org.dishevelled.bio.tools

Class InterleaveFastq

java.lang.Object

org.dishevelled.bio.tools.InterleaveFastq

All Implemented Interfaces:

Callable<Integer>

public final class InterleaveFastq
extends Object
implements Callable<Integer>

Convert first and second DNA sequence files in FASTQ format to interleaved FASTQ format.

Author:

Michael Heuer

Constructor Summary

Constructors

Constructor and Description
InterleaveFastq(File firstFastqFile, File secondFastqFile, File pairedFile, File unpairedFile) Convert first and second DNA sequence files in FASTQ format to interleaved FASTQ format.
InterleaveFastq(Path firstFastqPath, Path secondFastqPath, File pairedFile, File unpairedFile) Convert first and second DNA sequence files in FASTQ format to interleaved FASTQ format.

Method Summary

Modifier and Type	Method and Description
Integer	call()
static void	main(String[] args) Main.

Methods inherited from class java.lang.Object

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

Constructor Detail

InterleaveFastq

public InterleaveFastq(File firstFastqFile,
                       File secondFastqFile,
                       File pairedFile,
                       File unpairedFile)

Convert first and second DNA sequence files in FASTQ format to interleaved FASTQ format.

Parameters:

firstFastqFile - first FASTQ input file, must not be null

secondFastqFile - second FASTQ input file, must not be null

pairedFile - output interleaved paired FASTQ file, must not be null

unpairedFile - output unpaired FASTQ file, must not be null

InterleaveFastq

public InterleaveFastq(Path firstFastqPath,
                       Path secondFastqPath,
                       File pairedFile,
                       File unpairedFile)

Convert first and second DNA sequence files in FASTQ format to interleaved FASTQ format.

Parameters:

firstFastqPath - first FASTQ input path, must not be null

secondFastqPath - second FASTQ input path, must not be null

pairedFile - output interleaved paired FASTQ file, must not be null

unpairedFile - output unpaired FASTQ file, must not be null

Since:

2.1

Method Detail

call

public Integer call()
             throws Exception

Specified by:

call in interface Callable<Integer>

Throws:

Exception

main

public static void main(String[] args)

Main.

Parameters:

args - command line args