@Entity @Indexed public class BiochemicalReactionImpl extends ConversionImpl implements BiochemicalReaction
FIELD_AVAILABILITY, FIELD_COMMENT, FIELD_DATASOURCE, FIELD_ECNUMBER, FIELD_KEYWORD, FIELD_NAME, FIELD_ORGANISM, FIELD_PATHWAY, FIELD_SEQUENCE, FIELD_TERM, FIELD_XREFDB, FIELD_XREFID, FILTER_BY_DATASOURCE, FILTER_BY_ORGANISM
UNKNOWN_DOUBLE, UNKNOWN_FLOAT, UNKNOWN_INT
Constructor and Description |
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BiochemicalReactionImpl() |
Modifier and Type | Method and Description |
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void |
addDeltaG(DeltaG deltaG)
Standard transformed Gibbs energy change for a reaction written in terms of biochemical
reactants (sums of species), delta-G'o.
|
void |
addDeltaH(float deltaH)
For biochemical reactions this property refers to the standard transformed enthalpy change for a reaction
written in terms of biochemical reactants (sums of species), delta-H'o.
|
void |
addDeltaS(float deltaS)
For biochemical reactions, this property refers to the standard transformed entropy change for a reaction
written in terms of biochemical reactants (sums of species), delta-S'o.
|
void |
addECNumber(String eCNumber)
The unique number assigned to a reaction by the Enzyme Commission of the International Union of Biochemistry
and Molecular Biology.
|
void |
addKEQ(KPrime kEQ)
This quantity is dimensionless and is usually a single number.
|
Set<DeltaG> |
getDeltaG()
Standard transformed Gibbs energy change for a reaction written in terms of biochemical
reactants (sums of species), delta-G'o.
|
Set<Float> |
getDeltaH()
For biochemical reactions this property refers to the standard transformed enthalpy change for a reaction
written in terms of biochemical reactants (sums of species), delta-H'o.
|
Set<Float> |
getDeltaS()
For biochemical reactions, this property refers to the standard transformed entropy change for a reaction
written in terms of biochemical reactants (sums of species), delta-S'o.
|
Set<String> |
getECNumber()
The unique number assigned to a reaction by the Enzyme Commission of the International Union of Biochemistry
and Molecular Biology.
|
Set<KPrime> |
getKEQ()
This quantity is dimensionless and is usually a single number.
|
Class<? extends BiochemicalReaction> |
getModelInterface()
This method returns the actual model interface that a class implements.
|
void |
removeDeltaG(DeltaG deltaG)
Standard transformed Gibbs energy change for a reaction written in terms of biochemical
reactants (sums of species), delta-G'o.
|
void |
removeDeltaH(float deltaH)
For biochemical reactions this property refers to the standard transformed enthalpy change for a reaction
written in terms of biochemical reactants (sums of species), delta-H'o.
|
void |
removeDeltaS(float deltaS)
For biochemical reactions, this property refers to the standard transformed entropy change for a reaction
written in terms of biochemical reactants (sums of species), delta-S'o.
|
void |
removeECNumber(String eCNumber)
The unique number assigned to a reaction by the Enzyme Commission of the International Union of Biochemistry
and Molecular Biology.
|
void |
removeKEQ(KPrime kEQ)
This quantity is dimensionless and is usually a single number.
