# BlastnArgs - Cannoli_2.11: CLI 0.8.0 API - org.bdgenomics.cannoli.cli.BlastnArgs
BlastnArgs - Cannoli 2.11 CLI 0.8.0 API - org.bdgenomics.cannoli.cli.BlastnArgs
Keywords: BlastnArgs Cannoli 2.11 CLI 0.8.0 API org.bdgenomics.cannoli.cli.BlastnArgs

org.bdgenomics.cannoli.cli

# BlastnArgs

###
Related Doc: package cli

#### class BlastnArgs extends cannoli.BlastnArgs with ADAMSaveAnyArgs with ParquetArgs

Blastn command line arguments.

Linear Supertypes
ParquetArgs, ADAMSaveAnyArgs, SaveArgs, ParquetRDDArgs, cannoli.BlastnArgs, Args4jBase, AnyRef, Any
Ordering

1. Alphabetic
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. #### var blockSize: Int

   Definition Classes
     ParquetArgs → ParquetRDDArgs

8. #### def clone(): AnyRef

   Attributes
     protected[java.lang]
   Definition Classes
     AnyRef
   Annotations
     @throws( ... )

9. #### var compressionCodec: CompressionCodecName

   Definition Classes
     ParquetArgs → ParquetRDDArgs

10. #### var db: String

    Definition Classes
      BlastnArgs

11. #### var deferMerging: Boolean

    Definition Classes
      BlastnArgs → ADAMSaveAnyArgs

12. #### var disableDictionaryEncoding: Boolean

    Definition Classes
      ParquetArgs → ParquetRDDArgs

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[java.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

23. #### def hashCode(): Int

    Definition Classes
      AnyRef → Any

24. #### var image: String

    Definition Classes
      BlastnArgs

25. #### var inputPath: String

26. #### final def isInstanceOf[T0]: Boolean

    Definition Classes
      Any

27. #### var logLevel: String

    Definition Classes
      ParquetArgs

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

31. #### final def notifyAll(): Unit

    Definition Classes
      AnyRef

32. #### var outputPath: String

    Definition Classes
      BlastnArgs → SaveArgs

33. #### var pageSize: Int

    Definition Classes
      ParquetArgs → ParquetRDDArgs

34. #### var penalty: Integer

    Definition Classes
      BlastnArgs

35. #### var percentIdentity: Double

    Definition Classes
      BlastnArgs

36. #### var printMetrics: Boolean

    Definition Classes
      Args4jBase

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( ... )

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