Package org.broadinstitute.hellbender.cmdline.argumentcollections

Class MultiVariantInputArgumentCollection

java.lang.Object

org.broadinstitute.hellbender.cmdline.argumentcollections.MultiVariantInputArgumentCollection

All Implemented Interfaces:

Serializable

Direct Known Subclasses:

MultiVariantInputArgumentCollection.DefaultMultiVariantInputArgumentCollection

public abstract class MultiVariantInputArgumentCollection
extends Object
implements Serializable

Class that defines the variant arguments used for a MultiVariantWalker. The default implementation below uses the standard --variant argument; however, subclasses of MultiVariantWalker can override MultiVariantWalker.getMultiVariantInputArgumentCollection() and provide their own argument pattern.

See Also:

• Serialized Form

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static class	MultiVariantInputArgumentCollection.DefaultMultiVariantInputArgumentCollection

Constructor Summary

Constructors

Constructor	Description
MultiVariantInputArgumentCollection()

Method Summary

Modifier and Type	Method	Description
abstract List<GATKPath>	getDrivingVariantPaths()

Methods inherited from class java.lang.Object

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

Constructor Details

MultiVariantInputArgumentCollection

public MultiVariantInputArgumentCollection()

Method Details

getDrivingVariantPaths

public abstract List<GATKPath> getDrivingVariantPaths()

Returns:

List of paths to variants over which to iterate. These will be merged and iterated as a single data source.