public Tessellator getSubTessellatorImpl(int i) {
for (int j = 0; j < subTextures.length; j++) {
int l = subTextures[j];
if (l == i) {
Tessellator tessellator1 = subTessellators[j];
return tessellator1;
}
}
for (int k = 0; k < subTextures.length; k++) {
int i1 = subTextures[k];
if (i1 <= 0) {
Tessellator tessellator2 = subTessellators[k];
subTextures[k] = i;
return tessellator2;
}
}
Tessellator tessellator = new Tessellator();
Tessellator atessellator[] = subTessellators;
int ai[] = subTextures;
subTessellators = new Tessellator[atessellator.length + 1];
subTextures = new int[ai.length + 1];
System.arraycopy(atessellator, 0, subTessellators, 0, atessellator.length);
System.arraycopy(ai, 0, subTextures, 0, ai.length);
subTessellators[atessellator.length] = tessellator;
subTextures[ai.length] = i;
Config.dbg(
(new StringBuilder())
.append("Allocated subtessellator, count: ")
.append(subTessellators.length)
.toString());
return tessellator;
}
/**
* Sets the substitution characters to use when the converter is in substitution mode. The given
* chars must not be longer than the value returned by getMaxCharsPerByte for this converter.
*
* @param chars the substitution chars
* @exception IllegalArgumentException if given byte array is longer than the value returned by
* the method getMaxBytesPerChar.
* @see #setSubstitutionMode
* @see #getMaxBytesPerChar
*/
public void setSubstitutionChars(char[] chars) throws IllegalArgumentException {
if (decoder != null) decoder.replaceWith(new String(chars));
else { // only provided for subclasses
if (chars.length > getMaxCharsPerByte()) throw new IllegalArgumentException();
subChars = new char[chars.length];
System.arraycopy(chars, 0, subChars, 0, chars.length);
}
}
public static void runTests() {
try {
// SHA1 sha1Jmule = new SHA1();
MessageDigest sha1Sun = MessageDigest.getInstance("SHA-1");
SHA1 sha1Gudy = new SHA1();
// SHA1Az shaGudyResume = new SHA1Az();
ByteBuffer buffer = ByteBuffer.allocate(1024 * 1024);
File dir = new File(dirname);
File[] files = dir.listFiles();
for (int i = 0; i < files.length; i++) {
FileChannel fc = new RandomAccessFile(files[i], "r").getChannel();
System.out.println("Testing " + files[i].getName() + " ...");
while (fc.position() < fc.size()) {
fc.read(buffer);
buffer.flip();
byte[] raw = new byte[buffer.limit()];
System.arraycopy(buffer.array(), 0, raw, 0, raw.length);
sha1Gudy.update(buffer);
sha1Gudy.saveState();
ByteBuffer bb = ByteBuffer.wrap(new byte[56081]);
sha1Gudy.digest(bb);
sha1Gudy.restoreState();
sha1Sun.update(raw);
buffer.clear();
}
byte[] sun = sha1Sun.digest();
sha1Sun.reset();
byte[] gudy = sha1Gudy.digest();
sha1Gudy.reset();
if (Arrays.equals(sun, gudy)) {
System.out.println(" SHA1-Gudy: OK");
} else {
System.out.println(" SHA1-Gudy: FAILED");
}
buffer.clear();
fc.close();
System.out.println();
}
} catch (Throwable e) {
Debug.printStackTrace(e);
}
}
/**
* Remove the first line from the passed byte array.
*
* @param inputArray The byte array to process
* @return The processed byte array
*/
private static byte[] removeFirstLine(byte[] inputArray) {
int offset = 0;
while (offset < inputArray.length && (inputArray[offset] == 10 || inputArray[offset] == 13))
offset++;
while (offset < inputArray.length && inputArray[offset] != 10 && inputArray[offset] != 13)
offset++;
while (offset < inputArray.length && (inputArray[offset] == 10 || inputArray[offset] == 13))
offset++;
byte[] newArray = new byte[inputArray.length - offset];
System.arraycopy(inputArray, offset, newArray, 0, newArray.length);
return newArray;
}
/**
* Concat arrays in one.
*
* @param arrays Arrays.
* @return Summary array.
