Package 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:

Serializable, Cloneable, BioPAXElement, Level3Element, SequenceInterval, SequenceLocation, UtilityClass

public class SequenceIntervalImpl
extends SequenceLocationImpl
implements SequenceInterval

See Also:

• Serialized Form

Field Summary

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

UNKNOWN_DOUBLE, UNKNOWN_FLOAT, UNKNOWN_INT

Constructor Summary

Constructors

Constructor	Description
SequenceIntervalImpl()

Method Summary

Modifier and Type	Method	Description
int	equivalenceCode()	If two elements are equivalent, then their equivalence code should be the same.
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)
String	toString()

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

addComment, getComment, removeComment, setComment

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

equals, getAnnotations, getUri, hashCode, isEquivalent

Methods inherited from class java.lang.Object

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

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

getAnnotations, getUri, isEquivalent

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

addComment, getComment, removeComment

Constructor Details

SequenceIntervalImpl

public SequenceIntervalImpl()

Method Details

getModelInterface

public 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

toString

public String toString()

Overrides:

toString in class BioPAXElementImpl