Package fr.ens.biologie.genomique.eoulsan.modules.mapping.local

Class SAM2FASTQLocalModule

java.lang.Object

fr.ens.biologie.genomique.eoulsan.modules.AbstractModule

fr.ens.biologie.genomique.eoulsan.modules.mapping.AbstractSAM2FASTQModule

fr.ens.biologie.genomique.eoulsan.modules.mapping.local.SAM2FASTQLocalModule

All Implemented Interfaces:

Module

public class SAM2FASTQLocalModule
extends AbstractSAM2FASTQModule

This class define a module for converting SAM files into FASTQ.

Since:

2.0

Author:

Laurent Jourdren

Constructor Summary

Constructors

Constructor	Description
SAM2FASTQLocalModule()

Method Summary

Modifier and Type	Method	Description
TaskResult	execute(TaskContext context, TaskStatus status)	Execute a task step.

Methods inherited from class fr.ens.biologie.genomique.eoulsan.modules.mapping.AbstractSAM2FASTQModule

configure, getDescription, getInputPorts, getName, getOutputPorts, getVersion

Methods inherited from class fr.ens.biologie.genomique.eoulsan.modules.AbstractModule

getChecker, getParallelizationMode, getRequiredEoulsanVersion, getRequirements

Methods inherited from class java.lang.Object

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

Constructor Details

SAM2FASTQLocalModule

public SAM2FASTQLocalModule()

Method Details

execute

public TaskResult execute(TaskContext context,
 TaskStatus status)

Description copied from interface: Module

Execute a task step.

Parameters:

context - Execution context

status - of the task

Returns:

a TaskResult object