*/
public static int[] concat(int[]... arrays) {
assert arrays != null;
assert arrays.length > 1;
int len = 0;
for (int[] a : arrays) len += a.length;
int[] r = Arrays.copyOf(arrays[0], len);
for (int i = 1, shift = 0; i < arrays.length; i++) {
shift += arrays[i - 1].length;
System.arraycopy(arrays[i], 0, r, shift, arrays[i].length);
}
return r;
}
public void draw(float[] mvp, float x, float y) {
float[] mvpMatrix = new float[16];
System.arraycopy(mvp, 0, mvpMatrix, 0, 16);
Matrix.setIdentityM(transMatrix, 0);
//
glBase.translate(transMatrix, x, y, 0);
Matrix.multiplyMM(mvpMatrix, 0, transMatrix, 0, mvpMatrix, 0);
GLES20.glUseProgram(mProgram);
mPositionHandle = GLES20.glGetAttribLocation(mProgram, "vPosition");
GLES20.glEnableVertexAttribArray(mPositionHandle);
GLES20.glVertexAttribPointer(
mPositionHandle, COORDS_PER_VERTEX, GLES20.GL_FLOAT, false, vertexStride, vertexBuffer);
mColorHandle = GLES20.glGetUniformLocation(mProgram, "vColor");
GLES20.glUniform4fv(mColorHandle, 1, color, 0);
mMVPMatrixHandle = GLES20.glGetUniformLocation(mProgram, "uMVPMatrix");
checkGlError("glGetUniformLocation");
GLES20.glUniformMatrix4fv(mMVPMatrixHandle, 1, false, mvpMatrix, 0);
checkGlError("glUniformMatrix4fv");
GLES20.glDrawArrays(GLES20.GL_LINE_LOOP, 0, vertexCount);
GLES20.glDisableVertexAttribArray(mPositionHandle);
}
/**
* Converts an array of bytes containing characters in an external encoding into an array of
* Unicode characters. Unlike convert, this method does not do incremental conversion. It assumes
* that the given input array contains all the characters to be converted. The state of the
* converter is reset at the beginning of this method and is left in the reset state on successful
* termination. The converter is not reset if an exception is thrown. This allows the caller to
* determine where the bad input was encountered by calling nextByteIndex.
*
* <p>This method uses substitution mode when performing the conversion. The method
* setSubstitutionChars may be used to determine what characters are substituted. Even though
* substitution mode is used, the state of the converter's substitution mode is not changed at the
* end of this method.
*
* @return an array of chars containing the converted characters.
* @param input array containing Unicode characters to be converted.
* @exception MalformedInputException if the input buffer contains any sequence of chars that is
* illegal in the input character encoding. After this exception is thrown, the method
* nextByteIndex can be called to obtain the index of the first invalid input byte and
* getBadInputLength can be called to determine the length of the invalid input.
* @see #nextByteIndex
* @see #setSubstitutionMode
* @see sun.io.CharToByteConverter#setSubstitutionBytes(byte[])
* @see #getBadInputLength
*/
public char[] convertAll(byte[] input) throws MalformedInputException {
reset();
boolean savedSubMode = subMode;
setSubstitutionMode(true);
char[] output = new char[getMaxCharsPerByte() * input.length];
try {
int outputLength = convert(input, 0, input.length, output, 0, output.length);
outputLength += flush(output, outputLength, output.length);
char[] returnedOutput = new char[outputLength];
System.arraycopy(output, 0, returnedOutput, 0, outputLength);
return returnedOutput;
} catch (ConversionBufferFullException e) {
// Not supposed to happen. If it does, getMaxCharsPerByte() lied.
throw new InternalError("this.getMaxCharsBerByte returned bad value");
} catch (UnknownCharacterException e) {
// Not supposed to happen since we're in substitution mode.
