Packages

class ChunkFilterer extends AnnotatorModel[ChunkFilterer] with HasSimpleAnnotate[ChunkFilterer] with CheckLicense

Filters entities coming from CHUNK annotations. Filters can be set via a white list of terms or a regular expression. White list criteria is enabled by default. To use regex, criteria has to be set to regex.

Example

Filtering POS tags

First pipeline stages to extract the POS tags are defined

val data = Seq("Has a past history of gastroenteritis and stomach pain, however patient ...").toDF("text")
val docAssembler = new DocumentAssembler().setInputCol("text").setOutputCol("document")
val sentenceDetector = new SentenceDetector().setInputCols("document").setOutputCol("sentence")
val tokenizer = new Tokenizer().setInputCols("sentence").setOutputCol("token")

val posTagger = PerceptronModel.pretrained()
  .setInputCols("sentence", "token")
  .setOutputCol("pos")

val chunker = new Chunker()
  .setInputCols("pos", "sentence")
  .setOutputCol("chunk")
  .setRegexParsers(Array("(<NN>)+"))

Then the chunks can be filtered via a white list. Here only terms with "gastroenteritis" remain.

val chunkerFilter = new ChunkFilterer()
  .setInputCols("sentence","chunk")
  .setOutputCol("filtered")
  .setCriteria("isin")
  .setWhiteList("gastroenteritis")

val pipeline = new Pipeline().setStages(Array(
  docAssembler,
  sentenceDetector,
  tokenizer,
  posTagger,
  chunker,
  chunkerFilter))

result.selectExpr("explode(chunk)").show(truncate=false)
+---------------------------------------------------------------------------------+
|col                                                                              |
+---------------------------------------------------------------------------------+
|{chunk, 11, 17, history, {sentence -> 0, chunk -> 0}, []}                        |
|{chunk, 22, 36, gastroenteritis, {sentence -> 0, chunk -> 1}, []}                |
|{chunk, 42, 53, stomach pain, {sentence -> 0, chunk -> 2}, []}                   |
|{chunk, 64, 70, patient, {sentence -> 0, chunk -> 3}, []}                        |
|{chunk, 81, 110, stomach pain now.We don't care, {sentence -> 0, chunk -> 4}, []}|
|{chunk, 118, 132, gastroenteritis, {sentence -> 0, chunk -> 5}, []}              |
+---------------------------------------------------------------------------------+

result.selectExpr("explode(filtered)").show(truncate=false)
+-------------------------------------------------------------------+
|col                                                                |
+-------------------------------------------------------------------+
|{chunk, 22, 36, gastroenteritis, {sentence -> 0, chunk -> 1}, []}  |
|{chunk, 118, 132, gastroenteritis, {sentence -> 0, chunk -> 5}, []}|
+-------------------------------------------------------------------+
Linear Supertypes
CheckLicense, HasSimpleAnnotate[ChunkFilterer], AnnotatorModel[ChunkFilterer], CanBeLazy, RawAnnotator[ChunkFilterer], HasOutputAnnotationCol, HasInputAnnotationCols, HasOutputAnnotatorType, ParamsAndFeaturesWritable, HasFeatures, DefaultParamsWritable, MLWritable, Model[ChunkFilterer], Transformer, PipelineStage, Logging, Params, Serializable, Serializable, Identifiable, AnyRef, Any
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Inherited
  1. ChunkFilterer
  2. CheckLicense
  3. HasSimpleAnnotate
  4. AnnotatorModel
  5. CanBeLazy
  6. RawAnnotator
  7. HasOutputAnnotationCol
  8. HasInputAnnotationCols
  9. HasOutputAnnotatorType
  10. ParamsAndFeaturesWritable
  11. HasFeatures
  12. DefaultParamsWritable
  13. MLWritable
  14. Model
  15. Transformer
  16. PipelineStage
  17. Logging
  18. Params
  19. Serializable
  20. Serializable
  21. Identifiable
  22. AnyRef
  23. Any
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Visibility
  1. Public
  2. All

