edu.arizona.sista.reach.grounding

EntityChecker

Related Doc: package grounding

object EntityChecker extends App

Program to lookup/check incoming BioPax model entities against local knowledge bases. Author: by Tom Hicks. 5/14/2015. Last Modified: Update for singleton KBL creator.

Linear Supertypes
App, DelayedInit, AnyRef, Any
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  1. EntityChecker
  2. App
  3. DelayedInit
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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. def args: Array[String]

    Attributes
    protected
    Definition Classes
    App
    Annotations
    @deprecatedOverriding( "args should not be overridden" , "2.11.0" )

  5. final def asInstanceOf[T0]: T0

    Definition Classes
    Any

  6. val cellLocationSearcher: Seq[IMKBLookup]

    Search sequence for sub cellular locations terms.

    Search sequence for sub cellular locations terms.

    Attributes
    protected

  7. val chemSearcher: Seq[IMKBLookup]

    Search sequence for small molecules.

    Search sequence for small molecules.

    Attributes
    protected

  8. def clone(): AnyRef

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

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

    Definition Classes
    AnyRef

  10. def equals(arg0: Any): Boolean

    Definition Classes
    AnyRef → Any

  11. val executionStart: Long

    Definition Classes
    App

  12. val filepath: String

  13. def finalize(): Unit

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

  14. val fis: FileInputStream

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

    Definition Classes
    AnyRef → Any

  16. def hashCode(): Int

    Definition Classes
    AnyRef → Any

  17. final def isInstanceOf[T0]: Boolean

    Definition Classes
    Any

  18. def main(args: Array[String]): Unit

    Definition Classes
    App
    Annotations
    @deprecatedOverriding( "main should not be overridden" , "2.11.0" )

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

    Definition Classes
    AnyRef

  20. final def notify(): Unit

    Definition Classes
    AnyRef

  21. final def notifyAll(): Unit

    Definition Classes
    AnyRef

  22. val proteinSearcher: Seq[IMKBLookup]

    Search sequence for resolving proteins.

    Search sequence for resolving proteins.

    Attributes
    protected

  23. def readAndCheckBioPax(fis: InputStream): Unit

    Read the BioPAX model from the given input stream and check the entities.

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

    Definition Classes
    AnyRef

  25. def toString(): String

    Definition Classes
    AnyRef → Any

  26. final def wait(): Unit

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

Deprecated Value Members

  1. def delayedInit(body: ⇒ Unit): Unit

    Definition Classes
    App → DelayedInit
    Annotations
    @deprecated
    Deprecated

    (Since version 2.11.0) The delayedInit mechanism will disappear.

Inherited from App

Inherited from DelayedInit

Inherited from AnyRef

Inherited from Any

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