throw new InternalError();
} finally {
setSubstitutionMode(savedSubMode);
}
}
private void dispatchMessage(
TcpAddress incomingAddress, ByteBuffer byteBuffer, long bytesRead) {
byteBuffer.flip();
if (logger.isDebugEnabled()) {
logger.debug(
"Received message from "
+ incomingAddress
+ " with length "
+ bytesRead
+ ": "
+ new OctetString(byteBuffer.array(), 0, (int) bytesRead).toHexString());
}
ByteBuffer bis;
if (isAsyncMsgProcessingSupported()) {
byte[] bytes = new byte[(int) bytesRead];
System.arraycopy(byteBuffer.array(), 0, bytes, 0, (int) bytesRead);
bis = ByteBuffer.wrap(bytes);
} else {
bis = ByteBuffer.wrap(byteBuffer.array(), 0, (int) bytesRead);
}
fireProcessMessage(incomingAddress, bis);
}
/** Unconditionally expand the comment buffer. */
private void expandCommentBuffer() {
char[] newBuffer = new char[docCommentBuffer.length * 2];
System.arraycopy(docCommentBuffer, 0, newBuffer, 0, docCommentBuffer.length);
docCommentBuffer = newBuffer;
}
public void build_bricks() {
ImagePlus imp;
ImagePlus orgimp;
ImageStack stack;
FileInfo finfo;
if (lvImgTitle.isEmpty()) return;
orgimp = WindowManager.getImage(lvImgTitle.get(0));
imp = orgimp;
finfo = imp.getFileInfo();
if (finfo == null) return;
int[] dims = imp.getDimensions();
int imageW = dims[0];
int imageH = dims[1];
int nCh = dims[2];
int imageD = dims[3];
int nFrame = dims[4];
int bdepth = imp.getBitDepth();
double xspc = finfo.pixelWidth;
double yspc = finfo.pixelHeight;
double zspc = finfo.pixelDepth;
double z_aspect = Math.max(xspc, yspc) / zspc;
int orgW = imageW;
int orgH = imageH;
int orgD = imageD;
double orgxspc = xspc;
double orgyspc = yspc;
double orgzspc = zspc;
lv = lvImgTitle.size();
if (filetype == "JPEG") {
for (int l = 0; l < lv; l++) {
if (WindowManager.getImage(lvImgTitle.get(l)).getBitDepth() != 8) {
IJ.error("A SOURCE IMAGE MUST BE 8BIT GLAYSCALE");
return;
}
}
}
// calculate levels
/* int baseXY = 256;
int baseZ = 256;
if (z_aspect < 0.5) baseZ = 128;
if (z_aspect > 2.0) baseXY = 128;
if (z_aspect >= 0.5 && z_aspect < 1.0) baseZ = (int)(baseZ*z_aspect);
if (z_aspect > 1.0 && z_aspect <= 2.0) baseXY = (int)(baseXY/z_aspect);
IJ.log("Z_aspect: " + z_aspect);
IJ.log("BaseXY: " + baseXY);
IJ.log("BaseZ: " + baseZ);
*/
int baseXY = 256;
int baseZ = 128;
int dbXY = Math.max(orgW, orgH) / baseXY;
if (Math.max(orgW, orgH) % baseXY > 0) dbXY *= 2;
int dbZ = orgD / baseZ;
if (orgD % baseZ > 0) dbZ *= 2;
lv = Math.max(log2(dbXY), log2(dbZ)) + 1;
int ww = orgW;
int hh = orgH;
int dd = orgD;
for (int l = 0; l < lv; l++) {
int bwnum = ww / baseXY;
if (ww % baseXY > 0) bwnum++;
int bhnum = hh / baseXY;
if (hh % baseXY > 0) bhnum++;
int bdnum = dd / baseZ;
if (dd % baseZ > 0) bdnum++;
if (bwnum % 2 == 0) bwnum++;
if (bhnum % 2 == 0) bhnum++;
if (bdnum % 2 == 0) bdnum++;
int bw = (bwnum <= 1) ? ww : ww / bwnum + 1 + (ww % bwnum > 0 ? 1 : 0);
int bh = (bhnum <= 1) ? hh : hh / bhnum + 1 + (hh % bhnum > 0 ? 1 : 0);
int bd = (bdnum <= 1) ? dd : dd / bdnum + 1 + (dd % bdnum > 0 ? 1 : 0);
bwlist.add(bw);
bhlist.add(bh);
bdlist.add(bd);
IJ.log("LEVEL: " + l);
IJ.log(" width: " + ww);
IJ.log(" hight: " + hh);
IJ.log(" depth: " + dd);
IJ.log(" bw: " + bw);
IJ.log(" bh: " + bh);
