c

io.projectglow.sql.expressions

PerSampleSummaryStatistics

case class PerSampleSummaryStatistics(genotypes: Expression, field: Expression, mutableAggBufferOffset: Int = 0, inputAggBufferOffset: Int = 0) extends TypedImperativeAggregate[ArrayBuffer[SampleSummaryStatsState]] with ExpectsGenotypeFields with GlowLogging with Product with Serializable

Computes summary statistics (count, min, max, mean, stdev) for a numeric genotype field for each sample in a cohort. The field is determined by the provided StructField. If the field does not exist in the genotype struct, an analysis error will be thrown.

The return type is an array of summary statistics. If sample ids are included in the input, they'll be propagated to the results.

Linear Supertypes
Serializable, Serializable, GlowLogging, LazyLogging, ExpectsGenotypeFields, TypedImperativeAggregate[ArrayBuffer[SampleSummaryStatsState]], ImperativeAggregate, CodegenFallback, AggregateFunction, Expression, TreeNode[Expression], Product, Equals, AnyRef, Any
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Inherited
  1. PerSampleSummaryStatistics
  2. Serializable
  3. Serializable
  4. GlowLogging
  5. LazyLogging
  6. ExpectsGenotypeFields
  7. TypedImperativeAggregate
  8. ImperativeAggregate
  9. CodegenFallback
  10. AggregateFunction
  11. Expression
  12. TreeNode
  13. Product
  14. Equals
  15. AnyRef
  16. Any
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Visibility
  1. Public
  2. All

Instance Constructors

  1. new PerSampleSummaryStatistics(genotypes: Expression, field: Expression, mutableAggBufferOffset: Int = 0, inputAggBufferOffset: Int = 0)

