org.biojavax.bio.db.biosql

Class BioSQLFeatureFilter.BySourceTermName

java.lang.Object

org.biojavax.bio.db.biosql.BioSQLFeatureFilter.HibernateFeatureFilter

org.biojavax.bio.db.biosql.BioSQLFeatureFilter.BySourceTermName

All Implemented Interfaces:

Serializable, FeatureFilter, BioSQLFeatureFilter

Enclosing interface:

BioSQLFeatureFilter

public static final class BioSQLFeatureFilter.BySourceTermName
extends BioSQLFeatureFilter.HibernateFeatureFilter

Construct one of these to filter features by source (name only - parent ontology is ignored).

Since:

1.5

Author:

Richard Holland

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from interface org.biojavax.bio.db.biosql.BioSQLFeatureFilter

BioSQLFeatureFilter.And, BioSQLFeatureFilter.ByName, BioSQLFeatureFilter.ByNote, BioSQLFeatureFilter.ByNoteTermOnly, BioSQLFeatureFilter.ByRank, BioSQLFeatureFilter.BySequenceName, BioSQLFeatureFilter.BySourceTerm, BioSQLFeatureFilter.BySourceTermName, BioSQLFeatureFilter.ByStrand, BioSQLFeatureFilter.ByTypeTerm, BioSQLFeatureFilter.ByTypeTermName, BioSQLFeatureFilter.ContainedByRichLocation, BioSQLFeatureFilter.HibernateFeatureFilter, BioSQLFeatureFilter.Not, BioSQLFeatureFilter.Or, BioSQLFeatureFilter.OverlapsRichLocation, BioSQLFeatureFilter.Tools

Nested classes/interfaces inherited from interface org.biojava.bio.seq.FeatureFilter

FeatureFilter.AnnotationContains, FeatureFilter.ByAncestor, FeatureFilter.ByAnnotation, FeatureFilter.ByAnnotationType, FeatureFilter.ByChild, FeatureFilter.ByClass, FeatureFilter.ByComponentName, FeatureFilter.ByDescendant, FeatureFilter.ByFeature, FeatureFilter.ByPairwiseScore, FeatureFilter.ByParent, FeatureFilter.BySource, FeatureFilter.ByType, FeatureFilter.ContainedByLocation, FeatureFilter.FrameFilter, FeatureFilter.HasAnnotation, FeatureFilter.OnlyChildren, FeatureFilter.OnlyDescendants, FeatureFilter.OverlapsLocation, FeatureFilter.ShadowContainedByLocation, FeatureFilter.ShadowOverlapsLocation, FeatureFilter.StrandFilter

Field Summary

Fields inherited from class org.biojavax.bio.db.biosql.BioSQLFeatureFilter.HibernateFeatureFilter

and, conjunctAdd, conjunction, disjunctAdd, disjunction, eq, ge, le, not, or

Fields inherited from interface org.biojavax.bio.db.biosql.BioSQLFeatureFilter

all, none

Fields inherited from interface org.biojava.bio.seq.FeatureFilter

leaf, top_level

Constructor Summary

Constructors

Constructor and Description
BioSQLFeatureFilter.BySourceTermName(String sourceTermName) Create a BySourceTerm filter that filters in all features with sourceTerm fields having name equal to sourceTermName.

Method Summary

Methods

Modifier and Type	Method and Description
boolean	accept(Feature f) Returns true if the feature has a matching source property.
Object	asCriterion() This method returns a Hibernate Criterion object that can be used to query the database.
Map	criterionAliasMap() Returns a map of property names (keys) to aliases (values), if the criterion returned by asCriterion() uses aliases at all.
boolean	equals(Object o)
String	getSourceTermName()
int	hashCode()
String	toString()

Methods inherited from class java.lang.Object

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

Constructor Detail

BioSQLFeatureFilter.BySourceTermName

public BioSQLFeatureFilter.BySourceTermName(String sourceTermName)

Create a BySourceTerm filter that filters in all features with sourceTerm fields having name equal to sourceTermName.

Parameters:

sourceTermName - the name of the Term to match sourceTerm fields against

Method Detail

getSourceTermName

public String getSourceTermName()

accept

public boolean accept(Feature f)

Returns true if the feature has a matching source property.

Parameters:

f - the Feature to evaluate

Returns:

true if this feature is to be selected in, or false if it is to be ignored

asCriterion

public Object asCriterion()

Description copied from interface: BioSQLFeatureFilter

This method returns a Hibernate Criterion object that can be used to query the database.

Returns:

a Hibernate Criterion object representing this filter.

criterionAliasMap

public Map criterionAliasMap()

Description copied from interface: BioSQLFeatureFilter

Returns a map of property names (keys) to aliases (values), if the criterion returned by asCriterion() uses aliases at all. If not, then it must at least return the empty map else you'll get NullPointerExceptions thrown elsewhere.

Specified by:

criterionAliasMap in interface BioSQLFeatureFilter

Overrides:

criterionAliasMap in class BioSQLFeatureFilter.HibernateFeatureFilter

Returns:

Map a map of property names to aliases used in the criterion.

equals

public boolean equals(Object o)

Overrides:

equals in class Object

hashCode

public int hashCode()

Overrides:

hashCode in class Object

toString

public String toString()

Overrides:

toString in class Object