c

com.fulcrumgenomics.util

ProgressLogger

case class ProgressLogger(logger: Logger, noun: String = "record", verb: String = "processed", unit: Int = 1000 * 1000) extends AbstractProgressLogger with Product with Serializable

A subclass of HTSJDK's progress logger that uses fgbio's logging system.

Linear Supertypes
Serializable, Serializable, Product, Equals, AbstractProgressLogger, ProgressLoggerInterface, AnyRef, Any
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Inherited
  1. ProgressLogger
  2. Serializable
  3. Serializable
  4. Product
  5. Equals
  6. AbstractProgressLogger
  7. ProgressLoggerInterface
  8. AnyRef
  9. Any
Implicitly
  1. by any2stringadd
  2. by StringFormat
  3. by Ensuring
  4. by ArrowAssoc
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Visibility
  1. Public
  2. All

Instance Constructors

  1. new ProgressLogger(logger: Logger, noun: String = "record", verb: String = "processed", unit: Int = 1000 * 1000)

Abstract Value Members

  1. abstract def log(arg0: <repeated...>[String]): Unit
    Attributes
    protected[htsjdk.samtools.util]
    Definition Classes
    AbstractProgressLogger

Concrete Value Members

  1. final def !=(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  2. final def ##(): Int
    Definition Classes
    AnyRef → Any
  3. def +(other: String): String
    Implicit
    This member is added by an implicit conversion from ProgressLogger to any2stringadd[ProgressLogger] performed by method any2stringadd in scala.Predef.
    Definition Classes
    any2stringadd
  4. def ->[B](y: B): (ProgressLogger, B)
    Implicit
    This member is added by an implicit conversion from ProgressLogger to ArrowAssoc[ProgressLogger] performed by method ArrowAssoc in scala.Predef.
    Definition Classes
    ArrowAssoc
    Annotations
    @inline()
  5. final def ==(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  6. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  7. def clone(): AnyRef
    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  8. def ensuring(cond: (ProgressLogger) ⇒ Boolean, msg: ⇒ Any): ProgressLogger
    Implicit
    This member is added by an implicit conversion from ProgressLogger to Ensuring[ProgressLogger] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring
  9. def ensuring(cond: (ProgressLogger) ⇒ Boolean): ProgressLogger
    Implicit
    This member is added by an implicit conversion from ProgressLogger to Ensuring[ProgressLogger] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring
  10. def ensuring(cond: Boolean, msg: ⇒ Any): ProgressLogger
    Implicit
    This member is added by an implicit conversion from ProgressLogger to Ensuring[ProgressLogger] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring
  11. def ensuring(cond: Boolean): ProgressLogger
    Implicit
    This member is added by an implicit conversion from ProgressLogger to Ensuring[ProgressLogger] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring
  12. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  13. def finalize(): Unit
    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] )
  14. def formatted(fmtstr: String): String
    Implicit
    This member is added by an implicit conversion from ProgressLogger to StringFormat[ProgressLogger] performed by method StringFormat in scala.Predef.
    Definition Classes
    StringFormat
    Annotations
    @inline()
  15. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
  16. def getCount(): Long
    Definition Classes
    AbstractProgressLogger
  17. def getElapsedSeconds(): Long
    Definition Classes
    AbstractProgressLogger
  18. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  19. def log(message: String*): Unit
  20. val logger: Logger
  21. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  22. final def notify(): Unit
    Definition Classes
    AnyRef
  23. final def notifyAll(): Unit
    Definition Classes
    AnyRef
  24. val noun: String
  25. def record(rec: SamRecord): Unit
  26. def record(): Unit

    Method to use to record progress when genome location isn't available or relevant.

  27. def record(arg0: <repeated...>[SAMRecord]): Boolean
    Definition Classes
    AbstractProgressLogger → ProgressLoggerInterface
  28. def record(arg0: SAMRecord): Boolean
    Definition Classes
    AbstractProgressLogger → ProgressLoggerInterface
  29. def record(arg0: String, arg1: Int): Boolean
    Definition Classes
    AbstractProgressLogger → ProgressLoggerInterface
  30. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  31. val unit: Int
  32. val verb: String
  33. final def wait(): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  34. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  35. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  36. def →[B](y: B): (ProgressLogger, B)
    Implicit
    This member is added by an implicit conversion from ProgressLogger to ArrowAssoc[ProgressLogger] performed by method ArrowAssoc in scala.Predef.
    Definition Classes
    ArrowAssoc

Inherited from Serializable

Inherited from Serializable

Inherited from Product

Inherited from Equals

Inherited from AbstractProgressLogger

Inherited from ProgressLoggerInterface

Inherited from AnyRef

Inherited from Any

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

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

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

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

Ungrouped