net.sourceforge.cilib.bioinf.sequencealignment
Class FASTADataSetBuilder

java.lang.Object
  net.sourceforge.cilib.problem.dataset.DataSetBuilder
      net.sourceforge.cilib.bioinf.sequencealignment.FASTADataSetBuilder

All Implemented Interfaces:

Serializable, Iterable<DataSet>, Cloneable

public class FASTADataSetBuilder
extends DataSetBuilder

Builds the input data set that gets fed as sequences to be aligned. Input sequences must be in the FASTA format.

Author:

Fabien Zablocki

See Also:

Serialized Form

Field Summary

Fields inherited from class net.sourceforge.cilib.problem.dataset.DataSetBuilder

dataSets

Constructor Summary

FASTADataSetBuilder()
Create an instance of FASTADataSetBuilder.

FASTADataSetBuilder(FASTADataSetBuilder copy)
Copy constructor.

Method Summary

FASTADataSetBuilder	getClone() Create a cloned copy of the current object and return it.
ArrayList<String>	getStrings() Get the list of build Strings.
void	initialise()

Methods inherited from class net.sourceforge.cilib.problem.dataset.DataSetBuilder

addDataSet, getDataSet, iterator, uninitialise

Methods inherited from class java.lang.Object

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

Constructor Detail

FASTADataSetBuilder

public FASTADataSetBuilder()

Create an instance of FASTADataSetBuilder.

FASTADataSetBuilder

public FASTADataSetBuilder(FASTADataSetBuilder copy)

Copy constructor. Copy the given instane.

Parameters:

copy - The instance to copy.

Method Detail

getClone

public FASTADataSetBuilder getClone()

Create a cloned copy of the current object and return it. In general the created copy will be a deep copy of the provided instance. As a result this operation an be quite expensive if used incorrectly.

Specified by:

getClone in interface Cloneable

Specified by:

getClone in class DataSetBuilder

Returns:

An exact clone of the current object instance.

See Also:

Object.clone()

initialise

public void initialise()

Specified by:

initialise in class DataSetBuilder

getStrings

public ArrayList<String> getStrings()

Get the list of build Strings.

Returns:

The list of Strings.