Instance Constructors

  1. new ChunkFilterer()
  2. new ChunkFilterer(uid: String)

    uid

    a unique identifier for the instantiated AnnotatorModel

Type Members

  1. type AnnotationContent = Seq[Row]
    Attributes
    protected
    Definition Classes
    AnnotatorModel
  2. type AnnotatorType = String
    Definition Classes
    HasOutputAnnotatorType

Value Members

  1. final def !=(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  2. final def ##(): Int
    Definition Classes
    AnyRef → Any
  3. final def $[T](param: Param[T]): T
    Attributes
    protected
    Definition Classes
    Params
  4. def $$[T](feature: StructFeature[T]): T
    Attributes
    protected
    Definition Classes
    HasFeatures
  5. def $$[K, V](feature: MapFeature[K, V]): Map[K, V]
    Attributes
    protected
    Definition Classes
    HasFeatures
  6. def $$[T](feature: SetFeature[T]): Set[T]
    Attributes
    protected
    Definition Classes
    HasFeatures
  7. def $$[T](feature: ArrayFeature[T]): Array[T]
    Attributes
    protected
    Definition Classes
    HasFeatures
  8. final def ==(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  9. def _transform(dataset: Dataset[_], recursivePipeline: Option[PipelineModel]): DataFrame
    Attributes
    protected
    Definition Classes
    AnnotatorModel
  10. def afterAnnotate(dataset: DataFrame): DataFrame
    Attributes
    protected
    Definition Classes
    AnnotatorModel
  11. def annotate(annotations: Seq[Annotation]): Seq[Annotation]

    annotations

    a Sequence of chunks to merge

    returns

    a Sequence of Merged CHUNK Annotations

    Definition Classes
    ChunkFilterer → HasSimpleAnnotate
  12. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  13. def beforeAnnotate(dataset: Dataset[_]): Dataset[_]
    Attributes
    protected
    Definition Classes
    AnnotatorModel
  14. final def checkSchema(schema: StructType, inputAnnotatorType: String): Boolean
    Attributes
    protected
    Definition Classes
    HasInputAnnotationCols
  15. def checkValidEnvironment(spark: Option[SparkContext]): Unit
    Definition Classes
    CheckLicense
  16. def checkValidScope(scope: String): Unit
    Definition Classes
    CheckLicense
  17. def checkValidScopeAndEnvironment(scope: String, spark: Option[SparkContext], checkLp: Boolean): Unit
    Definition Classes
    CheckLicense
  18. final def clear(param: Param[_]): ChunkFilterer.this.type
    Definition Classes
    Params
  19. def clone(): AnyRef
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()
  20. def copy(extra: ParamMap): ChunkFilterer
    Definition Classes
    RawAnnotator → Model → Transformer → PipelineStage → Params
  21. def copyValues[T <: Params](to: T, extra: ParamMap): T
    Attributes
    protected
    Definition Classes
    Params
  22. val criteria: Param[String]

    Tag representing dates in the obfuscate reference file (Default: "isin")

  23. final def defaultCopy[T <: Params](extra: ParamMap): T
    Attributes
    protected
    Definition Classes
    Params
  24. def dfAnnotate: UserDefinedFunction
    Definition Classes
    HasSimpleAnnotate
  25. val entitiesConfidence: MapFeature[String, Float]

    Pairs (entity,confidenceThreshold).

    Pairs (entity,confidenceThreshold). Filter the chunks with entities which have confidence lower than the confidence threshold.

