java.lang.Object
- java.io.InputStream
- - htsjdk.samtools.util.Md5CalculatingInputStream

All Implemented Interfaces:

Closeable, AutoCloseable
```
public class Md5CalculatingInputStream
extends InputStream
```
Class to generate an MD5 string for a file as it is being read

Constructor Summary

Constructors
Constructor	Description
`Md5CalculatingInputStream(InputStream is, File digestFile)`	Constructor that takes in the InputStream that we are wrapping and creates the MD5 MessageDigest

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`int`	`available()`
`void`	`close()`
`void`	`mark(int readlimit)`
`boolean`	`markSupported()`
`String`	`md5()`
`int`	`read()`
`int`	`read(byte[] b)`
`int`	`read(byte[] b, int off, int len)`
`void`	`reset()`
`long`	`skip(long n)`

Methods inherited from class java.io.InputStream
nullInputStream, readAllBytes, readNBytes, readNBytes, transferTo

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

- Constructor Detail
  - Md5CalculatingInputStream
```
public Md5CalculatingInputStream(InputStream is,
                                 File digestFile)
```
    Constructor that takes in the InputStream that we are wrapping and creates the MD5 MessageDigest
- Method Detail
  - read
```
public int read()
         throws IOException
```
    Specified by:
    
    read in class InputStream
    
    Throws:
    
    IOException
  - read
```
public int read(byte[] b)
         throws IOException
```
    Overrides:
    
    read in class InputStream
    
    Throws:
    
    IOException
  - read
```
public int read(byte[] b,
                int off,
                int len)
         throws IOException
```
    Overrides:
    
    read in class InputStream
    
    Throws:
    
    IOException
  - md5
```
public String md5()
```
  - close
```
public void close()
           throws IOException
```
    Specified by:
    
    close in interface AutoCloseable
    
    Specified by:
    
    close in interface Closeable
    
    Overrides:
    
    close in class InputStream
    
    Throws:
    
    IOException
  - markSupported
```
public boolean markSupported()
```
    Overrides:
    
    markSupported in class InputStream
  - mark
```
public void mark(int readlimit)
```
    Overrides:
    
    mark in class InputStream
  - reset
```
public void reset()
           throws IOException
```
    Overrides:
    
    reset in class InputStream
    
    Throws:
    
    IOException
  - skip
```
public long skip(long n)
          throws IOException
```
    Overrides:
    
    skip in class InputStream
    
    Throws:
    
    IOException
  - available
```
public int available()
              throws IOException
```
    Overrides:
    
    available in class InputStream
    
    Throws:
    
    IOException

Class Md5CalculatingInputStream

Constructor Summary

Method Summary

Methods inherited from class java.io.InputStream

Methods inherited from class java.lang.Object

Constructor Detail

Md5CalculatingInputStream

Method Detail

read

read

read

md5

close

markSupported

mark

reset

skip

available