pal.misc
Interface IdGroup

All Superinterfaces:

java.io.Serializable

All Known Subinterfaces:

Alignment, AnnotationAlignment, CharacterAlignment, ParameterizedTree, Tree

All Known Implementing Classes:

AbstractAlignment, AlignmentDistanceMatrix, AlignmentReaders.PhylipClustalAlignment, AlignmentReaders.UnalignedAlignment, BootstrappedAlignment, ClockTree, ClusterTree, ConcatenatedAlignment, ConcatenatedAnnotatedAlignment, DemographicClockTree, DistanceMatrix, GapBalancedAlignment, IndelAlignment, IndelAnnotatedAlignment, JukesCantorDistanceMatrix, JumbledAlignment, LogParameterizedTree, MultiLocusAnnotatedAlignment, MutationRateModelTree, NeighborJoiningTree, ParameterizedTree.ParameterizedTreeBase, ReadAlignment, ReadAlignmentOld, ReadDistanceMatrix, ReadTree, SimpleAlignment, SimpleAnnotatedAlignment, SimpleCharacterAlignment, SimpleIdGroup, SimpleTree, SimulatedAlignment, SitePattern, StrippedAlignment, StrippedAnnotatedAlignment, SUPGMADistanceMatrix, SUPGMATree, TimeOrderCharacterData, Tree.TreeBase, TreeDistanceMatrix, UnconstrainedTree, UPGMATree

public interface IdGroup
extends java.io.Serializable

An indexed group of identifiers. For example of group of taxa related by a phylogenetic tree.
NOTE: Was called Taxa but not general enough.

Version:

$Id: IdGroup.java,v 1.10 2002/10/27 05:46:28 matt Exp $

Author:

Alexei Drummond

Nested Class Summary

static class

IdGroup.Utils

Method Summary

int	getIdCount() Returns the number of identifiers in this group
Identifier	getIdentifier(int i) Returns the ith identifier.
void	setIdentifier(int i, Identifier id) Sets the ith identifier.
int	whichIdNumber(java.lang.String name) returns the index of the identifier with the given name.

Method Detail

getIdCount

int getIdCount()

Returns the number of identifiers in this group

getIdentifier

Identifier getIdentifier(int i)

Returns the ith identifier.

setIdentifier

void setIdentifier(int i,
                   Identifier id)

Sets the ith identifier.

whichIdNumber

int whichIdNumber(java.lang.String name)

returns the index of the identifier with the given name.