org.bdgenomics.adam.instrumentation

# Timers

#### object Timers extends Metrics

Contains Timers that are used to instrument ADAM.

Linear Supertypes
Metrics, Serializable, Serializable, AnyRef, Any
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1. Timers
2. Metrics
3. Serializable
4. Serializable
5. AnyRef
6. Any

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### Value Members

1. #### final def !=(arg0: AnyRef): Boolean

   Definition Classes
     AnyRef

2. #### final def !=(arg0: Any): Boolean

   Definition Classes
     Any

3. #### final def ##(): Int

   Definition Classes
     AnyRef → Any

4. #### final def ==(arg0: AnyRef): Boolean

   Definition Classes
     AnyRef

5. #### final def ==(arg0: Any): Boolean

   Definition Classes
     Any

6. #### val BAMLoad: Timer

7. #### val BQSRInDriver: Timer

8. #### val ComputeCovariates: Timer

9. #### val ComputeQualityScore: Timer

10. #### val ConvertToSAM: Timer

11. #### val ConvertToSAMRecord: Timer

12. #### val CreateIndelRealignmentTargets: Timer

13. #### val CreateKnownSnpsTable: Timer

14. #### val CreateReferencePositionPair: Timer

15. #### val FindTargets: Timer

16. #### val GetExtraValues: Timer

17. #### val GetReferenceFromReads: Timer

18. #### val JoinTargets: Timer

19. #### val LoadAlignmentRecords: Timer

20. #### val LoadFragments: Timer

21. #### val MapTargets: Timer

22. #### val MarkDuplicatesInDriver: Timer

23. #### val MarkReads: Timer

24. #### val ObservationAccumulatorComb: Timer

25. #### val ObservationAccumulatorSeq: Timer

26. #### val ParquetLoad: Timer

27. #### val PerformDuplicateMarking: Timer

28. #### val RealignIndelsInDriver: Timer

29. #### val RealignTargetGroup: Timer

30. #### val RecalibrateRead: Timer

31. #### val SAMSave: Timer

32. #### val SaveAsADAM: Timer

33. #### val ScoreAndMarkReads: Timer

34. #### val SortByIndex: Timer

35. #### val SortReads: Timer

36. #### val SortTargets: Timer

37. #### val SweepReadOverReferenceForQuality: Timer

38. #### val TrimCigar: Timer

39. #### val TrimLowQualityInDriver: Timer

40. #### val TrimMDTag: Timer

41. #### val TrimRead: Timer

42. #### val TrimReadsInDriver: Timer

43. #### val WriteADAMRecord: Timer

44. #### val WriteBAMRecord: Timer

45. #### val WriteCRAMRecord: Timer

46. #### val WriteSAMRecord: Timer

47. #### final def asInstanceOf[T0]: T0

    Definition Classes
      Any

48. #### val clock: Clock

    Definition Classes
      Metrics

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

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

50. #### final def eq(arg0: AnyRef): Boolean

    Definition Classes
      AnyRef

51. #### def equals(arg0: Any): Boolean

    Definition Classes
      AnyRef → Any

52. #### def finalize(): Unit

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

53. #### final def getClass(): Class[_]

    Definition Classes
      AnyRef → Any

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

    Definition Classes
      AnyRef → Any

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

    Definition Classes
      Any

56. #### final def ne(arg0: AnyRef): Boolean

    Definition Classes
      AnyRef

57. #### final def notify(): Unit

    Definition Classes
      AnyRef

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

    Definition Classes
      AnyRef

59. #### final def synchronized[T0](arg0: ⇒ T0): T0

    Definition Classes
      AnyRef

60. #### def timer(name: String): Timer

    Definition Classes
      Metrics

61. #### def toString(): String

    Definition Classes
      AnyRef → Any

62. #### final def wait(): Unit

    Definition Classes
      AnyRef
    Annotations
      @throws( ... )

63. #### final def wait(arg0: Long, arg1: Int): Unit

    Definition Classes
      AnyRef
    Annotations
      @throws( ... )

64. #### final def wait(arg0: Long): Unit

    Definition Classes
      AnyRef
    Annotations
      @throws( ... )

### Inherited from Metrics

### Inherited from Serializable

### Inherited from AnyRef

### Inherited from Any

### Ungrouped