org.biopax.paxtools.impl.level3
Class SequenceIntervalImpl

java.lang.Object
  org.biopax.paxtools.impl.BioPAXElementImpl
      org.biopax.paxtools.impl.level3.L3ElementImpl
          org.biopax.paxtools.impl.level3.SequenceLocationImpl
              org.biopax.paxtools.impl.level3.SequenceIntervalImpl

All Implemented Interfaces:

java.io.Serializable, java.lang.Cloneable, BioPAXElement, Level3Element, SequenceInterval, SequenceLocation, UtilityClass

@Entity
@Indexed
public class SequenceIntervalImpl
extends SequenceLocationImpl
implements SequenceInterval

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from interface org.biopax.paxtools.model.BioPAXElement

BioPAXElement.Key

Field Summary

Fields inherited from class org.biopax.paxtools.impl.BioPAXElementImpl

SEARCH_FIELD_AVAILABILITY, SEARCH_FIELD_COMMENT, SEARCH_FIELD_EC_NUMBER, SEARCH_FIELD_KEYWORD, SEARCH_FIELD_NAME, SEARCH_FIELD_SEQUENCE, SEARCH_FIELD_TERM, SEARCH_FIELD_XREF_DB, SEARCH_FIELD_XREF_ID, SEARCH_INDEX_NAME

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

UNKNOWN_DOUBLE, UNKNOWN_FLOAT, UNKNOWN_INT

Constructor Summary

SequenceIntervalImpl()

Method Summary

int	equivalenceCode() If two elements are equivalent, then their equivalence code should be the same.
java.lang.Class<? extends SequenceInterval>	getModelInterface() This method returns the actual model interface that a class implements.
SequenceSite	getSequenceIntervalBegin()
SequenceSite	getSequenceIntervalEnd()
protected boolean	semanticallyEquivalent(BioPAXElement element)
void	setSequenceIntervalBegin(SequenceSite sequenceIntervalBegin)
void	setSequenceIntervalEnd(SequenceSite sequenceIntervalEnd)

Methods inherited from class org.biopax.paxtools.impl.level3.L3ElementImpl

addComment, getComment, removeComment, setComment

Methods inherited from class org.biopax.paxtools.impl.BioPAXElementImpl

getAnnotations, getProxyId, getRDFId, getVersion, isEquivalent, setProxyId, setRDFId, setVersion, toString

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Methods inherited from interface org.biopax.paxtools.model.level3.Level3Element

addComment, getComment, removeComment

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

getAnnotations, getRDFId, isEquivalent

Constructor Detail

SequenceIntervalImpl

public SequenceIntervalImpl()

Method Detail

getModelInterface

public java.lang.Class<? extends SequenceInterval> getModelInterface()

Description copied from interface: BioPAXElement

This method returns the actual model interface that a class implements.

Specified by:

getModelInterface in interface BioPAXElement

Overrides:

getModelInterface in class SequenceLocationImpl

Returns:

an interface from org.biopax.paxtools.model package corresponding to a BioPAX class.

semanticallyEquivalent

protected boolean semanticallyEquivalent(BioPAXElement element)

Overrides:

semanticallyEquivalent in class BioPAXElementImpl

equivalenceCode

public int equivalenceCode()

Description copied from interface: BioPAXElement

If two elements are equivalent, then their equivalence code should be the same.

Specified by:

equivalenceCode in interface BioPAXElement

Overrides:

equivalenceCode in class BioPAXElementImpl

Returns:

an integer that is same across all equivalent entities.

getSequenceIntervalBegin

public SequenceSite getSequenceIntervalBegin()

Specified by:

getSequenceIntervalBegin in interface SequenceInterval

setSequenceIntervalBegin

public void setSequenceIntervalBegin(SequenceSite sequenceIntervalBegin)

Specified by:

setSequenceIntervalBegin in interface SequenceInterval

getSequenceIntervalEnd

public SequenceSite getSequenceIntervalEnd()

Specified by:

getSequenceIntervalEnd in interface SequenceInterval

setSequenceIntervalEnd

public void setSequenceIntervalEnd(SequenceSite sequenceIntervalEnd)

Specified by:

setSequenceIntervalEnd in interface SequenceInterval