org.bdgenomics.adam.cli

PluginExecutor

class PluginExecutor extends BDGSparkCommand[PluginExecutorArgs]

Linear Supertypes
BDGSparkCommand[PluginExecutorArgs], Logging, BDGCommand, Runnable, AnyRef, Any
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Inherited
  1. PluginExecutor
  2. BDGSparkCommand
  3. Logging
  4. BDGCommand
  5. Runnable
  6. AnyRef
  7. Any
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  1. Public
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Instance Constructors

  1. new PluginExecutor(args: PluginExecutorArgs)

Value Members

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

    Definition Classes
    AnyRef → Any

  2. final def ##(): Int

    Definition Classes
    AnyRef → Any

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

    Definition Classes
    AnyRef → Any

  4. val args: PluginExecutorArgs

    Attributes
    protected
    Definition Classes
    PluginExecutor → BDGSparkCommand

  5. final def asInstanceOf[T0]: T0

    Definition Classes
    Any

  6. def clone(): AnyRef

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

  7. val companion: BDGCommandCompanion

    Definition Classes
    PluginExecutor → BDGCommand

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

    Definition Classes
    AnyRef

  9. def equals(arg0: Any): Boolean

    Definition Classes
    AnyRef → Any

  10. def finalize(): Unit

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

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

    Definition Classes
    AnyRef → Any

  12. def hashCode(): Int

    Definition Classes
    AnyRef → Any

  13. def initializeMetrics(sc: SparkContext): Option[MetricsListener]

    Definition Classes
    BDGSparkCommand

  14. final def isInstanceOf[T0]: Boolean

    Definition Classes
    Any

  15. def isTraceEnabled(): Boolean

    Attributes
    protected
    Definition Classes
    Logging

  16. def loadAccessControl[Input](accessControl: String)(implicit arg0: (Input) ⇒ SpecificRecord, arg1: Manifest[Input]): AccessControl[Input]

  17. def loadPlugin[Input, Output](pluginName: String)(implicit arg0: (Input) ⇒ SpecificRecord, arg1: Manifest[Input]): ADAMPlugin[Input, Output]

  18. def log: Logger

    Attributes
    protected
    Definition Classes
    Logging

  19. def logDebug(msg: ⇒ String, throwable: Throwable): Unit

    Attributes
    protected
    Definition Classes
    Logging

  20. def logDebug(msg: ⇒ String): Unit

    Attributes
    protected
    Definition Classes
    Logging

  21. def logError(msg: ⇒ String, throwable: Throwable): Unit

    Attributes
    protected
    Definition Classes
    Logging

  22. def logError(msg: ⇒ String): Unit

    Attributes
    protected
    Definition Classes
    Logging

  23. def logInfo(msg: ⇒ String, throwable: Throwable): Unit

    Attributes
    protected
    Definition Classes
    Logging

  24. def logInfo(msg: ⇒ String): Unit

    Attributes
    protected
    Definition Classes
    Logging

  25. def logName: String

    Attributes
    protected
    Definition Classes
    Logging

  26. def logTrace(msg: ⇒ String, throwable: Throwable): Unit

    Attributes
    protected
    Definition Classes
    Logging

  27. def logTrace(msg: ⇒ String): Unit

    Attributes
    protected
    Definition Classes
    Logging

  28. def logWarning(msg: ⇒ String, throwable: Throwable): Unit

    Attributes
    protected
    Definition Classes
    Logging

  29. def logWarning(msg: ⇒ String): Unit

    Attributes
    protected
    Definition Classes
    Logging

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

    Definition Classes
    AnyRef

  31. final def notify(): Unit

    Definition Classes
    AnyRef

  32. final def notifyAll(): Unit

    Definition Classes
    AnyRef

  33. def output[Output](sc: SparkContext, output: RDD[Output]): Unit

  34. def printMetrics(totalTime: Long, metricsListener: Option[MetricsListener]): Unit

    Definition Classes
    BDGSparkCommand

  35. def run(sc: SparkContext): Unit

    Definition Classes
    PluginExecutor → BDGSparkCommand

  36. def run(): Unit

    Definition Classes
    BDGSparkCommand → Runnable

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

    Definition Classes
    AnyRef

  38. def toString(): String

    Definition Classes
    AnyRef → Any

  39. final def wait(): Unit

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

Inherited from BDGSparkCommand[PluginExecutorArgs]

Inherited from Logging

Inherited from BDGCommand

Inherited from Runnable

Inherited from AnyRef

Inherited from Any

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