org.forester.phylogeny.data
Class PropertiesMap

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

All Implemented Interfaces:

PhylogenyData

public class PropertiesMap
extends Object
implements PhylogenyData

Constructor Summary

PropertiesMap()

Method Summary

void	addProperty(Property property)
StringBuffer	asSimpleText()
StringBuffer	asText()
PhylogenyData	copy() Creates a new PhylogenyData object with identical values as this PhylogenyData.
SortedMap<String,Property>	getProperties()
Property[]	getPropertiesArray()
Property	getProperty(String ref)
String[]	getPropertyRefs() Returns all property refs of this PhylogenyNode as String array.
boolean	isEqual(PhylogenyData data) Compares this PhylogenyData to PhylogenyData data.
boolean	refExists(String ref)
StringBuffer	toNHX()
void	toPhyloXML(Writer writer, int level, String indentation) Writes a phyloXML representation of this phylogeny data.
String	toString()

Methods inherited from class java.lang.Object

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

Constructor Detail

PropertiesMap

public PropertiesMap()

Method Detail

addProperty

public void addProperty(Property property)
                 throws IllegalArgumentException

Throws:

IllegalArgumentException

asSimpleText

public StringBuffer asSimpleText()

Specified by:

asSimpleText in interface PhylogenyData

asText

public 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

getProperties

public SortedMap<String,Property> getProperties()

getPropertiesArray

public Property[] getPropertiesArray()

getProperty

public Property getProperty(String ref)
                     throws IllegalArgumentException

Throws:

IllegalArgumentException

getPropertyRefs

public String[] getPropertyRefs()

Returns all property refs of this PhylogenyNode as String array.

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

refExists

public boolean refExists(String ref)

toNHX

public StringBuffer toNHX()

Specified by:

toNHX in interface PhylogenyData

toPhyloXML

public void toPhyloXML(Writer writer,
                       int level,
                       String indentation)
                throws IOException

Description copied from interface: PhylogenyData

Writes a phyloXML representation of this phylogeny data.

Specified by:

toPhyloXML in interface PhylogenyData

Throws:

IOException

toString

public String toString()

Overrides:

toString in class Object