java.lang.Object
- java.io.InputStream
- - gov.nih.mipav.model.file.CBZip2InputStream

All Implemented Interfaces:

BZip2Constants, java.io.Closeable, java.lang.AutoCloseable
```
public class CBZip2InputStream
extends java.io.InputStream
implements BZip2Constants
```
An input stream that decompresses from the BZip2 format (without the file header chars) to be read as any other stream.

Author:

Keiron Liddle

Field Summary

Fields
Modifier and Type	Field	Description
`private int[][]`	`base`
`private boolean`	`blockRandomised`
`private int`	`blockSize100k`
`private int`	`bsBuff`
`private int`	`bsLive`
`private java.io.InputStream`	`bsStream`
`(package private) int`	`ch2`
`(package private) int`	`chPrev`
`private int`	`computedBlockCRC`
`private int`	`computedCombinedCRC`
`(package private) int`	`count`
`private int`	`currentChar`
`private int`	`currentState`
`(package private) int`	`i`
`(package private) int`	`i2`
`private boolean[]`	`inUse`
`(package private) int`	`j2`
`private int`	`last`
`private int[][]`	`limit`
`private char[]`	`ll8`
`private CRC`	`mCrc`
`private int[]`	`minLens`
`private int`	`nInUse`
`private static int`	`NO_RAND_PART_A_STATE`
`private static int`	`NO_RAND_PART_B_STATE`
`private static int`	`NO_RAND_PART_C_STATE`
`private int`	`origPtr`
`private int[][]`	`perm`
`private static int`	`RAND_PART_A_STATE`
`private static int`	`RAND_PART_B_STATE`
`private static int`	`RAND_PART_C_STATE`
`(package private) int`	`rNToGo`
`(package private) int`	`rTPos`
`private char[]`	`selector`
`private char[]`	`selectorMtf`
`private char[]`	`seqToUnseq`
`private static int`	`START_BLOCK_STATE`
`private int`	`storedBlockCRC`
`private int`	`storedCombinedCRC`
`private boolean`	`streamEnd`
`(package private) int`	`tPos`
`private int[]`	`tt`
`private char[]`	`unseqToSeq`
`private int[]`	`unzftab`
`(package private) char`	`z`

Fields inherited from interface gov.nih.mipav.model.file.BZip2Constants
baseBlockSize, G_SIZE, MAX_ALPHA_SIZE, MAX_CODE_LEN, MAX_SELECTORS, N_GROUPS, N_ITERS, NUM_OVERSHOOT_BYTES, rNums, RUNA, RUNB

Constructor Summary

Constructors
Constructor Description

CBZip2InputStream(java.io.InputStream zStream)

Method Summary

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`private static void`	`badBGLengths()`
`private static void`	`badBlockHeader()`
`private static void`	`bitStreamEOF()`
`private static void`	`blockOverrun()`
`private void`	`bsFinishedWithStream()`
`private int`	`bsGetint()`
`private int`	`bsGetInt32()`
`private int`	`bsGetIntVS(int numBits)`
`private char`	`bsGetUChar()`
`private int`	`bsR(int n)`
`private void`	`bsSetStream(java.io.InputStream f)`
`private static void`	`cadvise()`
`private void`	`complete()`
`private static void`	`compressedStreamEOF()`
`private static void`	`crcError()`
`private void`	`endBlock()`
`private void`	`getAndMoveToFrontDecode()`
`private void`	`hbCreateDecodeTables(int[] limit, int[] base, int[] perm, char[] length, int minLen, int maxLen, int alphaSize)`
`private void`	`initBlock()`
`private void`	`initialize()`
`private void`	`makeMaps()`
`int`	`read()`
`private void`	`recvDecodingTables()`
`private void`	`setDecompressStructureSizes(int newSize100k)`
`private void`	`setupBlock()`
`private void`	`setupNoRandPartA()`
`private void`	`setupNoRandPartB()`
`private void`	`setupNoRandPartC()`
`private void`	`setupRandPartA()`
`private void`	`setupRandPartB()`
`private void`	`setupRandPartC()`

Methods inherited from class java.io.InputStream
available, close, mark, markSupported, nullInputStream, read, read, readAllBytes, readNBytes, readNBytes, reset, skip, transferTo

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

Field Detail

last
```
private int last
```

origPtr
```
private int origPtr
```

blockSize100k
```
private int blockSize100k
```

blockRandomised
```
private boolean blockRandomised
```

bsBuff
```
private int bsBuff
```

bsLive
```
private int bsLive
```

mCrc
```
private CRC mCrc
```

inUse
```
private boolean[] inUse
```

nInUse
```
private int nInUse
```

seqToUnseq
```
private char[] seqToUnseq
```

unseqToSeq
```
private char[] unseqToSeq
```

selector
```
private char[] selector
```

selectorMtf
```
private char[] selectorMtf
```

tt
```
private int[] tt
```

ll8
```
private char[] ll8
```

unzftab
```
private int[] unzftab
```

limit
```
private int[][] limit
```

base
```
private int[][] base
```

perm
```
private int[][] perm
```

minLens
```
private int[] minLens
```

bsStream
```
private java.io.InputStream bsStream
```

streamEnd
```
private boolean streamEnd
```

currentChar
```
private int currentChar
```

START_BLOCK_STATE
```
private static final int START_BLOCK_STATE
```
See Also:

