Packages

class SamBuilder extends Iterable[SamRecord]

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Inherited
  1. SamBuilder
  2. Iterable
  3. IterableLike
  4. Equals
  5. GenIterable
  6. GenIterableLike
  7. Traversable
  8. GenTraversable
  9. GenericTraversableTemplate
  10. TraversableLike
  11. GenTraversableLike
  12. Parallelizable
  13. TraversableOnce
  14. GenTraversableOnce
  15. FilterMonadic
  16. HasNewBuilder
  17. AnyRef
  18. Any
Implicitly
  1. by MonadOps
  2. by CollectionsHaveToParArray
  3. by any2stringadd
  4. by StringFormat
  5. by Ensuring
  6. by ArrowAssoc
  7. by alternateImplicit
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Visibility
  1. Public
  2. All

Instance Constructors

  1. new SamBuilder(readLength: Int = 100, baseQuality: Int = 30, sort: Option[SamOrder] = None, readGroupId: Option[String] = None, sd: Option[SAMSequenceDictionary] = None)

Type Members

  1. type Self = Iterable[SamRecord]
    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 +(other: String): String
    Implicit
    This member is added by an implicit conversion from SamBuilder to any2stringadd[SamBuilder] performed by method any2stringadd in scala.Predef.
    Definition Classes
    any2stringadd
  4. def ++[B >: SamRecord, That](that: GenTraversableOnce[B])(implicit bf: CanBuildFrom[Iterable[SamRecord], B, That]): That
    Definition Classes
    TraversableLike → GenTraversableLike
  5. def ++:[B >: SamRecord, That](that: Traversable[B])(implicit bf: CanBuildFrom[Iterable[SamRecord], B, That]): That
    Definition Classes
    TraversableLike
  6. def ++:[B >: SamRecord, That](that: TraversableOnce[B])(implicit bf: CanBuildFrom[Iterable[SamRecord], B, That]): That
    Definition Classes
    TraversableLike
  7. def ++=(that: Iterable[SamRecord]): Unit

    Adds all the records from another builder to this one.

  8. def ->[B](y: B): (SamBuilder, B)
    Implicit
    This member is added by an implicit conversion from SamBuilder to ArrowAssoc[SamBuilder] performed by method ArrowAssoc in scala.Predef.
    Definition Classes
    ArrowAssoc
    Annotations
    @inline()
  9. def /:[B](z: B)(op: (B, SamRecord) ⇒ B): B
    Definition Classes
    TraversableOnce → GenTraversableOnce
  10. def :\[B](z: B)(op: (SamRecord, B) ⇒ B): B
    Definition Classes
    TraversableOnce → GenTraversableOnce
  11. final def ==(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  12. def addFrag(name: String = nextName, bases: String = randomBases, quals: String = defaultQuals, contig: Int = 0, start: Int = SAMRecord.NO_ALIGNMENT_START, unmapped: Boolean = false, cigar: String = readLength + "M", mapq: Int = 60, strand: Strand = Plus, attrs: Map[String, AnyRef] = Map.empty): Option[SamRecord]

    Adds a non-paired read.

    Adds a non-paired read. Returns an Option for convenience of calling map/foreach etc.

  13. def addPair(name: String = nextName, bases1: String = randomBases, bases2: String = randomBases, quals1: String = defaultQuals, quals2: String = defaultQuals, contig: Int = 0, start1: Int = SAMRecord.NO_ALIGNMENT_START, start2: Int = SAMRecord.NO_ALIGNMENT_START, unmapped1: Boolean = false, unmapped2: Boolean = false, cigar1: String = readLength + "M", cigar2: String = readLength + "M", mapq1: Int = 60, mapq2: Int = 60, strand1: Strand = Plus, strand2: Strand = Minus, attrs: Map[String, AnyRef] = Map.empty): Seq[SamRecord]

    Adds a pair of reads to the file.

