ADAM_2.12: Core 0.27.0 API < Back
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# Packages

-  package root
  Definition Classes
    root
-  package org
  Definition Classes
    root
-  package bdgenomics
  Definition Classes
    org
-  package adam
  Definition Classes
    bdgenomics
-  package util
  Definition Classes
    adam
- ADAMShell
- AttributeUtils
- FileExtensions
- GenomeFileReader
- IndexedFastaFile
- ParquetFileTraversable
- ParquetLogger
- PhredUtils
- ReferenceContigMap
- ReferenceContigMapSerializer
- ReferenceFile
- SequenceDictionaryReader
- TextRddWriter
- TwoBitFile
- TwoBitFileSerializer

c

org.bdgenomics.adam.util

# ParquetFileTraversable 

###

#### class ParquetFileTraversable[T <: IndexedRecord] extends Traversable[T]

Implements a traversable collection that is backed by a Parquet file.

Linear Supertypes
Traversable[T], GenTraversable[T], GenericTraversableTemplate[T, Traversable], TraversableLike[T, Traversable[T]], GenTraversableLike[T, Traversable[T]], Parallelizable[T, ParIterable[T]], TraversableOnce[T], GenTraversableOnce[T], FilterMonadic[T, Traversable[T]], HasNewBuilder[T, Traversable[T]], AnyRef, Any
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Inherited

1. ParquetFileTraversable
2. Traversable
3. GenTraversable
4. GenericTraversableTemplate
5. TraversableLike
6. GenTraversableLike
7. Parallelizable
8. TraversableOnce
9. GenTraversableOnce
10. FilterMonadic
11. HasNewBuilder
12. AnyRef
13. Any

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Visibility

1. Public
2. All

### Instance Constructors

1.  new ParquetFileTraversable(sc: SparkContext, file: String)

   sc

     A SparkContext to use to get underlying Hadoop FileSystem config.

   file

     The path to the Parquet file to load.

2.  new ParquetFileTraversable(sc: SparkContext, file: Path)

   sc

     A SparkContext to use to get underlying Hadoop FileSystem config.

   file

     The path to the Parquet file to load.

### Type Members

1.  type Self = Traversable[T]
   Attributes
     protected[this]
   Definition Classes
     TraversableLike
2.  class WithFilter extends FilterMonadic[A, Repr]
   Definition Classes
     TraversableLike

