Class ReadsFilterHadoopModule
- java.lang.Object
-
- fr.ens.biologie.genomique.eoulsan.modules.AbstractModule
-
- fr.ens.biologie.genomique.eoulsan.modules.mapping.AbstractReadsFilterModule
-
- fr.ens.biologie.genomique.eoulsan.modules.mapping.hadoop.ReadsFilterHadoopModule
-
- All Implemented Interfaces:
Module
public class ReadsFilterHadoopModule extends AbstractReadsFilterModule
This class is the main class for the filter reads program in hadoop mode.- Since:
- 1.0
- Author:
- Laurent Jourdren, Claire Wallon
-
-
Field Summary
-
Fields inherited from class fr.ens.biologie.genomique.eoulsan.modules.mapping.AbstractReadsFilterModule
COUNTER_GROUP, MODULE_NAME
-
-
Constructor Summary
Constructors Constructor Description ReadsFilterHadoopModule()
-
Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description TaskResult
execute(TaskContext context, TaskStatus status)
Execute a task step.InputPorts
getInputPorts()
Get the input data format.-
Methods inherited from class fr.ens.biologie.genomique.eoulsan.modules.mapping.AbstractReadsFilterModule
configure, getDescription, getName, getOutputPorts, getReadFilter, getReadFilterParameters, getReducerTaskCount, getVersion
-
Methods inherited from class fr.ens.biologie.genomique.eoulsan.modules.AbstractModule
getChecker, getParallelizationMode, getRequiredEoulsanVersion, getRequirements
-
-
-
-
Method Detail
-
getInputPorts
public InputPorts getInputPorts()
Description copied from interface:Module
Get the input data format.- Specified by:
getInputPorts
in interfaceModule
- Overrides:
getInputPorts
in classAbstractReadsFilterModule
- Returns:
- a set with DataFormat or null if the module does not any need input format
-
execute
public TaskResult execute(TaskContext context, TaskStatus status)
Description copied from interface:Module
Execute a task step.- Parameters:
context
- Execution contextstatus
- of the task
-
-