Package fr.ens.biologie.genomique.aozan.aozan3.runconfigurationprovider

Class IlluminaSamplesheetRunConfigurationProvider

java.lang.Object

fr.ens.biologie.genomique.aozan.aozan3.runconfigurationprovider.IlluminaSamplesheetRunConfigurationProvider

All Implemented Interfaces:

RunConfigurationProvider

public class IlluminaSamplesheetRunConfigurationProvider
extends Object
implements RunConfigurationProvider

Get the run configuration from an Illumina samplesheet.

Since:

3.0

Author:

Laurent Jourdren

Field Summary

Fields

Modifier and Type	Field	Description
static String	PROVIDER_NAME

Constructor Summary

Constructors

Constructor	Description
IlluminaSamplesheetRunConfigurationProvider()

Method Summary

Modifier and Type	Method	Description
String	getName()	Get the name of the run configuration provider.
RunConfiguration	getRunConfiguration(RunData runData)	Get the run configuration for a run data
void	init(Configuration conf, fr.ens.biologie.genomique.kenetre.log.GenericLogger logger)	Initialize the run configurator provider.

Methods inherited from class java.lang.Object

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

Field Detail

PROVIDER_NAME

public static final String PROVIDER_NAME

See Also:

Constant Field Values

Constructor Detail

IlluminaSamplesheetRunConfigurationProvider

public IlluminaSamplesheetRunConfigurationProvider()

Method Detail

getName

public String getName()

Description copied from interface: RunConfigurationProvider

Get the name of the run configuration provider.

Specified by:

getName in interface RunConfigurationProvider

Returns:

the name of the run configuration provider

init

public void init(Configuration conf,
                 fr.ens.biologie.genomique.kenetre.log.GenericLogger logger)
          throws Aozan3Exception

Description copied from interface: RunConfigurationProvider

Initialize the run configurator provider.

Specified by:

init in interface RunConfigurationProvider

Parameters:

conf - the configuration of the run configurator provider

logger - the logger to use

Throws:

Aozan3Exception - if an error occurs while initialize the provider

getRunConfiguration

public RunConfiguration getRunConfiguration(RunData runData)
                                     throws Aozan3Exception

Description copied from interface: RunConfigurationProvider

Get the run configuration for a run data

Specified by:

getRunConfiguration in interface RunConfigurationProvider

Parameters:

runData - run data

Returns:

a RunConfiguration object

Throws:

Aozan3Exception - if an error occurs while getting the configuration