ADAM_2.12: Core 1.0 API < Back
 

# Packages

-  package root
  Definition Classes
    root
-  package org
  Definition Classes
    root
-  package bdgenomics
  Definition Classes
    org
-  package adam
  Definition Classes
    bdgenomics
-  package models
  Definition Classes
    adam
- Alphabet
- Attribute
- Coverage
- DNAAlphabet
- IUPACAlphabet
- MdTag
- MdTagEvent
- OptionalPositionOrdering
- OptionalReferenceOrdering
- OptionalRegionOrdering
- PositionOrdering
- ReadGroup
- ReadGroupDictionary
- ReferenceOrdering
- ReferencePosition
- ReferencePositionSerializer
- ReferenceRegion
- ReferenceRegionSerializer
- RegionOrdering
- SequenceDictionary
- SequenceRecord
- SnpTable
- Symbol
- TagType
- VariantContext
- VariantContextSerializer

o

org.bdgenomics.adam.models

# OptionalPositionOrdering 

###

#### object OptionalPositionOrdering extends OptionalReferenceOrdering[ReferencePosition]

A sort order that orders all given positions lexicographically by reference and numerically within a single reference, and puts all non-provided positions at the end. An extension of PositionOrdering to Optional data.

See also

  PositionOrdering

Linear Supertypes
OptionalReferenceOrdering[ReferencePosition], Ordering[Option[ReferencePosition]], PartialOrdering[Option[ReferencePosition]], Equiv[Option[ReferencePosition]], Serializable, Serializable, Comparator[Option[ReferencePosition]], AnyRef, Any
 
Ordering

1. Alphabetic
2. By Inheritance

Inherited

1. OptionalPositionOrdering
2. OptionalReferenceOrdering
3. Ordering
4. PartialOrdering
5. Equiv
6. Serializable
7. Serializable
8. Comparator
9. AnyRef
10. Any

1. Hide All
2. Show All

Visibility

1. Public
2. All

### Type Members

1.  class Ops extends AnyRef
   Definition Classes
     Ordering

### 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.  val baseOrdering: PositionOrdering.type
   Definition Classes
     OptionalPositionOrdering → OptionalReferenceOrdering
6.  def clone(): AnyRef
   Attributes
     protected[lang]
   Definition Classes
     AnyRef
   Annotations
     @throws( ... ) @native()
7.  def compare(a: Option[ReferencePosition], b: Option[ReferencePosition]): Int
   Definition Classes
     OptionalReferenceOrdering → Ordering → Comparator
8.  final def eq(arg0: AnyRef): Boolean
   Definition Classes
     AnyRef
9.  def equals(arg0: Any): Boolean
   Definition Classes
     AnyRef → Any
10.  def equiv(x: Option[ReferencePosition], y: Option[ReferencePosition]): Boolean
    Definition Classes
      Ordering → PartialOrdering → Equiv
11.  def finalize(): Unit
    Attributes
      protected[lang]
    Definition Classes
      AnyRef
    Annotations
      @throws( classOf[java.lang.Throwable] )
12.  final def getClass(): Class[_]
    Definition Classes
      AnyRef → Any
    Annotations
      @native()
13.  def gt(x: Option[ReferencePosition], y: Option[ReferencePosition]): Boolean
    Definition Classes
      Ordering → PartialOrdering
14.  def gteq(x: Option[ReferencePosition], y: Option[ReferencePosition]): Boolean
    Definition Classes
      Ordering → PartialOrdering
15.  def hashCode(): Int
    Definition Classes
      AnyRef → Any
    Annotations
      @native()
16.  final def isInstanceOf[T0]: Boolean
    Definition Classes
      Any
17.  def lt(x: Option[ReferencePosition], y: Option[ReferencePosition]): Boolean
    Definition Classes
      Ordering → PartialOrdering
18.  def lteq(x: Option[ReferencePosition], y: Option[ReferencePosition]): Boolean
    Definition Classes
      Ordering → PartialOrdering
19.  def max(x: Option[ReferencePosition], y: Option[ReferencePosition]): Option[ReferencePosition]
    Definition Classes
      Ordering
20.  def min(x: Option[ReferencePosition], y: Option[ReferencePosition]): Option[ReferencePosition]
    Definition Classes
      Ordering
21.  implicit def mkOrderingOps(lhs: Option[ReferencePosition]): Ops
    Definition Classes
      Ordering
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 on[U](f: (U) ⇒ Option[ReferencePosition]): Ordering[U]
    Definition Classes
      Ordering
26.  def reverse: Ordering[Option[ReferencePosition]]
    Definition Classes
      Ordering → PartialOrdering
27.  def reversed(): Comparator[Option[ReferencePosition]]
    Definition Classes
      Comparator
28.  final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
      AnyRef
29.  def thenComparing[U <: Comparable[_ >: U]](arg0: Function[_ >: Option[ReferencePosition], _ <: U]): Comparator[Option[ReferencePosition]]
    Definition Classes
      Comparator
30.  def thenComparing[U](arg0: Function[_ >: Option[ReferencePosition], _ <: U], arg1: Comparator[_ >: U]): Comparator[Option[ReferencePosition]]
    Definition Classes
      Comparator
31.  def thenComparing(arg0: Comparator[_ >: Option[ReferencePosition]]): Comparator[Option[ReferencePosition]]
    Definition Classes
      Comparator
32.  def thenComparingDouble(arg0: ToDoubleFunction[_ >: Option[ReferencePosition]]): Comparator[Option[ReferencePosition]]
    Definition Classes
      Comparator
33.  def thenComparingInt(arg0: ToIntFunction[_ >: Option[ReferencePosition]]): Comparator[Option[ReferencePosition]]
    Definition Classes
      Comparator
34.  def thenComparingLong(arg0: ToLongFunction[_ >: Option[ReferencePosition]]): Comparator[Option[ReferencePosition]]
    Definition Classes
      Comparator
35.  def toString(): String
    Definition Classes
      AnyRef → Any
36.  def tryCompare(x: Option[ReferencePosition], y: Option[ReferencePosition]): Some[Int]
    Definition Classes
      Ordering → PartialOrdering
37.  final def wait(): Unit
    Definition Classes
      AnyRef
    Annotations
      @throws( ... )
38.  final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
      AnyRef
    Annotations
      @throws( ... )
39.  final def wait(arg0: Long): Unit
    Definition Classes
      AnyRef
    Annotations
      @throws( ... ) @native()

### Inherited from OptionalReferenceOrdering[ReferencePosition]

### Inherited from Ordering[Option[ReferencePosition]]

### Inherited from PartialOrdering[Option[ReferencePosition]]

### Inherited from Equiv[Option[ReferencePosition]]

### Inherited from Serializable

### Inherited from Comparator[Option[ReferencePosition]]

### Inherited from AnyRef

### Inherited from Any

### Ungrouped