htsjdk.samtools.cram.io

Class CramIntArray

java.lang.Object

htsjdk.samtools.cram.io.CramIntArray

public class CramIntArray
extends java.lang.Object

Methods to read and write CRAM array of integers data type.

Constructor Summary

Constructors

Constructor and Description
CramIntArray()

Method Summary

Modifier and Type	Method and Description
static int[]	array(java.io.InputStream inputStream) Read CRAM int array from a InputStream.
static java.util.List<java.lang.Integer>	arrayAsList(java.io.InputStream inputStream) Read CRAM int array from a InputStream as a List.
static int	write(int[] array, java.io.OutputStream outputStream) Write CRAM int array to a OutputStream.
static int	write(java.util.List<java.lang.Integer> intList, java.io.OutputStream outputStream) Write CRAM int List to a OutputStream.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

CramIntArray

public CramIntArray()

Method Detail

array

public static int[] array(java.io.InputStream inputStream)

Read CRAM int array from a InputStream.

Parameters:

inputStream - the inputs stream to read from

Returns:

array of integers from the input stream

arrayAsList

public static java.util.List<java.lang.Integer> arrayAsList(java.io.InputStream inputStream)

Read CRAM int array from a InputStream as a List.

Parameters:

inputStream - the inputs stream to read from

Returns:

List of integers from the input stream

write

public static int write(java.util.List<java.lang.Integer> intList,
                        java.io.OutputStream outputStream)

Write CRAM int List to a OutputStream.

Parameters:

intList - the List to be written

outputStream - the output stream to write to

Returns:

the number of bits written out

write

public static int write(int[] array,
                        java.io.OutputStream outputStream)

Write CRAM int array to a OutputStream.

Parameters:

array - the array to be written

outputStream - the output stream to write to

Returns:

the number of bits written out