  14. def addString(b: StringBuilder): StringBuilder
    Definition Classes
    TraversableOnce
  15. def addString(b: StringBuilder, sep: String): StringBuilder
    Definition Classes
    TraversableOnce
  16. def addString(b: StringBuilder, start: String, sep: String, end: String): StringBuilder
    Definition Classes
    TraversableOnce
  17. def aggregate[B](z: ⇒ B)(seqop: (B, SamRecord) ⇒ B, combop: (B, B) ⇒ B): B
    Definition Classes
    TraversableOnce → GenTraversableOnce
  18. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  19. val baseQuality: Int
  20. def canEqual(that: Any): Boolean
    Definition Classes
    IterableLike → Equals
  21. def clone(): AnyRef
    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  22. def collect[B, That](pf: PartialFunction[SamRecord, B])(implicit bf: CanBuildFrom[Iterable[SamRecord], B, That]): That
    Definition Classes
    TraversableLike → GenTraversableLike
  23. def collectFirst[B](pf: PartialFunction[SamRecord, B]): Option[B]
    Definition Classes
    TraversableOnce
  24. def companion: GenericCompanion[Iterable]
    Definition Classes
    Iterable → GenIterable → Traversable → GenTraversable → GenericTraversableTemplate
  25. def copyToArray[B >: SamRecord](xs: Array[B], start: Int, len: Int): Unit
    Definition Classes
    IterableLike → TraversableLike → TraversableOnce → GenTraversableOnce
  26. def copyToArray[B >: SamRecord](xs: Array[B]): Unit
    Definition Classes
    TraversableOnce → GenTraversableOnce
  27. def copyToArray[B >: SamRecord](xs: Array[B], start: Int): Unit
    Definition Classes
    TraversableOnce → GenTraversableOnce
  28. def copyToBuffer[B >: SamRecord](dest: Buffer[B]): Unit
    Definition Classes
    TraversableOnce
  29. def count(p: (SamRecord) ⇒ Boolean): Int
    Definition Classes
    TraversableOnce → GenTraversableOnce
  30. val defaultQuals: String

    The default string of qualities to use.

    The default string of qualities to use.

    Attributes
    protected
  31. def dict: SAMSequenceDictionary

    Shorter accessor for the sequence dictionary.

  32. def drop(n: Int): Iterable[SamRecord]
    Definition Classes
    IterableLike → TraversableLike → GenTraversableLike
  33. def dropRight(n: Int): Iterable[SamRecord]
    Definition Classes
    IterableLike
  34. def dropWhile(p: (SamRecord) ⇒ Boolean): Iterable[SamRecord]
    Definition Classes
    TraversableLike → GenTraversableLike
  35. def ensuring(cond: (SamBuilder) ⇒ Boolean, msg: ⇒ Any): SamBuilder
    Implicit
    This member is added by an implicit conversion from SamBuilder to Ensuring[SamBuilder] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring
  36. def ensuring(cond: (SamBuilder) ⇒ Boolean): SamBuilder
    Implicit
    This member is added by an implicit conversion from SamBuilder to Ensuring[SamBuilder] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring
  37. def ensuring(cond: Boolean, msg: ⇒ Any): SamBuilder
    Implicit
    This member is added by an implicit conversion from SamBuilder to Ensuring[SamBuilder] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring
  38. def ensuring(cond: Boolean): SamBuilder
    Implicit
    This member is added by an implicit conversion from SamBuilder to Ensuring[SamBuilder] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring
  39. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  40. def equals(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  41. def exists(p: (SamRecord) ⇒ Boolean): Boolean
    Definition Classes
    IterableLike → TraversableLike → TraversableOnce → GenTraversableOnce
  42. def filter(p: (SamRecord) ⇒ Boolean): Iterable[SamRecord]
    Definition Classes
    TraversableLike → GenTraversableLike
  43. def filterNot(p: (SamRecord) ⇒ Boolean): Iterable[SamRecord]
    Definition Classes
    TraversableLike → GenTraversableLike
  44. def finalize(): Unit
    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] )
  45. def find(p: (SamRecord) ⇒ Boolean): Option[SamRecord]
    Definition Classes
    IterableLike → TraversableLike → TraversableOnce → GenTraversableOnce
  46. def flatMap[B, That](f: (SamRecord) ⇒ GenTraversableOnce[B])(implicit bf: CanBuildFrom[Iterable[SamRecord], B, That]): That
    Definition Classes
    TraversableLike → GenTraversableLike → FilterMonadic
  47. def flatten[B](implicit asTraversable: (SamRecord) ⇒ GenTraversableOnce[B]): Iterable[B]
    Definition Classes
    GenericTraversableTemplate
  48. def fold[A1 >: SamRecord](z: A1)(op: (A1, A1) ⇒ A1): A1
    Definition Classes
    TraversableOnce → GenTraversableOnce
  49. def foldLeft[B](z: B)(op: (B, SamRecord) ⇒ B): B
    Definition Classes
    TraversableOnce → GenTraversableOnce
  50. def foldRight[B](z: B)(op: (SamRecord, B) ⇒ B): B
    Definition Classes
    IterableLike → TraversableOnce → GenTraversableOnce
  51. def forall(p: (SamRecord) ⇒ Boolean): Boolean
    Definition Classes
    IterableLike → TraversableLike → TraversableOnce → GenTraversableOnce
  52. def foreach[U](f: (SamRecord) ⇒ U): Unit
    Definition Classes
    IterableLike → TraversableLike → GenTraversableLike → TraversableOnce → GenTraversableOnce → FilterMonadic
  53. def formatted(fmtstr: String): String
    Implicit
    This member is added by an implicit conversion from SamBuilder to StringFormat[SamBuilder] performed by method StringFormat in scala.Predef.
    Definition Classes
    StringFormat
    Annotations
    @inline()
  54. def genericBuilder[B]: Builder[B, Iterable[B]]
    Definition Classes
    GenericTraversableTemplate
  55. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
  56. def groupBy[K](f: (SamRecord) ⇒ K): Map[K, Iterable[SamRecord]]
    Definition Classes
    TraversableLike → GenTraversableLike
  57. def grouped(size: Int): Iterator[Iterable[SamRecord]]
    Definition Classes
    IterableLike
  58. def hasDefiniteSize: Boolean
    Definition Classes
    TraversableLike → TraversableOnce → GenTraversableOnce
  59. def hashCode(): Int
    Definition Classes
    AnyRef → Any
  60. def head: SamRecord
    Definition Classes
    IterableLike → TraversableLike → GenTraversableLike
  61. def headOption: Option[SamRecord]
    Definition Classes
    TraversableLike → GenTraversableLike
  62. val header: SAMFileHeader
  63. def init: Iterable[SamRecord]
    Definition Classes
    TraversableLike → GenTraversableLike
  64. def inits: Iterator[Iterable[SamRecord]]
    Definition Classes
    TraversableLike
  65. def isEmpty: Boolean
    Definition Classes
    IterableLike → TraversableLike → TraversableOnce → GenTraversableOnce
  66. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  67. final def isTraversableAgain: Boolean
    Definition Classes
    TraversableLike → GenTraversableLike → GenTraversableOnce
  68. def iterator: Iterator[SamRecord]

