org.biopax.paxtools.impl.level2
Class smallMoleculeImpl

java.lang.Object
  org.biopax.paxtools.impl.level2.bioPAXElementImpl
      org.biopax.paxtools.impl.level2.entityImpl
          org.biopax.paxtools.impl.level2.physicalEntityImpl
              org.biopax.paxtools.impl.level2.smallMoleculeImpl

All Implemented Interfaces:

BioPAXElement, entity, InteractionParticipant, physicalEntity, smallMolecule, XReferrable

public class smallMoleculeImpl
extends physicalEntityImpl
implements smallMolecule

Field Summary

Fields inherited from interface org.biopax.paxtools.model.level2.BioPAXElement

UNKNOWN_DOUBLE, UNKNOWN_FLOAT, UNKNOWN_INT

Fields inherited from interface org.biopax.paxtools.model.level2.BioPAXElement

UNKNOWN_DOUBLE, UNKNOWN_FLOAT, UNKNOWN_INT

Fields inherited from interface org.biopax.paxtools.model.level2.BioPAXElement

UNKNOWN_DOUBLE, UNKNOWN_FLOAT, UNKNOWN_INT

Constructor Summary

smallMoleculeImpl()

Method Summary

void	addSTRUCTURE(chemicalStructure STRUCTURE)
java.lang.String	getCHEMICAL_FORMULA()
java.lang.Class	getModelInterface()
double	getMOLECULAR_WEIGHT()
java.util.Set<chemicalStructure>	getSTRUCTURE()
void	removeSTRUCTURE(chemicalStructure STRUCTURE)
void	setCHEMICAL_FORMULA(java.lang.String CHEMICAL_FORMULA) A string representing the Chemical Formula of this small molecule.
void	setMOLECULAR_WEIGHT(double MOLECULAR_WEIGHT)
void	setSTRUCTURE(java.util.Set<chemicalStructure> STRUCTURE) Setter for Structure.

Methods inherited from class org.biopax.paxtools.impl.level2.physicalEntityImpl

addPHYSICAL_ENTITYof, equivalenceCode, isEquivalent, isPHYSICAL_ENTITYof

Methods inherited from class org.biopax.paxtools.impl.level2.entityImpl

addAVAILABILITY, addDATA_SOURCE, addSYNONYMS, addXREF, getAVAILABILITY, getDATA_SOURCE, getNAME, getSHORT_NAME, getSYNONYMS, getXREF, isPARTICIPANTSof, removeAVAILABILITY, removeDATA_SOURCE, removeSYNONYMS, removeXREF, setAVAILABILITY, setDATA_SOURCE, setNAME, setSHORT_NAME, setSYNONYMS, setXREF

Methods inherited from class org.biopax.paxtools.impl.level2.bioPAXElementImpl

addCOMMENT, equals, getCOMMENT, getRDFId, hashCode, removeCOMMENT, setCOMMENT, setRDFId

Methods inherited from class java.lang.Object

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

Methods inherited from interface org.biopax.paxtools.model.level2.physicalEntity

isPHYSICAL_ENTITYof

Methods inherited from interface org.biopax.paxtools.model.level2.entity

addAVAILABILITY, addDATA_SOURCE, addSYNONYMS, getAVAILABILITY, getDATA_SOURCE, getNAME, getSHORT_NAME, getSYNONYMS, removeAVAILABILITY, removeDATA_SOURCE, removeSYNONYMS, setAVAILABILITY, setDATA_SOURCE, setNAME, setSHORT_NAME, setSYNONYMS

Methods inherited from interface org.biopax.paxtools.model.level2.BioPAXElement

addCOMMENT, equivalenceCode, getCOMMENT, getRDFId, isEquivalent, removeCOMMENT, setCOMMENT, setRDFId

Methods inherited from interface org.biopax.paxtools.model.level2.XReferrable

addXREF, getXREF, removeXREF, setXREF

Methods inherited from interface org.biopax.paxtools.model.level2.BioPAXElement

addCOMMENT, equivalenceCode, getCOMMENT, getRDFId, isEquivalent, removeCOMMENT, setCOMMENT, setRDFId

Methods inherited from interface org.biopax.paxtools.model.level2.InteractionParticipant

isPARTICIPANTSof

Methods inherited from interface org.biopax.paxtools.model.level2.BioPAXElement

addCOMMENT, equivalenceCode, getCOMMENT, getRDFId, isEquivalent, removeCOMMENT, setCOMMENT, setRDFId

Constructor Detail

smallMoleculeImpl

public smallMoleculeImpl()

Method Detail

getModelInterface

public java.lang.Class getModelInterface()

Specified by:

getModelInterface in interface BioPAXElement

Overrides:

getModelInterface in class physicalEntityImpl

getCHEMICAL_FORMULA

public java.lang.String getCHEMICAL_FORMULA()

Specified by:

getCHEMICAL_FORMULA in interface smallMolecule

setCHEMICAL_FORMULA

public void setCHEMICAL_FORMULA(java.lang.String CHEMICAL_FORMULA)

A string representing the Chemical Formula of this small molecule.

Specified by:

setCHEMICAL_FORMULA in interface smallMolecule

Parameters:

CHEMICAL_FORMULA - must not be empty. Can be in CML, SMILES or InChI

getMOLECULAR_WEIGHT

public double getMOLECULAR_WEIGHT()

Specified by:

getMOLECULAR_WEIGHT in interface smallMolecule

setMOLECULAR_WEIGHT

public void setMOLECULAR_WEIGHT(double MOLECULAR_WEIGHT)

Specified by:

setMOLECULAR_WEIGHT in interface smallMolecule

getSTRUCTURE

public java.util.Set<chemicalStructure> getSTRUCTURE()

Specified by:

getSTRUCTURE in interface smallMolecule

setSTRUCTURE

public void setSTRUCTURE(java.util.Set<chemicalStructure> STRUCTURE)

Setter for Structure. This method does not validate or maintain internal links. This method is reserved for performance critical load operation. Use #addStructure for regular manipuation,

Specified by:

setSTRUCTURE in interface smallMolecule

addSTRUCTURE

public void addSTRUCTURE(chemicalStructure STRUCTURE)

Specified by:

addSTRUCTURE in interface smallMolecule

removeSTRUCTURE

public void removeSTRUCTURE(chemicalStructure STRUCTURE)

Specified by:

removeSTRUCTURE in interface smallMolecule