### Value Members

1.  final def !=(arg0: Any): Boolean
   Definition Classes
     AnyRef → Any
2.  final def ##(): Int
   Definition Classes
     AnyRef → Any
3.  def ++[B >: T, That](that: GenTraversableOnce[B])(implicit bf: CanBuildFrom[Traversable[T], B, That]): That
   Definition Classes
     TraversableLike → GenTraversableLike
4.  def ++:[B >: T, That](that: Traversable[B])(implicit bf: CanBuildFrom[Traversable[T], B, That]): That
   Definition Classes
     TraversableLike
5.  def ++:[B >: T, That](that: TraversableOnce[B])(implicit bf: CanBuildFrom[Traversable[T], B, That]): That
   Definition Classes
     TraversableLike
6.  def /:[B](z: B)(op: (B, T) ⇒ B): B
   Definition Classes
     TraversableOnce → GenTraversableOnce
7.  def :\[B](z: B)(op: (T, B) ⇒ B): B
   Definition Classes
     TraversableOnce → GenTraversableOnce
8.  final def ==(arg0: Any): Boolean
   Definition Classes
     AnyRef → Any
9.  def addString(b: StringBuilder): StringBuilder
   Definition Classes
     TraversableOnce
10.  def addString(b: StringBuilder, sep: String): StringBuilder
    Definition Classes
      TraversableOnce
11.  def addString(b: StringBuilder, start: String, sep: String, end: String): StringBuilder
    Definition Classes
      TraversableOnce
12.  def aggregate[B](z: ⇒ B)(seqop: (B, T) ⇒ B, combop: (B, B) ⇒ B): B
    Definition Classes
      TraversableOnce → GenTraversableOnce
13.  final def asInstanceOf[T0]: T0
    Definition Classes
      Any
14.  def clone(): AnyRef
    Attributes
      protected[java.lang]
    Definition Classes
      AnyRef
    Annotations
      @native() @throws( ... )
15.  def collect[B, That](pf: PartialFunction[T, B])(implicit bf: CanBuildFrom[Traversable[T], B, That]): That
    Definition Classes
      TraversableLike → GenTraversableLike
16.  def collectFirst[B](pf: PartialFunction[T, B]): Option[B]
    Definition Classes
      TraversableOnce
17.  def companion: GenericCompanion[Traversable]
    Definition Classes
      Traversable → GenTraversable → GenericTraversableTemplate
18.  def copyToArray[B >: T](xs: Array[B], start: Int, len: Int): Unit
    Definition Classes
      TraversableLike → TraversableOnce → GenTraversableOnce
19.  def copyToArray[B >: T](xs: Array[B]): Unit
    Definition Classes
      TraversableOnce → GenTraversableOnce
20.  def copyToArray[B >: T](xs: Array[B], start: Int): Unit
    Definition Classes
      TraversableOnce → GenTraversableOnce
21.  def copyToBuffer[B >: T](dest: Buffer[B]): Unit
    Definition Classes
      TraversableOnce
22.  def count(p: (T) ⇒ Boolean): Int
    Definition Classes
      TraversableOnce → GenTraversableOnce
23.  def drop(n: Int): Traversable[T]
    Definition Classes
      TraversableLike → GenTraversableLike
24.  def dropWhile(p: (T) ⇒ Boolean): Traversable[T]
    Definition Classes
      TraversableLike → GenTraversableLike
25.  final def eq(arg0: AnyRef): Boolean
    Definition Classes
      AnyRef
26.  def equals(arg0: Any): Boolean
    Definition Classes
      AnyRef → Any
27.  def exists(p: (T) ⇒ Boolean): Boolean
    Definition Classes
      TraversableLike → TraversableOnce → GenTraversableOnce
28.  def filter(p: (T) ⇒ Boolean): Traversable[T]
    Definition Classes
      TraversableLike → GenTraversableLike
29.  def filterNot(p: (T) ⇒ Boolean): Traversable[T]
    Definition Classes
      TraversableLike → GenTraversableLike
30.  def finalize(): Unit
    Attributes
      protected[java.lang]
    Definition Classes
      AnyRef
    Annotations
      @throws( classOf[java.lang.Throwable] )
31.  def find(p: (T) ⇒ Boolean): Option[T]
    Definition Classes
      TraversableLike → TraversableOnce → GenTraversableOnce
32.  def flatMap[B, That](f: (T) ⇒ GenTraversableOnce[B])(implicit bf: CanBuildFrom[Traversable[T], B, That]): That
    Definition Classes
      TraversableLike → GenTraversableLike → FilterMonadic
33.  def flatten[B](implicit asTraversable: (T) ⇒ GenTraversableOnce[B]): Traversable[B]
    Definition Classes
      GenericTraversableTemplate
34.  def fold[A1 >: T](z: A1)(op: (A1, A1) ⇒ A1): A1
    Definition Classes
      TraversableOnce → GenTraversableOnce
35.  def foldLeft[B](z: B)(op: (B, T) ⇒ B): B
    Definition Classes
      TraversableOnce → GenTraversableOnce
36.  def foldRight[B](z: B)(op: (T, B) ⇒ B): B
    Definition Classes
      TraversableOnce → GenTraversableOnce
37.  def forall(p: (T) ⇒ Boolean): Boolean
    Definition Classes
      TraversableLike → TraversableOnce → GenTraversableOnce
38.  def foreach[U](f: (T) ⇒ U): Unit

    Runs a for loop over each record in the file, and applies a function.

