org.biojava.bio.seq

Interface RealizingFeatureHolder

All Superinterfaces:

Changeable, FeatureHolder

All Known Implementing Classes:

CircularView, NewSimpleAssembly, PhredSequence, RevCompSequence, SimpleAssembly, SimpleFeature, SimpleFramedFeature, SimpleHomologyFeature, SimpleRemoteFeature, SimpleRestrictionSite, SimpleSequence, SimpleSimilarityPairFeature, SimpleStrandedFeature, ViewSequence

public interface RealizingFeatureHolder
extends FeatureHolder

Interface for FeatureHolder objects which know how to instantiate new child Features. This interface should not be needed in normal client programs, since they will use the createFeature method of FeatureHolder to add new features. However, this method exposes the feature realization infrastructure to child features.

Author:

Thomas Down

See Also:

RichFeatureRelationshipHolder

Nested Class Summary

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

FeatureHolder.EmptyFeatureHolder

Field Summary

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

EMPTY_FEATURE_HOLDER, FEATURES, SCHEMA

Method Summary

Modifier and Type	Method and Description
Feature	realizeFeature(FeatureHolder parent, Feature.Template template) Realize a feature template.

Methods inherited from interface org.biojava.bio.seq.FeatureHolder

containsFeature, countFeatures, createFeature, features, filter, filter, getSchema, removeFeature

Methods inherited from interface org.biojava.utils.Changeable

addChangeListener, addChangeListener, isUnchanging, removeChangeListener, removeChangeListener

Method Detail

realizeFeature

Feature realizeFeature(FeatureHolder parent,
                       Feature.Template template)
                throws BioException

Realize a feature template. This will be a template which has been passed to the createFeature method of either this FeatureHolder or one of our child Features.

Throws:

BioException