.3
PATH=$PATH:$HOME/bin:$JAVA_HOME/bin:$R_HOME/bin
export PATH
export
LD_LIBRARY_PATH=$R_HOME/lib/libR.so,$JAVA_HOME/lib/amd64/server/libjvm.so
</code>
To my understanding, that should set JAVA_HOME, R_HOME, PATH, and
LD_LIBRARY_PATH globally for all users on the server. I know Tomcat runs
under root and I can confirm that root was able to see all the above paths
as set above via "echo $JAVA_HOME", "echo $R_HOME", "echo $LD_LIBRARY_PATH",
"echo $PATH"
So I'm not sure why it's complaining that it can't open those .so files.
Also, when it crashes out, it shuts down Tomcat.
Thanks!
Patrick
