/* * #%L * Fork of JAI Image I/O Tools. * %% * Copyright (C) 2008 - 2014 Open Microscopy Environment: * - Board of Regents of the University of Wisconsin-Madison * - Glencoe Software, Inc. * - University of Dundee * %% * Redistribution and use in source and binary forms, with or without * modification, are permitted provided that the following conditions are met: * * 1. Redistributions of source code must retain the above copyright notice, * this list of conditions and the following disclaimer. * 2. Redistributions in binary form must reproduce the above copyright notice, * this list of conditions and the following disclaimer in the documentation * and/or other materials provided with the distribution. * * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" * AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE * IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE * ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDERS OR CONTRIBUTORS BE * LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR * CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF * SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS * INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN * CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) * ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE * POSSIBILITY OF SUCH DAMAGE. * * The views and conclusions contained in the software and documentation are * those of the authors and should not be interpreted as representing official * policies, either expressed or implied, of any organization. * #L% */ /* * $RCSfile: BufferedRandomAccessFile.java,v $ * $Revision: 1.1 $ * $Date: 2005/02/11 05:02:16 $ * $State: Exp $ * * Interface: RandomAccessIO.java * * Description: Abstract class for buffered random access I/O. * * * * COPYRIGHT: * * This software module was originally developed by Raphaël Grosbois and * Diego Santa Cruz (Swiss Federal Institute of Technology-EPFL); Joel * Askelöf (Ericsson Radio Systems AB); and Bertrand Berthelot, David * Bouchard, Félix Henry, Gerard Mozelle and Patrice Onno (Canon Research * Centre France S.A) in the course of development of the JPEG2000 * standard as specified by ISO/IEC 15444 (JPEG 2000 Standard). This * software module is an implementation of a part of the JPEG 2000 * Standard. Swiss Federal Institute of Technology-EPFL, Ericsson Radio * Systems AB and Canon Research Centre France S.A (collectively JJ2000 * Partners) agree not to assert against ISO/IEC and users of the JPEG * 2000 Standard (Users) any of their rights under the copyright, not * including other intellectual property rights, for this software module * with respect to the usage by ISO/IEC and Users of this software module * or modifications thereof for use in hardware or software products * claiming conformance to the JPEG 2000 Standard. Those intending to use * this software module in hardware or software products are advised that * their use may infringe existing patents. The original developers of * this software module, JJ2000 Partners and ISO/IEC assume no liability * for use of this software module or modifications thereof. No license * or right to this software module is granted for non JPEG 2000 Standard * conforming products. JJ2000 Partners have full right to use this * software module for his/her own purpose, assign or donate this * software module to any third party and to inhibit third parties from * using this software module for non JPEG 2000 Standard conforming * products. This copyright notice must be included in all copies or * derivative works of this software module. * * Copyright (c) 1999/2000 JJ2000 Partners. */ package jj2000.j2k.io; import java.io.*; /** * This class defines a Buffered Random Access File. It implements the * <tt>BinaryDataInput</tt> and <tt>BinaryDataOutput</tt> interfaces so that * binary data input/output can be performed. This class is abstract since no * assumption is done about the byte ordering type (little Endian, big * Endian). So subclasses will have to implement methods like * <tt>readShort()</tt>, <tt>writeShort()</tt>, <tt>readFloat()</tt>, ... * * <P><tt>BufferedRandomAccessFile</tt> (BRAF for short) is a * <tt>RandomAccessFile</tt> containing an extra buffer. When the BRAF is * accessed, it checks if the requested part of the file is in the buffer or * not. If that is the case, the read/write is done on the buffer. If not, the * file is uppdated to reflect the current status