IJ.log(" bd: " + bd);
int xyl2 = Math.max(ww, hh) / baseXY;
if (Math.max(ww, hh) % baseXY > 0) xyl2 *= 2;
if (lv - 1 - log2(xyl2) <= l) {
ww /= 2;
hh /= 2;
}
IJ.log(" xyl2: " + (lv - 1 - log2(xyl2)));
int zl2 = dd / baseZ;
if (dd % baseZ > 0) zl2 *= 2;
if (lv - 1 - log2(zl2) <= l) dd /= 2;
IJ.log(" zl2: " + (lv - 1 - log2(zl2)));
if (l < lv - 1) {
lvImgTitle.add(lvImgTitle.get(0) + "_level" + (l + 1));
IJ.selectWindow(lvImgTitle.get(0));
IJ.run(
"Scale...",
"x=- y=- z=- width="
+ ww
+ " height="
+ hh
+ " depth="
+ dd
+ " interpolation=Bicubic average process create title="
+ lvImgTitle.get(l + 1));
}
}
for (int l = 0; l < lv; l++) {
IJ.log(lvImgTitle.get(l));
}
Document doc = newXMLDocument();
Element root = doc.createElement("BRK");
root.setAttribute("version", "1.0");
root.setAttribute("nLevel", String.valueOf(lv));
root.setAttribute("nChannel", String.valueOf(nCh));
root.setAttribute("nFrame", String.valueOf(nFrame));
doc.appendChild(root);
for (int l = 0; l < lv; l++) {
IJ.showProgress(0.0);
int[] dims2 = imp.getDimensions();
IJ.log(
"W: "
+ String.valueOf(dims2[0])
+ " H: "
+ String.valueOf(dims2[1])
+ " C: "
+ String.valueOf(dims2[2])
+ " D: "
+ String.valueOf(dims2[3])
+ " T: "
+ String.valueOf(dims2[4])
+ " b: "
+ String.valueOf(bdepth));
bw = bwlist.get(l).intValue();
bh = bhlist.get(l).intValue();
bd = bdlist.get(l).intValue();
boolean force_pow2 = false;
/* if(IsPowerOf2(bw) && IsPowerOf2(bh) && IsPowerOf2(bd)) force_pow2 = true;
if(force_pow2){
//force pow2
if(Pow2(bw) > bw) bw = Pow2(bw)/2;
if(Pow2(bh) > bh) bh = Pow2(bh)/2;
if(Pow2(bd) > bd) bd = Pow2(bd)/2;
}
if(bw > imageW) bw = (Pow2(imageW) == imageW) ? imageW : Pow2(imageW)/2;
if(bh > imageH) bh = (Pow2(imageH) == imageH) ? imageH : Pow2(imageH)/2;
if(bd > imageD) bd = (Pow2(imageD) == imageD) ? imageD : Pow2(imageD)/2;
*/
if (bw > imageW) bw = imageW;
if (bh > imageH) bh = imageH;
if (bd > imageD) bd = imageD;
if (bw <= 1 || bh <= 1 || bd <= 1) break;
if (filetype == "JPEG" && (bw < 8 || bh < 8)) break;
Element lvnode = doc.createElement("Level");
lvnode.setAttribute("lv", String.valueOf(l));
lvnode.setAttribute("imageW", String.valueOf(imageW));
lvnode.setAttribute("imageH", String.valueOf(imageH));
lvnode.setAttribute("imageD", String.valueOf(imageD));
lvnode.setAttribute("xspc", String.valueOf(xspc));
lvnode.setAttribute("yspc", String.valueOf(yspc));
lvnode.setAttribute("zspc", String.valueOf(zspc));
lvnode.setAttribute("bitDepth", String.valueOf(bdepth));
root.appendChild(lvnode);
Element brksnode = doc.createElement("Bricks");
brksnode.setAttribute("brick_baseW", String.valueOf(bw));
brksnode.setAttribute("brick_baseH", String.valueOf(bh));
brksnode.setAttribute("brick_baseD", String.valueOf(bd));
lvnode.appendChild(brksnode);
ArrayList<Brick> bricks = new ArrayList<Brick>();
int mw, mh, md, mw2, mh2, md2;
double tx0, ty0, tz0, tx1, ty1, tz1;
double bx0, by0, bz0, bx1, by1, bz1;
for (int k = 0; k < imageD; k += bd) {
if (k > 0) k--;
for (int j = 0; j < imageH; j += bh) {
if (j > 0) j--;
for (int i = 0; i < imageW; i += bw) {
if (i > 0) i--;
mw = Math.min(bw, imageW - i);
mh = Math.min(bh, imageH - j);
md = Math.min(bd, imageD - k);
