Class

dagr.tasks.misc

CalculateDownsamplingProportion

Related Doc: package misc

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class CalculateDownsamplingProportion extends SimpleInJvmTask

In JVM Task that pulls the total number of reads from the quality yield metrics file, and calculates a downsampling fraction.

Linear Supertypes
SimpleInJvmTask, FixedResources, ScheduleWithEmptyDefaultResources, InJvmTask, UnitTask, Schedulable, LazyLogging, Task, Dependable, AnyRef, Any
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Inherited
  1. CalculateDownsamplingProportion
  2. SimpleInJvmTask
  3. FixedResources
  4. ScheduleWithEmptyDefaultResources
  5. InJvmTask
  6. UnitTask
  7. Schedulable
  8. LazyLogging
  9. Task
  10. Dependable
  11. AnyRef
  12. Any
Implicitly
  1. by any2stringadd
  2. by StringFormat
  3. by Ensuring
  4. by ArrowAssoc
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Visibility
  1. Public
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Instance Constructors

  1. new CalculateDownsamplingProportion(qualityYieldMetrics: Path, targetReads: Long)

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Value Members

  1. final def !=(arg0: Any): Boolean

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    Definition Classes
    AnyRef → Any

  2. def !=>(other: MultiTask): other.type

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    Definition Classes
    Task → Dependable

  3. def !=>(other: Task): other.type

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    Definition Classes
    Task → Dependable

  4. final def ##(): Int

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    Definition Classes
    AnyRef → Any

  5. def +(other: String): String

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    Implicit information
    This member is added by an implicit conversion from CalculateDownsamplingProportion to any2stringadd[CalculateDownsamplingProportion] performed by method any2stringadd in scala.Predef.
    Definition Classes
    any2stringadd

  6. def ->[B](y: B): (CalculateDownsamplingProportion, B)

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    Implicit information
    This member is added by an implicit conversion from CalculateDownsamplingProportion to ArrowAssoc[CalculateDownsamplingProportion] performed by method ArrowAssoc in scala.Predef.
    Definition Classes
    ArrowAssoc
    Annotations
    @inline()

  7. def ::(other: Task): MultiTask

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    Definition Classes
    Task

  8. final def ==(arg0: Any): Boolean

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    Definition Classes
    AnyRef → Any

  9. def ==>(other: MultiTask): other.type

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    Definition Classes
    Task → Dependable

  10. def ==>(other: Task): other.type

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    Definition Classes
    Task → Dependable

  11. def applyResources(resources: ResourceSet): Unit

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    Definition Classes
    UnitTask → Schedulable

  12. final def asInstanceOf[T0]: T0

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    Definition Classes
    Any

  13. def clone(): AnyRef

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

  14. def ensuring(cond: (CalculateDownsamplingProportion) ⇒ Boolean, msg: ⇒ Any): CalculateDownsamplingProportion

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    Implicit information
    This member is added by an implicit conversion from CalculateDownsamplingProportion to Ensuring[CalculateDownsamplingProportion] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring

  15. def ensuring(cond: (CalculateDownsamplingProportion) ⇒ Boolean): CalculateDownsamplingProportion

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    Implicit information
    This member is added by an implicit conversion from CalculateDownsamplingProportion to Ensuring[CalculateDownsamplingProportion] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring

  16. def ensuring(cond: Boolean, msg: ⇒ Any): CalculateDownsamplingProportion

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    Implicit information
    This member is added by an implicit conversion from CalculateDownsamplingProportion to Ensuring[CalculateDownsamplingProportion] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring

  17. def ensuring(cond: Boolean): CalculateDownsamplingProportion

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    Implicit information
    This member is added by an implicit conversion from CalculateDownsamplingProportion to Ensuring[CalculateDownsamplingProportion] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring

  18. final def eq(arg0: AnyRef): Boolean

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    Definition Classes
    AnyRef

  19. def equals(arg0: Any): Boolean

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    Definition Classes
    AnyRef → Any

