c

org.bdgenomics.adam.cli

ADAM2FastqArgs

class ADAM2FastqArgs extends Args4jBase with CramArgs

Linear Supertypes
CramArgs, Args4jBase, AnyRef, Any
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Inherited
  1. ADAM2FastqArgs
  2. CramArgs
  3. Args4jBase
  4. AnyRef
  5. Any
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Visibility
  1. Public
  2. All

Instance Constructors

  1. new ADAM2FastqArgs()

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. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  5. var asSingleFile: Boolean
  6. def clone(): AnyRef
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native() @HotSpotIntrinsicCandidate()
  7. def configureCramFormat(sc: SparkContext): Option[Unit]

    Configure CRAM format.

    Configure CRAM format.

    sc

    Spark context to configure

    Definition Classes
    CramArgs
  8. val cramReference: String
    Definition Classes
    CramArgs
    Annotations
    @Option()
  9. var disableFastConcat: Boolean
  10. var disableProjection: Boolean
  11. var doPrintUsage: Boolean
    Definition Classes
    Args4jBase
  12. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  13. def equals(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  14. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
    Annotations
    @native() @HotSpotIntrinsicCandidate()
  15. def hashCode(): Int
    Definition Classes
    AnyRef → Any
    Annotations
    @native() @HotSpotIntrinsicCandidate()
  16. var inputPath: String
  17. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  18. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  19. final def notify(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native() @HotSpotIntrinsicCandidate()
  20. final def notifyAll(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native() @HotSpotIntrinsicCandidate()
  21. var outputPath: String
  22. var outputPath2: String
  23. var persistLevel: String
  24. var repartition: Int
  25. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  26. def toString(): String
    Definition Classes
    AnyRef → Any
  27. var validationStringency: ValidationStringency
  28. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  29. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()
  30. final def wait(): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  31. var writeOriginalQualityScores: Boolean

Deprecated Value Members

  1. def finalize(): Unit
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] ) @Deprecated
    Deprecated

Inherited from CramArgs

Inherited from Args4jBase

Inherited from AnyRef

Inherited from Any

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