Package ubic.basecode.dataStructure.matrix

Class DoubleMatrix3D<R,C,S>

java.lang.Object

ubic.basecode.dataStructure.matrix.AbstractMatrix3D<R,C,S,Double>

ubic.basecode.dataStructure.matrix.DoubleMatrix3D<R,C,S>

Type Parameters:

R - Row label type

C - Column label type

S - Slice label type

All Implemented Interfaces:

Matrix3D<R,C,S,Double>

Direct Known Subclasses:

DenseDouble3dMatrix

public abstract class DoubleMatrix3D<R,C,S>
extends AbstractMatrix3D<R,C,S,Double>

TODO Document Me

Author:

Xwan

Field Summary

Fields

Modifier and Type	Field	Description
protected static int	MAX_ROWS_TO_PRINT
protected static int	MAX_SLICES_TO_PRINT

Fields inherited from class ubic.basecode.dataStructure.matrix.AbstractMatrix3D

colMap, colNames, rowMap, rowNames, sliceMap, sliceNames

Constructor Summary

Constructors

Constructor	Description
DoubleMatrix3D()

Method Summary

Modifier and Type	Method	Description
abstract double	get(int slice, int row, int column)
abstract Double[][]	getColObj(int col)
abstract double[][]	getColumn(int column)
double[][]	getColumnByName(C col)
abstract double[][]	getRow(int row)
double[][]	getRowByName(R row)
abstract Double[][]	getRowObj(int row)
abstract double[][]	getSlice(int slice)
double[][]	getSliceByName(S slice)
abstract Double[][]	getSliceObj(int slice)
abstract boolean	isMissing(int slice, int row, int col)	Check if the value at a given index is missing.
abstract int	rows()	Get the number of rows the matrix has
abstract void	set(int x, int y, int z, double value)
abstract void	setQuick(int slice, int row, int column, double c)
abstract int	slices()
String	toString()
abstract cern.colt.matrix.DoubleMatrix2D	viewColumn(int column)
abstract cern.colt.matrix.DoubleMatrix2D	viewRow(int slice)
abstract cern.colt.matrix.DoubleMatrix2D	viewSlice(int slice)

Methods inherited from class ubic.basecode.dataStructure.matrix.AbstractMatrix3D

addColumnName, addRowName, addSliceName, columns, containsColumnName, containsRowName, containsSliceName, getColIndexByName, getColName, getColNameIterator, getColNames, getRowIndexByName, getRowName, getRowNameIterator, getRowNames, getSliceIndexByName, getSliceName, getSliceNameIterator, getSliceNames, hasColNames, hasRow, hasRowNames, hasSliceNames, numMissing, setColumnNames, setRowNames, setSliceNames

Methods inherited from class java.lang.Object

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

Methods inherited from interface ubic.basecode.dataStructure.matrix.Matrix3D

getObject

Field Detail

MAX_ROWS_TO_PRINT

protected static final int MAX_ROWS_TO_PRINT

See Also:

Constant Field Values

MAX_SLICES_TO_PRINT

protected static final int MAX_SLICES_TO_PRINT

See Also:

Constant Field Values

Constructor Detail

DoubleMatrix3D

public DoubleMatrix3D()

Method Detail

get

public abstract double get(int slice,
                           int row,
                           int column)

getColObj

public abstract Double[][] getColObj(int col)

getColumn

public abstract double[][] getColumn(int column)

getColumnByName

public double[][] getColumnByName(C col)

Parameters:

s - String

Returns:

double[]

getRow

public abstract double[][] getRow(int row)

getRowByName

public double[][] getRowByName(R row)

Parameters:

s - String

Returns:

double[]

getRowObj

public abstract Double[][] getRowObj(int row)

getSlice

public abstract double[][] getSlice(int slice)

getSliceByName

public double[][] getSliceByName(S slice)

getSliceObj

public abstract Double[][] getSliceObj(int slice)

isMissing

public abstract boolean isMissing(int slice,
                                  int row,
                                  int col)

Description copied from interface: Matrix3D

Check if the value at a given index is missing.

Specified by:

isMissing in interface Matrix3D<R,C,S,Double>

Specified by:

isMissing in class AbstractMatrix3D<R,C,S,Double>

Returns:

true if the value is missing, false otherwise.

rows

public abstract int rows()

Description copied from interface: Matrix3D

Get the number of rows the matrix has

Specified by:

rows in interface Matrix3D<R,C,S,Double>

Specified by:

rows in class AbstractMatrix3D<R,C,S,Double>

Returns:

int

set

public abstract void set(int x,
                         int y,
                         int z,
                         double value)

setQuick

public abstract void setQuick(int slice,
                              int row,
                              int column,
                              double c)

Parameters:

j -

i -

c -

slices

public abstract int slices()

Specified by:

slices in interface Matrix3D<R,C,S,Double>

Specified by:

slices in class AbstractMatrix3D<R,C,S,Double>

toString

public String toString()

Overrides:

toString in class Object

viewColumn

public abstract cern.colt.matrix.DoubleMatrix2D viewColumn(int column)

viewRow

public abstract cern.colt.matrix.DoubleMatrix2D viewRow(int slice)

Parameters:

j -

Returns:

viewSlice

public abstract cern.colt.matrix.DoubleMatrix2D viewSlice(int slice)