org.forester.phylogeny.data
Class Uri

java.lang.Object
  org.forester.phylogeny.data.Uri

All Implemented Interfaces:

PhylogenyData

public class Uri
extends java.lang.Object
implements PhylogenyData

Constructor Summary

Uri(java.lang.String uri_str, java.lang.String description, java.lang.String type)

Uri(java.net.URI uri)

Uri(java.net.URI uri, java.lang.String description, java.lang.String type)

Method Summary

java.lang.StringBuffer	asSimpleText()
java.lang.StringBuffer	asText()
PhylogenyData	copy() Creates a new PhylogenyData object with identical values as this PhylogenyData.
java.lang.String	getDescription()
java.lang.String	getType()
java.net.URI	getValue()
boolean	isEqual(PhylogenyData data) Compares this PhylogenyData to PhylogenyData data.
java.lang.StringBuffer	toNHX()
void	toPhyloXML(java.io.Writer writer, int level, java.lang.String indentation) Writes a phyloXML representation of this phylogeny data.
java.lang.String	toString()

Methods inherited from class java.lang.Object

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

Constructor Detail

Uri

public Uri(java.lang.String uri_str,
           java.lang.String description,
           java.lang.String type)

Uri

public Uri(java.net.URI uri)

Uri

public Uri(java.net.URI uri,
           java.lang.String description,
           java.lang.String type)

Method Detail

asSimpleText

public java.lang.StringBuffer asSimpleText()

Specified by:

asSimpleText in interface PhylogenyData

asText

public java.lang.StringBuffer asText()

Specified by:

asText in interface PhylogenyData

copy

public PhylogenyData copy()

Description copied from interface: PhylogenyData

Creates a new PhylogenyData object with identical values as this PhylogenyData. This ~should~ return a deep copy, but not there yet.

Specified by:

copy in interface PhylogenyData

Returns:

a ~deep~ copy of this PhylogenyData

getDescription

public java.lang.String getDescription()

getType

public java.lang.String getType()

getValue

public java.net.URI getValue()

isEqual

public boolean isEqual(PhylogenyData data)

Description copied from interface: PhylogenyData

Compares this PhylogenyData to PhylogenyData data. In general, this should return true if and only if all fiels are exactly identical.

Specified by:

isEqual in interface PhylogenyData

Returns:

in general, true if and only if all fiels are exactly identical, false otherwise

toNHX

public java.lang.StringBuffer toNHX()

Specified by:

toNHX in interface PhylogenyData

toPhyloXML

public void toPhyloXML(java.io.Writer writer,
                       int level,
                       java.lang.String indentation)
                throws java.io.IOException

Description copied from interface: PhylogenyData

Writes a phyloXML representation of this phylogeny data.

Specified by:

toPhyloXML in interface PhylogenyData

Throws:

java.io.IOException

toString

public java.lang.String toString()

Overrides:

toString in class java.lang.Object