@Entity public abstract class SequenceEntityReferenceImpl extends EntityReferenceImpl implements SequenceEntityReference
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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SequenceEntityReferenceImpl() |
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.
|
BioSource |
getOrganism()
An organism, e.g.
|
String |
getSequence()
Polymer sequence in uppercase letters.
|
protected boolean |
semanticallyEquivalent(BioPAXElement element) |
void |
setOrganism(BioSource organism)
An organism, e.g.
|
void |
setSequence(String sequence)
Polymer sequence in uppercase letters.
|
addEntityFeature, addEntityReferenceType, addEvidence, addMemberEntityReference, getEntityFeature, getEntityReferenceOf, getEntityReferenceType, getEvidence, getMemberEntityReference, getMemberEntityReferenceOf, getModelInterface, removeEntityFeature, removeEntityReferenceType, removeEvidence, removeMemberEntityReference, setEntityFeature, setEntityReferenceOf, setEntityReferenceType, setEvidence, setMemberEntity, setMemberEntityReference, setMemberEntityReferenceOf
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
addEntityFeature, addEntityReferenceType, addMemberEntityReference, getEntityFeature, getEntityReferenceOf, getEntityReferenceType, getMemberEntityReference, getMemberEntityReferenceOf, removeEntityFeature, removeEntityReferenceType, removeMemberEntityReference
addName, getDisplayName, getName, getStandardName, removeName, setDisplayName, setName, setStandardName
addXref, getXref, removeXref
addComment, getComment, removeComment
getAnnotations, getModelInterface, getRDFId, isEquivalent
addEvidence, getEvidence, removeEvidence
public SequenceEntityReferenceImpl()
public BioSource getOrganism()
SequenceEntityReference
getOrganism
in interface SequenceEntityReference
public void setOrganism(BioSource organism)
SequenceEntityReference
setOrganism
in interface SequenceEntityReference
organism
- new organism for this gene@Field(name="sequence", analyze=YES) public String getSequence()
SequenceEntityReference
getSequence
in interface SequenceEntityReference
public void setSequence(String sequence)
SequenceEntityReference
setSequence
in interface SequenceEntityReference
sequence
- Polymer sequence in uppercase letters.protected boolean semanticallyEquivalent(BioPAXElement element)
semanticallyEquivalent
in class BioPAXElementImpl
public int equivalenceCode()
BioPAXElement
equivalenceCode
in interface BioPAXElement
equivalenceCode
in class XReferrableImpl
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