Package etomica.modules.glass

Class DataSourcePercolation

java.lang.Object

etomica.modules.glass.DataSourcePercolation

All Implemented Interfaces:

DataSourceIndependent, IDataSource, ConfigurationStorage.ConfigurationStorageListener

public class DataSourcePercolation
extends java.lang.Object
implements IDataSource, ConfigurationStorage.ConfigurationStorageListener, DataSourceIndependent

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
class	DataSourcePercolation.Chi4Source
class	DataSourcePercolation.ImmFractionByTypeSource
class	DataSourcePercolation.ImmFractionSource
class	DataSourcePercolation.PercolationByImmFrac

Field Summary

Fields

Modifier and Type	Field	Description
protected AtomTestDeviation	atomTest
protected DataFunction	chi4Data
protected DataFunction.DataInfoFunction	chi4DataInfo
protected DataTag	chi4Tag
protected AtomNbrClusterer	clusterer
protected int[][]	clusterSize
protected int[]	clusterStack
protected ConfigurationStorage	configStorage
protected DataFunction	data
protected DataFunction.DataInfoFunction	dataInfo
protected HistogramNotSoSimple	histogramImmPerc
protected long[]	imm2Total
protected DataTag[]	immFracByTypeTag
protected DataFunction	immFracData
protected DataFunction[]	immFracDataByType
protected DataFunction.DataInfoFunction[]	immFracDataByTypeInfo
protected DataFunction.DataInfoFunction	immFracDataInfo
protected DataFunction	immFracPercData
protected DataFunction.DataInfoFunction	immFracPercDataInfo
protected DataTag	immFracPercTag
protected DataTag	immFracTag
protected long[][]	immFractionByType
protected long[]	immTotal
protected boolean[]	isVisited
protected int	log2StepMin
protected long[]	nSamples
protected int	numAtoms
protected int[]	numAtomsByType
protected int	numTypes
protected double[]	percP
protected Vector[]	r
protected Space	space
protected DataTag	tag
protected DataDoubleArray	tData
protected DataDoubleArray.DataInfoDoubleArray	tDataInfo
protected DataTag	tTag

Constructor Summary

Constructors

Constructor	Description
DataSourcePercolation(ConfigurationStorage configStorage, AtomTestDeviation atomTest, int log2StepMin)
DataSourcePercolation(ConfigurationStorage configStorage, AtomTestDeviation atomTest, int log2StepMin, HistogramNotSoSimple sharedHistogram)

Method Summary

Modifier and Type	Method	Description
IData	getData()
IDataInfo	getDataInfo()
HistogramNotSoSimple	getHistogram()
int	getIndependentArrayDimension()	Returns the number of independent data dimensions
DataDoubleArray	getIndependentData(int i)	Returns the X data for the given dimension
DataDoubleArray.DataInfoDoubleArray	getIndependentDataInfo(int i)	Returns the DataInfo for the given dimension
DataTag	getIndependentTag()	Returns the tag associated with this DataSource.
int	getLog2StepStart()
double	getNbrMax()
DataTag	getTag()
DataSourcePercolation.Chi4Source	makeChi4Source()
DataSourcePercolation.ImmFractionSource	makeImmFractionSource()
DataSourcePercolation.ImmFractionByTypeSource	makeImmFractionSource(AtomType type)
DataSourcePercolation.PercolationByImmFrac	makePerclationByImmFracSource()
void	newConfigruation()
void	reallocate(int n)
void	setLog2StepStart(int newStart)
void	setNbrMax(double nbrMax)
void	zeroData()

