org.biojava.bio.seq.db

Class GenpeptSequenceDB

java.lang.Object

org.biojava.bio.seq.db.GenpeptSequenceDB

public class GenpeptSequenceDB
extends java.lang.Object

Author:

Lei Lai, Matthew Pocock, Shuvankar Mukherjee

Constructor Summary

Constructors

Constructor and Description
GenpeptSequenceDB()

Method Summary

Methods

Modifier and Type	Method and Description
boolean	checkException()
boolean	checkIOException()
protected java.net.URL	getAddress(java.lang.String id)
protected java.net.URL	getAddress(java.lang.String id, java.lang.String format)
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

GenpeptSequenceDB

public GenpeptSequenceDB()

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

getAddress

protected java.net.URL getAddress(java.lang.String id,
                      java.lang.String format)
                           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()

checkException

public boolean checkException()