edu.iastate.biocyc.dao.txt
Class BiocycReaction

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

All Implemented Interfaces:

BiocycElement

public class BiocycReaction
extends AbstractBiocycElement

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

BiocycReaction(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
int	getCoefficient(java.lang.String component)
java.util.Collection	getDblinkList() get the external database link
java.lang.String	getECnumber() get the ec number of the reaction
java.util.Collection	getEnzrxnList() get the control interaction list
java.util.Collection	getLeftList() get left list
java.util.Collection	getRightList() get right list
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

BiocycReaction

public BiocycReaction(java.util.Map dataMap)

default constructor

Parameters:

dataMap - the attribute map

Method Detail

getLeftList

public java.util.Collection getLeftList()

get left list

Returns:

left list

getCoefficient

public int getCoefficient(java.lang.String component)

getRightList

public java.util.Collection getRightList()

get right list

Returns:

right list

getEnzrxnList

public java.util.Collection getEnzrxnList()

get the control interaction list

Returns:

the control interaction list

getDblinkList

public java.util.Collection getDblinkList()

get the external database link

Returns:

the external database link

getECnumber

public java.lang.String getECnumber()

get the ec number of the reaction

Returns:

the ec number of the reaction

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