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Image encoding and decoding routines.
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/*
* #%L
* Image encoding and decoding routines.
* %%
* Copyright (C) 2005 - 2017 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.
* #L%
*/
package ome.codecs;
import java.io.BufferedInputStream;
import java.io.ByteArrayOutputStream;
import java.io.IOException;
import loci.common.RandomAccessInputStream;
import ome.codecs.CodecException;
import ome.codecs.UnsupportedCompressionException;
/**
* This class implements packbits decompression. Compression is not yet
* implemented.
*
* @author Melissa Linkert melissa at glencoesoftware.com
*/
public class PackbitsCodec extends BaseCodec {
/* @see Codec#compress(byte[], CodecOptions) */
@Override
public byte[] compress(byte[] data, CodecOptions options)
throws CodecException
{
// TODO: Add compression support.
throw new UnsupportedCompressionException(
"Packbits Compression not currently supported");
}
/**
* The CodecOptions parameter should have the following fields set:
* {@link CodecOptions#maxBytes maxBytes}
*
* @see Codec#decompress(RandomAccessInputStream, CodecOptions)
*/
@Override
public byte[] decompress(RandomAccessInputStream in, CodecOptions options)
throws CodecException, IOException
{
if (options == null) options = CodecOptions.getDefaultOptions();
if (in == null)
throw new IllegalArgumentException("No data to decompress.");
long fp = in.getFilePointer();
// Adapted from the TIFF 6.0 specification, page 42.
ByteArrayOutputStream output = new ByteArrayOutputStream(1024);
int nread = 0;
BufferedInputStream s = new BufferedInputStream(in, 262144);
while (output.size() < options.maxBytes) {
byte n = (byte) (s.read() & 0xff);
nread++;
if (n >= 0) { // 0 <= n <= 127
byte[] b = new byte[n + 1];
s.read(b);
nread += n + 1;
output.write(b);
b = null;
}
else if (n != -128) { // -127 <= n <= -1
int len = -n + 1;
byte inp = (byte) (s.read() & 0xff);
nread++;
for (int i=0; i