if (force_pow2) {
mw2 = Pow2(mw);
mh2 = Pow2(mh);
md2 = Pow2(md);
} else {
mw2 = mw;
mh2 = mh;
md2 = md;
}
if (filetype == "JPEG") {
if (mw2 < 8) mw2 = 8;
if (mh2 < 8) mh2 = 8;
}
tx0 = i == 0 ? 0.0d : ((mw2 - mw + 0.5d) / mw2);
ty0 = j == 0 ? 0.0d : ((mh2 - mh + 0.5d) / mh2);
tz0 = k == 0 ? 0.0d : ((md2 - md + 0.5d) / md2);
tx1 = 1.0d - 0.5d / mw2;
if (mw < bw) tx1 = 1.0d;
if (imageW - i == bw) tx1 = 1.0d;
ty1 = 1.0d - 0.5d / mh2;
if (mh < bh) ty1 = 1.0d;
if (imageH - j == bh) ty1 = 1.0d;
tz1 = 1.0d - 0.5d / md2;
if (md < bd) tz1 = 1.0d;
if (imageD - k == bd) tz1 = 1.0d;
bx0 = i == 0 ? 0.0d : (i + 0.5d) / (double) imageW;
by0 = j == 0 ? 0.0d : (j + 0.5d) / (double) imageH;
bz0 = k == 0 ? 0.0d : (k + 0.5d) / (double) imageD;
bx1 = Math.min((i + bw - 0.5d) / (double) imageW, 1.0d);
if (imageW - i == bw) bx1 = 1.0d;
by1 = Math.min((j + bh - 0.5d) / (double) imageH, 1.0d);
if (imageH - j == bh) by1 = 1.0d;
bz1 = Math.min((k + bd - 0.5d) / (double) imageD, 1.0d);
if (imageD - k == bd) bz1 = 1.0d;
int x, y, z;
x = i - (mw2 - mw);
y = j - (mh2 - mh);
z = k - (md2 - md);
bricks.add(
new Brick(
x, y, z, mw2, mh2, md2, 0, 0, tx0, ty0, tz0, tx1, ty1, tz1, bx0, by0, bz0, bx1,
by1, bz1));
}
}
}
Element fsnode = doc.createElement("Files");
lvnode.appendChild(fsnode);
stack = imp.getStack();
int totalbricknum = nFrame * nCh * bricks.size();
int curbricknum = 0;
for (int f = 0; f < nFrame; f++) {
for (int ch = 0; ch < nCh; ch++) {
int sizelimit = bdsizelimit * 1024 * 1024;
int bytecount = 0;
int filecount = 0;
int pd_bufsize = Math.max(sizelimit, bw * bh * bd * bdepth / 8);
byte[] packed_data = new byte[pd_bufsize];
String base_dataname =
basename
+ "_Lv"
+ String.valueOf(l)
+ "_Ch"
+ String.valueOf(ch)
+ "_Fr"
+ String.valueOf(f);
String current_dataname = base_dataname + "_data" + filecount;
Brick b_first = bricks.get(0);
if (b_first.z_ != 0) IJ.log("warning");
int st_z = b_first.z_;
int ed_z = b_first.z_ + b_first.d_;
LinkedList<ImageProcessor> iplist = new LinkedList<ImageProcessor>();
for (int s = st_z; s < ed_z; s++)
iplist.add(stack.getProcessor(imp.getStackIndex(ch + 1, s + 1, f + 1)));
// ImagePlus test;
// ImageStack tsst;
// test = NewImage.createByteImage("test", imageW, imageH, imageD,
// NewImage.FILL_BLACK);
// tsst = test.getStack();
for (int i = 0; i < bricks.size(); i++) {
Brick b = bricks.get(i);
if (ed_z > b.z_ || st_z < b.z_ + b.d_) {
if (b.z_ > st_z) {
for (int s = 0; s < b.z_ - st_z; s++) iplist.pollFirst();
st_z = b.z_;
} else if (b.z_ < st_z) {
IJ.log("warning");
for (int s = st_z - 1; s > b.z_; s--)
iplist.addFirst(stack.getProcessor(imp.getStackIndex(ch + 1, s + 1, f + 1)));
st_z = b.z_;
}
if (b.z_ + b.d_ > ed_z) {
for (int s = ed_z; s < b.z_ + b.d_; s++)
iplist.add(stack.getProcessor(imp.getStackIndex(ch + 1, s + 1, f + 1)));
ed_z = b.z_ + b.d_;
} else if (b.z_ + b.d_ < ed_z) {
IJ.log("warning");
for (int s = 0; s < ed_z - (b.z_ + b.d_); s++) iplist.pollLast();
ed_z = b.z_ + b.d_;
}
} else {
IJ.log("warning");
iplist.clear();
st_z = b.z_;
ed_z = b.z_ + b.d_;
for (int s = st_z; s < ed_z; s++)
iplist.add(stack.getProcessor(imp.getStackIndex(ch + 1, s + 1, f + 1)));
}
if (iplist.size() != b.d_) {
IJ.log("Stack Error");