  26. lazy val entitiesConfidenceMap: Map[String, Float]
  27. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  28. def equals(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  29. def explainParam(param: Param[_]): String
    Definition Classes
    Params
  30. def explainParams(): String
    Definition Classes
    Params
  31. def extraValidate(structType: StructType): Boolean
    Attributes
    protected
    Definition Classes
    RawAnnotator
  32. def extraValidateMsg: String
    Attributes
    protected
    Definition Classes
    RawAnnotator
  33. final def extractParamMap(): ParamMap
    Definition Classes
    Params
  34. final def extractParamMap(extra: ParamMap): ParamMap
    Definition Classes
    Params
  35. val features: ArrayBuffer[Feature[_, _, _]]
    Definition Classes
    HasFeatures
  36. val filterValue: Param[String]

    Possibles values result|entity,If is entity we filter the ner chunks by the ner label that you want to filter.

    Possibles values result|entity,If is entity we filter the ner chunks by the ner label that you want to filter. If is result you will filter by the result

  37. def finalize(): Unit
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] )
  38. def get[T](feature: StructFeature[T]): Option[T]
    Attributes
    protected
    Definition Classes
    HasFeatures
  39. def get[K, V](feature: MapFeature[K, V]): Option[Map[K, V]]
    Attributes
    protected
    Definition Classes
    HasFeatures
  40. def get[T](feature: SetFeature[T]): Option[Set[T]]
    Attributes
    protected
    Definition Classes
    HasFeatures
  41. def get[T](feature: ArrayFeature[T]): Option[Array[T]]
    Attributes
    protected
    Definition Classes
    HasFeatures
  42. final def get[T](param: Param[T]): Option[T]
    Definition Classes
    Params
  43. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  44. final def getDefault[T](param: Param[T]): Option[T]
    Definition Classes
    Params
  45. def getInputCols: Array[String]
    Definition Classes
    HasInputAnnotationCols
  46. def getLazyAnnotator: Boolean
    Definition Classes
    CanBeLazy
  47. final def getOrDefault[T](param: Param[T]): T
    Definition Classes
    Params
  48. final def getOutputCol: String
    Definition Classes
    HasOutputAnnotationCol
  49. def getParam(paramName: String): Param[Any]
    Definition Classes
    Params
  50. final def hasDefault[T](param: Param[T]): Boolean
    Definition Classes
    Params
  51. def hasParam(paramName: String): Boolean
    Definition Classes
    Params
  52. def hasParent: Boolean
    Definition Classes
    Model
  53. def hashCode(): Int
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  54. def initializeLogIfNecessary(isInterpreter: Boolean, silent: Boolean): Boolean
    Attributes
    protected
    Definition Classes
    Logging
  55. def initializeLogIfNecessary(isInterpreter: Boolean): Unit
    Attributes
    protected
    Definition Classes
    Logging
  56. val inputAnnotatorTypes: Array[AnnotatorType]

    Input annotator types: DOCUMENT,CHUNK

    Input annotator types: DOCUMENT,CHUNK

    Definition Classes
    ChunkFilterer → HasInputAnnotationCols
  57. final val inputCols: StringArrayParam
    Attributes
    protected
    Definition Classes
    HasInputAnnotationCols
  58. final def isDefined(param: Param[_]): Boolean
    Definition Classes
    Params
  59. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  60. def isLp(): Boolean
    Definition Classes
    CheckLicense
  61. final def isSet(param: Param[_]): Boolean
    Definition Classes
    Params
  62. def isTraceEnabled(): Boolean
    Attributes
    protected
    Definition Classes
    Logging
  63. val lazyAnnotator: BooleanParam
    Definition Classes
    CanBeLazy
  64. def log: Logger
    Attributes
    protected
    Definition Classes
    Logging
  65. def logDebug(msg: ⇒ String, throwable: Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  66. def logDebug(msg: ⇒ String): Unit
    Attributes
    protected
    Definition Classes
    Logging
  67. def logError(msg: ⇒ String, throwable: Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  68. def logError(msg: ⇒ String): Unit
    Attributes
    protected
    Definition Classes
    Logging
  69. def logInfo(msg: ⇒ String, throwable: Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  70. def logInfo(msg: ⇒ String): Unit
    Attributes
    protected
    Definition Classes
    Logging
  71. def logName: String
    Attributes
    protected
    Definition Classes
    Logging
  72. def logTrace(msg: ⇒ String, throwable: Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  73. def logTrace(msg: ⇒ String): Unit
    Attributes
    protected
    Definition Classes
    Logging
  74. def logWarning(msg: ⇒ String, throwable: Throwable): Unit
    Attributes
    protected
    Definition Classes
    Logging
  75. def logWarning(msg: ⇒ String): Unit
    Attributes
    protected
    Definition Classes
    Logging
  76. def msgHelper(schema: StructType): String
    Attributes
    protected
    Definition Classes
    HasInputAnnotationCols
  77. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  78. final def notify(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  79. final def notifyAll(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  80. def onWrite(path: String, spark: SparkSession): Unit
    Attributes
    protected
    Definition Classes
    ParamsAndFeaturesWritable
  81. val optionalInputAnnotatorTypes: Array[String]
    Definition Classes
    HasInputAnnotationCols
  82. val outputAnnotatorType: AnnotatorType