|
protected void |
setDeltaG(Set<DeltaG> deltaG) |
protected void |
setDeltaH(Set<Float> deltaH) |
protected void |
setDeltaS(Set<Float> deltaS) |
protected void |
setECNumber(Set<String> eCNumber) |
protected void |
setKEQ(Set<KPrime> kEQ) |
addLeft, addParticipantStoichiometry, addRight, equivalenceCode, getConversionDirection, getLeft, getParticipantStoichiometry, getRight, getSpontaneous, removeLeft, removeParticipantStoichiometry, removeRight, semanticallyEquivalent, setConversionDirection, setLeft, setParticipantStoichiometry, setRight, setSpontaneous
addInteractionType, addParticipant, getInteractionType, getParticipant, removeInteractionType, removeParticipant, setInteractionType, setParticipant
getControlledOf, getPathwayComponentOf, getStepProcessOf, setControlledOf, setPathwayComponentOf, setStepProcessOf
addAvailability, addDataSource, addEvidence, getAvailability, getDataSource, getEvidence, getParticipantOf, removeAvailability, removeDataSource, removeEvidence, setAvailability, setDataSource, setEvidence, setParticipantOf
addName, getDisplayName, getDisplayNameX, getName, getStandardName, getStandardNameX, removeName, setDisplayName, setDisplayNameX, setName, setStandardName, setStandardNameX
addXref, getXref, removeXref, setXref
addComment, getComment, getDatasources, getKeywords, getOrganisms, getParentPathways, removeComment, setComment
equals, getAnnotations, getPk, getRDFId, hashCode, isEquivalent, toString
clone, finalize, getClass, notify, notifyAll, wait, wait, wait
addLeft, addParticipantStoichiometry, addRight, getConversionDirection, getLeft, getParticipantStoichiometry, getRight, getSpontaneous, removeLeft, removeParticipantStoichiometry, removeRight, setConversionDirection, setSpontaneous
addInteractionType, addParticipant, getInteractionType, getParticipant, removeInteractionType, removeParticipant
getControlledOf, getPathwayComponentOf, getStepProcessOf
addAvailability, addDataSource, getAvailability, getDataSource, getParticipantOf, removeAvailability, removeDataSource
addEvidence, getEvidence, removeEvidence
addName, getDisplayName, getName, getStandardName, removeName, setDisplayName, setName, setStandardName
addXref, getXref, removeXref
addComment, getComment, removeComment
equivalenceCode, getAnnotations, getRDFId, isEquivalent
public BiochemicalReactionImpl()
public Class<? extends BiochemicalReaction> getModelInterface()
BioPAXElement
getModelInterface
in interface BioPAXElement
getModelInterface
in class ConversionImpl
org.biopax.paxtools.model
package
corresponding to a BioPAX class.public Set<DeltaG> getDeltaG()
BiochemicalReaction
getDeltaG
in interface BiochemicalReaction
public void addDeltaG(DeltaG deltaG)
BiochemicalReaction
addDeltaG
in interface BiochemicalReaction
deltaG
- to be added.public void removeDeltaG(DeltaG deltaG)
BiochemicalReaction
removeDeltaG
in interface BiochemicalReaction
deltaG
- to be removed.public Set<Float> getDeltaH()
BiochemicalReaction
getDeltaH
in interface BiochemicalReaction
public void addDeltaH(float deltaH)
BiochemicalReaction
addDeltaH
in interface BiochemicalReaction
deltaH
- standard transformed enthalpy changepublic void removeDeltaH(float deltaH)
BiochemicalReaction
removeDeltaH
in interface BiochemicalReaction
deltaH
- standard transformed enthalpy changepublic Set<Float> getDeltaS()
BiochemicalReaction
getDeltaS
in interface BiochemicalReaction
public void addDeltaS(float deltaS)
BiochemicalReaction
addDeltaS
in interface BiochemicalReaction
deltaS
- valuepublic void removeDeltaS(float deltaS)
BiochemicalReaction
removeDeltaS
in interface BiochemicalReaction
deltaS
- value@Field(name="ecnumber", analyze=YES) @FieldBridge(impl=SetStringBridge.class) public Set<String> getECNumber()
BiochemicalReaction
getECNumber
in interface BiochemicalReaction
protected void setECNumber(Set<String> eCNumber)
public void addECNumber(String eCNumber)
BiochemicalReaction
addECNumber
in interface BiochemicalReaction
eCNumber
- The unique number assigned to a reaction by the Enzyme Commissionpublic void removeECNumber(String eCNumber)
BiochemicalReaction
removeECNumber
in interface BiochemicalReaction
eCNumber
- The unique number assigned to a reaction by the Enzyme Commissionpublic Set<KPrime> getKEQ()
BiochemicalReaction
getKEQ
in interface BiochemicalReaction
public void addKEQ(KPrime kEQ)
BiochemicalReaction
addKEQ
in interface BiochemicalReaction
kEQ
- measured equilibrium constant for a biochemical reactionpublic void removeKEQ(KPrime kEQ)
BiochemicalReaction
removeKEQ
in interface BiochemicalReaction
kEQ
- measured equilibrium constant for a biochemical reactionCopyright © 2015 BioPAX. All rights reserved.