Class MultiQCModule
- java.lang.Object
-
- fr.ens.biologie.genomique.eoulsan.modules.AbstractModule
-
- fr.ens.biologie.genomique.eoulsan.modules.multiqc.MultiQCModule
-
- All Implemented Interfaces:
Module
public class MultiQCModule extends AbstractModule
This class define a module for MultiQC.- Since:
- 2.2
- Author:
- Laurent Jourdren
-
-
Constructor Summary
Constructors Constructor Description MultiQCModule()
-
Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description void
configure(StepConfigurationContext context, Set<Parameter> stepParameters)
Set the parameters of the step to configure the module.TaskResult
execute(TaskContext context, TaskStatus status)
Execute a task step.InputPorts
getInputPorts()
Get the input data format.String
getName()
Get the name of the module.OutputPorts
getOutputPorts()
Get the output data format.Set<Requirement>
getRequirements()
Get the requirements of the module.fr.ens.biologie.genomique.kenetre.util.Version
getVersion()
Get version of the Module.-
Methods inherited from class fr.ens.biologie.genomique.eoulsan.modules.AbstractModule
getChecker, getDescription, getParallelizationMode, getRequiredEoulsanVersion
-
-
-
-
Method Detail
-
getName
public String getName()
Description copied from interface:Module
Get the name of the module.- Returns:
- the name of the module
-
getVersion
public fr.ens.biologie.genomique.kenetre.util.Version getVersion()
Description copied from interface:Module
Get version of the Module.- Returns:
- a Version object with the version of the Module
-
getInputPorts
public InputPorts getInputPorts()
Description copied from interface:Module
Get the input data format.- Specified by:
getInputPorts
in interfaceModule
- Overrides:
getInputPorts
in classAbstractModule
- Returns:
- a set with DataFormat or null if the module does not any need input format
-
getOutputPorts
public OutputPorts getOutputPorts()
Description copied from interface:Module
Get the output data format.- Specified by:
getOutputPorts
in interfaceModule
- Overrides:
getOutputPorts
in classAbstractModule
- Returns:
- an set with DataFormat or null if the module does not produce any output data
-
getRequirements
public Set<Requirement> getRequirements()
Description copied from interface:Module
Get the requirements of the module.- Specified by:
getRequirements
in interfaceModule
- Overrides:
getRequirements
in classAbstractModule
- Returns:
- a set with the requirements of the module
-
configure
public void configure(StepConfigurationContext context, Set<Parameter> stepParameters) throws EoulsanException
Description copied from interface:Module
Set the parameters of the step to configure the module.- Specified by:
configure
in interfaceModule
- Overrides:
configure
in classAbstractModule
- Parameters:
context
- configuration context. The context can be null for generator stepsstepParameters
- parameters of the step- Throws:
EoulsanException
- if a parameter is invalid
-
execute
public TaskResult execute(TaskContext context, TaskStatus status)
Description copied from interface:Module
Execute a task step.- Parameters:
context
- Execution contextstatus
- of the task
-
-