ReadEndsForMarkDuplicatesCodec (picard 2.8.1 API)

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java.lang.Object
- picard.sam.markduplicates.util.ReadEndsForMarkDuplicatesCodec

All Implemented Interfaces:

htsjdk.samtools.util.SortingCollection.Codec<ReadEndsForMarkDuplicates>, Cloneable

Direct Known Subclasses:

ReadEndsForMarkDuplicatesWithBarcodesCodec
```
public class ReadEndsForMarkDuplicatesCodec
extends Object
implements htsjdk.samtools.util.SortingCollection.Codec<ReadEndsForMarkDuplicates>
```
Codec for ReadEnds that just outputs the primitive fields and reads them back.

Field Summary

Fields
Modifier and Type Field and Description

protected DataInputStream in

protected DataOutputStream out

Constructor Summary

Constructors
Constructor and Description

ReadEndsForMarkDuplicatesCodec()

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`htsjdk.samtools.util.SortingCollection.Codec<ReadEndsForMarkDuplicates>`	`clone()`
`ReadEndsForMarkDuplicates`	`decode()`
`void`	`encode(ReadEndsForMarkDuplicates read)`
`DataInputStream`	`getInputStream()`
`DataOutputStream`	`getOutputStream()`
`void`	`setInputStream(InputStream is)`
`void`	`setOutputStream(OutputStream os)`

Methods inherited from class java.lang.Object
equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Field Detail
  - in
```
protected DataInputStream in
```
  - out
```
protected DataOutputStream out
```
- Constructor Detail
  - ReadEndsForMarkDuplicatesCodec
```
public ReadEndsForMarkDuplicatesCodec()
```
- Method Detail
  - clone
```
public htsjdk.samtools.util.SortingCollection.Codec<ReadEndsForMarkDuplicates> clone()
```
    Specified by:
    
    clone in interface htsjdk.samtools.util.SortingCollection.Codec<ReadEndsForMarkDuplicates>
    
    Overrides:
    
    clone in class Object
  - setOutputStream
```
public void setOutputStream(OutputStream os)
```
    Specified by:
    
    setOutputStream in interface htsjdk.samtools.util.SortingCollection.Codec<ReadEndsForMarkDuplicates>
  - setInputStream
```
public void setInputStream(InputStream is)
```
    Specified by:
    
    setInputStream in interface htsjdk.samtools.util.SortingCollection.Codec<ReadEndsForMarkDuplicates>
  - getInputStream
```
public DataInputStream getInputStream()
```
  - getOutputStream
```
public DataOutputStream getOutputStream()
```
  - encode
```
public void encode(ReadEndsForMarkDuplicates read)
```
    Specified by:
    
    encode in interface htsjdk.samtools.util.SortingCollection.Codec<ReadEndsForMarkDuplicates>
  - decode
```
public ReadEndsForMarkDuplicates decode()
```
    Specified by:
    
    decode in interface htsjdk.samtools.util.SortingCollection.Codec<ReadEndsForMarkDuplicates>

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