Package org.biojavax.bio.db.biosql
Class BioSQLFeatureFilter.OverlapsRichLocation
java.lang.Object
org.biojavax.bio.db.biosql.BioSQLFeatureFilter.HibernateFeatureFilter
org.biojavax.bio.db.biosql.BioSQLFeatureFilter.OverlapsRichLocation
- All Implemented Interfaces:
Serializable
,FeatureFilter
,BioSQLFeatureFilter
- Enclosing interface:
BioSQLFeatureFilter
public static final class BioSQLFeatureFilter.OverlapsRichLocation
extends BioSQLFeatureFilter.HibernateFeatureFilter
A filter that returns all features overlapping a location. Overlaps means
that a feature includes part of, on the same strand and on the same sequence
any single member of the flattened query location.
- Since:
- 1.5
- Author:
- Matthew Pocock, Richard Holland
- See Also:
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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
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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
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Constructor Summary
ConstructorsConstructorDescriptionCreates a filter that returns everything overlapping loc. -
Method Summary
Modifier and TypeMethodDescriptionboolean
Returns true if the feature overlaps this filter's location.This method returns a Hibernate Criterion object that can be used to query the database.Returns a map of property names (keys) to aliases (values), if the criterion returned by asCriterion() uses aliases at all.boolean
int
hashCode()
toString()
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Constructor Details
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OverlapsRichLocation
Creates a filter that returns everything overlapping loc.- Parameters:
loc
- the location that will overlap the accepted features
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Method Details
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getRichLocation
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accept
Returns true if the feature overlaps this filter's location.- Parameters:
f
- the Feature to evaluate- Returns:
- true if this feature is to be selected in, or false if it is to be ignored
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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.
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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 interfaceBioSQLFeatureFilter
- Overrides:
criterionAliasMap
in classBioSQLFeatureFilter.HibernateFeatureFilter
- Returns:
- Map a map of property names to aliases used in the criterion.
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equals
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hashCode
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toString
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