    Output annotator types: CHUNK

    Output annotator types: CHUNK

    Definition Classes
    ChunkFilterer → HasOutputAnnotatorType
  83. final val outputCol: Param[String]
    Attributes
    protected
    Definition Classes
    HasOutputAnnotationCol
  84. lazy val params: Array[Param[_]]
    Definition Classes
    Params
  85. var parent: Estimator[ChunkFilterer]
    Definition Classes
    Model
  86. val possibleEntityFields: Array[String]
  87. val regex: StringArrayParam

    If defined, list of regex to process the chunks (Default: Array())

  88. def save(path: String): Unit
    Definition Classes
    MLWritable
    Annotations
    @Since( "1.6.0" ) @throws( ... )
  89. def set[T](feature: StructFeature[T], value: T): ChunkFilterer.this.type
    Attributes
    protected
    Definition Classes
    HasFeatures
  90. def set[K, V](feature: MapFeature[K, V], value: Map[K, V]): ChunkFilterer.this.type
    Attributes
    protected
    Definition Classes
    HasFeatures
  91. def set[T](feature: SetFeature[T], value: Set[T]): ChunkFilterer.this.type
    Attributes
    protected
    Definition Classes
    HasFeatures
  92. def set[T](feature: ArrayFeature[T], value: Array[T]): ChunkFilterer.this.type
    Attributes
    protected
    Definition Classes
    HasFeatures
  93. final def set(paramPair: ParamPair[_]): ChunkFilterer.this.type
    Attributes
    protected
    Definition Classes
    Params
  94. final def set(param: String, value: Any): ChunkFilterer.this.type
    Attributes
    protected
    Definition Classes
    Params
  95. final def set[T](param: Param[T], value: T): ChunkFilterer.this.type
    Definition Classes
    Params
  96. def setCriteria(s: String): ChunkFilterer.this.type
  97. def setDefault[T](feature: StructFeature[T], value: () ⇒ T): ChunkFilterer.this.type
    Attributes
    protected
    Definition Classes
    HasFeatures
  98. def setDefault[K, V](feature: MapFeature[K, V], value: () ⇒ Map[K, V]): ChunkFilterer.this.type
    Attributes
    protected
    Definition Classes
    HasFeatures
  99. def setDefault[T](feature: SetFeature[T], value: () ⇒ Set[T]): ChunkFilterer.this.type
    Attributes
    protected
    Definition Classes
    HasFeatures
  100. def setDefault[T](feature: ArrayFeature[T], value: () ⇒ Array[T]): ChunkFilterer.this.type
    Attributes
    protected
    Definition Classes
    HasFeatures
  101. final def setDefault(paramPairs: ParamPair[_]*): ChunkFilterer.this.type
    Attributes
    protected
    Definition Classes
    Params
  102. final def setDefault[T](param: Param[T], value: T): ChunkFilterer.this.type
    Attributes
    protected
    Definition Classes
    Params
  103. def setEntitiesConfidence(value: Map[String, Float]): ChunkFilterer.this.type
  104. def setFilterEntity(v: String): ChunkFilterer.this.type

    Possibles values result|entity,If is entity we filter the ner chunks by the ner label that you want to filter.

