@Entity public abstract class SimplePhysicalEntityImpl extends PhysicalEntityImpl implements SimplePhysicalEntity
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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SimplePhysicalEntityImpl() |
Modifier and Type | Method and Description |
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int |
equivalenceCode()
If two elements are equivalent, then their equivalence code should be the
same.
|
EntityReference |
getEntityReference()
Reference entity for this physical entity.
|
EntityReference |
getEntityReferenceX() |
Set<EntityReference> |
getGenericEntityReferences()
This method returns:
The entity reference of this PhysicalEntity plus
If this PhysicalEntity has member PhysicalEntities their generic EntityReferences iteratively plus
If the EntityReference of this PhysicalEntity has member EntityReferences their members iteratively
|
protected boolean |
semanticallyEquivalent(BioPAXElement element) |
void |
setEntityReference(EntityReference entityReference)
Reference entity for this physical entity.
|
void |
setEntityReferenceX(EntityReference entityReference) |
addFeature, addMemberPhysicalEntity, addNotFeature, getCellularLocation, getComponentOf, getControllerOf, getFeature, getMemberPhysicalEntity, getMemberPhysicalEntityOf, getModelInterface, getNotFeature, hasEquivalentCellularLocation, hasEquivalentFeatures, locationAndFeatureCode, removeFeature, removeMemberPhysicalEntity, removeNotFeature, setCellularLocation, setComponentOf, setControllerOf, setFeature, setMemberPhysicalEntity, setMemberPhysicalEntityOf, setNotFeature
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
addFeature, addMemberPhysicalEntity, addNotFeature, getCellularLocation, getComponentOf, getFeature, getMemberPhysicalEntity, getMemberPhysicalEntityOf, getModelInterface, getNotFeature, hasEquivalentCellularLocation, hasEquivalentFeatures, removeFeature, removeMemberPhysicalEntity, removeNotFeature, setCellularLocation
getControllerOf
addAvailability, addDataSource, getAvailability, getDataSource, getParticipantOf, removeAvailability, removeDataSource
addEvidence, getEvidence, removeEvidence
addName, getDisplayName, getName, getStandardName, removeName, setDisplayName, setName, setStandardName
addXref, getXref, removeXref
addComment, getComment, removeComment
getAnnotations, getRDFId, isEquivalent
public SimplePhysicalEntityImpl()
public EntityReference getEntityReferenceX()
public void setEntityReferenceX(EntityReference entityReference)
public Set<EntityReference> getGenericEntityReferences()
SimplePhysicalEntity
getGenericEntityReferences
in interface SimplePhysicalEntity
public EntityReference getEntityReference()
SimplePhysicalEntity
getEntityReference
in interface SimplePhysicalEntity
public void setEntityReference(EntityReference entityReference)
SimplePhysicalEntity
setEntityReference
in interface SimplePhysicalEntity
entityReference
- a BioPAX EntityReference object (usually a more specific subclass of)public int equivalenceCode()
BioPAXElement
equivalenceCode
in interface BioPAXElement
equivalenceCode
in class PhysicalEntityImpl
protected boolean semanticallyEquivalent(BioPAXElement element)
semanticallyEquivalent
in class PhysicalEntityImpl
Copyright © 2015 BioPAX. All rights reserved.