org.biojava3.core.sequence.io
Class DNASequenceCreator

java.lang.Object
  extended by org.biojava3.core.sequence.io.DNASequenceCreator
All Implemented Interfaces:
SequenceCreatorInterface<NucleotideCompound>

public class DNASequenceCreator
extends Object
implements SequenceCreatorInterface<NucleotideCompound>

A helper class that allows different ways to read a string and create a DNA sequence. Used in FastaReaderHelper and probably a layer that isn't needed

Author:
Scooter Willis

Constructor Summary
DNASequenceCreator(CompoundSet<NucleotideCompound> compoundSet)
           
 
Method Summary
 AbstractSequence<NucleotideCompound> getSequence(List<NucleotideCompound> list)
           
 AbstractSequence<NucleotideCompound> getSequence(ProxySequenceReader<NucleotideCompound> proxyLoader, long index)
           
 AbstractSequence<NucleotideCompound> getSequence(String sequence, long index)
           
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

DNASequenceCreator

public DNASequenceCreator(CompoundSet<NucleotideCompound> compoundSet)
Parameters:
compoundSet -
Method Detail

getSequence

public AbstractSequence<NucleotideCompound> getSequence(String sequence,
                                                        long index)
Specified by:
getSequence in interface SequenceCreatorInterface<NucleotideCompound>
Parameters:
sequence - The Sequence from a String
index - Currently not used
Returns:

getSequence

public AbstractSequence<NucleotideCompound> getSequence(ProxySequenceReader<NucleotideCompound> proxyLoader,
                                                        long index)
Specified by:
getSequence in interface SequenceCreatorInterface<NucleotideCompound>
Parameters:
proxyLoader - The Sequence from a ProxySequenceReader
index - Currently not used
Returns:

getSequence

public AbstractSequence<NucleotideCompound> getSequence(List<NucleotideCompound> list)
Specified by:
getSequence in interface SequenceCreatorInterface<NucleotideCompound>
Parameters:
list -
Returns: