org.forester.phylogeny.data

Class Accession

java.lang.Object

org.forester.phylogeny.data.Accession

All Implemented Interfaces:

Comparable<Accession>, PhylogenyData

public final class Accession
extends Object
implements PhylogenyData, Comparable<Accession>

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	Accession.Source

Constructor Summary

Constructors

Constructor and Description
Accession(String value)
Accession(String value, Accession.Source source)
Accession(String value, String source)
Accession(String value, String source, String comment)

Method Summary

Modifier and Type	Method and Description
StringBuffer	asSimpleText()
StringBuffer	asText()
int	compareTo(Accession o)
PhylogenyData	copy() Creates a new PhylogenyData object with identical values as this PhylogenyData.
boolean	equals(Object o)
String	getComment()
String	getSource()
String	getValue()
int	hashCode()
boolean	isEqual(PhylogenyData data) Compares this PhylogenyData to PhylogenyData data.
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, finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Detail

Accession

public Accession(String value)

Accession

public Accession(String value,
                 String source)

Accession

public Accession(String value,
                 Accession.Source source)

Accession

public Accession(String value,
                 String source,
                 String comment)

Method Detail

asSimpleText

public StringBuffer asSimpleText()

Specified by:

asSimpleText in interface PhylogenyData

asText

public StringBuffer asText()

Specified by:

asText in interface PhylogenyData

compareTo

public int compareTo(Accession o)

Specified by:

compareTo in interface Comparable<Accession>

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

equals

public boolean equals(Object o)

Overrides:

equals in class Object

getComment

public String getComment()

getSource

public String getSource()

getValue

public String getValue()

hashCode

public int hashCode()

Overrides:

hashCode in class Object

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 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