Class

org.hammerlab.bgzf.block

MetadataStream

Related Doc: package block

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case class MetadataStream(ch: ByteChannel) extends hammerlab.iterator.SimpleIterator[Metadata] with Closeable with Product with Serializable

Iterator over bgzf-block Metadata; useful when loading/decompressing Block payloads is unnecessary.

ch

input stream/channel containing compressed bgzf data

Linear Supertypes
Serializable, Serializable, Product, Equals, Closeable, AutoCloseable, SimpleIterator[Metadata], BufferedIterator[Metadata], Iterator[Metadata], TraversableOnce[Metadata], GenTraversableOnce[Metadata], AnyRef, Any
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Inherited
  1. MetadataStream
  2. Serializable
  3. Serializable
  4. Product
  5. Equals
  6. Closeable
  7. AutoCloseable
  8. SimpleIterator
  9. BufferedIterator
  10. Iterator
  11. TraversableOnce
  12. GenTraversableOnce
  13. AnyRef
  14. Any
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Visibility
  1. Public
  2. All

Instance Constructors

  1. new MetadataStream(ch: ByteChannel)

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    ch

    input stream/channel containing compressed bgzf data

Type Members

  1. class GroupedIterator[B >: A] extends AbstractIterator[Seq[B]] with Iterator[Seq[B]]

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    Definition Classes
    Iterator

Value Members

  1. final def !=(arg0: Any): Boolean

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    Definition Classes
    AnyRef → Any

  2. final def ##(): Int

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    Definition Classes
    AnyRef → Any

  3. def ++[B >: Metadata](that: ⇒ GenTraversableOnce[B]): Iterator[B]

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    Definition Classes
    Iterator

  4. def /:[B](z: B)(op: (B, Metadata) ⇒ B): B

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  5. def :\[B](z: B)(op: (Metadata, B) ⇒ B): B

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  6. final def ==(arg0: Any): Boolean

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    Definition Classes
    AnyRef → Any

  7. def _advance: Option[Metadata]

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    Attributes
    protected
    Definition Classes
    MetadataStream → SimpleIterator

  8. def addString(b: StringBuilder): StringBuilder

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    Definition Classes
    TraversableOnce

  9. def addString(b: StringBuilder, sep: String): StringBuilder

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    Definition Classes
    TraversableOnce

  10. def addString(b: StringBuilder, start: String, sep: String, end: String): StringBuilder

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    Definition Classes
    TraversableOnce

  11. def aggregate[B](z: ⇒ B)(seqop: (B, Metadata) ⇒ B, combop: (B, B) ⇒ B): B

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  12. final def asInstanceOf[T0]: T0

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    Definition Classes
    Any

  13. implicit val buf: ByteBuffer

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  14. def buffered: MetadataStream.this.type

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    Definition Classes
    BufferedIterator → Iterator

  15. val ch: ByteChannel

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    input stream/channel containing compressed bgzf data

  16. def clear(): Unit

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    Definition Classes
    SimpleIterator

  17. def clone(): AnyRef

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    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

  18. def close(): Unit

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    Definition Classes
    MetadataStream → Closeable → AutoCloseable

  19. def collect[B](pf: PartialFunction[Metadata, B]): Iterator[B]

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    Definition Classes
    Iterator
    Annotations
    @migration
    Migration

    (Changed in version 2.8.0) collect has changed. The previous behavior can be reproduced with toSeq.

  20. def collectFirst[B](pf: PartialFunction[Metadata, B]): Option[B]

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    Definition Classes
    TraversableOnce

  21. def contains(elem: Any): Boolean

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    Definition Classes
    Iterator

  22. def copyToArray[B >: Metadata](xs: Array[B], start: Int, len: Int): Unit

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    Definition Classes
    Iterator → TraversableOnce → GenTraversableOnce

  23. def copyToArray[B >: Metadata](xs: Array[B]): Unit

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  24. def copyToArray[B >: Metadata](xs: Array[B], start: Int): Unit

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  25. def copyToBuffer[B >: Metadata](dest: Buffer[B]): Unit

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    Definition Classes
    TraversableOnce

  26. def corresponds[B](that: GenTraversableOnce[B])(p: (Metadata, B) ⇒ Boolean): Boolean

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    Definition Classes
    Iterator

  27. def count(p: (Metadata) ⇒ Boolean): Int

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  28. def done(): Unit

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    Attributes
    protected
    Definition Classes
    SimpleIterator

  29. def drop(n: Int): Iterator[Metadata]

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    Definition Classes
    Iterator

