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:
- Serialized Form
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 |
BioSQLFeatureFilter.OverlapsRichLocation
public BioSQLFeatureFilter.OverlapsRichLocation(RichLocation loc)
- Creates a filter that returns everything overlapping loc.
- Parameters:
loc
- the location that will overlap the accepted features
getRichLocation
public RichLocation getRichLocation()
accept
public boolean accept(Feature f)
- 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
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