org.jbei.ice.lib.parsers.fasta

Class FastaParser

java.lang.Object

org.jbei.ice.lib.entry.HasEntry

org.jbei.ice.lib.parsers.AbstractParser

org.jbei.ice.lib.parsers.fasta.FastaParser

public class FastaParser
extends AbstractParser

Parse FASTA files.

Author:

Zinovii Dmytriv, Timothy Ham

Field Summary

Fields inherited from class org.jbei.ice.lib.parsers.AbstractParser

entry, fileName, partData, userId

Fields inherited from class org.jbei.ice.lib.entry.HasEntry

accountDAO, entryDAO

Constructor Summary

Constructors

Constructor and Description
FastaParser()

Method Summary

Modifier and Type	Method and Description
FeaturedDNASequence	parse(String textSequence)

Methods inherited from class org.jbei.ice.lib.parsers.AbstractParser

cleanSequence, save

Methods inherited from class org.jbei.ice.lib.entry.HasEntry

getEntry

Methods inherited from class java.lang.Object

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

Constructor Detail

FastaParser

public FastaParser()

Method Detail

parse

public FeaturedDNASequence parse(String textSequence)
                          throws InvalidFormatParserException

Overrides:

parse in class AbstractParser

Throws:

InvalidFormatParserException