smueller.datastructure

Class AlignmentOutput

java.lang.Object

smueller.datastructure.AlignmentOutput

public class AlignmentOutput
extends Object

Author:

Soeren Mueller, smueller@cebitec.uni-bielefeld.de

Constructor Summary

Constructors

Constructor and Description
AlignmentOutput()

Method Summary

Methods

Modifier and Type	Method and Description
ArrayList<Tuple2DI>	getAl()
ArrayList<Tuple2DI>	getAsPairList(int[][] path)
PairwiseAlignment	getResult()
void	writefile(String a, String b, Vector<OptimalAlignmentVector> all, double[][] matrix, String format, double[][] dima, String location, int alnumber, Alignment ali, int aoriglen, int boriglen, IWorkflow iw)

Methods inherited from class java.lang.Object

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

Constructor Detail

AlignmentOutput

public AlignmentOutput()

Method Detail

getAl

public ArrayList<Tuple2DI> getAl()

Returns:

getAsPairList

public ArrayList<Tuple2DI> getAsPairList(int[][] path)

Parameters:

path -

Returns:

getResult

public PairwiseAlignment getResult()

Returns:

writefile

public void writefile(String a,
             String b,
             Vector<OptimalAlignmentVector> all,
             double[][] matrix,
             String format,
             double[][] dima,
             String location,
             int alnumber,
             Alignment ali,
             int aoriglen,
             int boriglen,
             IWorkflow iw)

Parameters:

a -

b -

all -

matrix -

format -

dima -

location -

alnumber -

ali -

aoriglen -

boriglen -

iw -