Package org.biojava.bio.seq.db

Class SwissprotSequenceDB

java.lang.Object

org.biojava.bio.seq.db.SwissprotSequenceDB

public class SwissprotSequenceDB
extends java.lang.Object

This class contains functions accessing sequences in swiss-prot.

Author:

Lei Lai, Matthew Pocock

Constructor Summary

Constructors

Constructor	Description
SwissprotSequenceDB()

Method Summary

Modifier and Type	Method	Description
boolean	checkIOException()
protected java.net.URL	getAddress(java.lang.String id)
protected Alphabet	getAlphabet()
java.lang.String	getName()
Sequence	getSequence(java.lang.String id)
protected SequenceFormat	getSequenceFormat()

Methods inherited from class java.lang.Object

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

Constructor Detail

SwissprotSequenceDB

public SwissprotSequenceDB()

Method Detail

getSequenceFormat

protected SequenceFormat getSequenceFormat()

getAlphabet

protected Alphabet getAlphabet()

getAddress

protected java.net.URL getAddress(java.lang.String id)
                           throws java.net.MalformedURLException

Throws:

java.net.MalformedURLException

getName

public java.lang.String getName()

getSequence

public Sequence getSequence(java.lang.String id)
                     throws BioException

Throws:

BioException

checkIOException

public boolean checkIOException()