edu.iastate.biocyc.dao.txt
Class BiocycCompound

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

All Implemented Interfaces:

BiocycElement

public class BiocycCompound
extends AbstractBiocycElement

biocyc compound

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

BiocycCompound(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	getMolecularWeight() get the molecular weight of the compound
java.lang.String	getSmiles() get the SMILES formula
java.lang.String	getSystematicName() get the systematic name
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

BiocycCompound

public BiocycCompound(java.util.Map dataMap)

default constructor

Parameters:

dataMap - the data map

Method Detail

getMolecularWeight

public java.lang.String getMolecularWeight()

get the molecular weight of the compound

Returns:

the molecular weight

getDblinkList

public java.util.Collection getDblinkList()

get the external database link

Returns:

the external database link

getSmiles

public java.lang.String getSmiles()

get the SMILES formula

Returns:

the SMILES formula

getSystematicName

public java.lang.String getSystematicName()

get the systematic name

Returns:

the systematic name

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