Package ubic.basecode.util.r

Class RServeClient

java.lang.Object

ubic.basecode.util.r.AbstractRClient

ubic.basecode.util.r.RServeClient

All Implemented Interfaces:

RClient

public class RServeClient
extends AbstractRClient

Author:

pavlidis

Field Summary

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

log

Constructor Summary

Constructors

Modifier	Constructor	Description
protected	RServeClient()	Gets connection on default host (localhost) and port (6311)
protected	RServeClient(String host)

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)
boolean	connect()
void	disconnect()
org.rosuda.REngine.REXP	eval(String command)	Evaluate the given command
void	finalize()
protected static String	findRserveCommand()
String	getLastError()
boolean	isConnected()
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, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

RServeClient

protected RServeClient()
                throws IOException

Gets connection on default host (localhost) and port (6311)

Throws:

IOException

RServeClient

protected RServeClient(String host)
                throws IOException

Parameters:

host -

Throws:

IOException

Method Detail

findRserveCommand

protected static String findRserveCommand()
                                   throws org.apache.commons.configuration2.ex.ConfigurationException

Returns:

Throws:

org.apache.commons.configuration2.ex.ConfigurationException

assign

public void assign(String argName,
                   double[] 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)

connect

public boolean connect()

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

Returns:

finalize

public void finalize()

Overrides:

finalize in class Object

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.

Returns:

voidEval

public void voidEval(String command)