unable to compile JNI program rJava

Question

I want to install rJava but it doesnt work. When I am typing R CMD javareconf in the console I get the following error:

trying to compile and link a JNI progam
detected JNI cpp flags    :
detected JNI linker flags :
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG      -fpic  -O3 -pipe  -g 
-c conftest.c -o conftest.o
conftest.c:1:17: error: jni.h: No such file or directory
conftest.c: In function 'main':
conftest.c:4: warning: implicit declaration of function 'JNI_CreateJavaVM'
make: *** [conftest.o] Error 1
Unable to compile a JNI program


Java library path:
JNI cpp flags    :
JNI linker flags :
Updating Java configuration in /usr/lib64/R
Done.

Any ideas how to fix it?

Answer 1

I was also facing same error which was on RHEL8.1 & i resolved it as follows:

 yum --enablerepo=* install java-1.8* 

later i ran same command which was giving me error logs of R server.

 R CMD javareconf

which turns into the following output & succeed.

Answer 2

I know this is closed but I'm adding my solution for completeness. In effect I had the same problem and all was correctly installed. I had also run the

sudo R CMD javareconf

for system wide setting. What I needed was for it to work for my user. And in this case you should run

R CMD javareconf -e

without sudo and with appended -e.

Worked for me. :)

Answer 3

The jni.h file is part of JDK installation. You probably don't have Java JDK installed correctly. Download Oracle Java from here, or use your package manager.

If you have Java JDK already installed, set JAVA_HOME environment variable to point to the JDK directory.