class BlastnArgs extends cannoli.BlastnArgs with ADAMSaveAnyArgs with ParquetArgs

Blastn command line arguments.

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

Instance Constructors

  1. new BlastnArgs()

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
    BlastnArgs
  5. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  6. var asSingleFile: Boolean
    Definition Classes
    BlastnArgs → ADAMSaveAnyArgs
  7. val blockSize: Int
    Definition Classes
    ParquetArgs → ParquetRDDArgs
    Annotations
    @Option()
  8. def clone(): AnyRef
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()
  9. val compressionCodec: CompressionCodecName
    Definition Classes
    ParquetArgs → ParquetRDDArgs
    Annotations
    @Option()
  10. var db: String
    Definition Classes
    BlastnArgs
  11. var deferMerging: Boolean
    Definition Classes
    BlastnArgs → ADAMSaveAnyArgs
  12. val disableDictionaryEncoding: Boolean
    Definition Classes
    ParquetArgs → ParquetRDDArgs
    Annotations
    @Option()
  13. var disableFastConcat: Boolean
    Definition Classes
    BlastnArgs → ADAMSaveAnyArgs
  14. var doPrintUsage: Boolean
    Definition Classes
    Args4jBase
  15. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  16. def equals(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  17. var evalue: Double
    Definition Classes
    BlastnArgs
  18. var executable: String
    Definition Classes
    BlastnArgs
  19. def finalize(): Unit
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] )
  20. var gapExtend: Integer
    Definition Classes
    BlastnArgs
  21. var gapOpen: Integer
    Definition Classes
    BlastnArgs
  22. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  23. def hashCode(): Int
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  24. var image: String
    Definition Classes
    BlastnArgs
  25. var inputPath: String
  26. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  27. val logLevel: String
    Definition Classes
    ParquetArgs
    Annotations
    @Option()
  28. var maxHsps: Integer
    Definition Classes
    BlastnArgs
  29. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  30. final def notify(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  31. final def notifyAll(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  32. var numThreads: Integer
    Definition Classes
    BlastnArgs
  33. var outputPath: String
    Definition Classes
    BlastnArgs → SaveArgs
  34. val pageSize: Int
    Definition Classes
    ParquetArgs → ParquetRDDArgs
    Annotations
    @Option()
  35. var penalty: Integer
    Definition Classes
    BlastnArgs
  36. var percentIdentity: Double
    Definition Classes
    BlastnArgs
  37. var reward: Integer
    Definition Classes
    BlastnArgs
  38. var sortFastqOutput: Boolean
    Definition Classes
    BlastnArgs → ADAMSaveAnyArgs
  39. var stringency: String
    Definition Classes
    BlastnArgs
  40. var sudo: Boolean
    Definition Classes
    BlastnArgs
  41. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  42. def toString(): String
    Definition Classes
    AnyRef → Any
  43. var useDocker: Boolean
    Definition Classes
    BlastnArgs
  44. var useSingularity: Boolean
    Definition Classes
    BlastnArgs
  45. final def wait(): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  46. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  47. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()
  48. var wordSize: Integer
    Definition Classes
    BlastnArgs

Inherited from ParquetArgs

Inherited from ADAMSaveAnyArgs

Inherited from SaveArgs

Inherited from ParquetRDDArgs

Inherited from cannoli.BlastnArgs

Inherited from Args4jBase

Inherited from AnyRef

Inherited from Any

Ungrouped