Package fr.ens.biologie.genomique.eoulsan.core.schedulers.clusters

Class BundledScriptBpipeTaskScheduler

java.lang.Object

fr.ens.biologie.genomique.eoulsan.core.schedulers.AbstractTaskScheduler

fr.ens.biologie.genomique.eoulsan.core.schedulers.clusters.AbstractClusterTaskScheduler

fr.ens.biologie.genomique.eoulsan.core.schedulers.clusters.BpipeTaskScheduler

fr.ens.biologie.genomique.eoulsan.core.schedulers.clusters.BundledScriptBpipeTaskScheduler

All Implemented Interfaces:

ClusterTaskScheduler, TaskScheduler

Direct Known Subclasses:

HTCondorTaskScheduler, PBSProTaskScheduler, SLURMTaskScheduler, TORQUETaskScheduler

public abstract class BundledScriptBpipeTaskScheduler
extends BpipeTaskScheduler

This class define an abstract scheduler that use a bpipe script bundled in Eoulsan distribution.

Since:

2.0

Author:

Laurent Jourdren

Nested Class Summary

Nested classes/interfaces inherited from class fr.ens.biologie.genomique.eoulsan.core.schedulers.clusters.AbstractClusterTaskScheduler

AbstractClusterTaskScheduler.ProcessThreadOutput

Nested classes/interfaces inherited from interface fr.ens.biologie.genomique.eoulsan.core.schedulers.clusters.ClusterTaskScheduler

ClusterTaskScheduler.StatusResult, ClusterTaskScheduler.StatusValue

Constructor Summary

Constructors

Modifier	Constructor	Description
protected	BundledScriptBpipeTaskScheduler(String schedulerName, String commandWrapperScript)	Constructor.

Method Summary

Modifier and Type	Method	Description
protected File	getBpipeCommandWrapper()	Get the path to the Bpipe command wrapper.
String	getSchedulerName()	Get the scheduler name.

Methods inherited from class fr.ens.biologie.genomique.eoulsan.core.schedulers.clusters.BpipeTaskScheduler

additionalScriptEnvironment, cleanupJob, configure, statusJob, stopJob, submitJob

Methods inherited from class fr.ens.biologie.genomique.eoulsan.core.schedulers.clusters.AbstractClusterTaskScheduler

stop, submit

Methods inherited from class fr.ens.biologie.genomique.eoulsan.core.schedulers.AbstractTaskScheduler

afterExecuteTask, beforeExecuteTask, executeTask, getResult, getStatus, getStep, getStep, getTaskDoneCount, getTaskRunningCount, getTaskSubmittedCount, getTotalTaskDoneCount, getTotalTaskRunningCount, getTotalTaskSubmittedCount, isStarted, isStopped, start, submit, waitEndOfTasks

Methods inherited from class java.lang.Object

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

Methods inherited from interface fr.ens.biologie.genomique.eoulsan.core.schedulers.TaskScheduler

getResult, getStatus, getTaskDoneCount, getTaskRunningCount, getTaskSubmittedCount, getTotalTaskDoneCount, getTotalTaskRunningCount, getTotalTaskSubmittedCount, start, submit, waitEndOfTasks

Constructor Detail

BundledScriptBpipeTaskScheduler

protected BundledScriptBpipeTaskScheduler(String schedulerName,
                                          String commandWrapperScript)

Constructor.

Parameters:

schedulerName - scheduler name

commandWrapperScript - command wrapper script name

Method Detail

getSchedulerName

public String getSchedulerName()

Description copied from interface: ClusterTaskScheduler

Get the scheduler name.

Returns:

the name of the scheduler

getBpipeCommandWrapper

protected File getBpipeCommandWrapper()

Description copied from class: BpipeTaskScheduler

Get the path to the Bpipe command wrapper.

Specified by:

getBpipeCommandWrapper in class BpipeTaskScheduler

Returns:

the File object with the path to the Bpipe command wrapper