unable to load rJava library in rstudio server

Question

I am trying to use rJava library in Rstudio server env. When I issue:

library(rJava)

I keep getting this error:

Error: package or namespace load failed for ‘rJava’:
 .onLoad failed in loadNamespace() for 'rJava', details:
  call: dyn.load(file, DLLpath = DLLpath, ...)
  error: unable to load shared object '/opt/microsoft/ropen/3.5.1/lib64/R/library/rJava/libs/rJava.so':
  libjvm.so: wrong ELF class: ELFCLASS32

I verified that java and R distribution is both 64 bit.

R.Version()
$system
[1] "x86_64, linux-gnu"

java -version:

Java HotSpot(TM) 64-Bit Server VM

I do see the file by doing ls:

ls -l /opt/microsoft/ropen/3.5.1/lib64/R/library/rJava/libs/rJava.so
-rwxr-xr-x 1 root root 365280 Sep 20 15:31 /opt/microsoft/ropen/3.5.1/lib64/R/library/rJava/libs/rJava.so

Any ideas what is going on here?

I executed what user @megatron recommended

sudo R CMD javareconf

I get this error:

trying to compile and link a JNI program
detected JNI cpp flags    :
detected JNI linker flags :
gcc -std=gnu99 -I/opt/microsoft/ropen/3.5.1/lib64/R/include -DNDEBUG   -DU_STATIC_IMPLEMENTATION   -fpic  -DU_STATIC_IMPLEMENTATION -O2 -g  -c conftest.c -o conftest.o
conftest.c:1:17: fatal error: jni.h: No such file or directory
 #include <jni.h>
                 ^
compilation terminated.
make: *** [conftest.o] Error 1
Unable to compile a JNI program

score 1 · Answer 1 · answered Sep 20 '18 at 20:04

1

Try running the following on the command line:

sudo R CMD javareconf

answered Sep 20 '18 at 20:04

Megatron

15,909
12
89
97

I tried to run that and get error. I updated the orginal post. – user1471980 Sep 21 '18 at 13:16
@user1471980 This error is also seen here. Perhaps try a fresh JDK installation? https://stackoverflow.com/questions/17570586/unable-to-compile-jni-program-rjava – Megatron Sep 21 '18 at 13:20
One user is suggesting you run `R CMD javareconf -e` without sudo – Megatron Sep 21 '18 at 13:21
the same error "fatal error: jni.h: No such file or directory" – user1471980 Sep 21 '18 at 13:27
I do see jni.h file in the JAVA_HOME/include directory – user1471980 Sep 21 '18 at 13:45

unable to load rJava library in rstudio server

1 Answers1