return;
}
// int zz = st_z;
int bsize = 0;
byte[] bdata = new byte[b.w_ * b.h_ * b.d_ * bdepth / 8];
Iterator<ImageProcessor> ipite = iplist.iterator();
while (ipite.hasNext()) {
// ImageProcessor tsip = tsst.getProcessor(zz+1);
ImageProcessor ip = ipite.next();
ip.setRoi(b.x_, b.y_, b.w_, b.h_);
if (bdepth == 8) {
byte[] data = (byte[]) ip.crop().getPixels();
System.arraycopy(data, 0, bdata, bsize, data.length);
bsize += data.length;
} else if (bdepth == 16) {
ByteBuffer buffer = ByteBuffer.allocate(b.w_ * b.h_ * bdepth / 8);
buffer.order(ByteOrder.LITTLE_ENDIAN);
short[] data = (short[]) ip.crop().getPixels();
for (short e : data) buffer.putShort(e);
System.arraycopy(buffer.array(), 0, bdata, bsize, buffer.array().length);
bsize += buffer.array().length;
} else if (bdepth == 32) {
ByteBuffer buffer = ByteBuffer.allocate(b.w_ * b.h_ * bdepth / 8);
buffer.order(ByteOrder.LITTLE_ENDIAN);
float[] data = (float[]) ip.crop().getPixels();
for (float e : data) buffer.putFloat(e);
System.arraycopy(buffer.array(), 0, bdata, bsize, buffer.array().length);
bsize += buffer.array().length;
}
}
String filename =
basename
+ "_Lv"
+ String.valueOf(l)
+ "_Ch"
+ String.valueOf(ch)
+ "_Fr"
+ String.valueOf(f)
+ "_ID"
+ String.valueOf(i);
int offset = bytecount;
int datasize = bdata.length;
if (filetype == "RAW") {
int dummy = -1;
// do nothing
}
if (filetype == "JPEG" && bdepth == 8) {
try {
DataBufferByte db = new DataBufferByte(bdata, datasize);
Raster raster = Raster.createPackedRaster(db, b.w_, b.h_ * b.d_, 8, null);
BufferedImage img =
new BufferedImage(b.w_, b.h_ * b.d_, BufferedImage.TYPE_BYTE_GRAY);
img.setData(raster);
ByteArrayOutputStream baos = new ByteArrayOutputStream();
ImageOutputStream ios = ImageIO.createImageOutputStream(baos);
String format = "jpg";
Iterator<javax.imageio.ImageWriter> iter =
ImageIO.getImageWritersByFormatName("jpeg");
javax.imageio.ImageWriter writer = iter.next();
ImageWriteParam iwp = writer.getDefaultWriteParam();
iwp.setCompressionMode(ImageWriteParam.MODE_EXPLICIT);
iwp.setCompressionQuality((float) jpeg_quality * 0.01f);
writer.setOutput(ios);
writer.write(null, new IIOImage(img, null, null), iwp);
// ImageIO.write(img, format, baos);
bdata = baos.toByteArray();
datasize = bdata.length;
} catch (IOException e) {
e.printStackTrace();
return;
}
}
if (filetype == "ZLIB") {
byte[] tmpdata = new byte[b.w_ * b.h_ * b.d_ * bdepth / 8];
Deflater compresser = new Deflater();
compresser.setInput(bdata);
compresser.setLevel(Deflater.DEFAULT_COMPRESSION);
compresser.setStrategy(Deflater.DEFAULT_STRATEGY);
compresser.finish();
datasize = compresser.deflate(tmpdata);
bdata = tmpdata;
compresser.end();
}
if (bytecount + datasize > sizelimit && bytecount > 0) {
BufferedOutputStream fis = null;
try {
File file = new File(directory + current_dataname);
fis = new BufferedOutputStream(new FileOutputStream(file));
fis.write(packed_data, 0, bytecount);
} catch (IOException e) {
e.printStackTrace();
return;
} finally {
try {
if (fis != null) fis.close();
} catch (IOException e) {
e.printStackTrace();
return;
}
}
filecount++;
current_dataname = base_dataname + "_data" + filecount;
bytecount = 0;
offset = 0;
