pal.distance
Class ReadDistanceMatrix

java.lang.Object
  pal.distance.DistanceMatrix
      pal.distance.ReadDistanceMatrix

All Implemented Interfaces:

java.io.Serializable, IdGroup

public class ReadDistanceMatrix
extends DistanceMatrix

reads pairwise distance matrices in PHYLIP format (full matrix)

Version:

$Id: ReadDistanceMatrix.java,v 1.4 2002/12/05 04:27:28 matt Exp $

Author:

Korbinian Strimmer, Alexei Drummond

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from interface pal.misc.IdGroup

IdGroup.Utils

Constructor Summary

ReadDistanceMatrix(java.io.PushbackReader input)
read from stream

ReadDistanceMatrix(java.lang.String file)
read from file

Method Summary

Methods inherited from class pal.distance.DistanceMatrix

absoluteDistance, addDistance, getClonedDistances, getClosestIndex, getClosestIndex, getDistance, getDistances, getIdCount, getIdentifier, getIdGroup, getSize, isSymmetric, meanDistance, printPHYLIP, setDistance, setDistances, setIdentifier, setIdGroup, squaredDistance, toString, whichIdNumber

Methods inherited from class java.lang.Object

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

Constructor Detail

ReadDistanceMatrix

public ReadDistanceMatrix(java.io.PushbackReader input)
                   throws DistanceParseException

read from stream

Throws:

DistanceParseException

ReadDistanceMatrix

public ReadDistanceMatrix(java.lang.String file)
                   throws DistanceParseException,
                          java.io.IOException

read from file

Throws:

DistanceParseException

java.io.IOException