org.jbei.ice.lib.parsers

Class PlainParser

java.lang.Object

org.jbei.ice.lib.entry.HasEntry

org.jbei.ice.lib.parsers.AbstractParser

org.jbei.ice.lib.parsers.PlainParser

public class PlainParser
extends AbstractParser

Parser to handle file with simply nucleotide sequences. Technically these files are not FASTA files, even though some people think they are.

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
PlainParser()

Method Summary

Modifier and Type	Method and Description
DNASequence	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

PlainParser

public PlainParser()

Method Detail

parse

public DNASequence parse(String textSequence)
                  throws InvalidFormatParserException

Overrides:

parse in class AbstractParser

Throws:

InvalidFormatParserException