    Returns an iterator over the records that have been built.

    Returns an iterator over the records that have been built.

    Definition Classes
    SamBuilder → IterableLike → GenIterableLike
  69. def last: SamRecord
    Definition Classes
    TraversableLike → GenTraversableLike
  70. def lastOption: Option[SamRecord]
    Definition Classes
    TraversableLike → GenTraversableLike
  71. def map[B, That](f: (SamRecord) ⇒ B)(implicit bf: CanBuildFrom[Iterable[SamRecord], B, That]): That
    Definition Classes
    TraversableLike → GenTraversableLike → FilterMonadic
  72. def max[B >: SamRecord](implicit cmp: Ordering[B]): SamRecord
    Definition Classes
    TraversableOnce → GenTraversableOnce
  73. def maxBy[B](f: (SamRecord) ⇒ B)(implicit cmp: Ordering[B]): SamRecord
    Definition Classes
    TraversableOnce → GenTraversableOnce
  74. def min[B >: SamRecord](implicit cmp: Ordering[B]): SamRecord
    Definition Classes
    TraversableOnce → GenTraversableOnce
  75. def minBy[B](f: (SamRecord) ⇒ B)(implicit cmp: Ordering[B]): SamRecord
    Definition Classes
    TraversableOnce → GenTraversableOnce
  76. def mkString: String
    Definition Classes
    TraversableOnce → GenTraversableOnce
  77. def mkString(sep: String): String
    Definition Classes
    TraversableOnce → GenTraversableOnce
  78. def mkString(start: String, sep: String, end: String): String
    Definition Classes
    TraversableOnce → GenTraversableOnce
  79. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  80. def newBuilder: Builder[SamRecord, Iterable[SamRecord]]
    Attributes
    protected[this]
    Definition Classes
    GenericTraversableTemplate → HasNewBuilder
  81. def nextName: String

    Generate a sequential name.

    Generate a sequential name.

