edu.iastate.biocyc.dao.txt
Class BiocycGene

java.lang.Object
  edu.iastate.biocyc.dao.txt.AbstractBiocycElement
      edu.iastate.biocyc.dao.txt.BiocycGene

All Implemented Interfaces:

BiocycElement

public class BiocycGene
extends AbstractBiocycElement

gene object

Author:

Jie Li

Field Summary

(package private) static org.apache.log4j.Logger

logger log4j facility

Fields inherited from class edu.iastate.biocyc.dao.txt.AbstractBiocycElement

dataMap

Constructor Summary

BiocycGene(java.util.Map dataMap)
default constructor

Method Summary

Blockunit	createBlockunit(java.lang.String organism, java.lang.String username, java.lang.String source) create the blockunit
java.util.Collection	getDblinkList() get the external database link
java.lang.String	getLocation() get the gene location for database
java.lang.String	getProduct() get the gene product
static java.util.Map	toBiocycMap(java.util.Map dataMap) instance map contains the unique id key and biocyc element value

Methods inherited from class edu.iastate.biocyc.dao.txt.AbstractBiocycElement

adjustName, duplicatedName, getCitationList, getCommentList, getCommonName, getDataMap, getFirst, getSynonymList, getTypeList, getUniqueId, isNumeric, joinCommonProperties, joinConfidence, setDataMap

Methods inherited from class java.lang.Object

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

Field Detail

logger

static org.apache.log4j.Logger logger

log4j facility

Constructor Detail

BiocycGene

public BiocycGene(java.util.Map dataMap)

default constructor

Parameters:

dataMap - the attribute value map

Method Detail

getDblinkList

public java.util.Collection getDblinkList()

get the external database link

Returns:

the external database link

getProduct

public java.lang.String getProduct()

get the gene product

Returns:

gene product

getLocation

public java.lang.String getLocation()

get the gene location for database

Returns:

the location

toBiocycMap

public static java.util.Map toBiocycMap(java.util.Map dataMap)

instance map contains the unique id key and biocyc element value

Parameters:

dataMap - the data map

Returns:

the instance map

createBlockunit

public Blockunit createBlockunit(java.lang.String organism,
                                 java.lang.String username,
                                 java.lang.String source)

Description copied from interface: BiocycElement

create the blockunit

Specified by:

createBlockunit in interface BiocycElement

Specified by:

createBlockunit in class AbstractBiocycElement

Returns:

create the blockunit