org.forester.phylogeny.data
Class Identifier

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

All Implemented Interfaces:

PhylogenyData

public final class Identifier
extends java.lang.Object
implements PhylogenyData

Field Summary

static java.lang.String	NCBI
static java.lang.String	REFSEQ

Constructor Summary

Identifier()

Identifier(java.lang.String value)

Identifier(java.lang.String value, java.lang.String provider)

Method Summary

java.lang.StringBuffer	asSimpleText()
java.lang.StringBuffer	asText()
PhylogenyData	copy() Creates a new PhylogenyData object with identical values as this PhylogenyData.
boolean	equals(java.lang.Object o)
java.lang.String	getProvider()
java.lang.String	getValue()
java.lang.String	getValuePlusProvider()
int	hashCode()
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, finalize, getClass, notify, notifyAll, wait, wait, wait

Field Detail

NCBI

public static final java.lang.String NCBI

See Also:

Constant Field Values

REFSEQ

public static final java.lang.String REFSEQ

See Also:

Constant Field Values

Constructor Detail

Identifier

public Identifier()

Identifier

public Identifier(java.lang.String value)

Identifier

public Identifier(java.lang.String value,
                  java.lang.String provider)

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

getValuePlusProvider

public java.lang.String getValuePlusProvider()

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(java.lang.Object o)

Overrides:

equals in class java.lang.Object

getProvider

public java.lang.String getProvider()

getValue

public java.lang.String getValue()

hashCode

public int hashCode()

Overrides:

hashCode in class java.lang.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 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