Constant Field Values

RAND_PART_A_STATE
```
private static final int RAND_PART_A_STATE
```
See Also:

Constant Field Values

RAND_PART_B_STATE
```
private static final int RAND_PART_B_STATE
```
See Also:

Constant Field Values

RAND_PART_C_STATE
```
private static final int RAND_PART_C_STATE
```
See Also:

Constant Field Values

NO_RAND_PART_A_STATE
```
private static final int NO_RAND_PART_A_STATE
```
See Also:

Constant Field Values

NO_RAND_PART_B_STATE
```
private static final int NO_RAND_PART_B_STATE
```
See Also:

Constant Field Values

NO_RAND_PART_C_STATE
```
private static final int NO_RAND_PART_C_STATE
```
See Also:

Constant Field Values

currentState
```
private int currentState
```

storedBlockCRC
```
private int storedBlockCRC
```

storedCombinedCRC
```
private int storedCombinedCRC
```

computedBlockCRC
```
private int computedBlockCRC
```

computedCombinedCRC
```
private int computedCombinedCRC
```

i2
```
int i2
```

count
```
int count
```

chPrev
```
int chPrev
```

ch2
```
int ch2
```

i
```
int i
```

tPos
```
int tPos
```

rNToGo
```
int rNToGo
```

rTPos
```
int rTPos
```

j2
```
int j2
```

z
```
char z
```

Constructor Detail

CBZip2InputStream

public CBZip2InputStream(java.io.InputStream zStream)

Method Detail

cadvise
```
private static void cadvise()
```

badBGLengths
```
private static void badBGLengths()
```

bitStreamEOF
```
private static void bitStreamEOF()
```

compressedStreamEOF

private static void compressedStreamEOF()

makeMaps
```
private void makeMaps()
```

read
```
public int read()
```
Specified by:

read in class java.io.InputStream

initialize
```
private void initialize()
```

initBlock
```
private void initBlock()
```

endBlock
```
private void endBlock()
```

complete
```
private void complete()
```

blockOverrun
```
private static void blockOverrun()
```

badBlockHeader
```
private static void badBlockHeader()
```

crcError
```
private static void crcError()
```

bsFinishedWithStream
```
private void bsFinishedWithStream()
```

bsSetStream

private void bsSetStream(java.io.InputStream f)

bsR
```
private int bsR(int n)
```

bsGetUChar
```
private char bsGetUChar()
```

bsGetint
```
private int bsGetint()
```

bsGetIntVS

private int bsGetIntVS(int numBits)

bsGetInt32
```
private int bsGetInt32()
```

hbCreateDecodeTables

private void hbCreateDecodeTables(int[] limit,
                                  int[] base,
                                  int[] perm,
                                  char[] length,
                                  int minLen,
                                  int maxLen,
                                  int alphaSize)

recvDecodingTables
```
private void recvDecodingTables()
```

getAndMoveToFrontDecode

private void getAndMoveToFrontDecode()

setupBlock
```
private void setupBlock()
```

setupRandPartA
```
private void setupRandPartA()
```

setupNoRandPartA
```
private void setupNoRandPartA()
```

setupRandPartB
```
private void setupRandPartB()
```

setupRandPartC
```
private void setupRandPartC()
```

setupNoRandPartB
```
private void setupNoRandPartB()
```

setupNoRandPartC
```
private void setupNoRandPartC()
```

setDecompressStructureSizes

private void setDecompressStructureSizes(int newSize100k)

Class CBZip2InputStream

Field Summary

Fields inherited from interface gov.nih.mipav.model.file.BZip2Constants

Constructor Summary

Method Summary

Methods inherited from class java.io.InputStream

Methods inherited from class java.lang.Object

Field Detail

last

origPtr

blockSize100k

blockRandomised

bsBuff

bsLive

mCrc

inUse

nInUse

seqToUnseq

unseqToSeq

selector

selectorMtf

tt

ll8

unzftab

limit

base

perm

minLens

bsStream

streamEnd

currentChar

START_BLOCK_STATE

RAND_PART_A_STATE

RAND_PART_B_STATE

RAND_PART_C_STATE

NO_RAND_PART_A_STATE

NO_RAND_PART_B_STATE

NO_RAND_PART_C_STATE

currentState

storedBlockCRC

storedCombinedCRC

computedBlockCRC

computedCombinedCRC

i2

count

chPrev

ch2

i

tPos

rNToGo

rTPos

j2

z

Constructor Detail

CBZip2InputStream

Method Detail

cadvise

badBGLengths

bitStreamEOF

compressedStreamEOF

makeMaps

read

initialize

initBlock

endBlock

complete

blockOverrun

badBlockHeader

crcError

bsFinishedWithStream

bsSetStream

bsR

bsGetUChar

bsGetint

bsGetIntVS

bsGetInt32

hbCreateDecodeTables

recvDecodingTables

getAndMoveToFrontDecode

setupBlock