trouble installing and loading rJava on mac El Capitan

Question

Have issue installing rJava, tried most troubleshooting steps here and doesn't work.

It's returning error

Loading required package: rJava
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     '/Library/Frameworks/R.framework/Versions/3.4/Resources/library/rJava/libs/    rJava.so':

I'm on latest ver of R/Rstudio and Mac El Capitan

I also tried this method 1 which didn't work

sudo R CMD javareconf

Then, in the R interpreter:

install.packages('rJava', type='source')
install.packages('xlsx', type='source')

method 2

sudo ln -s $(/usr/libexec/java_home)/jre/lib/server/libjvm.dylib /usr/local/lib

error returned ln: /usr/local/lib/libjvm.dylib: File exists

method 3 install.packages("rJava", type = "binary") error: tar: Failed to set default locale

to deal with default locale error

system("defaults write org.R-project.R force.LANG en_US.UTF-8")

upon loading rJava, still same error:

image not found

So looks like it's installed but won't load

Rapeseed

There are far more SO threads than that one: stackoverflow.com/… – Cavell

thanks for the reply, I actually tried many of them, nothing works so far – Rapeseed

I've just written a short note on this and hope it is helpful: zhiyzuo.github.io/installation-rJava – Lancastrian

Answer 1

The problem was rJava wont install in RStudio (Version 1.0.136). The following worked for me (macOS Sierra version 10.12.6) (found here):

Step-1: Download and install javaforosx.dmg from here

Step-2: Next, run the command from inside RStudio:

install.packages("rJava", type = 'source')

Grugru

Answer 2

Here is my solution

Define path to R libraries, here R 3.4 version and open dir:

cd /Library/Frameworks/R.framework/Versions/3.4/Resources/lib

Remove libjvm.dylib:

rm libjvm.dylib

Create link to libjvm.dylib from Java libraries, here jdk1.8.0_151 version:

ln -s /Library/Java/JavaVirtualMachines/jdk1.8.0_151.jdk/Contents/Home/jre/lib/server/libjvm.dylib libjvm.dylib

now go to R or RStudio and try:

library("rJava")

Batha

This method worked for me. But I symlinked from the framework's /lib directory to the already symlinked /usr/local/lib/libjvm with ln -s /usr/local/lib/libjvm.dylib ./ rather than directly into tha java 8 directory. – Hunley

Answer 3

I did the same thing for java 9, it worked perfectly (macOS High Sierra), thanks:

cd /Library/Frameworks/R.framework/Versions/3.4/Resources/lib
rm libjvm.dylib
ln -s /Library/Java/JavaVirtualMachines/jdk-9.0.1.jdk/Contents/Home/lib/server/libjvm.dylib libjvm.dylib

Hy

Answer 4

I also had a lot of trouble with this and eventually found the following SO thread to be the most relevant: rJava load error in RStudio/R after "upgrading" to OSX Yosemite

Basically, starting from no installation of rJava, and starting in the terminal:

1. Form the sym link (note, the -f flag will overwirte existing links avoiding the error you encountered in "method 2".

$ sudo ln -f -s $(/usr/libexec/java_home)/jre/lib/server/libjvm.dylib /usr/local/lib

Then in RStudio:

2. Ensure options('java.home') isn't NULL, and set if necessary:

options("java.home"="/Library/Java/JavaVirtualMachines/jdk1.8.0_131.jdk/Contents/Home/jre")

3. Ensure the JAVA_HOME and LD_LIBRARY_PATH environment variables are set, and set if not:

Sys.setenv(JAVA_HOME='/Library/Java/JavaVirtualMachines/jdk1.8.0_131.jdk/Contents/Home') Sys.setenv(LD_LIBRARY_PATH='$JAVA_HOME/jre/lib/server')

After this I was able to install and load the rJava package in RStudio with

install.packages('rJava')
library(rJava)

Eduction

your solution doesn't work: Error: package or namespace load failed for ‘rJava’: .onLoad failed in loadNamespace() for 'rJava', details: (...) – Batha

After step (1), rather than set environment variables to tune the path, you could set an additional symlink in the /Library/Frameworks/R.framework/Versions/3.4/Resources/lib directory to the /usr/local/lib/libjvm.dylib file: ln -s /usr/local/lib/libjvm.dylib /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/ – Hunley

Answer 5

I have tried most of the recommendations on this site, but none worked. The only working solution for me was on this Github site site.

Hope this solves your issues.

Battleplane