Class/Object

org.bdgenomics.adam.cli

PrintADAM

Related Docs: object PrintADAM | package cli

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class PrintADAM extends BDGSparkCommand[PrintADAMArgs]

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

  1. new PrintADAM(args: PrintADAMArgs)

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Value Members

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

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    Definition Classes
    AnyRef → Any
  2. final def ##(): Int

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    Definition Classes
    AnyRef → Any
  3. final def ==(arg0: Any): Boolean

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    Definition Classes
    AnyRef → Any
  4. val args: PrintADAMArgs

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    Attributes
    protected
    Definition Classes
    PrintADAM → BDGSparkCommand
  5. final def asInstanceOf[T0]: T0

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    Definition Classes
    Any
  6. def clone(): AnyRef

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    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  7. val companion: PrintADAM.type

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    Definition Classes
    PrintADAM → BDGCommand
  8. def displayRaw(sc: SparkContext, file: String, pretty: Boolean = false, output: Option[String] = None): Unit

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    Display any Parquet file using JSON

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

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    Definition Classes
    AnyRef
  10. def equals(arg0: Any): Boolean

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    Definition Classes
    AnyRef → Any
  11. def finalize(): Unit

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    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] )
  12. final def getClass(): Class[_]

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    Definition Classes
    AnyRef → Any
  13. def hashCode(): Int

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    Definition Classes
    AnyRef → Any
  14. def initializeMetrics(sc: SparkContext): Option[MetricsListener]

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    Definition Classes
    BDGSparkCommand
  15. final def isInstanceOf[T0]: Boolean

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    Definition Classes
    Any
  16. def isTraceEnabled(): Boolean

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    Attributes
    protected
    Definition Classes
    Logging
  17. def log: Logger

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    Attributes
    protected
    Definition Classes
    Logging
  18. def logDebug(msg: ⇒ String, throwable: Throwable): Unit

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    Attributes
    protected
    Definition Classes
    Logging
  19. def logDebug(msg: ⇒ String): Unit

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    Attributes
    protected
    Definition Classes
    Logging
  20. def logError(msg: ⇒ String, throwable: Throwable): Unit

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    Attributes
    protected
    Definition Classes
    Logging
  21. def logError(msg: ⇒ String): Unit

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    Attributes
    protected
    Definition Classes
    Logging
  22. def logInfo(msg: ⇒ String, throwable: Throwable): Unit

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    Attributes
    protected
    Definition Classes
    Logging
  23. def logInfo(msg: ⇒ String): Unit

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    Attributes
    protected
    Definition Classes
    Logging
  24. def logName: String

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    Attributes
    protected
    Definition Classes
    Logging
  25. def logTrace(msg: ⇒ String, throwable: Throwable): Unit

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    Attributes
    protected
    Definition Classes
    Logging
  26. def logTrace(msg: ⇒ String): Unit

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    Attributes
    protected
    Definition Classes
    Logging
  27. def logWarning(msg: ⇒ String, throwable: Throwable): Unit

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    Attributes
    protected
    Definition Classes
    Logging
  28. def logWarning(msg: ⇒ String): Unit

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    Attributes
    protected
    Definition Classes
    Logging
  29. final def ne(arg0: AnyRef): Boolean

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    Definition Classes
    AnyRef
  30. final def notify(): Unit

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    Definition Classes
    AnyRef
  31. final def notifyAll(): Unit

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    Definition Classes
    AnyRef
  32. def printMetrics(totalTime: Long, metricsListener: Option[MetricsListener]): Unit

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    Definition Classes
    BDGSparkCommand
  33. def run(sc: SparkContext): Unit

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    Definition Classes
    PrintADAM → BDGSparkCommand
  34. def run(): Unit

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    Definition Classes
    BDGSparkCommand → Runnable
  35. final def synchronized[T0](arg0: ⇒ T0): T0

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    Definition Classes
    AnyRef
  36. def toString(): String

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    Definition Classes
    AnyRef → Any
  37. final def wait(): Unit

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  38. final def wait(arg0: Long, arg1: Int): Unit

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  39. final def wait(arg0: Long): Unit

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  40. def withPrintStream(filename: Option[String])(op: (PrintStream) ⇒ Unit): Unit

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    Safe output-stream “resource” function

    Safe output-stream “resource” function

    This function calls the function op on a java.io.PrintStream, if filename is None, it uses System.out. If the function ends with an exception, and filename is Some(_), the output stream will be closed.

    filename

    If provided, this is the output to print to. Else, if None, we print to System.out.

Inherited from BDGSparkCommand[PrintADAMArgs]

Inherited from Logging

Inherited from BDGCommand

Inherited from Runnable

Inherited from AnyRef

Inherited from Any

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