c

org.bdgenomics.cannoli.cli

VtNormalizeArgs

class VtNormalizeArgs extends cannoli.VtNormalizeArgs with ADAMSaveAnyArgs with ParquetArgs

Vt normalize command line arguments.

Linear Supertypes
ParquetArgs, ADAMSaveAnyArgs, SaveArgs, ParquetRDDArgs, cannoli.VtNormalizeArgs, Args4jBase, AnyRef, Any
Ordering
  1. Alphabetic
  2. By Inheritance
Inherited
  1. VtNormalizeArgs
  2. ParquetArgs
  3. ADAMSaveAnyArgs
  4. SaveArgs
  5. ParquetRDDArgs
  6. VtNormalizeArgs
  7. Args4jBase
  8. AnyRef
  9. Any
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Visibility
  1. Public
  2. All

Instance Constructors

  1. new VtNormalizeArgs()

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. var addFiles: Boolean
    Definition Classes
    VtNormalizeArgs
  5. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  6. var asSingleFile: Boolean
    Definition Classes
    VtNormalizeArgs → ADAMSaveAnyArgs
  7. val blockSize: Int
    Definition Classes
    ParquetArgs → ParquetRDDArgs
    Annotations
    @Option()
  8. def clone(): AnyRef
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native() @HotSpotIntrinsicCandidate()
  9. val compressionCodec: CompressionCodecName
    Definition Classes
    ParquetArgs → ParquetRDDArgs
    Annotations
    @Option()
  10. var deferMerging: Boolean
    Definition Classes
    VtNormalizeArgs → ADAMSaveAnyArgs
  11. val disableDictionaryEncoding: Boolean
    Definition Classes
    ParquetArgs → ParquetRDDArgs
    Annotations
    @Option()
  12. var disableFastConcat: Boolean
    Definition Classes
    VtNormalizeArgs → ADAMSaveAnyArgs
  13. var doPrintUsage: Boolean
    Definition Classes
    Args4jBase
  14. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  15. def equals(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  16. var executable: String
    Definition Classes
    VtNormalizeArgs
  17. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
    Annotations
    @native() @HotSpotIntrinsicCandidate()
  18. def hashCode(): Int
    Definition Classes
    AnyRef → Any
    Annotations
    @native() @HotSpotIntrinsicCandidate()
  19. var image: String
    Definition Classes
    VtNormalizeArgs
  20. var inputPath: String
  21. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  22. val logLevel: String
    Definition Classes
    ParquetArgs
    Annotations
    @Option()
  23. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  24. final def notify(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native() @HotSpotIntrinsicCandidate()
  25. final def notifyAll(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native() @HotSpotIntrinsicCandidate()
  26. var outputPath: String
    Definition Classes
    VtNormalizeArgs → SaveArgs
  27. val pageSize: Int
    Definition Classes
    ParquetArgs → ParquetRDDArgs
    Annotations
    @Option()
  28. var referencePath: String
    Definition Classes
    VtNormalizeArgs
  29. var sortFastqOutput: Boolean
    Definition Classes
    VtNormalizeArgs → ADAMSaveAnyArgs
  30. var stringency: String
  31. var sudo: Boolean
    Definition Classes
    VtNormalizeArgs
  32. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  33. def toString(): String
    Definition Classes
    AnyRef → Any
  34. var useDocker: Boolean
    Definition Classes
    VtNormalizeArgs
  35. var useSingularity: Boolean
    Definition Classes
    VtNormalizeArgs
  36. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  37. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()
  38. final def wait(): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  39. var window: Int
    Definition Classes
    VtNormalizeArgs

Deprecated Value Members

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

    (Since version ) see corresponding Javadoc for more information.

Inherited from ParquetArgs

Inherited from ADAMSaveAnyArgs

Inherited from SaveArgs

Inherited from ParquetRDDArgs

Inherited from cannoli.VtNormalizeArgs

Inherited from Args4jBase

Inherited from AnyRef

Inherited from Any

Ungrouped