/* @see loci.formats.IFormatReader#isThisType(RandomAccessInputStream) */
public boolean isThisType(RandomAccessInputStream stream) throws IOException {
final int blockLen = 4;
if (!FormatTools.validStream(stream, blockLen, false)) return false;
byte[] signature = new byte[blockLen];
stream.read(signature);
if (signature[0] != (byte) 0xff
|| signature[1] != (byte) 0xd8
|| signature[2] != (byte) 0xff
|| ((int) signature[3] & 0xf0) == 0) {
return false;
}
return true;
}
private byte[] decodeTile(int no, int row, int col) throws FormatException, IOException {
if (tileMap[getCoreIndex()] == null) {
return new byte[getTileSize()];
}
int[] zct = getZCTCoords(no);
TileCoordinate t = new TileCoordinate(nDimensions[getCoreIndex()]);
t.coordinate[0] = col;
t.coordinate[1] = row;
for (String dim : dimensionOrdering.keySet()) {
int index = dimensionOrdering.get(dim) + 2;
if (dim.equals("Z")) {
t.coordinate[index] = zct[0];
} else if (dim.equals("C")) {
t.coordinate[index] = zct[1];
} else if (dim.equals("T")) {
t.coordinate[index] = zct[2];
}
}
Integer index = (Integer) tileMap[getCoreIndex()].get(t);
if (index == null) {
return new byte[getTileSize()];
}
Long offset = tileOffsets[getCoreIndex()][index];
RandomAccessInputStream ets = new RandomAccessInputStream(usedFiles[getCoreIndex()]);
ets.seek(offset);
CodecOptions options = new CodecOptions();
options.interleaved = isInterleaved();
options.littleEndian = isLittleEndian();
int tileSize = getTileSize();
if (tileSize == 0) {
tileSize = tileX[getCoreIndex()] * tileY[getCoreIndex()] * 10;
}
options.maxBytes = (int) (offset + tileSize);
byte[] buf = null;
long end =
index < tileOffsets[getCoreIndex()].length - 1
? tileOffsets[getCoreIndex()][index + 1]
: ets.length();
IFormatReader reader = null;
String file = null;
switch (compressionType[getCoreIndex()]) {
case RAW:
buf = new byte[tileSize];
ets.read(buf);
break;
case JPEG:
Codec codec = new JPEGCodec();
buf = codec.decompress(ets, options);
break;
case JPEG_2000:
codec = new JPEG2000Codec();
buf = codec.decompress(ets, options);
break;
case PNG:
file = "tile.png";
reader = new APNGReader();
case BMP:
if (reader == null) {
file = "tile.bmp";
reader = new BMPReader();
}
byte[] b = new byte[(int) (end - offset)];
ets.read(b);
Location.mapFile(file, new ByteArrayHandle(b));
reader.setId(file);
buf = reader.openBytes(0);
Location.mapFile(file, null);
break;
}
if (reader != null) {
reader.close();
}
ets.close();
return buf;
}
/* @see Codec#decompress(RandomAccessInputStream, CodecOptions) */
public byte[] decompress(RandomAccessInputStream in, CodecOptions options)
throws FormatException, IOException {
if (in == null) throw new IllegalArgumentException("No data to decompress.");
// Adapted from LZO for Java, available at
// http://www.oberhumer.com/opensource/lzo/
ByteVector dst = new ByteVector();
int t = in.read() & 0xff;
int mPos;
if (t > 17) {
t -= 17;
// do dst[op++] = src[ip++]; while (--t > 0);
byte[] b = new byte[t];
in.read(b);
dst.add(b);
t = in.read() & 0xff;
// if (t < 16) return;
if (t < 16) {
return dst.toByteArray();
}
}
loop:
for (; ; t = in.read() & 0xff) {
if (t < 16) {
if (t == 0) {
byte f = in.readByte();
while (f == 0) {
t += 255;
f = in.readByte();
}
t += 15 + (f & 0xff);
}
t += 3;
// do dst[op++] = src[ip++]; while (--t > 0);
byte[] b = new byte[t];
in.read(b);
dst.add(b);
t = in.read() & 0xff;
if (t < 16) {
mPos = dst.size() - 0x801 - (t >> 2) - ((in.read() & 0xff) << 2);
if (mPos < 0) {
t = LZO_OVERRUN;
break loop;
}
t = 3;
do {
dst.add(dst.get(mPos++));
} while (--t > 0);
// do dst[op++] = dst[mPos++]; while (--t > 0);
in.seek(in.getFilePointer() - 2);
t = in.read() & 3;
in.skipBytes(1);
if (t == 0) continue;
// do dst[op++] = src[ip++]; while (--t > 0);
b = new byte[t];
in.read(b);
dst.add(b);
t = in.read() & 0xff;
}
}
for (; ; t = in.read() & 0xff) {
if (t >= 64) {
mPos = dst.size() - 1 - ((t >> 2) & 7) - ((in.read() & 0xff) << 3);
t = (t >> 5) - 1;
} else if (t >= 32) {
t &= 31;
if (t == 0) {
byte f = in.readByte();
while (f == 0) {
t += 255;
f = in.readByte();
}
t += 31 + (f & 0xff);
}
mPos = dst.size() - 1 - ((in.read() & 0xff) >> 2);
mPos -= ((in.read() & 0xff) << 6);
} else if (t >= 16) {