  20. def finalize(): Unit

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

  21. def formatted(fmtstr: String): String

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    Implicit information
    This member is added by an implicit conversion from CalculateDownsamplingProportion to StringFormat[CalculateDownsamplingProportion] performed by method StringFormat in scala.Predef.
    Definition Classes
    StringFormat
    Annotations
    @inline()

  22. final def getClass(): Class[_]

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    Definition Classes
    AnyRef → Any

  23. final def getTasks: Traversable[_ <: CalculateDownsamplingProportion.this.type]

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    Definition Classes
    UnitTask → Task

  24. def hashCode(): Int

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    Definition Classes
    AnyRef → Any

  25. def inJvmMethod(): Int

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    Definition Classes
    SimpleInJvmTask → InJvmTask

  26. final def inJvmMethod(script: Path, logFile: Path): Int

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    Definition Classes
    InJvmTask

  27. final def isInstanceOf[T0]: Boolean

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    Definition Classes
    Any

  28. lazy val logger: Logger

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    Attributes
    protected
    Definition Classes
    LazyLogging

  29. var name: String

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    Definition Classes
    Task

  30. final def ne(arg0: AnyRef): Boolean

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    Definition Classes
    AnyRef

  31. final def notify(): Unit

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    Definition Classes
    AnyRef

  32. final def notifyAll(): Unit

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    Definition Classes
    AnyRef

  33. def onComplete(exitCode: Int): Boolean

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    Definition Classes
    Task

  34. def pickResources(availableResources: ResourceSet): Option[ResourceSet]

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    Definition Classes
    FixedResources → Schedulable

  35. var proportion: Double

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  36. def removeDependency(task: Task): Boolean

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    Definition Classes
    Task

  37. def requires(cores: Double, memory: String): CalculateDownsamplingProportion.this.type

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    Definition Classes
    FixedResources

  38. def requires(cores: Cores, memory: Memory): CalculateDownsamplingProportion.this.type

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    Definition Classes
    FixedResources

  39. def requires(resources: ResourceSet): CalculateDownsamplingProportion.this.type

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    Definition Classes
    FixedResources

  40. def resources: ResourceSet

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    Definition Classes
    ScheduleWithEmptyDefaultResources

  41. def retry(taskInfo: TaskExecutionInfo, failedOnComplete: Boolean): Option[Task]

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    Definition Classes
    Task

  42. def run(): Unit

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    Definition Classes
    CalculateDownsamplingProportion → SimpleInJvmTask

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

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    Definition Classes
    AnyRef

  44. def toString(): String

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    Definition Classes
    AnyRef → Any

  45. final def wait(): Unit

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

  47. final def wait(arg0: Long): Unit

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

  48. def withName(name: String): CalculateDownsamplingProportion.this.type

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    Definition Classes
    Task

  49. def →[B](y: B): (CalculateDownsamplingProportion, B)

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    Implicit information
    This member is added by an implicit conversion from CalculateDownsamplingProportion to ArrowAssoc[CalculateDownsamplingProportion] performed by method ArrowAssoc in scala.Predef.
    Definition Classes
    ArrowAssoc

Inherited from SimpleInJvmTask

Inherited from FixedResources

Inherited from ScheduleWithEmptyDefaultResources

Inherited from InJvmTask

Inherited from UnitTask

Inherited from Schedulable

Inherited from LazyLogging

Inherited from Task

Inherited from Dependable

Inherited from AnyRef

Inherited from Any

Inherited by implicit conversion any2stringadd from CalculateDownsamplingProportion to any2stringadd[CalculateDownsamplingProportion]

Inherited by implicit conversion StringFormat from CalculateDownsamplingProportion to StringFormat[CalculateDownsamplingProportion]

Inherited by implicit conversion Ensuring from CalculateDownsamplingProportion to Ensuring[CalculateDownsamplingProportion]

Inherited by implicit conversion ArrowAssoc from CalculateDownsamplingProportion to ArrowAssoc[CalculateDownsamplingProportion]

Ungrouped