of the buffer and the file * is then accessed for a new buffer containing the requested byte/bit. * * @see RandomAccessIO * @see BinaryDataOutput * @see BinaryDataInput * @see BEBufferedRandomAccessFile * */ public abstract class BufferedRandomAccessFile implements RandomAccessIO, EndianType { /** * The name of the current file * */ private String fileName; /** * Whether the opened file is read only or not (defined by the constructor * arguments) * */ private boolean isReadOnly = true; /** * The RandomAccessFile associated with the buffer * */ private RandomAccessFile theFile; /** * Buffer of bytes containing the part of the file that is currently being * accessed * */ protected byte[] byteBuffer; /** * Boolean keeping track of whether the byte buffer has been changed since * it was read. * */ protected boolean byteBufferChanged; /** * The current offset of the buffer (which will differ from the offset of * the file) * */ protected int offset; /** * The current position in the byte-buffer * */ protected int pos; /** * The maximum number of bytes that can be read from the buffer * */ protected int maxByte; /** * Whether the end of the file is in the current buffer or not * */ protected boolean isEOFInBuffer; /* The endianess of the class */ protected int byteOrdering; /** * Constructor. Always needs a size for the buffer. * * @param file The file associated with the buffer * * @param mode "r" for read, "rw" or "rw+" for read and write mode ("rw+" * opens the file for update whereas "rw" removes it * before. So the 2 modes are different only if the file * already exists). * * @param bufferSize The number of bytes to buffer * * @exception java.io.IOException If an I/O error ocurred. * */ protected BufferedRandomAccessFile(File file, String mode, int bufferSize) throws IOException{ fileName = file.getName(); if(mode.equals("rw") || mode.equals("rw+")){ // mode read / write isReadOnly = false; if(mode.equals("rw")){ // mode read / (over)write if(file.exists()) // Output file already exists file.delete(); } mode = "rw"; } theFile=new RandomAccessFile(file,mode); byteBuffer=new byte[bufferSize]; readNewBuffer(0); } /** * Constructor. Uses the default value for the byte-buffer * size (512 bytes). * * @param file The file associated with the buffer * * @param mode "r" for read, "rw" or "rw+" for read and write mode * ("rw+" opens the file for update whereas "rw" removes * it before. So the 2 modes are different only if the * file already exists). * * @exception java.io.IOException If an I/O error ocurred. * */ protected BufferedRandomAccessFile(File file, String mode ) throws IOException{ this(file, mode, 512); } /** * Constructor. Always needs a size for the buffer. * * @param name The name of the file associated with the buffer * * @param mode "r" for read, "rw" or "rw+" for read and write mode * ("rw+" opens the file for update whereas "rw" removes * it before. So the 2 modes are different only if the * file already exists). * * @param bufferSize The number of bytes to buffer * * @exception java.io.IOException If an I/O error ocurred. * */ protected BufferedRandomAccessFile(String name, String mode, int bufferSize) throws IOException{ this(new File(name), mode, bufferSize); } /** * Constructor. Uses the default value for the byte-buffer * size (512 bytes). * * @param name The name of the file associated with the buffer * * @param mode "r" for read, "rw" or "rw+" for read and write mode * ("rw+" opens the file for update whereas "rw" removes * it before. So the 2 modes are different only if the * file already exists). * * @exception java.io.IOException If an I/O error ocurred. * */ protected BufferedRandomAccessFile(String name, String mode ) throws IOException{ this(name, mode, 512); } /** * Reads a new buffer from the file. If there has been any * changes made since the buffer was read, the buffer is * first written to the file. * * @param off The offset where to move to. * * @exception java.io.IOException If an I/O error ocurred. * */ protected final void readNewBuffer(int off) throws IOException{ /* If the buffer have changed. We need to write it to * the file before reading a new buffer. */ if(byteBufferChanged){ flush(); } // Don't allow to seek beyond end of file if reading only if (isReadOnly && off >= theFile.length()) { throw new EOFException(); } // Set new offset offset = off; theFile.seek(offset); maxByte = theFile.read(byteBuffer,0,byteBuffer.length); pos=0; if(maxByte<byteBuffer.length){ // Not enough data in input file. isEOFInBuffer = true; if(maxByte==-1){ maxByte++; } }else{ isEOFInBuffer = false; } } /** * Closes the buffered random access file * * @exception java.io.IOException If an I/O error ocurred. * */ public void close() throws IOException{ /* If the buffer has been changed, it need to be saved before * closing */ flush(); byteBuffer = null; // Release the byte-buffer reference theFile.close(); } /** * Returns the current offset in the file * */ public int getPos(){ return (offset+pos); } /** * Returns the current length of the stream, in bytes, taking into * account any buffering. * * @return The length of the stream, in bytes. * * @exception java.io.IOException If an I/O error ocurred. * */ public int length() throws IOException{ int len; len = (int)theFile.length(); // If the position in the buffer is not past the end of the file, // the length of theFile is the length of the stream if( (offset+maxByte)<=len ){ return(len); } else{ // If not, the file is extended due to the buffering return (offset+maxByte); } } /** * Moves the current position to the given offset at which the * next read or write occurs. The offset is measured from the * beginning of the stream. * * @param off The offset where to move to. * * @exception EOFException If in read-only and seeking beyond EOF. * * @exception java.io.IOException If an I/O error ocurred. * */ public void seek(int off) throws IOException{ /* If the new offset is within the buffer, only the pos value needs * to be modified. Else, the buffer must be moved. */ if( (off>=offset)&&(off<(offset+byteBuffer.length)) ){ if (isReadOnly && isEOFInBuffer && off > offset+maxByte) { // We are seeking beyond EOF in read-only mode! throw new EOFException(); } pos = off-offset; } else{ readNewBuffer(off); } } /** * Reads an unsigned byte of data from the stream. Prior to reading, the * stream is realigned at the byte level. * * @return The byte read. * * @exception java.io.IOException If an I/O error ocurred. * * @exception java.io.EOFException If the end of file was reached * */ public final int read() throws IOException, EOFException{ if(pos<maxByte){ // The byte can be read from the buffer // In Java, the bytes are always signed. return (byteBuffer[pos++]&0xFF); } else if(isEOFInBuffer){ // EOF is reached pos = maxByte+1; // Set position to EOF throw new EOFException(); } else { // End of the buffer is reached readNewBuffer(offset+pos); return read(); } } /** * Reads up to len bytes of data from this file into an array of * bytes. This method reads repeatedly from the stream until all the bytes * are read. This method blocks until all the bytes are read, the end of * the stream is detected, or an exception is thrown. * * @param b The buffer into which the data is to be read. It must be long * enough. * * @param off The index in 'b' where to place the first byte read. * * @param len The number of bytes to read. * * @exception EOFException If the end-of file was reached before * getting all the necessary data. * * @exception IOException If an I/O error ocurred. * */ public final void readFully(byte b[], int off, int len) throws IOException { int clen; // current length to read while (len > 0) { // There still is some data to read if (pos<maxByte) { // We can read some data from buffer clen = maxByte-pos; if (clen > len) clen = len; System.arraycopy(byteBuffer,pos,b,off,clen); pos += clen; off += clen; len -= clen; } else if (isEOFInBuffer) { pos = maxByte+1; // Set position to EOF throw new EOFException(); } else { // Buffer empty => get more data readNewBuffer(offset+pos); } } } /** * Writes a byte to the stream. Prior to writing, the stream is * realigned at the byte level. * * @param b The byte to write. The lower 8 bits of <tt>b</tt> are * written. * * @exception java.io.IOException If an I/O error ocurred. * */ public final void write(int b) throws IOException{ // As long as pos is less than the length of the buffer we can write // to the buffer. If the position is after the buffer a new buffer is // needed if(pos<byteBuffer.length){ if(isReadOnly) throw new IOException("File is read only"); byteBuffer[pos]=(byte)b; if(pos>=maxByte){ maxByte=pos+1; } pos++; byteBufferChanged =true; } else{ readNewBuffer(offset+pos); write(b); } } /** * Writes a byte to the stream. Prior to writing, the stream is * realigned at the byte level. * * @param b The byte to write. * * @exception java.io.IOException