    Runs a for loop over each record in the file, and applies a function.

    f

      The function to apply to each record.

    Definition Classes
      ParquetFileTraversable → GenericTraversableTemplate → TraversableLike → GenTraversableLike → TraversableOnce → GenTraversableOnce → FilterMonadic
39.  def genericBuilder[B]: Builder[B, Traversable[B]]
    Definition Classes
      GenericTraversableTemplate
40.  final def getClass(): Class[_]
    Definition Classes
      AnyRef → Any
    Annotations
      @native()
41.  def groupBy[K](f: (T) ⇒ K): Map[K, Traversable[T]]
    Definition Classes
      TraversableLike → GenTraversableLike
42.  def hasDefiniteSize: Boolean
    Definition Classes
      TraversableLike → TraversableOnce → GenTraversableOnce
43.  def hashCode(): Int
    Definition Classes
      AnyRef → Any
    Annotations
      @native()
44.  def head: T
    Definition Classes
      TraversableLike → GenTraversableLike
45.  def headOption: Option[T]
    Definition Classes
      TraversableLike → GenTraversableLike
46.  def init: Traversable[T]
    Definition Classes
      TraversableLike → GenTraversableLike
47.  def inits: Iterator[Traversable[T]]
    Definition Classes
      TraversableLike
48.  def isEmpty: Boolean
    Definition Classes
      TraversableLike → TraversableOnce → GenTraversableOnce
49.  final def isInstanceOf[T0]: Boolean
    Definition Classes
      Any
50.  final def isTraversableAgain: Boolean
    Definition Classes
      TraversableLike → GenTraversableLike → GenTraversableOnce
51.  def last: T
    Definition Classes
      TraversableLike → GenTraversableLike
52.  def lastOption: Option[T]
    Definition Classes
      TraversableLike → GenTraversableLike
53.  def map[B, That](f: (T) ⇒ B)(implicit bf: CanBuildFrom[Traversable[T], B, That]): That
    Definition Classes
      TraversableLike → GenTraversableLike → FilterMonadic
54.  def max[B >: T](implicit cmp: Ordering[B]): T
    Definition Classes
      TraversableOnce → GenTraversableOnce
55.  def maxBy[B](f: (T) ⇒ B)(implicit cmp: Ordering[B]): T
    Definition Classes
      TraversableOnce → GenTraversableOnce
56.  def min[B >: T](implicit cmp: Ordering[B]): T
    Definition Classes
      TraversableOnce → GenTraversableOnce
57.  def minBy[B](f: (T) ⇒ B)(implicit cmp: Ordering[B]): T
    Definition Classes
      TraversableOnce → GenTraversableOnce
58.  def mkString: String
    Definition Classes
      TraversableOnce → GenTraversableOnce
59.  def mkString(sep: String): String
    Definition Classes
      TraversableOnce → GenTraversableOnce