mPos = dst.size() - ((t & 8) << 11);
t &= 7;
if (t == 0) {
byte f = in.readByte();
while (f == 0) {
t += 255;
f = in.readByte();
}
t += 7 + (f & 0xff);
}
mPos -= ((in.read() & 0xff) >> 2);
mPos -= ((in.read() & 0xff) << 6);
if (mPos == dst.size()) break loop;
mPos -= 0x4000;
} else {
mPos = dst.size() - 1 - (t >> 2) - ((in.read() & 0xff) << 2);
t = 0;
}
if (mPos < 0) {
t = LZO_OVERRUN;
break loop;
}
t += 2;
// do dst[op++] = dst[mPos++]; while (--t > 0);
do {
dst.add(dst.get(mPos++));
} while (--t > 0);
in.seek(in.getFilePointer() - 2);
t = in.read() & 3;
in.skipBytes(1);
if (t == 0) break;
// do dst[op++] = src[ip++]; while (--t > 0);
byte[] b = new byte[t];
in.read(b);
dst.add(b);
t = 0;
}
}
return dst.toByteArray();
}
/**
* The CodecOptions parameter should have the following fields set: {@link CodecOptions#width
* width} {@link CodecOptions#height height}
*
* @see Codec#decompress(RandomAccessInputStream, CodecOptions)
*/
public byte[] decompress(RandomAccessInputStream in, CodecOptions options)
throws FormatException, IOException {
if (in == null) throw new IllegalArgumentException("No data to decompress.");
if (options == null) options = CodecOptions.getDefaultOptions();
in.skipBytes(8);
int plane = options.width * options.height;
stride = options.width;
int rowInc = stride - 4;
short opcode;
int nBlocks;
int colorA = 0, colorB;
int[] color4 = new int[4];
int index, idx;
int ta, tb;
int blockPtr = 0;
rowPtr = pixelPtr = 0;
int pixelX, pixelY;
int[] pixels = new int[plane];
byte[] rtn = new byte[plane * 3];
while (in.read() != (byte) 0xe1) ;
in.skipBytes(3);
totalBlocks = ((options.width + 3) / 4) * ((options.height + 3) / 4);
while (in.getFilePointer() + 2 < in.length()) {
opcode = in.readByte();
nBlocks = (opcode & 0x1f) + 1;
if ((opcode & 0x80) == 0) {
if (in.getFilePointer() >= in.length()) break;
colorA = (opcode << 8) | in.read();
opcode = 0;
if (in.getFilePointer() >= in.length()) break;
if ((in.read() & 0x80) != 0) {
opcode = 0x20;
nBlocks = 1;
}
in.seek(in.getFilePointer() - 1);
}
switch (opcode & 0xe0) {
case 0x80:
while (nBlocks-- > 0) {
updateBlock(options.width);
}
break;
case 0xa0:
if (in.getFilePointer() + 2 >= in.length()) break;
colorA = in.readShort();
while (nBlocks-- > 0) {
blockPtr = rowPtr + pixelPtr;
for (pixelY = 0; pixelY < 4; pixelY++) {
for (pixelX = 0; pixelX < 4; pixelX++) {
if (blockPtr >= pixels.length) break;
pixels[blockPtr] = colorA;
short s = (short) (pixels[blockPtr] & 0x7fff);
unpack(s, rtn, blockPtr, pixels.length);
blockPtr++;
}
blockPtr += rowInc;
}
updateBlock(options.width);
}
break;
case 0xc0:
case 0x20:
if (in.getFilePointer() + 2 >= in.length()) break;
if ((opcode & 0xe0) == 0xc0) {
colorA = in.readShort();
}
colorB = in.readShort();
color4[0] = colorB;
color4[1] = 0;
color4[2] = 0;
color4[3] = colorA;
ta = (colorA >> 10) & 0x1f;
tb = (colorB >> 10) & 0x1f;
color4[1] |= ((11 * ta + 21 * tb) >> 5) << 10;
color4[2] |= ((21 * ta + 11 * tb) >> 5) << 10;
ta = (colorA >> 5) & 0x1f;
tb = (colorB >> 5) & 0x1f;
color4[1] |= ((11 * ta + 21 * tb) >> 5) << 5;
color4[2] |= ((21 * ta + 11 * tb) >> 5) << 5;
ta = colorA & 0x1f;
tb = colorB & 0x1f;
color4[1] |= (11 * ta + 21 * tb) >> 5;
color4[2] |= (21 * ta + 11 * tb) >> 5;
while (nBlocks-- > 0) {
blockPtr = rowPtr + pixelPtr;
for (pixelY = 0; pixelY < 4; pixelY++) {
if (in.getFilePointer() >= in.length()) break;
index = in.read();
for (pixelX = 0; pixelX < 4; pixelX++) {
idx = (index >> (2 * (3 - pixelX))) & 3;
if (blockPtr >= pixels.length) break;
pixels[blockPtr] = color4[idx];
short s = (short) (pixels[blockPtr] & 0x7fff);
unpack(s, rtn, blockPtr, pixels.length);
blockPtr++;
}
blockPtr += rowInc;
}
updateBlock(options.width);
}
break;
case 0x00:
blockPtr = rowPtr + pixelPtr;
for (pixelY = 0; pixelY < 4; pixelY++) {
for (pixelX = 0; pixelX < 4; pixelX++) {
if ((pixelY != 0) || (pixelX != 0)) {
if (in.getFilePointer() + 2 >= in.length()) break;
colorA = in.readShort();
}
if (blockPtr >= pixels.length) break;
pixels[blockPtr] = colorA;
short s = (short) (pixels[blockPtr] & 0x7fff);
unpack(s, rtn, blockPtr, pixels.length);
blockPtr++;
}
blockPtr += rowInc;
}
updateBlock(options.width);
break;
}
}
return rtn;
}