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 lazy val aggBufferAttributes: Seq[AttributeReference]
    Definition Classes
    TypedImperativeAggregate → AggregateFunction
  5. final def aggBufferSchema: StructType
    Definition Classes
    TypedImperativeAggregate → AggregateFunction
  6. def apply(number: Int): TreeNode[_]
    Definition Classes
    TreeNode
  7. def argString: String
    Definition Classes
    TreeNode
  8. def asCode: String
    Definition Classes
    TreeNode
  9. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  10. lazy val canonicalized: Expression
    Definition Classes
    Expression
  11. def checkInputDataTypes(): TypeCheckResult
    Definition Classes
    ExpectsGenotypeFields → Expression
  12. def children: Seq[Expression]
    Definition Classes
    PerSampleSummaryStatistics → TreeNode
  13. def childrenResolved: Boolean
    Definition Classes
    Expression
  14. def clone(): AnyRef
    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @native() @throws( ... )
  15. def collect[B](pf: PartialFunction[Expression, B]): Seq[B]
    Definition Classes
    TreeNode
  16. def collectFirst[B](pf: PartialFunction[Expression, B]): Option[B]
    Definition Classes
    TreeNode
  17. def collectLeaves(): Seq[Expression]
    Definition Classes
    TreeNode
  18. lazy val containsChild: Set[TreeNode[_]]
    Definition Classes
    TreeNode
  19. def createAggregationBuffer(): ArrayBuffer[SampleSummaryStatsState]
    Definition Classes
    PerSampleSummaryStatistics → TypedImperativeAggregate
  20. def dataType: DataType
    Definition Classes
    PerSampleSummaryStatistics → Expression
  21. def defaultResult: Option[Literal]
    Definition Classes
    AggregateFunction
  22. def deserialize(storageFormat: Array[Byte]): ArrayBuffer[SampleSummaryStatsState]
    Definition Classes
    PerSampleSummaryStatistics → TypedImperativeAggregate
  23. lazy val deterministic: Boolean
    Definition Classes
    Expression
  24. def doGenCode(ctx: CodegenContext, ev: ExprCode): ExprCode
    Attributes
    protected
    Definition Classes
    CodegenFallback → Expression
  25. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  26. def eval(buffer: ArrayBuffer[SampleSummaryStatsState]): Any
    Definition Classes
    PerSampleSummaryStatistics → TypedImperativeAggregate
  27. final def eval(buffer: InternalRow): Any
    Definition Classes
    TypedImperativeAggregate → Expression
  28. def fastEquals(other: TreeNode[_]): Boolean
    Definition Classes
    TreeNode
  29. val field: Expression
  30. def finalize(): Unit
    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] )
  31. def find(f: (Expression) ⇒ Boolean): Option[Expression]
    Definition Classes
    TreeNode
  32. def flatArguments: Iterator[Any]
    Attributes
    protected
    Definition Classes
    Expression
  33. def flatMap[A](f: (Expression) ⇒ TraversableOnce[A]): Seq[A]
    Definition Classes
    TreeNode
  34. final def foldable: Boolean
    Definition Classes
    AggregateFunction → Expression
  35. def foreach(f: (Expression) ⇒ Unit): Unit
    Definition Classes
    TreeNode
  36. def foreachUp(f: (Expression) ⇒ Unit): Unit
    Definition Classes
    TreeNode
  37. def genCode(ctx: CodegenContext): ExprCode
    Definition Classes
    Expression
  38. def generateTreeString(depth: Int, lastChildren: Seq[Boolean], builder: StringBuilder, verbose: Boolean, prefix: String, addSuffix: Boolean): StringBuilder
    Definition Classes
    TreeNode
  39. lazy val genotypeFieldIndices: Seq[Int]
    Attributes
    protected
    Definition Classes
    ExpectsGenotypeFields
  40. def genotypeFieldsRequired: Seq[StructField]
    Definition Classes
    PerSampleSummaryStatistics → ExpectsGenotypeFields
  41. lazy val genotypeStructSize: Int
    Attributes
    protected
    Definition Classes
    ExpectsGenotypeFields
  42. val genotypes: Expression
  43. def genotypesExpr: Expression
    Definition Classes
    PerSampleSummaryStatistics → ExpectsGenotypeFields
  44. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  45. def hashCode(): Int
    Definition Classes
    TreeNode → AnyRef → Any
  46. final def initialize(buffer: InternalRow): Unit
    Definition Classes
    TypedImperativeAggregate → ImperativeAggregate
  47. def innerChildren: Seq[TreeNode[_]]
    Attributes
    protected
    Definition Classes
    TreeNode
  48. final lazy val inputAggBufferAttributes: Seq[AttributeReference]
    Definition Classes
    TypedImperativeAggregate → AggregateFunction
  49. val inputAggBufferOffset: Int
    Definition Classes
    PerSampleSummaryStatistics → ImperativeAggregate
  50. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  51. def jsonFields: List[JField]
    Attributes
    protected
    Definition Classes
    TreeNode
  52. lazy val logger: Logger
    Attributes
    protected
    Definition Classes
    LazyLogging
  53. def makeCopy(newArgs: Array[AnyRef]): Expression
    Definition Classes
    TreeNode
  54. def map[A](f: (Expression) ⇒ A): Seq[A]
    Definition Classes
    TreeNode
  55. def mapChildren(f: (Expression) ⇒ Expression): Expression
    Definition Classes
    TreeNode
  56. def mapProductIterator[B](f: (Any) ⇒ B)(implicit arg0: ClassTag[B]): Array[B]