  30. def dropWhile(p: (Metadata) ⇒ Boolean): Iterator[Metadata]

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    Definition Classes
    Iterator

  31. def duplicate: (Iterator[Metadata], Iterator[Metadata])

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    Definition Classes
    Iterator

  32. final def eq(arg0: AnyRef): Boolean

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    Definition Classes
    AnyRef

  33. def exists(p: (Metadata) ⇒ Boolean): Boolean

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    Definition Classes
    Iterator → TraversableOnce → GenTraversableOnce

  34. def filter(p: (Metadata) ⇒ Boolean): Iterator[Metadata]

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    Definition Classes
    Iterator

  35. def filterNot(p: (Metadata) ⇒ Boolean): Iterator[Metadata]

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    Definition Classes
    Iterator

  36. def finalize(): Unit

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    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] )

  37. def find(p: (Metadata) ⇒ Boolean): Option[Metadata]

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    Definition Classes
    Iterator → TraversableOnce → GenTraversableOnce

  38. def flatMap[B](f: (Metadata) ⇒ GenTraversableOnce[B]): Iterator[B]

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    Definition Classes
    Iterator

  39. def fold[A1 >: Metadata](z: A1)(op: (A1, A1) ⇒ A1): A1

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  40. def foldLeft[B](z: B)(op: (B, Metadata) ⇒ B): B

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  41. def foldRight[B](z: B)(op: (Metadata, B) ⇒ B): B

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  42. def forall(p: (Metadata) ⇒ Boolean): Boolean

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    Definition Classes
    Iterator → TraversableOnce → GenTraversableOnce

  43. def foreach[U](f: (Metadata) ⇒ U): Unit

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    Definition Classes
    Iterator → TraversableOnce → GenTraversableOnce

  44. final def getClass(): Class[_]

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    Definition Classes
    AnyRef → Any

  45. def grouped[B >: Metadata](size: Int): GroupedIterator[B]

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    Definition Classes
    Iterator

  46. def hasDefiniteSize: Boolean

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    Definition Classes
    Iterator → TraversableOnce → GenTraversableOnce

  47. final def hasNext: Boolean

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    Definition Classes
    SimpleIterator → Iterator

  48. final def head: Metadata

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    Definition Classes
    SimpleIterator → BufferedIterator

  49. def indexOf[B >: Metadata](elem: B): Int

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    Definition Classes
    Iterator

  50. def indexWhere(p: (Metadata) ⇒ Boolean): Int

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    Definition Classes
    Iterator

  51. def isEmpty: Boolean

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    Definition Classes
    Iterator → TraversableOnce → GenTraversableOnce

  52. final def isInstanceOf[T0]: Boolean

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    Definition Classes
    Any

  53. def isTraversableAgain: Boolean

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    Definition Classes
    Iterator → GenTraversableOnce

  54. def length: Int

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    Definition Classes
    Iterator

  55. def map[B](f: (Metadata) ⇒ B): Iterator[B]

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    Definition Classes
    Iterator

  56. def max[B >: Metadata](implicit cmp: Ordering[B]): Metadata

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  57. def maxBy[B](f: (Metadata) ⇒ B)(implicit cmp: Ordering[B]): Metadata

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  58. def min[B >: Metadata](implicit cmp: Ordering[B]): Metadata

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  59. def minBy[B](f: (Metadata) ⇒ B)(implicit cmp: Ordering[B]): Metadata

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  60. def mkString: String

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  61. def mkString(sep: String): String

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  62. def mkString(start: String, sep: String, end: String): String

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  63. final def ne(arg0: AnyRef): Boolean

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    Definition Classes
    AnyRef

  64. final def next(): Metadata

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    Definition Classes
    SimpleIterator → Iterator

  65. def nonEmpty: Boolean

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  66. final def notify(): Unit

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    Definition Classes
    AnyRef

  67. final def notifyAll(): Unit

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    Definition Classes
    AnyRef

  68. def padTo[A1 >: Metadata](len: Int, elem: A1): Iterator[A1]

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    Definition Classes
    Iterator

  69. def partition(p: (Metadata) ⇒ Boolean): (Iterator[Metadata], Iterator[Metadata])

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    Definition Classes
    Iterator

  70. def patch[B >: Metadata](from: Int, patchElems: Iterator[B], replaced: Int): Iterator[B]

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    Definition Classes
    Iterator

  71. def postNext(): Unit

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    Attributes
    protected
    Definition Classes
    SimpleIterator

  72. def product[B >: Metadata](implicit num: Numeric[B]): B

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  73. def reduce[A1 >: Metadata](op: (A1, A1) ⇒ A1): A1

