edu.arizona.sista.reach.grounding

Speciated

Related Docs: object Speciated | package grounding

trait Speciated extends AnyRef

Trait for species features used in external knowledge bases. Written by Tom Hicks. 10/23/2015. Last Modified: Add constants and testers for human Namespace:IDs.

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Known Subclasses
AdHocIMKBFactory, AzFailsafeKBML, IMKBFamilyLookup, IMKBFamilyMentionLookup, IMKBLookup, IMKBMentionLookup, IMKBOrganCellTypeLookup, IMKBOrganCellTypeMentionLookup, IMKBProteinLookup, IMKBProteinMentionLookup, InMemoryKB, KBAltLookup, KBAltMentionLookup, KBEntry, KBLookup, KBMentionLookup, ReachGrounder, ReachKBUtils, Speciated, TsvIMKBFactory
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Type Members

  1. type SpeciesNameSet = Set[String]

    Species name sets.

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
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  4. def SpeciesNameSet(xs: String*): Set[String]

  5. final def asInstanceOf[T0]: T0

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  6. def clone(): AnyRef

    Attributes
    protected[java.lang]
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    @throws( ... )

  7. def containsHumanNsId(nsIdSeq: Seq[String]): Boolean

    Tell whether the given sequence of namespace/ID strings contains a human nsId.

  8. def containsHumanSpecies(speciesSeq: Seq[String]): Boolean

    Tell whether the given sequence of species strings contain a human species label.

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

    Definition Classes
    AnyRef

  10. def equals(arg0: Any): Boolean

    Definition Classes
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  11. def finalize(): Unit

    Attributes
    protected[java.lang]
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    @throws( classOf[java.lang.Throwable] )

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

    Definition Classes
    AnyRef → Any

  13. def hasHumanNsId(nsId: String): Boolean

    Tell whether the given namespace/ID string is an ID for humans or not.

  14. def hashCode(): Int

    Definition Classes
    AnyRef → Any

  15. def isHumanSpecies(species: String): Boolean

    Tell whether the given species string is label for humans or not.

  16. final def isInstanceOf[T0]: Boolean

    Definition Classes
    Any

  17. def isMemberOf(species: String, speciesSet: SpeciesNameSet): Boolean

    Tell whether the given species string is a member of the given set of species.

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

    Definition Classes
    AnyRef

  19. final def notify(): Unit

    Definition Classes
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  20. final def notifyAll(): Unit

    Definition Classes
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  21. final def synchronized[T0](arg0: ⇒ T0): T0

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  22. def toString(): String

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  23. final def wait(): Unit

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    @throws( ... )

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

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

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