    Attributes
    protected
    Definition Classes
    TreeNode
  57. def merge(buffer: ArrayBuffer[SampleSummaryStatsState], input: ArrayBuffer[SampleSummaryStatsState]): ArrayBuffer[SampleSummaryStatsState]
    Definition Classes
    PerSampleSummaryStatistics → TypedImperativeAggregate
  58. final def merge(buffer: InternalRow, inputBuffer: InternalRow): Unit
    Definition Classes
    TypedImperativeAggregate → ImperativeAggregate
  59. val mutableAggBufferOffset: Int
    Definition Classes
    PerSampleSummaryStatistics → ImperativeAggregate
  60. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  61. def nodeName: String
    Definition Classes
    TreeNode
  62. final def notify(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  63. final def notifyAll(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  64. def nullable: Boolean
    Definition Classes
    PerSampleSummaryStatistics → Expression
  65. def numberedTreeString: String
    Definition Classes
    TreeNode
  66. lazy val optionalFieldIndices: Seq[Int]
    Attributes
    protected
    Definition Classes
    ExpectsGenotypeFields
  67. def optionalGenotypeFields: Seq[StructField]
    Definition Classes
    PerSampleSummaryStatistics → ExpectsGenotypeFields
  68. val origin: Origin
    Definition Classes
    TreeNode
  69. def otherCopyArgs: Seq[AnyRef]
    Attributes
    protected
    Definition Classes
    TreeNode
  70. def p(number: Int): Expression
    Definition Classes
    TreeNode
  71. def prettyJson: String
    Definition Classes
    TreeNode
  72. def prettyName: String
    Definition Classes
    Expression
  73. def references: AttributeSet
    Definition Classes
    Expression
  74. lazy val resolved: Boolean
    Definition Classes
    Expression
  75. def semanticEquals(other: Expression): Boolean
    Definition Classes
    Expression
  76. def semanticHash(): Int
    Definition Classes
    Expression
  77. def serialize(buffer: ArrayBuffer[SampleSummaryStatsState]): Array[Byte]
    Definition Classes
    PerSampleSummaryStatistics → TypedImperativeAggregate
  78. final def serializeAggregateBufferInPlace(buffer: InternalRow): Unit
    Definition Classes
    TypedImperativeAggregate
  79. def simpleString: String
    Definition Classes
    Expression → TreeNode
  80. def sql(isDistinct: Boolean): String
    Definition Classes
    AggregateFunction
  81. def sql: String
    Definition Classes
    Expression
  82. def stringArgs: Iterator[Any]
    Attributes
    protected
    Definition Classes
    TreeNode
  83. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  84. def toAggString(isDistinct: Boolean): String
    Definition Classes
    AggregateFunction
  85. def toAggregateExpression(isDistinct: Boolean): AggregateExpression
    Definition Classes
    AggregateFunction
  86. def toAggregateExpression(): AggregateExpression
    Definition Classes
    AggregateFunction
  87. def toJSON: String
    Definition Classes
    TreeNode
  88. def toString(): String
    Definition Classes
    Expression → TreeNode → AnyRef → Any
  89. def transform(rule: PartialFunction[Expression, Expression]): Expression
    Definition Classes
    TreeNode
  90. def transformDown(rule: PartialFunction[Expression, Expression]): Expression
    Definition Classes
    TreeNode
  91. def transformUp(rule: PartialFunction[Expression, Expression]): Expression
    Definition Classes
    TreeNode
  92. def treeString(verbose: Boolean, addSuffix: Boolean): String
    Definition Classes
    TreeNode
  93. def treeString: String
    Definition Classes
    TreeNode
  94. def update(buffer: ArrayBuffer[SampleSummaryStatsState], input: InternalRow): ArrayBuffer[SampleSummaryStatsState]
    Definition Classes
    PerSampleSummaryStatistics → TypedImperativeAggregate
  95. final def update(buffer: InternalRow, input: InternalRow): Unit
    Definition Classes
    TypedImperativeAggregate → ImperativeAggregate
  96. final def verboseString: String
    Definition Classes
    Expression → TreeNode
  97. def verboseStringWithSuffix: String
    Definition Classes
    TreeNode
  98. final def wait(): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  99. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  100. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @native() @throws( ... )
  101. def withNewChildren(newChildren: Seq[Expression]): Expression
    Definition Classes
    TreeNode
  102. def withNewInputAggBufferOffset(newInputAggBufferOffset: Int): PerSampleSummaryStatistics
    Definition Classes
    PerSampleSummaryStatistics → ImperativeAggregate
  103. def withNewMutableAggBufferOffset(newOffset: Int): PerSampleSummaryStatistics
    Definition Classes
    PerSampleSummaryStatistics → ImperativeAggregate

Inherited from Serializable

Inherited from Serializable

Inherited from GlowLogging

Inherited from LazyLogging

Inherited from ExpectsGenotypeFields

Inherited from TypedImperativeAggregate[ArrayBuffer[SampleSummaryStatsState]]

Inherited from ImperativeAggregate

Inherited from CodegenFallback

Inherited from AggregateFunction

Inherited from Expression

Inherited from TreeNode[Expression]

Inherited from Product

Inherited from Equals

Inherited from AnyRef

Inherited from Any

Ungrouped