Class/Object

org.bdgenomics.adam.cli

PrintADAM

Related Docs: object PrintADAM | package cli

Permalink

class PrintADAM extends BDGSparkCommand[PrintADAMArgs]

Linear Supertypes
BDGSparkCommand[PrintADAMArgs], Logging, BDGCommand, Runnable, AnyRef, Any
Ordering
  1. Alphabetic
  2. By Inheritance
Inherited
  1. PrintADAM
  2. BDGSparkCommand
  3. Logging
  4. BDGCommand
  5. Runnable
  6. AnyRef
  7. Any
  1. Hide All
  2. Show All
Visibility
  1. Public
  2. All

Instance Constructors

  1. new PrintADAM(args: PrintADAMArgs)

    Permalink

Value Members

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

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

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

    Permalink
    Definition Classes
    AnyRef → Any
  4. val args: PrintADAMArgs

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

    Permalink
    Definition Classes
    Any
  6. def clone(): AnyRef

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

    Permalink
    Definition Classes
    PrintADAM → BDGCommand
  8. def debug(mkr: Marker, msg: ⇒ Any, t: ⇒ Throwable): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  9. def debug(msg: ⇒ Any, t: ⇒ Throwable): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  10. def debug(msg: ⇒ Any): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  11. def displayRaw(sc: SparkContext, file: String, pretty: Boolean = false, output: Option[String] = None): Unit

    Permalink

    Display any Parquet file using JSON

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

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

    Permalink
    Definition Classes
    AnyRef → Any
  14. def error(mkr: Marker, msg: ⇒ Any, t: ⇒ Throwable): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  15. def error(msg: ⇒ Any, t: ⇒ Throwable): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  16. def error(msg: ⇒ Any): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  17. def finalize(): Unit

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

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

    Permalink
    Definition Classes
    AnyRef → Any
  20. def info(mkr: Marker, msg: ⇒ Any, t: ⇒ Throwable): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  21. def info(msg: ⇒ Any, t: ⇒ Throwable): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  22. def info(msg: ⇒ Any): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  23. def initializeMetrics(sc: SparkContext): Option[MetricsListener]

    Permalink
    Definition Classes
    BDGSparkCommand
  24. def isDebugEnabled: Boolean

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  25. def isErrorEnabled: Boolean

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  26. def isInfoEnabled: Boolean

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  27. final def isInstanceOf[T0]: Boolean

    Permalink
    Definition Classes
    Any
  28. def isTraceEnabled: Boolean

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  29. def isWarnEnabled: Boolean

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  30. def logger: Logger

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  31. def loggerName: String

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

    Permalink
    Definition Classes
    AnyRef
  33. final def notify(): Unit

    Permalink
    Definition Classes
    AnyRef
  34. final def notifyAll(): Unit

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

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

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

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

    Permalink
    Definition Classes
    AnyRef
  39. def toString(): String

    Permalink
    Definition Classes
    AnyRef → Any
  40. def trace(mkr: Marker, msg: ⇒ Any, t: ⇒ Throwable): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  41. def trace(msg: ⇒ Any, t: ⇒ Throwable): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  42. def trace(msg: ⇒ Any): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  43. final def wait(): Unit

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

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

    Permalink
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  46. def warn(mkr: Marker, msg: ⇒ Any, t: ⇒ Throwable): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  47. def warn(msg: ⇒ Any, t: ⇒ Throwable): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  48. def warn(msg: ⇒ Any): Unit

    Permalink
    Attributes
    protected
    Definition Classes
    Logging
  49. def withPrintStream(filename: Option[String])(op: (PrintStream) ⇒ Unit): Unit

    Permalink

    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

Ungrouped