    Attributes
    protected
  82. def nonEmpty: Boolean
    Definition Classes
    TraversableOnce → GenTraversableOnce
  83. final def notify(): Unit
    Definition Classes
    AnyRef
  84. final def notifyAll(): Unit
    Definition Classes
    AnyRef
  85. def par: ParIterable[SamRecord]
    Definition Classes
    Parallelizable
  86. def parCombiner: Combiner[SamRecord, ParIterable[SamRecord]]
    Attributes
    protected[this]
    Definition Classes
    TraversableLike → Parallelizable
  87. def partition(p: (SamRecord) ⇒ Boolean): (Iterable[SamRecord], Iterable[SamRecord])
    Definition Classes
    TraversableLike → GenTraversableLike
  88. def product[B >: SamRecord](implicit num: Numeric[B]): B
    Definition Classes
    TraversableOnce → GenTraversableOnce
  89. def randomBases: String

    Generate a random sequence of bases of length readLength.

    Generate a random sequence of bases of length readLength.

    Attributes
    protected
  90. val readGroupId: Option[String]
  91. val readLength: Int
  92. def reduce[A1 >: SamRecord](op: (A1, A1) ⇒ A1): A1
    Definition Classes
    TraversableOnce → GenTraversableOnce
  93. def reduceLeft[B >: SamRecord](op: (B, SamRecord) ⇒ B): B
    Definition Classes
    TraversableOnce
  94. def reduceLeftOption[B >: SamRecord](op: (B, SamRecord) ⇒ B): Option[B]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  95. def reduceOption[A1 >: SamRecord](op: (A1, A1) ⇒ A1): Option[A1]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  96. def reduceRight[B >: SamRecord](op: (SamRecord, B) ⇒ B): B
    Definition Classes
    IterableLike → TraversableOnce → GenTraversableOnce
  97. def reduceRightOption[B >: SamRecord](op: (SamRecord, B) ⇒ B): Option[B]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  98. def repr: Iterable[SamRecord]
    Definition Classes
    TraversableLike → GenTraversableLike
  99. def reversed: List[SamRecord]
    Attributes
    protected[this]
    Definition Classes
    TraversableOnce
  100. val rg: SAMReadGroupRecord
  101. def sameElements[B >: SamRecord](that: GenIterable[B]): Boolean
    Definition Classes
    IterableLike → GenIterableLike
  102. def scan[B >: SamRecord, That](z: B)(op: (B, B) ⇒ B)(implicit cbf: CanBuildFrom[Iterable[SamRecord], B, That]): That
    Definition Classes
    TraversableLike → GenTraversableLike
  103. def scanLeft[B, That](z: B)(op: (B, SamRecord) ⇒ B)(implicit bf: CanBuildFrom[Iterable[SamRecord], B, That]): That
    Definition Classes
    TraversableLike → GenTraversableLike
  104. def scanRight[B, That](z: B)(op: (SamRecord, B) ⇒ B)(implicit bf: CanBuildFrom[Iterable[SamRecord], 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.

  105. def seq: Iterable[SamRecord]
    Definition Classes
    Iterable → GenIterable → Traversable → GenTraversable → Parallelizable → TraversableOnce → GenTraversableOnce
  106. def size: Int

    Returns the number of records that have been built.

    Returns the number of records that have been built.