60.  def mkString(start: String, sep: String, end: String): String
    Definition Classes
      TraversableOnce → GenTraversableOnce
61.  final def ne(arg0: AnyRef): Boolean
    Definition Classes
      AnyRef
62.  def newBuilder: Builder[T, Traversable[T]]
    Attributes
      protected[this]
    Definition Classes
      GenericTraversableTemplate → HasNewBuilder
63.  def nonEmpty: Boolean
    Definition Classes
      TraversableOnce → GenTraversableOnce
64.  final def notify(): Unit
    Definition Classes
      AnyRef
    Annotations
      @native()
65.  final def notifyAll(): Unit
    Definition Classes
      AnyRef
    Annotations
      @native()
66.  def par: ParIterable[T]
    Definition Classes
      Parallelizable
67.  def parCombiner: Combiner[T, ParIterable[T]]
    Attributes
      protected[this]
    Definition Classes
      TraversableLike → Parallelizable
68.  def partition(p: (T) ⇒ Boolean): (Traversable[T], Traversable[T])
    Definition Classes
      TraversableLike → GenTraversableLike
69.  def product[B >: T](implicit num: Numeric[B]): B
    Definition Classes
      TraversableOnce → GenTraversableOnce
70.  def reduce[A1 >: T](op: (A1, A1) ⇒ A1): A1
    Definition Classes
      TraversableOnce → GenTraversableOnce
71.  def reduceLeft[B >: T](op: (B, T) ⇒ B): B
    Definition Classes
      TraversableOnce
72.  def reduceLeftOption[B >: T](op: (B, T) ⇒ B): Option[B]
    Definition Classes
      TraversableOnce → GenTraversableOnce
73.  def reduceOption[A1 >: T](op: (A1, A1) ⇒ A1): Option[A1]
    Definition Classes
      TraversableOnce → GenTraversableOnce
74.  def reduceRight[B >: T](op: (T, B) ⇒ B): B
    Definition Classes
      TraversableOnce → GenTraversableOnce
75.  def reduceRightOption[B >: T](op: (T, B) ⇒ B): Option[B]
    Definition Classes
      TraversableOnce → GenTraversableOnce
76.  def repr: Traversable[T]
    Definition Classes
      TraversableLike → GenTraversableLike
77.  def reversed: List[T]
    Attributes
      protected[this]
    Definition Classes
      TraversableOnce
78.  def scan[B >: T, That](z: B)(op: (B, B) ⇒ B)(implicit cbf: CanBuildFrom[Traversable[T], B, That]): That
    Definition Classes
      TraversableLike → GenTraversableLike
79.  def scanLeft[B, That](z: B)(op: (B, T) ⇒ B)(implicit bf: CanBuildFrom[Traversable[T], B, That]): That
    Definition Classes
      TraversableLike → GenTraversableLike
80.  def scanRight[B, That](z: B)(op: (T, B) ⇒ B)(implicit bf: CanBuildFrom[Traversable[T], B, That]): That
    Definition Classes
      TraversableLike → GenTraversableLike
    Annotations
      @migration
    Migration

