info.bioinfweb.commons.bio.biojava3.alignment.io

Class AbstractAlignmentReader<S extends org.biojava3.core.sequence.template.Sequence<C>,C extends org.biojava3.core.sequence.template.Compound>

java.lang.Object

info.bioinfweb.commons.bio.biojava3.alignment.io.AbstractAlignmentReader<S,C>

All Implemented Interfaces:

AlignmentReader<S,C>

Direct Known Subclasses:

FastaReader, NexusReader

public abstract class AbstractAlignmentReader<S extends org.biojava3.core.sequence.template.Sequence<C>,C extends org.biojava3.core.sequence.template.Compound>
extends java.lang.Object
implements AlignmentReader<S,C>

Constructor Summary

Constructors

Constructor and Description
AbstractAlignmentReader(org.biojava3.core.sequence.io.template.SequenceCreatorInterface<C> sequenceCreator)

Method Summary

Modifier and Type	Method and Description
protected org.biojava3.core.sequence.io.template.SequenceCreatorInterface<C>	getSequenceCreator()
Alignment<S,C>	read(java.io.File file)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface info.bioinfweb.commons.bio.biojava3.alignment.io.AlignmentReader

read

Constructor Detail

AbstractAlignmentReader

public AbstractAlignmentReader(org.biojava3.core.sequence.io.template.SequenceCreatorInterface<C> sequenceCreator)

Method Detail

getSequenceCreator

protected org.biojava3.core.sequence.io.template.SequenceCreatorInterface<C> getSequenceCreator()

read

public Alignment<S,C> read(java.io.File file)
                    throws java.lang.Exception

Specified by:

read in interface AlignmentReader<S extends org.biojava3.core.sequence.template.Sequence<C>,C extends org.biojava3.core.sequence.template.Compound>

Throws:

java.lang.Exception