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  74. def reduceLeft[B >: Metadata](op: (B, Metadata) ⇒ B): B

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    Definition Classes
    TraversableOnce

  75. def reduceLeftOption[B >: Metadata](op: (B, Metadata) ⇒ B): Option[B]

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  76. def reduceOption[A1 >: Metadata](op: (A1, A1) ⇒ A1): Option[A1]

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  77. def reduceRight[B >: Metadata](op: (Metadata, B) ⇒ B): B

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  78. def reduceRightOption[B >: Metadata](op: (Metadata, B) ⇒ B): Option[B]

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  79. def reversed: List[Metadata]

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    Attributes
    protected[this]
    Definition Classes
    TraversableOnce

  80. def sameElements(that: Iterator[_]): Boolean

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    Definition Classes
    Iterator

  81. def scanLeft[B](z: B)(op: (B, Metadata) ⇒ B): Iterator[B]

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    Definition Classes
    Iterator

  82. def scanRight[B](z: B)(op: (Metadata, B) ⇒ B): Iterator[B]

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    Definition Classes
    Iterator

  83. def seq: Iterator[Metadata]

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    Definition Classes
    Iterator → TraversableOnce → GenTraversableOnce

  84. def size: Int

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  85. def slice(from: Int, until: Int): Iterator[Metadata]

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    Definition Classes
    Iterator

  86. def sliding[B >: Metadata](size: Int, step: Int): GroupedIterator[B]

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    Definition Classes
    Iterator

  87. def span(p: (Metadata) ⇒ Boolean): (Iterator[Metadata], Iterator[Metadata])

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    Definition Classes
    Iterator

  88. def sum[B >: Metadata](implicit num: Numeric[B]): B

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  89. final def synchronized[T0](arg0: ⇒ T0): T0

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    Definition Classes
    AnyRef

  90. def take(n: Int): Iterator[Metadata]

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    Definition Classes
    Iterator

  91. def takeWhile(p: (Metadata) ⇒ Boolean): Iterator[Metadata]

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    Definition Classes
    Iterator

  92. def to[Col[_]](implicit cbf: CanBuildFrom[Nothing, Metadata, Col[Metadata]]): Col[Metadata]

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  93. def toArray[B >: Metadata](implicit arg0: ClassTag[B]): Array[B]

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  94. def toBuffer[B >: Metadata]: Buffer[B]

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  95. def toIndexedSeq: IndexedSeq[Metadata]

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  96. def toIterable: Iterable[Metadata]

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  97. def toIterator: Iterator[Metadata]

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    Definition Classes
    Iterator → GenTraversableOnce

  98. def toList: List[Metadata]

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  99. def toMap[T, U](implicit ev: <:<[Metadata, (T, U)]): Map[T, U]

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  100. def toSeq: Seq[Metadata]

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  101. def toSet[B >: Metadata]: Set[B]

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  102. def toStream: scala.collection.immutable.Stream[Metadata]

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    Definition Classes
    Iterator → GenTraversableOnce

  103. def toString(): String

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    Definition Classes
    SimpleIterator → Iterator → AnyRef → Any

  104. def toTraversable: Traversable[Metadata]

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    Definition Classes
    Iterator → TraversableOnce → GenTraversableOnce

  105. def toVector: Vector[Metadata]

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    Definition Classes
    TraversableOnce → GenTraversableOnce

  106. final def wait(): Unit

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

  107. final def wait(arg0: Long, arg1: Int): Unit

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

  108. final def wait(arg0: Long): Unit

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

  109. def withFilter(p: (Metadata) ⇒ Boolean): Iterator[Metadata]

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    Definition Classes
    Iterator

  110. def zip[B](that: Iterator[B]): Iterator[(Metadata, B)]

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    Definition Classes
    Iterator

  111. def zipAll[B, A1 >: Metadata, B1 >: B](that: Iterator[B], thisElem: A1, thatElem: B1): Iterator[(A1, B1)]

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    Definition Classes
    Iterator

  112. def zipWithIndex: Iterator[(Metadata, Int)]

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    Definition Classes
    Iterator

Inherited from Serializable

Inherited from Serializable

Inherited from Product

Inherited from Equals

Inherited from Closeable

Inherited from AutoCloseable

Inherited from SimpleIterator[Metadata]

Inherited from BufferedIterator[Metadata]

Inherited from Iterator[Metadata]

Inherited from TraversableOnce[Metadata]

Inherited from GenTraversableOnce[Metadata]

Inherited from AnyRef

Inherited from Any

Ungrouped