org.forester.phylogeny.factories
Class ParserBasedPhylogenyFactory

java.lang.Object
  org.forester.phylogeny.factories.BasicPhylogenyFactory
      org.forester.phylogeny.factories.ParserBasedPhylogenyFactory

All Implemented Interfaces:

PhylogenyFactory

public class ParserBasedPhylogenyFactory
extends BasicPhylogenyFactory

Method Summary

java.lang.Object	clone()
Phylogeny[]	create(java.lang.Object source, java.lang.Object parser, java.util.List<java.lang.Object> parameters) This must create a Phylogeny from source (e.g.
Phylogeny[]	create(java.lang.Object source, java.lang.Object parser, java.lang.String schema_location, java.util.List<java.lang.Object> parameters)
static PhylogenyFactory	getInstance()

Methods inherited from class org.forester.phylogeny.factories.BasicPhylogenyFactory

create, create

Methods inherited from class java.lang.Object

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

Method Detail

clone

public java.lang.Object clone()
                       throws java.lang.CloneNotSupportedException

Overrides:

clone in class java.lang.Object

Throws:

java.lang.CloneNotSupportedException

create

public Phylogeny[] create(java.lang.Object source,
                          java.lang.Object parser,
                          java.util.List<java.lang.Object> parameters)
                   throws java.io.IOException

Description copied from interface: PhylogenyFactory

This must create a Phylogeny from source (e.g. an XML file, an alignment, pairwise distances) by using creator (e.g. an XML file parser, an algorithm implementation) with parameters listed in parameters.

Parameters:

source - a source to create a Phylogeny from

parser - a means to create a Phylogeny

parameters - a List of parameters for Phylogeny creation

Returns:

a Phylogeny[] based on argument source

Throws:

java.io.IOException

create

public Phylogeny[] create(java.lang.Object source,
                          java.lang.Object parser,
                          java.lang.String schema_location,
                          java.util.List<java.lang.Object> parameters)
                   throws java.io.IOException

Throws:

java.io.IOException

getInstance

public static PhylogenyFactory getInstance()