Class/Object

au.csiro.variantspark.cli

PairWiseDistanceCmd

Related Docs: object PairWiseDistanceCmd | package cli

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class PairWiseDistanceCmd extends ArgsApp with FeatureSourceArgs with Logging with TestArgs

Linear Supertypes
TestArgs, FeatureSourceArgs, Echoable, SparkArgs, SparkApp, Logging, ArgsApp, CmdApp, AnyRef, Any
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Inherited
  1. PairWiseDistanceCmd
  2. TestArgs
  3. FeatureSourceArgs
  4. Echoable
  5. SparkArgs
  6. SparkApp
  7. Logging
  8. ArgsApp
  9. CmdApp
  10. AnyRef
  11. Any
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Visibility
  1. Public
  2. All

Instance Constructors

  1. new PairWiseDistanceCmd()

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

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    Definition Classes
    AnyRef → Any

  4. final def asInstanceOf[T0]: T0

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    Definition Classes
    Any

  5. val beSilent: Boolean

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    Definition Classes
    Echoable

  6. val beVerbose: Boolean

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    Definition Classes
    Echoable

  7. def buildMetricFromName(metricName: String): PairwiseMetric

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  8. def clone(): AnyRef

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

  9. lazy val conf: SparkConf

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    Definition Classes
    SparkApp

  10. def defaultMasterUrl: String

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    Definition Classes
    SparkApp

  11. def echo(msg: ⇒ String): Unit

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    Definition Classes
    Echoable

  12. def echoDataPreview(): Unit

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    Definition Classes
    FeatureSourceArgs

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

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    Definition Classes
    AnyRef

  14. def equals(arg0: Any): Boolean

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    Definition Classes
    AnyRef → Any

  15. lazy val featureSource: FeatureSource

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    Definition Classes
    FeatureSourceArgs

  16. def finalize(): Unit

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

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

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    Definition Classes
    AnyRef → Any

  18. def hashCode(): Int

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    Definition Classes
    AnyRef → Any

  19. val inputFile: String

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    Definition Classes
    FeatureSourceArgs

  20. val inputType: String

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    Definition Classes
    FeatureSourceArgs

  21. def isEcho: Boolean

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    Definition Classes
    Echoable

  22. final def isInstanceOf[T0]: Boolean

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    Definition Classes
    Any

  23. def isSilent: Boolean

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    Definition Classes
    Echoable

  24. def isTraceEnabled(): Boolean

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    Attributes
    protected
    Definition Classes
    Logging

  25. def isVerbose: Boolean

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    Definition Classes
    Echoable

  26. def loadCSV(): CsvFeatureSource

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    Definition Classes
    FeatureSourceArgs

  27. def loadParquet(): ParquetFeatureSource

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    Definition Classes
    FeatureSourceArgs

  28. def loadVCF(): VCFFeatureSource

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    Definition Classes
    FeatureSourceArgs

  29. def log: Logger

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    Attributes
    protected
    Definition Classes
    Logging

  30. def logDebug(msg: ⇒ String, throwable: Throwable): Unit

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    Attributes
    protected
    Definition Classes
    Logging

  31. def logDebug(msg: ⇒ String): Unit

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    Attributes
    protected
    Definition Classes
    Logging

  32. def logError(msg: ⇒ String, throwable: Throwable): Unit

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    Attributes
    protected
    Definition Classes
    Logging

  33. def logError(msg: ⇒ String): Unit

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    Attributes
    protected
    Definition Classes
    Logging

  34. def logInfo(msg: ⇒ String, throwable: Throwable): Unit

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    Attributes
    protected
    Definition Classes
    Logging

  35. def logInfo(msg: ⇒ String): Unit

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    Attributes
    protected
    Definition Classes
    Logging

  36. def logName: String

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    Attributes
    protected
    Definition Classes
    Logging

  37. def logTrace(msg: ⇒ String, throwable: Throwable): Unit

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    Attributes
    protected
    Definition Classes
    Logging

  38. def logTrace(msg: ⇒ String): Unit

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    Attributes
    protected
    Definition Classes
    Logging

  39. def logWarning(msg: ⇒ String, throwable: Throwable): Unit

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    Attributes
    protected
    Definition Classes
    Logging

  40. def logWarning(msg: ⇒ String): Unit

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    Attributes
    protected
    Definition Classes
    Logging

  41. val metricName: String

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

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    Definition Classes
    AnyRef

  43. final def notify(): Unit

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    Definition Classes
    AnyRef

  44. final def notifyAll(): Unit

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    Definition Classes
    AnyRef

  45. val outputFile: String

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  46. def run(): Unit

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    Definition Classes
    PairWiseDistanceCmd → ArgsApp
    Annotations
    @Override()

  47. def run(args: Array[String]): Unit

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    Attributes
    protected[au.csiro.sparkle.common.args4j]
    Definition Classes
    ArgsApp → CmdApp

  48. def runApp(args: Array[String]): Unit

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    Attributes
    protected[au.csiro.sparkle.cmd]
    Definition Classes
    CmdApp

  49. implicit lazy val spark: SparkSession

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    Definition Classes
    SparkApp

  50. val sparkPar: Int

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    Definition Classes
    SparkArgs

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

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    Definition Classes
    AnyRef

  52. def testArgs: Array[String]

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    Definition Classes
    PairWiseDistanceCmd → TestArgs
    Annotations
    @Override()

  53. def toString(): String

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    Definition Classes
    AnyRef → Any

  54. def usage(): Unit

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    Attributes
    protected[au.csiro.sparkle.common.args4j]
    Definition Classes
    ArgsApp → CmdApp

  55. def verbose(msg: ⇒ String): Unit

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    Definition Classes
    Echoable

  56. final def wait(): Unit

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

  59. def warn(msg: ⇒ String): Unit

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    Definition Classes
    Echoable

Deprecated Value Members

  1. implicit lazy val sc: SparkContext

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    Definition Classes
    SparkApp
    Annotations
    @deprecated
    Deprecated

  2. lazy val sqlContext: SQLContext

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    Definition Classes
    SparkApp
    Annotations
    @deprecated
    Deprecated

Inherited from TestArgs

Inherited from FeatureSourceArgs

Inherited from Echoable

Inherited from SparkArgs

Inherited from SparkApp

Inherited from Logging

Inherited from ArgsApp

Inherited from CmdApp

Inherited from AnyRef

Inherited from Any

Ungrouped