apollo.dataadapter.genbank
Class PublicDbFeature

java.lang.Object
  apollo.dataadapter.genbank.PublicDbFeature

public class PublicDbFeature
extends java.lang.Object

A value class for the different types of Data input

Field Summary

protected static org.apache.log4j.Logger

logger

Constructor Summary

protected

PublicDbFeature(GenbankRead parent)

Method Summary

protected boolean	addToFeature(java.lang.String current_line)
protected boolean	forSameFeature(java.lang.String current_line)
protected int	getCodonStart()
protected java.util.HashMap	getDbXrefs()
protected java.lang.String	getFeatureType()
protected java.lang.String	getFeatureType(java.lang.String current_line)
protected java.util.Vector	getLocation()
protected java.util.Vector	getSynonyms()
protected java.util.HashMap	getTagValues()
protected java.lang.String	getValue(java.lang.String tag)
protected java.util.Vector	getValues(java.lang.String tag)
protected void	initLocations()
protected void	initSynonyms()
protected boolean	missing5prime()
java.lang.String	toString()

Methods inherited from class java.lang.Object

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

Field Detail

logger

protected static final org.apache.log4j.Logger logger

Constructor Detail

PublicDbFeature

protected PublicDbFeature(GenbankRead parent)

Method Detail

getFeatureType

protected java.lang.String getFeatureType(java.lang.String current_line)

getFeatureType

protected java.lang.String getFeatureType()

forSameFeature

protected boolean forSameFeature(java.lang.String current_line)

addToFeature

protected boolean addToFeature(java.lang.String current_line)

getValues

protected java.util.Vector getValues(java.lang.String tag)

getTagValues

protected java.util.HashMap getTagValues()

getValue

protected java.lang.String getValue(java.lang.String tag)

getDbXrefs

protected java.util.HashMap getDbXrefs()

getSynonyms

protected java.util.Vector getSynonyms()

missing5prime

protected boolean missing5prime()

getCodonStart

protected int getCodonStart()

initSynonyms

protected void initSynonyms()

toString

public java.lang.String toString()

Overrides:

toString in class java.lang.Object

getLocation

protected java.util.Vector getLocation()

initLocations

protected void initLocations()