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

Class BAM2SAMLocalModule

java.lang.Object

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

fr.ens.biologie.genomique.eoulsan.modules.mapping.AbstractBAM2SAMModule

fr.ens.biologie.genomique.eoulsan.modules.mapping.local.BAM2SAMLocalModule

All Implemented Interfaces:

Module

public class BAM2SAMLocalModule
extends AbstractBAM2SAMModule

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

Since:

2.0

Author:

Laurent Jourdren

Constructor Summary

Constructors

Constructor	Description
BAM2SAMLocalModule()

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.AbstractBAM2SAMModule

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

BAM2SAMLocalModule

public BAM2SAMLocalModule()

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