Packages

c

com.jnpersson.kmers

StandardFormat

class StandardFormat extends SplitterFormat[MinTable]

Minimizer format that uses a lookup table, storing the list of minimizers in a file.

Linear Supertypes
SplitterFormat[MinTable], AnyRef, Any
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Inherited
  1. StandardFormat
  2. SplitterFormat
  3. AnyRef
  4. Any
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Visibility
  1. Public
  2. All

Instance Constructors

  1. new StandardFormat()

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() @IntrinsicCandidate()
  6. def decorate(priorities: MinTable, props: Properties): MinimizerPriorities
    Definition Classes
    SplitterFormat
  7. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  8. def equals(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  9. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
    Annotations
    @native() @IntrinsicCandidate()
  10. def hashCode(): Int
    Definition Classes
    AnyRef → Any
    Annotations
    @native() @IntrinsicCandidate()
  11. val id: String
    Definition Classes
    StandardFormat → SplitterFormat
  12. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  13. def minimizersLoc(indexLoc: String): String
  14. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  15. final def notify(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native() @IntrinsicCandidate()
  16. final def notifyAll(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native() @IntrinsicCandidate()
  17. def read(location: String, props: Properties)(implicit spark: SparkSession): MinTable
    Definition Classes
    StandardFormat → SplitterFormat
  18. def readAndDecorate(location: String, props: Properties)(implicit spark: SparkSession): MinimizerPriorities
    Definition Classes
    SplitterFormat
  19. def readSplitter(location: String, props: Properties)(implicit spark: SparkSession): AnyMinSplitter
    Definition Classes
    SplitterFormat
  20. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  21. def toString(): String
    Definition Classes
    AnyRef → Any
  22. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  23. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()
  24. final def wait(): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  25. def write(table: MinTable, props: Properties, location: String)(implicit spark: SparkSession): Unit

    Write a MinTable's minimizer ordering to a file

    Write a MinTable's minimizer ordering to a file

    table

    The ordering to write

    props

    Properties that can optionally be written to

    location

    Prefix of the location to write to. A suffix will be appended to this name.

    Definition Classes
    StandardFormat → SplitterFormat

Deprecated Value Members

  1. def finalize(): Unit
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] ) @Deprecated
    Deprecated

Inherited from SplitterFormat[MinTable]

Inherited from AnyRef

Inherited from Any

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