If an I/O error ocurred. * */ public final void write(byte b) throws IOException{ // As long as pos is less than the length of the buffer we can write // to the buffer. If the position is after the buffer a new buffer is // needed if(pos<byteBuffer.length){ if(isReadOnly) throw new IOException("File is read only"); byteBuffer[pos]=b; if(pos>=maxByte){ maxByte=pos+1; } pos++; byteBufferChanged =true; } else{ readNewBuffer(offset+pos); write(b); } } /** * Writes aan array of bytes to the stream. Prior to writing, the stream is * realigned at the byte level. * * @param b The array of bytes to write. * * @param offset The first byte in b to write * * @param length The number of bytes from b to write * * @exception java.io.IOException If an I/O error ocurred. * */ public final void write(byte[] b, int offset, int length) throws IOException{ int i,stop; stop = offset+length; if(stop > b.length) throw new ArrayIndexOutOfBoundsException(b.length); for(i=offset ; i<stop ; i++){ write(b[i]); } } /** * Writes the byte value of <tt>v</tt> (i.e., 8 least * significant bits) to the output. Prior to writing, the output * should be realigned at the byte level. * * <P>Signed or unsigned data can be written. To write a signed * value just pass the <tt>byte</tt> value as an argument. To * write unsigned data pass the <tt>int</tt> value as an argument * (it will be automatically casted, and only the 8 least * significant bits will be written). * * @param v The value to write to the output * * @exception java.io.IOException If an I/O error ocurred. * */ public final void writeByte(int v) throws IOException{ write(v); } /** * Any data that has been buffered must be written (including * buffering at the bit level), and the stream should be realigned * at the byte level. * * @exception java.io.IOException If an I/O error ocurred. * */ public final void flush() throws IOException{ if(byteBufferChanged){ theFile.seek(offset); theFile.write(byteBuffer,0,maxByte); byteBufferChanged = false; } } /** * Reads a signed byte (i.e., 8 bit) from the input. Prior to * reading, the input should be realigned at the byte level. * * @return The next byte-aligned signed byte (8 bit) from the * input. * * @exception java.io.EOFException If the end-of file was reached before * getting all the necessary data. * * @exception java.io.IOException If an I/O error ocurred. * */ public final byte readByte() throws EOFException, IOException { if(pos<maxByte){ // The byte can be read from the buffer // In Java, the bytes are always signed. return byteBuffer[pos++]; } else if(isEOFInBuffer){ // EOF is reached pos = maxByte+1; // Set position to EOF throw new EOFException(); } else { // End of the buffer is reached readNewBuffer(offset+pos); return readByte(); } } /** * Reads an unsigned byte (i.e., 8 bit) from the input. It is * returned as an <tt>int</tt> since Java does not have an * unsigned byte type. Prior to reading, the input should be * realigned at the byte level. * * @return The next byte-aligned unsigned byte (8 bit) from the * input, as an <tt>int</tt>. * * @exception java.io.EOFException If the end-of file was reached before * getting all the necessary data. * * @exception java.io.IOException If an I/O error ocurred. * */ public final int readUnsignedByte() throws EOFException, IOException{ return read(); } /** * Returns the endianess (i.e., byte ordering) of the implementing * class. Note that an implementing class may implement only one * type of endianness or both, which would be decided at creation * time. * * @return Either <tt>EndianType.BIG_ENDIAN</tt> or * <tt>EndianType.LITTLE_ENDIAN</tt> * * @see EndianType * */ public int getByteOrdering(){ return byteOrdering; } /** * Skips <tt>n</tt> bytes from the input. Prior to skipping, the * input should be realigned at the byte level. * * @param n The number of bytes to skip * * @exception java.io.EOFException If the end-of file was reached before * all the bytes could be skipped. * * @exception java.io.IOException If an I/O error ocurred. * */ public int skipBytes(int n)throws EOFException, IOException{ if(n<0) throw new IllegalArgumentException("Can not skip negative number "+ "of bytes"); if(n <= (maxByte-pos)){ pos += n; return n; } else{ seek(offset+pos+n); return n; } } /** * Returns a string of information about the file * */ public String toString(){ return "BufferedRandomAccessFile: "+fileName+" ("+ ((isReadOnly)?"read only":"read/write")+ ")"; } }