org.biojava.bio.seq
Class FeatureFilter.OverlapsLocation

java.lang.Object
  org.biojava.bio.seq.FeatureFilter.OverlapsLocation

All Implemented Interfaces:

FeatureFilter, OptimizableFilter, Serializable

Enclosing class:

FeatureFilter

public static final class FeatureFilter.OverlapsLocation

extends Object

implements OptimizableFilter

A filter that returns all features overlapping a location.

Since:

1.0

Author:

Matthew Pocock

See Also:

Serialized Form

Nested Class Summary

Nested classes inherited from class org.biojava.bio.seq.FeatureFilter

FeatureFilter.And, FeatureFilter.AnnotationContains, FeatureFilter.ByAncestor, FeatureFilter.ByAnnotation, FeatureFilter.ByAnnotationType, FeatureFilter.ByChild, FeatureFilter.ByClass, FeatureFilter.ByComponentName, FeatureFilter.ByDescendant, FeatureFilter.ByFeature, FeatureFilter.ByPairwiseScore, FeatureFilter.ByParent, FeatureFilter.BySequenceName, FeatureFilter.BySource, FeatureFilter.ByType, FeatureFilter.ContainedByLocation, FeatureFilter.FrameFilter, FeatureFilter.HasAnnotation, FeatureFilter.Not, FeatureFilter.OnlyChildren, FeatureFilter.OnlyDescendants, FeatureFilter.Or, FeatureFilter.OverlapsLocation, FeatureFilter.ShadowContainedByLocation, FeatureFilter.ShadowOverlapsLocation, FeatureFilter.StrandFilter

Field Summary

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

all, leaf, none, top_level

Constructor Summary

FeatureFilter.OverlapsLocation(Location loc)
Creates a filter that returns everything overlapping loc.

Method Summary

boolean	accept(Feature f) Returns true if the feature overlaps this filter's location.
boolean	equals(Object o)
Location	getLocation()
int	hashCode()
boolean	isDisjoint(FeatureFilter filt) Returns true if this filter is disjoint from filt - that is, there is no Feature that is accepted by both filters.
boolean	isProperSubset(FeatureFilter sup) Returns true if this filter is a proper subset of sup - that is, for every feature that matches this, it also matches sup.
String	toString()

Methods inherited from class java.lang.Object

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

Constructor Detail

FeatureFilter.OverlapsLocation

public FeatureFilter.OverlapsLocation(Location loc)

Creates a filter that returns everything overlapping loc.

Parameters:

loc - the location that will overlap the accepted features

Method Detail

getLocation

public Location getLocation()

accept

public boolean accept(Feature f)

Returns true if the feature overlaps this filter's location.

Specified by:

accept in interface FeatureFilter

Parameters:

f - the Feature to evaluate

Returns:

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

equals

public boolean equals(Object o)

hashCode

public int hashCode()

isProperSubset

public boolean isProperSubset(FeatureFilter sup)

Description copied from interface: OptimizableFilter

Returns true if this filter is a proper subset of sup - that is, for every feature that matches this, it also matches sup. The empty filter is a proper subset of all filters. All filters are a proper subset of the all filter. All filters are proper subsets of themselves.

Specified by:

isProperSubset in interface OptimizableFilter

Parameters:

sup - the potential super set

Returns:

true if sup contains all features contained by this filter

isDisjoint

public boolean isDisjoint(FeatureFilter filt)

Description copied from interface: OptimizableFilter

Returns true if this filter is disjoint from filt - that is, there is no Feature that is accepted by both filters. The empty filter is disjoint from all other filters. The all filter is disjoint from none.

Specified by:

isDisjoint in interface OptimizableFilter

toString

public String toString()