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I'm working with R on Ubuntu, I want to use the CoreNLP package and I have a weird behaviour. When I use a shell, everything is fine, for instance I can run:

$ R

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[Previously saved workspace restored]

> library(rjava)
Error in library(rjava) : there is no package called ‘rjava’
> library(rJava)
> library(coreNLP)
> initCoreNLP()
Searching for resource: config.properties
Adding annotator tokenize
TokenizerAnnotator: No tokenizer type provided. Defaulting to PTBTokenizer.
Adding annotator ssplit
Adding annotator pos
Reading POS tagger model from edu/stanford/nlp/models/pos-tagger/english-left3words/english-left3words-distsim.tagger ... done [2.4 sec].
Adding annotator lemma
Adding annotator ner
Loading classifier from edu/stanford/nlp/models/ner/english.all.3class.distsim.crf.ser.gz ... done [6.1 sec].
Loading classifier from edu/stanford/nlp/models/ner/english.muc.7class.distsim.crf.ser.gz ... done [4.1 sec].
Loading classifier from edu/stanford/nlp/models/ner/english.conll.4class.distsim.crf.ser.gz ... done [3.3 sec].
Initializing JollyDayHoliday for SUTime from classpath: edu/stanford/nlp/models/sutime/jollyday/Holidays_sutime.xml as sutime.binder.1.
Reading TokensRegex rules from edu/stanford/nlp/models/sutime/defs.sutime.txt
Reading TokensRegex rules from edu/stanford/nlp/models/sutime/english.sutime.txt
Reading TokensRegex rules from edu/stanford/nlp/models/sutime/english.holidays.sutime.txt
Adding annotator parse
Loading parser from serialized file edu/stanford/nlp/models/lexparser/englishPCFG.ser.gz ... done [4.1 sec].
Adding annotator dcoref
Adding annotator sentiment
> library(rJava)
> .jinit()
[1] 0
> .jcall("java/lang/System","S","getProperty","java.version")
[1] "1.8.0_91"
>

But if I use RStudio Server on the same machine, with the same user, I get this: 

> library(rJava)
> library(coreNLP)
> initCoreNLP()
Error in rJava::.jnew("edu.stanford.nlp.pipeline.StanfordCoreNLP", basename(path)) : 
  java.lang.UnsupportedClassVersionError: edu/stanford/nlp/pipeline/StanfordCoreNLP : Unsupported major.minor version 52.0
> .jinit()
[1] 0
> .jcall("java/lang/System","S","getProperty","java.version")
[1] "1.7.0_67"

In the first place, this didn't work either in the terminal or in RStudio Server. In order to make it work in the terminal I followed these steps:

  1. I downloaded Java from http://www.oracle.com/technetwork/java/javase/downloads/jdk8-downloads-2133151.html, the jdk-8u91-linux-x64.tar.gz file.
  2. Uncompress it in /usr/lib/jvm/jdk1.8.0_91
  3. Finally run sudo JAVA_HOME=/usr/lib/jvm/jdk1.8.0_91 R CMD javareconf

So, I cannot understand why it works in terminal but not in RStudio Server. Seems that RStudio Server cannot load the correct Java, does anyone know why?

Thanks a lot for all your valuable comments.

All the best

Agustin

ACCaminero
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1 Answers1

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You may want to ask RStudio support. The R script is setting the environment for Java so my guess would be that RStudio server is failing to do that. I don't know how you start it, but you may have more luck by bootstrapping through the R script such as

R CMD <command to start the server>
Simon Urbanek
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