System.arraycopy(bdata, 0, packed_data, bytecount, datasize);
bytecount += datasize;
} else {
System.arraycopy(bdata, 0, packed_data, bytecount, datasize);
bytecount += datasize;
}
Element filenode = doc.createElement("File");
filenode.setAttribute("filename", current_dataname);
filenode.setAttribute("channel", String.valueOf(ch));
filenode.setAttribute("frame", String.valueOf(f));
filenode.setAttribute("brickID", String.valueOf(i));
filenode.setAttribute("offset", String.valueOf(offset));
filenode.setAttribute("datasize", String.valueOf(datasize));
filenode.setAttribute("filetype", String.valueOf(filetype));
fsnode.appendChild(filenode);
curbricknum++;
IJ.showProgress((double) (curbricknum) / (double) (totalbricknum));
}
if (bytecount > 0) {
BufferedOutputStream fis = null;
try {
File file = new File(directory + current_dataname);
fis = new BufferedOutputStream(new FileOutputStream(file));
fis.write(packed_data, 0, bytecount);
} catch (IOException e) {
e.printStackTrace();
return;
} finally {
try {
if (fis != null) fis.close();
} catch (IOException e) {
e.printStackTrace();
return;
}
}
}
}
}
for (int i = 0; i < bricks.size(); i++) {
Brick b = bricks.get(i);
Element bricknode = doc.createElement("Brick");
bricknode.setAttribute("id", String.valueOf(i));
bricknode.setAttribute("st_x", String.valueOf(b.x_));
bricknode.setAttribute("st_y", String.valueOf(b.y_));
bricknode.setAttribute("st_z", String.valueOf(b.z_));
bricknode.setAttribute("width", String.valueOf(b.w_));
bricknode.setAttribute("height", String.valueOf(b.h_));
bricknode.setAttribute("depth", String.valueOf(b.d_));
brksnode.appendChild(bricknode);
Element tboxnode = doc.createElement("tbox");
tboxnode.setAttribute("x0", String.valueOf(b.tx0_));
tboxnode.setAttribute("y0", String.valueOf(b.ty0_));
tboxnode.setAttribute("z0", String.valueOf(b.tz0_));
tboxnode.setAttribute("x1", String.valueOf(b.tx1_));
tboxnode.setAttribute("y1", String.valueOf(b.ty1_));
tboxnode.setAttribute("z1", String.valueOf(b.tz1_));
bricknode.appendChild(tboxnode);
Element bboxnode = doc.createElement("bbox");
bboxnode.setAttribute("x0", String.valueOf(b.bx0_));
bboxnode.setAttribute("y0", String.valueOf(b.by0_));
bboxnode.setAttribute("z0", String.valueOf(b.bz0_));
bboxnode.setAttribute("x1", String.valueOf(b.bx1_));
bboxnode.setAttribute("y1", String.valueOf(b.by1_));
bboxnode.setAttribute("z1", String.valueOf(b.bz1_));
bricknode.appendChild(bboxnode);
}
if (l < lv - 1) {
imp = WindowManager.getImage(lvImgTitle.get(l + 1));
int[] newdims = imp.getDimensions();
imageW = newdims[0];
imageH = newdims[1];
imageD = newdims[3];
xspc = orgxspc * ((double) orgW / (double) imageW);
yspc = orgyspc * ((double) orgH / (double) imageH);
zspc = orgzspc * ((double) orgD / (double) imageD);
bdepth = imp.getBitDepth();
}
}
File newXMLfile = new File(directory + basename + ".vvd");
writeXML(newXMLfile, doc);
for (int l = 1; l < lv; l++) {
imp = WindowManager.getImage(lvImgTitle.get(l));
imp.changes = false;
imp.close();
}
}
public void func_991_a(double p_991_1_, double p_991_3_, double p_991_5_) {
if (autoGrow && field_1498_o >= field_1494_B - 32) {
Config.dbg(
(new StringBuilder())
.append("Expand tessellator buffer, old: ")