      (Changed in version 2.9.0) The behavior of `scanRight` has changed. The previous behavior can be reproduced with scanRight.reverse.

81.  def seq: Traversable[T]
    Definition Classes
      Traversable → GenTraversable → Parallelizable → TraversableOnce → GenTraversableOnce
82.  def size: Int
    Definition Classes
      TraversableOnce → GenTraversableOnce
83.  def sizeHintIfCheap: Int
    Attributes
      protected[scala.collection]
    Definition Classes
      GenTraversableOnce
84.  def slice(from: Int, until: Int): Traversable[T]
    Definition Classes
      TraversableLike → GenTraversableLike
85.  def span(p: (T) ⇒ Boolean): (Traversable[T], Traversable[T])
    Definition Classes
      TraversableLike → GenTraversableLike
86.  def splitAt(n: Int): (Traversable[T], Traversable[T])
    Definition Classes
      TraversableLike → GenTraversableLike
87.  def stringPrefix: String
    Definition Classes
      TraversableLike → GenTraversableLike
88.  def sum[B >: T](implicit num: Numeric[B]): B
    Definition Classes
      TraversableOnce → GenTraversableOnce
89.  final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
      AnyRef
90.  def tail: Traversable[T]
    Definition Classes
      TraversableLike → GenTraversableLike
91.  def tails: Iterator[Traversable[T]]
    Definition Classes
      TraversableLike
92.  def take(n: Int): Traversable[T]
    Definition Classes
      TraversableLike → GenTraversableLike
93.  def takeWhile(p: (T) ⇒ Boolean): Traversable[T]
    Definition Classes
      TraversableLike → GenTraversableLike
94.  def thisCollection: Traversable[T]
    Attributes
      protected[this]
    Definition Classes
      TraversableLike
95.  def to[Col[_]](implicit cbf: CanBuildFrom[Nothing, T, Col[T]]): Col[T]
    Definition Classes
      TraversableLike → TraversableOnce → GenTraversableOnce
96.  def toArray[B >: T](implicit arg0: ClassTag[B]): Array[B]
    Definition Classes
      TraversableOnce → GenTraversableOnce
97.  def toBuffer[B >: T]: Buffer[B]
    Definition Classes
      TraversableOnce → GenTraversableOnce
98.  def toCollection(repr: Traversable[T]): Traversable[T]
    Attributes
      protected[this]
    Definition Classes
      TraversableLike
99.  def toIndexedSeq: IndexedSeq[T]
    Definition Classes
      TraversableOnce → GenTraversableOnce
100.  def toIterable: Iterable[T]
     Definition Classes
       TraversableOnce → GenTraversableOnce
101.  def toIterator: Iterator[T]
     Definition Classes
       TraversableLike → GenTraversableOnce
102.  def toList: List[T]
     Definition Classes
       TraversableOnce → GenTraversableOnce
103.  def toMap[T, U](implicit ev: <:<[T, (T, U)]): Map[T, U]
     Definition Classes
       TraversableOnce → GenTraversableOnce
104.  def toSeq: Seq[T]
     Definition Classes
       TraversableOnce → GenTraversableOnce
105.  def toSet[B >: T]: Set[B]
     Definition Classes
       TraversableOnce → GenTraversableOnce
106.  def toStream: Stream[T]
     Definition Classes
       TraversableLike → GenTraversableOnce
107.  def toString(): String
     Definition Classes
       TraversableLike → Any
108.  def toTraversable: Traversable[T]
     Definition Classes
       TraversableLike → TraversableOnce → GenTraversableOnce
     Annotations
       @deprecatedOverriding( ... , "2.11.0" )
109.  def toVector: Vector[T]
     Definition Classes
       TraversableOnce → GenTraversableOnce
110.  def transpose[B](implicit asTraversable: (T) ⇒ GenTraversableOnce[B]): Traversable[Traversable[B]]
     Definition Classes
       GenericTraversableTemplate
     Annotations
       @migration
     Migration

       (Changed in version 2.9.0) `transpose` throws an `IllegalArgumentException` if collections are not uniformly sized.

111.  def unzip[A1, A2](implicit asPair: (T) ⇒ (A1, A2)): (Traversable[A1], Traversable[A2])
     Definition Classes
       GenericTraversableTemplate
112.  def unzip3[A1, A2, A3](implicit asTriple: (T) ⇒ (A1, A2, A3)): (Traversable[A1], Traversable[A2], Traversable[A3])
     Definition Classes
       GenericTraversableTemplate
113.  def view(from: Int, until: Int): TraversableView[T, Traversable[T]]
     Definition Classes
       TraversableLike
114.  def view: TraversableView[T, Traversable[T]]
     Definition Classes
       TraversableLike
115.  final def wait(): Unit
     Definition Classes
       AnyRef
     Annotations
       @throws( ... )
116.  final def wait(arg0: Long, arg1: Int): Unit
     Definition Classes
       AnyRef
     Annotations
       @throws( ... )
117.  final def wait(arg0: Long): Unit
     Definition Classes
       AnyRef
     Annotations
       @native() @throws( ... )
118.  def withFilter(p: (T) ⇒ Boolean): FilterMonadic[T, Traversable[T]]
     Definition Classes
       TraversableLike → FilterMonadic

### Inherited from Traversable[T]

### Inherited from GenTraversable[T]

### Inherited from GenericTraversableTemplate[T, Traversable]

### Inherited from TraversableLike[T, Traversable[T]]

### Inherited from GenTraversableLike[T, Traversable[T]]

### Inherited from Parallelizable[T, ParIterable[T]]

### Inherited from TraversableOnce[T]

### Inherited from GenTraversableOnce[T]

### Inherited from FilterMonadic[T, Traversable[T]]

### Inherited from HasNewBuilder[T, Traversable[T]]

### Inherited from AnyRef

### Inherited from Any

### Ungrouped