Package com.compomics.util.experiment.io.biology.protein.converters

Class GenericFastaConverter

java.lang.Object

com.compomics.util.experiment.io.biology.protein.converters.GenericFastaConverter

public class GenericFastaConverter
extends Object

This converter writes a FASTA file with standardized headers.

Author:

Marc Vaudel, Harald Barsnes

Constructor Summary

Constructors

Constructor	Description
GenericFastaConverter()

Method Summary

Modifier and Type	Method	Description
static void	convertFile(File fastaIn, File fastaOut, WaitingHandler waitingHandler)	Appends decoy sequences to the provided FASTA file.

Methods inherited from class java.lang.Object

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

Constructor Details

GenericFastaConverter

public GenericFastaConverter()

Method Details

convertFile

public static void convertFile(File fastaIn,
 File fastaOut,
 WaitingHandler waitingHandler)
                        throws IOException

Appends decoy sequences to the provided FASTA file.

Parameters:

fastaIn - the FASTA file to read

fastaOut - the FASTA file to write

waitingHandler - a handler to allow canceling the import and displaying progress

Throws:

IOException - exception thrown whenever an error happened while reading or writing a FASTA file