Package ubic.basecode.util.r

Class JRIClient

java.lang.Object

ubic.basecode.util.r.AbstractRClient

ubic.basecode.util.r.JRIClient

All Implemented Interfaces:

RClient

public class JRIClient
extends AbstractRClient

R connection implementation that uses the dynamic library interface JRI. For this to work the user must have libjri.so or jri.dll and libr.so in their java.library.path.

Author:

paul

See Also:

• RConnectionFactory

Field Summary

Fields inherited from class ubic.basecode.util.r.AbstractRClient

log

Constructor Summary

Constructors

Constructor	Description
JRIClient()

Method Summary

Modifier and Type	Method	Description
void	assign(String argName, double[] arg)
void	assign(String arg0, int[] arg1)
void	assign(String sym, String ct)
void	assign(String argName, String[] array)
void	disconnect()
org.rosuda.REngine.REXP	eval(String command)	Evaluate the given command
String	getLastError()
boolean	isConnected()
static boolean	ready()
DoubleMatrix<String,String>	retrieveMatrix(String variableName)	Get a matrix back out of the R context.
void	voidEval(String command)

Methods inherited from class ubic.basecode.util.r.AbstractRClient

assignFactor, assignFactor, assignMatrix, assignMatrix, assignMatrix, assignStringList, booleanDoubleArrayEval, dataFrame, dataFrameEval, doubleArrayDoubleArrayEval, doubleArrayEval, doubleArrayTwoDoubleArrayEval, doubleTwoDoubleArrayEval, intArrayEval, linearModel, linearModel, listEval, loadLibrary, loadScript, oneWayAnova, oneWayAnovaEval, remove, rowApplyLinearModel, stringEval, stringListEval, twoWayAnova, twoWayAnovaEval, variableIdentityNumber

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Details

JRIClient

public JRIClient()

Method Details

ready

public static boolean ready()

assign

public void assign(String argName,
 double[] arg)

Parameters:

argName -

arg -

assign

public void assign(String arg0,
 int[] arg1)

assign

public void assign(String sym,
 String ct)

assign

public void assign(String argName,
 String[] array)

disconnect

public void disconnect()

Specified by:

disconnect in class AbstractRClient

eval

public org.rosuda.REngine.REXP eval(String command)

Description copied from interface: RClient

Evaluate the given command

Parameters:

command -

Returns:

getLastError

public String getLastError()

isConnected

public boolean isConnected()

retrieveMatrix

public DoubleMatrix<String,String> retrieveMatrix(String variableName)

Description copied from interface: RClient

Get a matrix back out of the R context. Row and Column names are filled in for the resulting object, if they are present.

Parameters:

variableName -

Returns:

voidEval

public void voidEval(String command)