    Definition Classes
    SamBuilder → GenTraversableLike → TraversableOnce → GenTraversableOnce
  107. def sizeHintIfCheap: Int
    Attributes
    protected[scala.collection]
    Definition Classes
    GenTraversableOnce
  108. def slice(from: Int, until: Int): Iterable[SamRecord]
    Definition Classes
    IterableLike → TraversableLike → GenTraversableLike
  109. def sliding(size: Int, step: Int): Iterator[Iterable[SamRecord]]
    Definition Classes
    IterableLike
  110. def sliding(size: Int): Iterator[Iterable[SamRecord]]
    Definition Classes
    IterableLike
  111. val sort: Option[SamOrder]
  112. def span(p: (SamRecord) ⇒ Boolean): (Iterable[SamRecord], Iterable[SamRecord])
    Definition Classes
    TraversableLike → GenTraversableLike
  113. def splitAt(n: Int): (Iterable[SamRecord], Iterable[SamRecord])
    Definition Classes
    TraversableLike → GenTraversableLike
  114. def stringPrefix: String
    Definition Classes
    TraversableLike → GenTraversableLike
  115. def sum[B >: SamRecord](implicit num: Numeric[B]): B
    Definition Classes
    TraversableOnce → GenTraversableOnce
  116. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  117. def tail: Iterable[SamRecord]
    Definition Classes
    TraversableLike → GenTraversableLike
  118. def tails: Iterator[Iterable[SamRecord]]
    Definition Classes
    TraversableLike
  119. def take(n: Int): Iterable[SamRecord]
    Definition Classes
    IterableLike → TraversableLike → GenTraversableLike
  120. def takeRight(n: Int): Iterable[SamRecord]
    Definition Classes
    IterableLike
  121. def takeWhile(p: (SamRecord) ⇒ Boolean): Iterable[SamRecord]
    Definition Classes
    IterableLike → TraversableLike → GenTraversableLike
  122. def thisCollection: Iterable[SamRecord]
    Attributes
    protected[this]
    Definition Classes
    IterableLike → TraversableLike
  123. def to[Col[_]](implicit cbf: CanBuildFrom[Nothing, SamRecord, Col[SamRecord]]): Col[SamRecord]
    Definition Classes
    TraversableLike → TraversableOnce → GenTraversableOnce
  124. def toArray[B >: SamRecord](implicit arg0: ClassTag[B]): Array[B]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  125. def toBuffer[B >: SamRecord]: Buffer[B]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  126. def toCollection(repr: Iterable[SamRecord]): Iterable[SamRecord]
    Attributes
    protected[this]
    Definition Classes
    IterableLike → TraversableLike
  127. def toIndexedSeq: IndexedSeq[SamRecord]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  128. def toIterable: Iterable[SamRecord]
    Definition Classes
    IterableLike → TraversableOnce → GenTraversableOnce
  129. def toIterator: Iterator[SamRecord]
    Definition Classes
    IterableLike → TraversableLike → GenTraversableOnce
    Annotations
    @deprecatedOverriding( ... , "2.11.0" )
  130. def toList: List[SamRecord]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  131. def toMap[T, U](implicit ev: <:<[SamRecord, (T, U)]): Map[T, U]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  132. def toParArray: ParArray[T]
    Implicit
    This member is added by an implicit conversion from SamBuilder to CollectionsHaveToParArray[SamBuilder, T] performed by method CollectionsHaveToParArray in scala.collection.parallel. This conversion will take place only if an implicit value of type (SamBuilder) ⇒ GenTraversableOnce[T] is in scope.
    Definition Classes
    CollectionsHaveToParArray
  133. def toSeq: Seq[SamRecord]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  134. def toSet[B >: SamRecord]: Set[B]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  135. def toSource: SamSource

    Creates a SamReader over the records stored in a temporary file.

  136. def toStream: Stream[SamRecord]
    Definition Classes
    IterableLike → TraversableLike → GenTraversableOnce
  137. def toString(): String
    Definition Classes
    TraversableLike → Any
  138. def toTempFile(deleteOnExit: Boolean = true): FgBioDef.PathToBam

    Writes the contents to a temporary file that will be deleted when the JVM exits.

  139. def toTraversable: Traversable[SamRecord]
    Definition Classes
    TraversableLike → TraversableOnce → GenTraversableOnce
    Annotations
    @deprecatedOverriding( ... , "2.11.0" )
  140. def toVector: Vector[SamRecord]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  141. def transpose[B](implicit asTraversable: (SamRecord) ⇒ GenTraversableOnce[B]): Iterable[Iterable[B]]
    Definition Classes
    GenericTraversableTemplate
    Annotations
    @migration
    Migration

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

  142. def unzip[A1, A2](implicit asPair: (SamRecord) ⇒ (A1, A2)): (Iterable[A1], Iterable[A2])
    Definition Classes
    GenericTraversableTemplate
  143. def unzip3[A1, A2, A3](implicit asTriple: (SamRecord) ⇒ (A1, A2, A3)): (Iterable[A1], Iterable[A2], Iterable[A3])
    Definition Classes
    GenericTraversableTemplate
  144. def view(from: Int, until: Int): IterableView[SamRecord, Iterable[SamRecord]]
    Definition Classes
    IterableLike → TraversableLike
  145. def view: IterableView[SamRecord, Iterable[SamRecord]]
    Definition Classes
    IterableLike → TraversableLike
  146. final def wait(): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  147. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  148. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  149. def withFilter(p: (SamRecord) ⇒ Boolean): FilterMonadic[SamRecord, Iterable[SamRecord]]
    Definition Classes
    TraversableLike → FilterMonadic
  150. def write(path: FgBioDef.PathToBam): Unit

    Writes the contents of the record set to the provided file path.

