org.jmol.io2

Class CompoundDocument

java.lang.Object

org.jmol.io2.BinaryDocument

org.jmol.io2.CompoundDocument

All Implemented Interfaces:

JmolDocument

public class CompoundDocument
extends BinaryDocument

Field Summary

Fields

Modifier and Type	Field and Description
(package private) SB	data
(package private) JmolList<CompoundDocDirEntry>	directory
(package private) CompoundDocHeader	header
(package private) int	nDirEntriesperSector
(package private) int	nIntPerSector
(package private) int	nShortSectorsPerStandardSector
(package private) CompoundDocDirEntry	rootEntry
(package private) int[]	SAT
(package private) int	sectorSize
(package private) int	shortSectorSize
(package private) int[]	SSAT

Fields inherited from class org.jmol.io2.BinaryDocument

isBigEndian, isRandom, nBytes, os, stream, t8

Constructor Summary

Constructors

Constructor and Description
CompoundDocument()

Method Summary

Methods

Modifier and Type	Method and Description
SB	getAllData()
SB	getAllDataFiles(java.lang.String binaryFileList, java.lang.String firstFile)
void	getAllDataMapped(java.lang.String prefix, java.lang.String binaryFileList, java.util.Map<java.lang.String,java.lang.String> fileData) reads a compound document directory and saves all data in a Hashtable so that the files may be organized later in a different order.
JmolList<CompoundDocDirEntry>	getDirectory()
java.lang.String	getDirectoryListing(java.lang.String separator)
private void	getDirectoryTable()
private SB	getEntryAsString(CompoundDocDirEntry thisEntry, boolean asBinaryString)
SB	getFileAsString(java.lang.String entryName)
private long	getOffset(int SID)
private void	getSectorAllocationTable()
private int	getSectorData(SB data, byte[] byteBuf, int nSectorBytes, int nBytes, boolean asBinaryString, ZipData gzipData)
private void	getShortSectorAllocationTable()
private SB	getShortStringData(int shortSID, int nBytes, boolean asBinaryString)
private SB	getStandardStringData(int thisSID, int nBytes, boolean asBinaryString)
private void	gotoSector(int SID)
private boolean	readHeader()
void	setStream(java.io.BufferedInputStream bis, boolean isBigEndian)

Methods inherited from class org.jmol.io2.BinaryDocument

bytesToDoubleToFloat, close, getPosition, readByte, readByteArray, readDouble, readFloat, readInt, readIntLE, readLong, readShort, readString, readUnsignedShort, seek, setFracIEEE, setOutputStream, setRandom, setStreamData, shiftIEEE, swapBytesI, swapBytesS, writeBytes, writeInt, writeLong, writeShort

Methods inherited from class java.lang.Object

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

Field Detail

header

CompoundDocHeader header

directory

JmolList<CompoundDocDirEntry> directory

rootEntry

CompoundDocDirEntry rootEntry

SAT

int[] SAT

SSAT

int[] SSAT

sectorSize

int sectorSize

shortSectorSize

int shortSectorSize

nShortSectorsPerStandardSector

int nShortSectorsPerStandardSector

nIntPerSector

int nIntPerSector

nDirEntriesperSector

int nDirEntriesperSector

data

SB data

Constructor Detail

CompoundDocument

public CompoundDocument()

Method Detail

setStream

public void setStream(java.io.BufferedInputStream bis,
             boolean isBigEndian)

Specified by:

setStream in interface JmolDocument

Overrides:

setStream in class BinaryDocument

getDirectory

public JmolList<CompoundDocDirEntry> getDirectory()

getDirectoryListing

public java.lang.String getDirectoryListing(java.lang.String separator)

getAllData

public SB getAllData()

getAllDataMapped

public void getAllDataMapped(java.lang.String prefix,
                    java.lang.String binaryFileList,
                    java.util.Map<java.lang.String,java.lang.String> fileData)

reads a compound document directory and saves all data in a Hashtable so that the files may be organized later in a different order. Also adds a #Directory_Listing entry. Files are bracketed by BEGIN Directory Entry and END Directory Entry lines, similar to ZipUtil.getAllData.

Specified by:

getAllDataMapped in interface JmolDocument

Overrides:

getAllDataMapped in class BinaryDocument

Parameters:

prefix -

binaryFileList - |-separated list of files that should be saved as xx xx xx hex byte strings. The directory listing is appended with ":asBinaryString"

fileData -

getAllDataFiles

public SB getAllDataFiles(java.lang.String binaryFileList,
                 java.lang.String firstFile)

Specified by:

getAllDataFiles in interface JmolDocument

Overrides:

getAllDataFiles in class BinaryDocument

getFileAsString

public SB getFileAsString(java.lang.String entryName)

getOffset

private long getOffset(int SID)

gotoSector

private void gotoSector(int SID)

readHeader

private boolean readHeader()

getSectorAllocationTable

private void getSectorAllocationTable()

getShortSectorAllocationTable

private void getShortSectorAllocationTable()

getDirectoryTable

private void getDirectoryTable()

getEntryAsString

private SB getEntryAsString(CompoundDocDirEntry thisEntry,
                  boolean asBinaryString)

getStandardStringData

private SB getStandardStringData(int thisSID,
                       int nBytes,
                       boolean asBinaryString)

getSectorData

private int getSectorData(SB data,
                byte[] byteBuf,
                int nSectorBytes,
                int nBytes,
                boolean asBinaryString,
                ZipData gzipData)
                   throws java.lang.Exception

Throws:

java.lang.Exception

getShortStringData

private SB getShortStringData(int shortSID,
                    int nBytes,
                    boolean asBinaryString)