#Error installing rjava in r install#

You will need at least sudo apt-get install openjdk-7-jdk In short, I want to be able to use RStudio with rJava again without it destroying any other uses of Java (such as jmol). I've also un-installed and re-installed RStudio via the Ubuntu Software Centre but this didn't make any difference. I tried to follow these links, one and two but they didn't seem to resolve my issue there are more links on SO but I'm not sure which one to follow. Updating Java configuration in /usr/lib/R

Gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector -param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c conftest.c -o conftest.oД¬onftest.c:1:17: fatal error: jni.h: No such file or directory Which also gave the following error, trying to compile and link a JNI programДetected JNI linker flags : -L/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/amd64/server -ljvm So, I went to the terminal and typed, sudo R CMD javareconf Installation of package вЂrJavaвЂ™ had non-zero exit status To set all Java-related variables and then install rJava.Д®RROR: configuration failed for package вЂrJavaвЂ™ Make sure R is configured with full Java support (including JDK). Which returned the following error message, configure: error: One or more Java configuration variables are not set. I tried to install it again using, install.packages('rJava')

#Error installing rjava in r upgrade#

I'm using RStudio on and Ubuntu box (14.04) and I tried to upgrade rJava from sources and in the process I managed to lose it.

#Error installing rjava in r how to#

Spark is up and running, but IвЂ™m at a loss how to connect the Spark cluster to Rstudio because of the above errors.ДЄs it stands вЂњwhich javaвЂќ and вЂњjava -versionвЂќ display as they should, and the bash scripts for Spark use the JAVA_HOME variable as it is just fine no trouble with spark directly, only getting it to connect with Rstudio.I've tried to solve this using the previous questions/answers on SO but without any success. Make: Leaving directory вЂ/tmp/Rtmp55q2q1/R.INSTALе…ѓd42a322337/rJava/jriвЂ™ Make: Leaving directory вЂ/tmp/Rtmp55q2q1/R.INSTALе…ѓd42a322337/rJava/jri/srcвЂ™ usr/bin/ld: cannot find -lpcre2-8вЂ¦ -llzmaвЂ¦ -lbz2Д¬ollect2: error: ld returned 1 exit status

reviewing possible issue with conflicting/custom libraries hereД«elow is output attempting rJava install in RStudio:.

reviewing compile error from Rstudio console here and generalized similar error and here.

setting JAVA_HOME here, reviewing documentation and here.DARS image and ( ) only for reference, using bare metal for Spark, not docker.Unclear if something is missing from the swupd jre/jdk? IвЂ™ve tried all the combinations of bundles, but still am stuck with no running rJava in Rstudio I need it (rJava) for use/access to my Spark cluster. I think the issue is similar to here but the context slightly different. Running sudo R CMD javareconf works as it should, and displays that all is fine with Rstudio and java, but rJava package install in Rstudio fails.