  151. def zip[A1 >: SamRecord, B, That](that: GenIterable[B])(implicit bf: CanBuildFrom[Iterable[SamRecord], (A1, B), That]): That
    Definition Classes
    IterableLike → GenIterableLike
  152. def zipAll[B, A1 >: SamRecord, That](that: GenIterable[B], thisElem: A1, thatElem: B)(implicit bf: CanBuildFrom[Iterable[SamRecord], (A1, B), That]): That
    Definition Classes
    IterableLike → GenIterableLike
  153. def zipWithIndex[A1 >: SamRecord, That](implicit bf: CanBuildFrom[Iterable[SamRecord], (A1, Int), That]): That
    Definition Classes
    IterableLike → GenIterableLike
  154. def →[B](y: B): (SamBuilder, B)
    Implicit
    This member is added by an implicit conversion from SamBuilder to ArrowAssoc[SamBuilder] performed by method ArrowAssoc in scala.Predef.
    Definition Classes
    ArrowAssoc

Shadowed Implicit Value Members

  1. def filter(p: (SamRecord) ⇒ Boolean): TraversableOnce[SamRecord]
    Implicit
    This member is added by an implicit conversion from SamBuilder to MonadOps[SamRecord] performed by method MonadOps in scala.collection.TraversableOnce.
    Shadowing
    This implicitly inherited member is shadowed by one or more members in this class.
    To access this member you can use a type ascription:
    (samBuilder: MonadOps[SamRecord]).filter(p)
    Definition Classes
    MonadOps
  2. def flatMap[B](f: (SamRecord) ⇒ GenTraversableOnce[B]): TraversableOnce[B]
    Implicit
    This member is added by an implicit conversion from SamBuilder to MonadOps[SamRecord] performed by method MonadOps in scala.collection.TraversableOnce.
    Shadowing
    This implicitly inherited member is shadowed by one or more members in this class.
    To access this member you can use a type ascription:
    (samBuilder: MonadOps[SamRecord]).flatMap(f)
    Definition Classes
    MonadOps
  3. def map[B](f: (SamRecord) ⇒ B): TraversableOnce[B]
    Implicit
    This member is added by an implicit conversion from SamBuilder to MonadOps[SamRecord] performed by method MonadOps in scala.collection.TraversableOnce.
    Shadowing
    This implicitly inherited member is shadowed by one or more members in this class.
    To access this member you can use a type ascription:
    (samBuilder: MonadOps[SamRecord]).map(f)
    Definition Classes
    MonadOps
  4. def withFilter(p: (SamRecord) ⇒ Boolean): Iterator[SamRecord]
    Implicit
    This member is added by an implicit conversion from SamBuilder to MonadOps[SamRecord] performed by method MonadOps in scala.collection.TraversableOnce.
    Shadowing
    This implicitly inherited member is shadowed by one or more members in this class.
    To access this member you can use a type ascription:
    (samBuilder: MonadOps[SamRecord]).withFilter(p)
    Definition Classes
    MonadOps

Inherited from Iterable[SamRecord]

Inherited from IterableLike[SamRecord, Iterable[SamRecord]]

Inherited from Equals

Inherited from GenIterable[SamRecord]

Inherited from GenIterableLike[SamRecord, Iterable[SamRecord]]

Inherited from Traversable[SamRecord]

Inherited from GenTraversable[SamRecord]

Inherited from GenericTraversableTemplate[SamRecord, Iterable]

Inherited from TraversableLike[SamRecord, Iterable[SamRecord]]

Inherited from GenTraversableLike[SamRecord, Iterable[SamRecord]]

Inherited from Parallelizable[SamRecord, ParIterable[SamRecord]]

Inherited from TraversableOnce[SamRecord]

Inherited from GenTraversableOnce[SamRecord]

Inherited from FilterMonadic[SamRecord, Iterable[SamRecord]]

Inherited from HasNewBuilder[SamRecord, Iterable[com.fulcrumgenomics.bam.api.SamRecord] @scala.annotation.unchecked.uncheckedVariance]

Inherited from AnyRef

Inherited from Any

Inherited by implicit conversion MonadOps from SamBuilder to MonadOps[SamRecord]

Inherited by implicit conversion CollectionsHaveToParArray from SamBuilder to CollectionsHaveToParArray[SamBuilder, T]

Inherited by implicit conversion any2stringadd from SamBuilder to any2stringadd[SamBuilder]

Inherited by implicit conversion StringFormat from SamBuilder to StringFormat[SamBuilder]

Inherited by implicit conversion Ensuring from SamBuilder to Ensuring[SamBuilder]

Inherited by implicit conversion ArrowAssoc from SamBuilder to ArrowAssoc[SamBuilder]

Inherited by implicit conversion alternateImplicit from SamBuilder to ForceImplicitAmbiguity

Ungrouped