Package org.biojavax.bio.seq.io

Interface RichSequenceBuilder

All Superinterfaces:

RichSeqIOListener, SeqIOListener, SequenceBuilder

All Known Implementing Classes:

SimpleRichSequenceBuilder

public interface RichSequenceBuilder
extends RichSeqIOListener, SequenceBuilder

An interface for objects that can build RichSequences.

Since:

1.5

Author:

Mark Schreiber

Method Summary

Modifier and Type	Method	Description
RichSequence	makeRichSequence()	Build a RichSequence.
Sequence	makeSequence()	Return the Sequence object which has been constructed by this builder.

Methods inherited from interface org.biojavax.bio.seq.io.RichSeqIOListener

getCurrentFeature, setAccession, setCircular, setComment, setDescription, setDivision, setIdentifier, setNamespace, setRankedCrossRef, setRankedDocRef, setRelationship, setSeqVersion, setTaxon, setURI, setVersion

Methods inherited from interface org.biojava.bio.seq.io.SeqIOListener

addFeatureProperty, addSequenceProperty, addSymbols, endFeature, endSequence, setName, startFeature, startSequence

Method Detail

makeSequence

Sequence makeSequence()
               throws BioException

Return the Sequence object which has been constructed by this builder. This method is only expected to succeed after the endSequence() notifier has been called. Implementations of this for a RichSequenceBuilder should delegate to makeRichSequence() and return only RichSequence objects.

Specified by:

makeSequence in interface SequenceBuilder

Throws:

BioException

makeRichSequence

RichSequence makeRichSequence()
                       throws BioException

Build a RichSequence.

Returns:

a RichSequence

Throws:

BioException - if it is not possible to build a RichSequence