Package etomica.data

Interface Summary

Interface	Description
AccumulatorAverageBootstrap.HistogramFactory
DataDistributer.Indexer
DataLogger.DataWriter	Interface for a DataSink that actually writes data to a file
DataPipe	Interface for an object through which data can flow.
DataPipeForked
DataSetListener	Interface for a class that performs some action in response to a change in a DataSet instance.
DataSourceAtomic	Interface for a DataSource that can return a value given an arbitrary atom.
DataSourceIndependent	Interface for an object that can provide X Data objects on request.
DataSourceMolecular	Interface for a DataSource that can return a value given an arbitrary atom.
DataSourcePositioned	Interface for a DataSource that can return a value given an arbitrary position.
DataSplitter.IDataSinkFactory
DataTableListener	Interface for a class that performs some action in response to a change in a DataSinkTable instance.
FunctionData<T>	Interface for the basic features of a general function that maps an object into Data.
IData	Abstract container of simulation data and information describing it.
IDataInfo
IDataInfoFactory
IDataSink	A recipient of Data.
IDataSource	Interface for an object that can provide IData objects on request.

Class Summary

Class	Description
AccumulatorAverage	Accumulator that keeps statistics for averaging and error analysis.
AccumulatorAverage.StatType	Enumerated type that can be used to indicate the statistic to be taken from the accumulator (e.g., average, error, current value, etc.).
AccumulatorAverageBlockless	AccumulatorAverage that does not use blocks (best used when each sample is independent).
AccumulatorAverageBlockless.AllData
AccumulatorAverageBlockless.StatType	Enumerated type that can be used to indicated the statistic to be taken from the accumulator (e.g., average, error, current value, etc.).
AccumulatorAverageBlocklessSlim	AccumulatorAverage that does not use blocks (best used when each sample is independent).
AccumulatorAverageBlocklessSlim.StatType	Enumerated type that can be used to indicated the statistic to be taken from the accumulator (e.g., average, error, current value, etc.).
AccumulatorAverageBootstrap	AccumulatorAverage that keeps track of block averages and standard deviations corresponding to all block sizes from 1 to the n where n is the largest power of 2 less than the current number of samples.
AccumulatorAverageCollapsing	AccumulatorAverage that adjusts the block size during the simulation.
AccumulatorAverageCollapsingLog	AccumulatorAverage that keeps track of block averages and standard deviations corresponding to all block sizes from 1 to the n where n is the largest power of 2 less than the current number of samples.
AccumulatorAverageCollapsingLogAB
AccumulatorAverageCovariance	Class that does the work of AccumulatorAverageFixed and also calculates the covariance of the incoming data values (the covariance of each value with each other value, as well as itself (which is actually its standard deviation)) as well as the covariance of the block averages of the different data quantities.
AccumulatorAverageFixed	AccumulatorAverage that maintains a fixed block size.
AccumulatorAverageFixedOutputFile	AccumulatorAverage that maintains a fixed block size.
AccumulatorCounter	Data processor that simply counts the number of times its addData method is invoked.
AccumulatorHistogram	Accumulator that keeps histogram of data.
AccumulatorHistory	Accumulator that keeps history of data.
AccumulatorHistory.DataSourceCount	Simple DataSource to use as a default time DataSource.
AccumulatorRatioAverageCovariance	Accumulator for calculating ratio between sums.
AccumulatorRatioAverageCovarianceFull	Accumulator for calculating ratio between sums.
DataAccumulator	DataProcessor that accumulates and transforms given data and intermittently transmits processed data to other DataSink(s).
DataArrayWriter	A DataWriter that writes out data as a table with optional column headings
DataDistributer	DataSink that takes a Data object and pushes it to a dataSink chosen by an indexer.
DataDump	DataDump acts both as a DataSink and a DataSource.
DataFork	DataSink that takes a data stream and forwards it across multiple sinks.
DataGroupFilter	Extracts one or more of the Data instances wrapped in a DataGroup.
DataGroupSplitter	DataSink that takes a DataGroup object and pushes each sub-Data object from the incoming DataGroup to a different stream.
DataInfo	Object associated with a Data instance and which provides descriptive information about the data encapsulated in it.
DataInfoFactory	Interface for a mutable DataInfo factory.
DataLogger	DataSink that manages a FileWriter and also listens to non-interval integrator events and sends appropriate data to a DataWriter.
DataProcessor	An object that receives Data, processes it, and pushes the result on to a DataSink.
DataProcessorChemicalPotential	DataProcessor that takes as input the average density and average Boltzmann factor profiles and calculates the chemical potential profile as the sum of the ideal gas contribution (kT ln()) and the excess chemical potential, (-kT ln()).
DataProcessorForked	A DataProcessor that can handle multiple sinks, passing the same Data to each.
DataProcessorFunction	Applies a simple scalar function to all elements of the Data that passes through.
DataProcessorInterfacialTension	Data Processor that takes the virial components as input data and returns the interfacial tension.
DataPump	A DataProcessor whose action is to actively take Data from a DataSource and send it to DataSinks.
DataPumpListener
DataPumpListenerPow	DataPump class that takes data at steps 2^i, i=0,1,2,3...
DataPumpListenerPowStrict	DataPump class that takes data at steps pow^i, i=0,1,2,3...
DataPumpListenerSmart	Works with an instance of HistoryCollapsingDiscard to only retrieve new data from the datasource when the history will actually use the data.
DataSet	Receives and organizes data from multiple streams.
DataSet.DataSetSink	A special DataSink used by the DataSet to receive Data and DataInfo from a single stream.
DataSinkConsole	Writes data to console or another print stream.
DataSinkTable	Receives data from multiple streams and organizes it in the form of a table, with each stream of data forming a column of the table.
DataSourceAcceptanceProbability	Data source giving the average acceptance probability of MCMove type moves.
DataSourceAcceptanceRatio	Data source giving the acceptance rate of MCMove type moves.
DataSourceAtomDistance
DataSourceCountCollisions	This is a data source to count the number of collisions processed by a hard-potential integrator.
DataSourceCountSteps	Data source that fronts the Integrator's step count as a piece of Data.
DataSourceCountTime	Data source that returns the elapsed simulation time of an MD integrator.
DataSourceFunction	Datasource formed as a wrapper around a function.
DataSourceGroup	Collects one or more data sources into a single DataSource.
DataSourceIndependentSimple	A simple implementation of DataSourceIndependent objects can use if they cannot act as the DataSourceIndependent themselves (if perhaps they make multiple DataFunctions)
DataSourcePoints
DataSourcePositionedBoltzmannFactor	Calculates the Boltzmann factor at a position within a box a molecule of a particular species would have if it existed at that point.
DataSourceRmsVelocity	Meter for the root-mean-square velocity of a set of atoms.
DataSourceScalar	Particular data source for which the data is a simple scalar of type double.
DataSourceTensorVirialHard	A MeterTensor that returns the virial component of the pressure tensor for a hard potential.
DataSourceUniform	A DataSource object that provides a set of uniformly spaced values between two limits.
DataSplitter	DataSink that takes a Data object and pushes each numerical value from the incoming Data to a different stream.
DataStreamAction
DataTableAverages	Convenience class for a data table that collects the AccumulatorAverage statistics for a collection of DataSource instances.
DataTableWriter	A DataWriter that writes out data as a table with optional column headings
DataTag	Data stream identifier.
HistogramDataSource	DataSource that simply exposes a Histogram as a DataFunction.

Enum Summary

Enum	Description
DataSourceUniform.LimitType	Typed constant that indicates the way limits of the range are interpreted.