org.bdgenomics.adam.cli

PluginExecutor

object PluginExecutor extends BDGCommandCompanion

This set of classes executes a plugin along with the associated input location.

Example usage: adam plugin org.bdgenomics.adam.plugins.Take10Plugin reads12.sam

org.bdgenomics.adam.plugins.Take10Plugin is a simple example plugin. The org.bdgenomics.adam.plugins.ADAMPlugin interface defines the class that will run using this command.

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BDGCommandCompanion, AnyRef, Any
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  1. final def !=(arg0: AnyRef): Boolean

    Definition Classes
    AnyRef

  2. final def !=(arg0: Any): Boolean

    Definition Classes
    Any

  3. final def ##(): Int

    Definition Classes
    AnyRef → Any

  4. final def ==(arg0: AnyRef): Boolean

    Definition Classes
    AnyRef

  5. final def ==(arg0: Any): Boolean

    Definition Classes
    Any

  6. def apply(cmdLine: Array[String]): BDGCommand

    Definition Classes
    PluginExecutor → BDGCommandCompanion

  7. final def asInstanceOf[T0]: T0

    Definition Classes
    Any

  8. def clone(): AnyRef

    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

  9. val commandDescription: String

    Definition Classes
    PluginExecutor → BDGCommandCompanion

  10. val commandName: String

    Definition Classes
    PluginExecutor → BDGCommandCompanion

  11. final def eq(arg0: AnyRef): Boolean

    Definition Classes
    AnyRef

  12. def equals(arg0: Any): Boolean

    Definition Classes
    AnyRef → Any

  13. def finalize(): Unit

    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] )

  14. final def getClass(): Class[_]

    Definition Classes
    AnyRef → Any

  15. def hashCode(): Int

    Definition Classes
    AnyRef → Any

  16. final def isInstanceOf[T0]: Boolean

    Definition Classes
    Any

  17. def main(cmdLine: Array[String]): Unit

    Definition Classes
    BDGCommandCompanion

  18. final def ne(arg0: AnyRef): Boolean

    Definition Classes
    AnyRef

  19. final def notify(): Unit

    Definition Classes
    AnyRef

  20. final def notifyAll(): Unit

    Definition Classes
    AnyRef

  21. final def synchronized[T0](arg0: ⇒ T0): T0

    Definition Classes
    AnyRef

  22. def toString(): String

    Definition Classes
    AnyRef → Any

  23. final def wait(): Unit

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

  24. final def wait(arg0: Long, arg1: Int): Unit

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

  25. final def wait(arg0: Long): Unit

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

Inherited from BDGCommandCompanion

Inherited from AnyRef

Inherited from Any

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