org.bdgenomics.adam.rdd.read

# ADAMSAMOutputFormat

#### class ADAMSAMOutputFormat[K] extends KeyIgnoringAnySAMOutputFormat[K] with Serializable

Linear Supertypes
Serializable, Serializable, KeyIgnoringAnySAMOutputFormat[K], AnySAMOutputFormat[K], FileOutputFormat[K, SAMRecordWritable], OutputFormat[K, SAMRecordWritable], AnyRef, Any
Ordering

1. Alphabetic
2. By inheritance

Inherited

1. ADAMSAMOutputFormat
2. Serializable
3. Serializable
4. KeyIgnoringAnySAMOutputFormat
5. AnySAMOutputFormat
6. FileOutputFormat
7. OutputFormat
8. AnyRef
9. Any

1. Hide All
2. Show all

Learn more about member selection
Visibility

1. Public
2. All

### Instance Constructors

1. #### new ADAMSAMOutputFormat()

### Value Members

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

   Definition Classes
     AnyRef

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

   Definition Classes
     Any

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

   Definition Classes
     AnyRef → Any

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

   Definition Classes
     AnyRef

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

   Definition Classes
     Any

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

   Definition Classes
     Any

7. #### def checkOutputSpecs(arg0: JobContext): Unit

   Definition Classes
     FileOutputFormat → OutputFormat
   Annotations
     @throws( classOf[java.io.IOException] ) @throws( ... )

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. #### def finalize(): Unit

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

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

    Definition Classes
      AnyRef → Any

13. #### def getDefaultWorkFile(arg0: TaskAttemptContext, arg1: String): Path

    Definition Classes
      FileOutputFormat
    Annotations
      @throws( classOf[java.io.IOException] )

14. #### def getOutputCommitter(arg0: TaskAttemptContext): OutputCommitter

    Definition Classes
      FileOutputFormat → OutputFormat
    Annotations
      @throws( classOf[java.io.IOException] )

15. #### def getRecordWriter(context: TaskAttemptContext): RecordWriter[K, SAMRecordWritable]

    Definition Classes
      ADAMSAMOutputFormat → KeyIgnoringAnySAMOutputFormat → FileOutputFormat → OutputFormat

16. #### def getRecordWriter(arg0: TaskAttemptContext, arg1: Path): RecordWriter[K, SAMRecordWritable]

    Definition Classes
      KeyIgnoringAnySAMOutputFormat
    Annotations
      @throws( classOf[java.io.IOException] )

17. #### def getSAMHeader(): SAMFileHeader

    Definition Classes
      KeyIgnoringAnySAMOutputFormat

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

    Definition Classes
      AnyRef → Any

19. #### final def isInstanceOf[T0]: Boolean

    Definition Classes
      Any

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

    Definition Classes
      AnyRef

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

    Definition Classes
      AnyRef

22. #### final def notifyAll(): Unit

    Definition Classes
      AnyRef

23. #### def readSAMHeaderFrom(arg0: InputStream, arg1: Configuration): Unit

    Definition Classes
      KeyIgnoringAnySAMOutputFormat

24. #### def readSAMHeaderFrom(arg0: Path, arg1: Configuration): Unit

    Definition Classes
      KeyIgnoringAnySAMOutputFormat
    Annotations
      @throws( classOf[java.io.IOException] )

25. #### def setSAMHeader(arg0: SAMFileHeader): Unit

    Definition Classes
      KeyIgnoringAnySAMOutputFormat

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

    Definition Classes
      AnyRef

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

    Definition Classes
      AnyRef → Any

28. #### final def wait(): Unit

    Definition Classes
      AnyRef
    Annotations
      @throws( ... )

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

    Definition Classes
      AnyRef
    Annotations
      @throws( ... )

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

    Definition Classes
      AnyRef
    Annotations
      @throws( ... )

### Deprecated Value Members

1. #### def getWriteHeader(): Boolean

   Definition Classes
     KeyIgnoringAnySAMOutputFormat
   Annotations
     @Deprecated @deprecated
   Deprecated

     (Since version ) see corresponding Javadoc for more information.

2. #### def setWriteHeader(arg0: Boolean): Unit

   Definition Classes
     KeyIgnoringAnySAMOutputFormat
   Annotations
     @Deprecated @deprecated
   Deprecated

     (Since version ) see corresponding Javadoc for more information.

### Inherited from Serializable

### Inherited from KeyIgnoringAnySAMOutputFormat[K]

### Inherited from AnySAMOutputFormat[K]

### Inherited from FileOutputFormat[K, SAMRecordWritable]

### Inherited from OutputFormat[K, SAMRecordWritable]

### Inherited from AnyRef

### Inherited from Any

### Ungrouped