class TransformAlignments extends BDGSparkCommand[TransformAlignmentsArgs] with Logging

Linear Supertypes
BDGSparkCommand[TransformAlignmentsArgs], Logging, BDGCommand, Runnable, AnyRef, Any
Ordering
  1. Alphabetic
  2. By Inheritance
Inherited
  1. TransformAlignments
  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 TransformAlignments(args: TransformAlignmentsArgs)

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. def apply(ds: AlignmentDataset): AlignmentDataset
  5. val args: TransformAlignmentsArgs
    Attributes
    protected
    Definition Classes
    TransformAlignments → BDGSparkCommand
  6. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  7. def clone(): AnyRef
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()
  8. val companion: TransformAlignments.type
    Definition Classes
    TransformAlignments → BDGCommand
  9. def debug(mkr: Marker, msg: ⇒ Any, t: ⇒ Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  10. def debug(msg: ⇒ Any, t: ⇒ Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  11. def debug(msg: ⇒ Any): Unit
    Attributes
    protected
    Definition Classes
    Logging
  12. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  13. def equals(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  14. def error(mkr: Marker, msg: ⇒ Any, t: ⇒ Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  15. def error(msg: ⇒ Any, t: ⇒ Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  16. def error(msg: ⇒ Any): Unit
    Attributes
    protected
    Definition Classes
    Logging
  17. def finalize(): Unit
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] )
  18. def forceNonParquet(): Boolean
  19. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  20. def hashCode(): Int
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  21. def info(mkr: Marker, msg: ⇒ Any, t: ⇒ Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  22. def info(msg: ⇒ Any, t: ⇒ Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  23. def info(msg: ⇒ Any): Unit
    Attributes
    protected
    Definition Classes
    Logging
  24. def isDebugEnabled: Boolean
    Attributes
    protected
    Definition Classes
    Logging
  25. def isErrorEnabled: Boolean
    Attributes
    protected
    Definition Classes
    Logging
  26. def isInfoEnabled: Boolean
    Attributes
    protected
    Definition Classes
    Logging
  27. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  28. def isNonParquet(inputPath: String): Boolean
  29. def isTraceEnabled: Boolean
    Attributes
    protected
    Definition Classes
    Logging
  30. def isWarnEnabled: Boolean
    Attributes
    protected
    Definition Classes
    Logging
  31. def logger: Logger
    Attributes
    protected
    Definition Classes
    Logging
  32. def loggerName: String
    Attributes
    protected
    Definition Classes
    Logging
  33. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  34. final def notify(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  35. final def notifyAll(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  36. def run(sc: SparkContext): Unit
    Definition Classes
    TransformAlignments → BDGSparkCommand
  37. def run(): Unit
    Definition Classes
    BDGSparkCommand → Runnable
  38. val stringency: ValidationStringency
  39. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  40. def toString(): String
    Definition Classes
    AnyRef → Any
  41. def trace(mkr: Marker, msg: ⇒ Any, t: ⇒ Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  42. def trace(msg: ⇒ Any, t: ⇒ Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  43. def trace(msg: ⇒ Any): Unit
    Attributes
    protected
    Definition Classes
    Logging
  44. final def wait(): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  45. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  46. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()
  47. def warn(mkr: Marker, msg: ⇒ Any, t: ⇒ Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  48. def warn(msg: ⇒ Any, t: ⇒ Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  49. def warn(msg: ⇒ Any): Unit
    Attributes
    protected
    Definition Classes
    Logging

Inherited from BDGSparkCommand[TransformAlignmentsArgs]

Inherited from Logging

Inherited from BDGCommand

Inherited from Runnable

Inherited from AnyRef

Inherited from Any

Ungrouped