    Possibles values result|entity,If is entity we filter the ner chunks by the ner label that you want to filter. If is result you will filter by the result

  105. final def setInputCols(value: String*): ChunkFilterer.this.type
    Definition Classes
    HasInputAnnotationCols
  106. final def setInputCols(value: Array[String]): ChunkFilterer.this.type
    Definition Classes
    HasInputAnnotationCols
  107. def setLazyAnnotator(value: Boolean): ChunkFilterer.this.type
    Definition Classes
    CanBeLazy
  108. final def setOutputCol(value: String): ChunkFilterer.this.type
    Definition Classes
    HasOutputAnnotationCol
  109. def setParent(parent: Estimator[ChunkFilterer]): ChunkFilterer
    Definition Classes
    Model
  110. def setRegex(list: String*): ChunkFilterer.this.type

    Sets the list of regexes to process the chunks.

  111. def setWhiteList(list: String*): ChunkFilterer.this.type

    Sets the list of entities to process.

    Sets the list of entities to process. The rest will be ignored. Do not include IOB prefix on labels.

  112. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  113. def toString(): String
    Definition Classes
    Identifiable → AnyRef → Any
  114. final def transform(dataset: Dataset[_]): DataFrame
    Definition Classes
    AnnotatorModel → Transformer
  115. def transform(dataset: Dataset[_], paramMap: ParamMap): DataFrame
    Definition Classes
    Transformer
    Annotations
    @Since( "2.0.0" )
  116. def transform(dataset: Dataset[_], firstParamPair: ParamPair[_], otherParamPairs: ParamPair[_]*): DataFrame
    Definition Classes
    Transformer
    Annotations
    @Since( "2.0.0" ) @varargs()
  117. final def transformSchema(schema: StructType): StructType
    Definition Classes
    RawAnnotator → PipelineStage
  118. def transformSchema(schema: StructType, logging: Boolean): StructType
    Attributes
    protected
    Definition Classes
    PipelineStage
    Annotations
    @DeveloperApi()
  119. val uid: String
    Definition Classes
    ChunkFilterer → Identifiable
  120. def validate(schema: StructType): Boolean
    Attributes
    protected
    Definition Classes
    RawAnnotator
  121. final def wait(): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  122. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  123. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()
  124. val whiteList: StringArrayParam

    If defined, list of entities to process.

    If defined, list of entities to process. The rest will be ignored. Does not include IOB prefix on labels (Default: Array())

  125. def wrapColumnMetadata(col: Column): Column
    Attributes
    protected
    Definition Classes
    RawAnnotator
  126. def write: MLWriter
    Definition Classes
    ParamsAndFeaturesWritable → DefaultParamsWritable → MLWritable

Inherited from CheckLicense

Inherited from HasSimpleAnnotate[ChunkFilterer]

Inherited from AnnotatorModel[ChunkFilterer]

Inherited from CanBeLazy

Inherited from RawAnnotator[ChunkFilterer]

Inherited from HasOutputAnnotationCol

Inherited from HasInputAnnotationCols

Inherited from HasOutputAnnotatorType

Inherited from ParamsAndFeaturesWritable

Inherited from HasFeatures

Inherited from DefaultParamsWritable

Inherited from MLWritable

Inherited from Model[ChunkFilterer]

Inherited from Transformer

Inherited from PipelineStage

Inherited from Logging

Inherited from Params

Inherited from Serializable

Inherited from Serializable

Inherited from Identifiable

Inherited from AnyRef

Inherited from Any

Parameters

Annotator types

Required input and expected output annotator types

Members

Parameter setters