Alternatively, you could load R (always as root) and use the native R command install.packages(“rJava”) (essentially, this is exactly what the Rscript command above performs). Notice that you should also run the Rscript command as root – otherwise it will again not work. Updating Java configuration in R]# Rscript -verbose -e 'install.packages("rJava",repos="",dependencies=TRUE,lib="/u01/app/oracle/product/12.1.0.2/dbhome_1/R/library")' It turns out that the solution is to run the R CMD javareconf command inside the home directory of R, with superuser privileges $ echo ~]$ cd R]$ R]# R CMD javareconf The fact that the file libjvm.so does exist in the appropriate directory is of no help for further progress. Libjvm.so: cannot open shared object file: No such file or directory )Įrror: unable to load shared object '/u01/app/oracle/product/12.1.0.2/dbhome_1/R/library/rJava/libs/rJava.so': onLoad failed in loadNamespace() for 'rJava', details:Ĭall: dyn.load(file, DLLpath = DLLpath. ** testing if installed package can be loadedĮrror. Only to get a different error message, further down during the installation process: We tried the second recommendation included in the error message, scripts]$ R CMD javareconf -e Recall that the R CMD javareconf command was issued in the beginning of the script with superuser privileges repeating it from the command line does not resolve the issue.
#INSTALLING RJAVA IN R INSTALL#
To set all Java-related variables and then install rJava.ĮRROR: configuration failed for package ‘rJava’
#INSTALLING RJAVA IN R FULL#
Make sure R is configured with full Java support (including JDK). Ĭonfigure: error: One or more Java configuration variables are not set. Focusing on the specific script command, we ~]$ Rscript -verbose -e 'install.packages("arulesViz",repos="",dependencies=TRUE,lib="/u01/app/oracle/product/12.1.0.2/dbhome_1/R/library")'Īlso installing the dependencies ‘rJava’, ‘iplots’ But as we will see immediately, it is of no use here the script will try to install rJava as a dependency for arulesViz, a package for the visualization of association rules.
Indeed, if one searches the dozens of pages at Stack Overflow and similar fora, trying to provide workarounds for installing rJava in various platforms and operation systems, one will see that several proposed solutions are based on some variation of this command. Let’s examine closer the situation (we assume that, as it is the case with Oracle BDLite VM, Java is already installed).īoth Oracle’s instructions and the installation script begin with the lineĪiming to provide the necessary configuration for the full Java support to R.
Nevertheless, the attempt in the install_additional_packages.sh script is also unsuccessful. Installing the rJava package in the ORE distribution of the BDLite VM, running Oracle Enterprise Linux, proved to be anything but straightforward this, despite the fact that a) instructions are provided by Oracle (see Using rJava in Embedded R Execution), which unfortunately fail, and b) in one of the setup scripts accompanying the VM ( install_additional_packages.sh), found in the ~/scripts directory and mentioned in the ‘Start Here’ document, there is implicitly the requirement for installing rJava, as the cautious user might notice during the script execution. One of these, and actually an important “infrastructure” R package, is rJava, the package that provides a low-level interface between R and Java, which is already used by several other R packages as a dependency (see the CRAN page on rJava). Naturally, the first thing one might try after setting up the VM, is to install a number of R packages that are necessary for various data science jobs. The current version at the time of writing is 4.1, and it can be downloaded from here.Įxperimenting with ORE and ORCH is one of our major motivations for using the BDLite VM, since we have already been using the open source (GNU) R as our main working tool for some time now. Among other things, it includes a full distribution of the Oracle R Enterprise (ORE) and the Oracle R Connectors for Hadoop (ORCH).
The Oracle Big Data Lite (BDLite) VM is a handy and convenient platform for testing, development, and training on the related tools and technologies, such as Cloudera Hadoop, Oracle NoSQL database, Oracle SQL Developer & Data Modeler etc.
0 kommentar(er)