Methods inherited from class java.lang.Object

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

Field Detail

configStorage

protected final ConfigurationStorage configStorage

tData

protected DataDoubleArray tData

tDataInfo

protected DataDoubleArray.DataInfoDoubleArray tDataInfo

data

protected DataFunction data

immFracData

protected DataFunction immFracData

immFracPercData

protected DataFunction immFracPercData

chi4Data

protected DataFunction chi4Data

immFracDataByType

protected final DataFunction[] immFracDataByType

immFracDataByTypeInfo

protected final DataFunction.DataInfoFunction[] immFracDataByTypeInfo

dataInfo

protected DataFunction.DataInfoFunction dataInfo

immFracDataInfo

protected DataFunction.DataInfoFunction immFracDataInfo

immFracPercDataInfo

protected DataFunction.DataInfoFunction immFracPercDataInfo

chi4DataInfo

protected DataFunction.DataInfoFunction chi4DataInfo

percP

protected double[] percP

immTotal

protected long[] immTotal

imm2Total

protected long[] imm2Total

immFractionByType

protected long[][] immFractionByType

numAtomsByType

protected final int[] numAtomsByType

tTag

protected final DataTag tTag

tag

protected final DataTag tag

immFracTag

protected final DataTag immFracTag

immFracPercTag

protected final DataTag immFracPercTag

chi4Tag

protected final DataTag chi4Tag

immFracByTypeTag

protected final DataTag[] immFracByTypeTag

nSamples

protected long[] nSamples

clusterer

protected final AtomNbrClusterer clusterer

atomTest

protected AtomTestDeviation atomTest

clusterSize

protected final int[][] clusterSize

numAtoms

protected final int numAtoms

clusterStack

protected final int[] clusterStack

isVisited

protected final boolean[] isVisited

space

protected final Space space

r

protected final Vector[] r

log2StepMin

protected int log2StepMin

numTypes

protected final int numTypes

histogramImmPerc

protected final HistogramNotSoSimple histogramImmPerc

Constructor Detail

DataSourcePercolation

public DataSourcePercolation(ConfigurationStorage configStorage,
                             AtomTestDeviation atomTest,
                             int log2StepMin)

DataSourcePercolation

public DataSourcePercolation(ConfigurationStorage configStorage,
                             AtomTestDeviation atomTest,
                             int log2StepMin,
                             HistogramNotSoSimple sharedHistogram)

Method Detail

setLog2StepStart

public void setLog2StepStart(int newStart)

getLog2StepStart

public int getLog2StepStart()

setNbrMax

public void setNbrMax(double nbrMax)

getNbrMax

public double getNbrMax()

zeroData

public void zeroData()

reallocate

public void reallocate(int n)

newConfigruation

public void newConfigruation()

Specified by:

newConfigruation in interface ConfigurationStorage.ConfigurationStorageListener

getHistogram

public HistogramNotSoSimple getHistogram()

getData

public IData getData()

Specified by:

getData in interface IDataSource

Returns:

the data given by this source

getTag

public DataTag getTag()

Specified by:

getTag in interface IDataSource

Returns:

a tag that uniquely identifies the IDataInfo

getDataInfo

public IDataInfo getDataInfo()

Specified by:

getDataInfo in interface IDataSource

getIndependentData

public DataDoubleArray getIndependentData(int i)

Description copied from interface: DataSourceIndependent

Returns the X data for the given dimension

Specified by:

getIndependentData in interface DataSourceIndependent

getIndependentDataInfo

public DataDoubleArray.DataInfoDoubleArray getIndependentDataInfo(int i)

Description copied from interface: DataSourceIndependent

Returns the DataInfo for the given dimension

Specified by:

getIndependentDataInfo in interface DataSourceIndependent

getIndependentArrayDimension

public int getIndependentArrayDimension()

Description copied from interface: DataSourceIndependent

Returns the number of independent data dimensions

Specified by:

getIndependentArrayDimension in interface DataSourceIndependent

getIndependentTag

public DataTag getIndependentTag()

Description copied from interface: DataSourceIndependent

Returns the tag associated with this DataSource.

Specified by:

getIndependentTag in interface DataSourceIndependent

makeImmFractionSource

public DataSourcePercolation.ImmFractionSource makeImmFractionSource()

makeImmFractionSource

public DataSourcePercolation.ImmFractionByTypeSource makeImmFractionSource(AtomType type)

makePerclationByImmFracSource

public DataSourcePercolation.PercolationByImmFrac makePerclationByImmFracSource()

makeChi4Source

public DataSourcePercolation.Chi4Source makeChi4Source()