org.bdgenomics.adam.rdd.fragment

# Tab6InFormatter

#### class Tab6InFormatter extends InFormatter[Fragment, FragmentRDD, Tab6InFormatter] with Logging

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Logging, InFormatter[Fragment, FragmentRDD, Tab6InFormatter], Serializable, Serializable, AnyRef, Any
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1. Tab6InFormatter
2. Logging
3. InFormatter
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### Value Members

1. #### final def !=(arg0: AnyRef): Boolean

   Definition Classes
     AnyRef

2. #### final def !=(arg0: Any): Boolean

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3. #### final def ##(): Int

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4. #### final def ==(arg0: AnyRef): Boolean

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

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6. #### final def asInstanceOf[T0]: T0

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7. #### def clone(): AnyRef

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

8. #### val companion: Tab6InFormatter.type

   Attributes
     protected
   Definition Classes
     Tab6InFormatter → InFormatter

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

   Definition Classes
     AnyRef

10. #### def equals(arg0: Any): Boolean

    Definition Classes
      AnyRef → Any

11. #### def finalize(): Unit

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

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

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13. #### def hashCode(): Int

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

    Definition Classes
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15. #### def isTraceEnabled(): Boolean

    Attributes
      protected
    Definition Classes
      Logging

16. #### def log: Logger

    Attributes
      protected
    Definition Classes
      Logging

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

    Attributes
      protected
    Definition Classes
      Logging

18. #### def logDebug(msg: ⇒ String): Unit

    Attributes
      protected
    Definition Classes
      Logging

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

    Attributes
      protected
    Definition Classes
      Logging

20. #### def logError(msg: ⇒ String): Unit

    Attributes
      protected
    Definition Classes
      Logging

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

    Attributes
      protected
    Definition Classes
      Logging

22. #### def logInfo(msg: ⇒ String): Unit

    Attributes
      protected
    Definition Classes
      Logging

23. #### def logName: String

    Attributes
      protected
    Definition Classes
      Logging

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

    Attributes
      protected
    Definition Classes
      Logging

25. #### def logTrace(msg: ⇒ String): Unit

    Attributes
      protected
    Definition Classes
      Logging

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

    Attributes
      protected
    Definition Classes
      Logging

27. #### def logWarning(msg: ⇒ String): Unit

    Attributes
      protected
    Definition Classes
      Logging

28. #### final def ne(arg0: AnyRef): Boolean

    Definition Classes
      AnyRef

29. #### final def notify(): Unit

    Definition Classes
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30. #### final def notifyAll(): Unit

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

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32. #### def toString(): String

    Definition Classes
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33. #### final def wait(): Unit

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      @throws( ... )

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

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      @throws( ... )

35. #### final def wait(arg0: Long): Unit

    Definition Classes
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      @throws( ... )

36. #### def write(os: OutputStream, iter: Iterator[Fragment]): Unit

    Writes alignment records to an output stream in Bowtie tab6 format.

    Writes alignment records to an output stream in Bowtie tab6 format.

    In Bowtie tab6 format, each alignment record or pair is on a single line. An unpaired alignment record line is [name]\t[seq]\t[qual]\n. For paired-end alignment records, the second end can have a different name from the first: [name1]\t[seq1]\t[qual1]\t[name2]\t[seq2]\t[qual2]\n.

    os

      An OutputStream connected to a process we are piping to.

    iter

      An iterator of records to write.

    Definition Classes
      Tab6InFormatter → InFormatter

### Inherited from Logging

### Inherited from InFormatter[Fragment, FragmentRDD, Tab6InFormatter]

### Inherited from Serializable

### Inherited from AnyRef

### Inherited from Any

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