Packages

c

com.jnpersson.discount.fastdoop

PartialSequence

class PartialSequence extends Serializable

This class is used to store fragments of a long input FASTA sequence as an array of bytes.

Version

1.0

Linear Supertypes
Serializable, AnyRef, Any
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Inherited
  1. PartialSequence
  2. Serializable
  3. AnyRef
  4. Any
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Visibility
  1. Public
  2. All

Instance Constructors

  1. new PartialSequence()

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. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  5. def clone(): AnyRef
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()
  6. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  7. def equals(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  8. def finalize(): Unit
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] )
  9. def getBuffer(): Array[Byte]
  10. def getBytesToProcess(): Int
  11. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  12. def getEndValue(): Int
  13. def getHeader(): String
  14. def getKey(): String
  15. def getSeqPosition(): Long

    The 1-based position in the sequence where this fragment begins, or -1 if the position is not known.

  16. def getStartValue(): Int
  17. def getValue(): String
  18. def getValue2(): String
  19. def hashCode(): Int
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  20. def isComplete(): Boolean

    Is this PartialSequence a complete sequence (not partial)?

  21. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  22. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  23. final def notify(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  24. final def notifyAll(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  25. def setBuffer(buffer: Array[Byte]): Unit
  26. def setBytesToProcess(bytesToProcess: Int): Unit
  27. def setComplete(complete: Boolean): Unit
  28. def setEndValue(endValue: Int): Unit
  29. def setHeader(header: String): Unit
  30. def setSeqPosition(seqPosition: Long): Unit
  31. def setStartValue(startValue: Int): Unit
  32. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  33. def toString(): String
    Definition Classes
    PartialSequence → AnyRef → Any
    Annotations
    @Override()
  34. def toString2(): String
  35. final def wait(): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  36. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  37. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()

Inherited from Serializable

Inherited from AnyRef

Inherited from Any

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