org.bdgenomics.adam.apis.java

JavaADAMContext

class JavaADAMContext extends Serializable

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Instance Constructors

  1. new JavaADAMContext(sc: SparkContext)

    Builds this Java ADAM Context using an existing Spark Context.

    Builds this Java ADAM Context using an existing Spark Context.

    sc

    Spark Context to use to build this ADAM Context.

    returns

    A new Java ADAM Context.

  2. new JavaADAMContext(jsc: JavaSparkContext)

    Builds this Java ADAM Context using an existing Java Spark Context.

    Builds this Java ADAM Context using an existing Java Spark Context.

    jsc

    Java Spark Context to use to build this ADAM Context.

    returns

    A new Java ADAM Context.

  3. new JavaADAMContext(ac: ADAMContext)

Value Members

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

    Definition Classes
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  2. final def ##(): Int

    Definition Classes
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  3. final def ==(arg0: Any): Boolean

    Definition Classes
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  4. val ac: ADAMContext

  5. def adamRecordLoad(filePath: String): JavaAlignmentRecordRDD

    Loads in an ADAM read file.

    Loads in an ADAM read file. This method can load SAM, BAM, and ADAM files.

    filePath

    Path to load the file from.

    returns

    Returns a read RDD.

  6. final def asInstanceOf[T0]: T0

    Definition Classes
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  7. def clone(): AnyRef

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

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

    Definition Classes
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  9. def equals(arg0: Any): Boolean

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  10. def finalize(): Unit

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

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

    Definition Classes
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  12. def getSparkContext: JavaSparkContext

    returns

    Returns the Java Spark Context associated with this Java ADAM Context.

  13. def hashCode(): Int

    Definition Classes
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  14. final def isInstanceOf[T0]: Boolean

    Definition Classes
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  15. final def ne(arg0: AnyRef): Boolean

    Definition Classes
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  16. final def notify(): Unit

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  17. final def notifyAll(): Unit

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

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  19. def toString(): String

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  20. final def wait(): Unit

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    @throws( ... )

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

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    @throws( ... )

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

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