CODEWITHSUNDEEP
javarrjavarserve
Tiya
Tiya

Reputation: 225

Run R script using JAVA program

I am new to R programming. I have created a simple R script and trying to run it using JAVA class, but I am unable to do it.

I have tried by using Rserve as well as rJava. Using Rserve, code execution stopped after creating instance of "RConnection" whereas using rJava giving exception "java.lang.UnsatisfiedLinkError: jri.dll: Can't find dependent libraries".

The JAVA class code is as below:

For rJava:

    import org.rosuda.JRI.Rengine;
public class Temp {

public static void main(String a[]) {
    // Create an R vector in the form of a string.
    String javaVector = "c(1,2,3,4,5)";

    // Start Rengine.
    Rengine engine = new Rengine(new String[] { "--no-save" }, false, null);

    // The vector that was created in JAVA context is stored in 'rVector' which is a variable in R context.
    engine.eval("rVector=" + javaVector);

    //Calculate MEAN of vector using R syntax.
    engine.eval("meanVal=mean(rVector)");

    //Retrieve MEAN value
    double mean = engine.eval("meanVal").asDouble();

    //Print output values
    System.out.println("Mean of given vector is=" + mean);

}
}

For Rserve:

import org.rosuda.REngine.REXPMismatchException;
import org.rosuda.REngine.Rserve.RConnection;
import org.rosuda.REngine.Rserve.RserveException;
public class Temp {

public static void main(String a[]) {
    RConnection connection = null;
    System.out.println("line 10");
    try {
        // Create a connection to Rserve instance running on default port 6311

        System.out.println("line 15");
        connection = new RConnection();
        System.out.println("line 17");
        //Note four slashes (\\\\) in the path
        connection.eval("source('D:\\\\RExamples\\\\helloworld.R')");
        System.out.println("line 19");
        int num1=10;
        int num2=20;
        int sum=connection.eval("myAdd("+num1+","+num2+")").asInteger();
        System.out.println("The sum is=" + sum);
    } catch (RserveException e) {
        e.printStackTrace();
    } catch (REXPMismatchException e) {
        e.printStackTrace();
    }
}
}

Please let me know if my question is not clear to you or if you want to know anything else. Thanks in advance.

Upvotes: 4

Views: 12530

Answers (3)

Jake
Jake

Reputation: 4650

An alternative is to use r's OpenCpu package. This is a very simple server (single threaded unfortunately) that receives r function calls over http and returns the output as the response.

I have used it to interface with java.

Upvotes: 0

jfcorugedo
jfcorugedo

Reputation: 10051

There are two different approach to connect Java and R.

If you want to use JRI, you have to start your java program using the JVM parameter -Djava.library.path pointing at the folder that contains JRI library.

For instance:

$JAVA_HOME/bin/java  -Djava.library.path=/app/vendor/R/lib/R/library/rJava/jri/ -jar target/myapp.jar

If you have trouble finding JRI installation directory, try to look for the JRI SO library:

find / -name "libjri.*"

In addition, make sure you have created R_HOME and LD_LIBRARY_PATH in your environment:

  • R_HOME: Pointing to your local R installation (Ej: /Library/Frameworks/R.framework/Resources)
  • LD_LIBRARY_PATH: Pointing to R lib directory as well as JRI directory (EJ: $LD_LIBRARY_PATH:/app/vendor/R/lib/R/lib:/app/vendor/R/lib/R/bin)

On the other hand, if you want to use Rserve, you need to start Rserve in a separate process, and then create a RConnection from your java process.

For example:

        if(LOGGER.isInfoEnabled()) {
            LOGGER.info("Starting RServe process...");
        }
        ProcessBuilder builder = new ProcessBuilder("/bin/sh", "-c", String.format("echo 'library(Rserve);Rserve(FALSE,args=\"--no-save --slave --RS-conf %s\")'|%s --no-save --slave", rserveConf, rexe));
        builder.inheritIO();
        Process rProcess = builder.start();

        if(LOGGER.isInfoEnabled()) {
            LOGGER.info("Waiting for Rserve to start...");
        }
        int execCodeResult = rProcess.waitFor();

        if(execCodeResult != SUCCESS_CODE) {
            LOGGER.error(String.format("Unexpected error code starting RServe: %d", execCodeResult));
        } else {
            LOGGER.error("RServe started successfully");
        }

        if(LOGGER.isInfoEnabled()) {
            LOGGER.info("Opening connection to RServe daemon....");
        }
        REngine engine = new RConnection();
        if(LOGGER.isInfoEnabled()) {
            LOGGER.info(String.format("Obtaining R server version: %d", ((RConnection)engine).getServerVersion()));
        }
        //Perform some engine.parseAndEval("....");

rserveConf is the path to Rserv conf file and rexe is the full path to R executable.

For instance, in my MacOS computer I can start Rserve executing this line:

/bin/sh -c "echo 'library(Rserve);Rserve(FALSE,args=\"--slave --RS-conf /Users/me/Documents/test/rserve.conf\")'|/Library/Frameworks/R.framework/Versions/3.2/Resources/bin/exec/R --no-save --slave"

This command outputs something like this:

Starting Rserve:
  /Library/Frameworks/R.framework/Resources/bin/R CMD /Library/Frameworks/R.framework/Versions/3.2/Resources/library/Rserve/libs//Rserve --slave 

Rserv started in daemon mode.

Make sure to specify "--slave" parameter when you start Rserve.

If you want to see more examples, I have a demo project that use both approaches, JRI and RServe, in my github:

https://github.com/jfcorugedo/RJavaServer

Upvotes: 2

Malaka Gunawardhana
Malaka Gunawardhana

Reputation: 283

You just want to call an external application: wouldn't the following work?

Runtime.getRuntime().exec("Rscript myScript.R");

Credit goes to stackoverflow itself

Upvotes: 1

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