org.biojava.bio.seq

Interface SequenceFactory

All Known Implementing Classes:

SimpleSequenceFactory

Deprecated.

use org.biojavax.bio.seq.io.RichSequenceBuilder or use org.biojavax.bio.seq.io.SequenceBuilder

public interface SequenceFactory

The interface for objects that will manufacture sequences.

The factory layer is in here as sequences are potentialy heavy-weight, so we want to decouple their possibly complicated creation from the code that wants to make them.

Author:

Matthew Pocock

Method Summary

Modifier and Type	Method and Description
Sequence	createSequence(SymbolList symList, String uri, String name, Annotation annotation) Deprecated. Creates a sequence using these parameters.

Method Detail

createSequence

Sequence createSequence(SymbolList symList,
                        String uri,
                        String name,
                        Annotation annotation)

Deprecated.

Creates a sequence using these parameters.

Parameters:

symList - the SymbolList defining the 'sequence'

uri - the uri of the sequence. This will be returned by the getURN() method on Sequence.

name - the name

annotation - a hint for the annotation of the resulting sequence

Returns:

a new Sequence object