.append(field_1494_B)
.append(", new: ")
.append(field_1494_B * 2)
.toString());
field_1494_B *= 2;
int ai[] = new int[field_1494_B];
System.arraycopy(field_1506_g, 0, ai, 0, field_1506_g.length);
field_1506_g = ai;
field_1509_d = GLAllocation.func_1127_b(field_1494_B * 4);
field_1508_e = field_1509_d.asIntBuffer();
field_1507_f = field_1509_d.asFloatBuffer();
field_35836_g = field_1509_d.asShortBuffer();
}
field_1497_p++;
if (field_1493_r == 7 && field_1511_b && field_1497_p % 4 == 0) {
for (int i = 0; i < 2; i++) {
int j = 8 * (3 - i);
if (field_1500_m) {
field_1506_g[field_1498_o + 3] = field_1506_g[(field_1498_o - j) + 3];
field_1506_g[field_1498_o + 4] = field_1506_g[(field_1498_o - j) + 4];
}
if (field_35838_p) {
field_1506_g[field_1498_o + 7] = field_1506_g[(field_1498_o - j) + 7];
}
if (field_1501_l) {
field_1506_g[field_1498_o + 5] = field_1506_g[(field_1498_o - j) + 5];
}
field_1506_g[field_1498_o + 0] = field_1506_g[(field_1498_o - j) + 0];
field_1506_g[field_1498_o + 1] = field_1506_g[(field_1498_o - j) + 1];
field_1506_g[field_1498_o + 2] = field_1506_g[(field_1498_o - j) + 2];
field_1505_h++;
field_1498_o += 8;
}
}
if (field_1500_m) {
field_1506_g[field_1498_o + 3] = Float.floatToRawIntBits((float) field_1504_i);
field_1506_g[field_1498_o + 4] = Float.floatToRawIntBits((float) field_1503_j);
}
if (field_35838_p) {
field_1506_g[field_1498_o + 7] = field_35837_l;
}
if (field_1501_l) {
field_1506_g[field_1498_o + 5] = field_1502_k;
}
if (field_1499_n) {
field_1506_g[field_1498_o + 6] = field_1489_v;
}
field_1506_g[field_1498_o + 0] = Float.floatToRawIntBits((float) (p_991_1_ + field_1492_s));
field_1506_g[field_1498_o + 1] = Float.floatToRawIntBits((float) (p_991_3_ + field_1491_t));
field_1506_g[field_1498_o + 2] = Float.floatToRawIntBits((float) (p_991_5_ + field_1490_u));
field_1498_o += 8;
field_1505_h++;
if (!autoGrow && field_1497_p % 4 == 0 && field_1498_o >= field_1494_B - 32) {
func_982_a();
field_1488_w = true;
}
}
protected double[] resizeArray(double[] oldArray) {
int newSize = 2 * oldArray.length;
double[] newArray = new double[newSize];
System.arraycopy(oldArray, 0, newArray, 0, oldArray.length);
return newArray;
}
protected int[] resizeArray(int[] oldArray) {
int newSize = 2 * oldArray.length;
int[] newArray = new int[newSize];
System.arraycopy(oldArray, 0, newArray, 0, oldArray.length);
return newArray;
}
/**
* Validates incoming packet and deserializes all fields that need to be deserialized.
*
* @param ses Session on which packet is being parsed.
* @param req Raw packet.
* @return Same packet with fields deserialized.
* @throws IOException If parsing failed.
* @throws GridException If deserialization failed.
*/
private GridClientMessage assemble(GridNioSession ses, GridTcpRestPacket req)
throws IOException, GridException {
byte[] extras = req.extras();
// First, decode key and value, if any
if (req.key() != null || req.value() != null) {
short keyFlags = 0;
short valFlags = 0;
if (req.hasFlags()) {
if (extras == null || extras.length < FLAGS_LENGTH)
throw new IOException(
"Failed to parse incoming packet (flags required for command) [ses="
+ ses
+ ", opCode="
+ Integer.toHexString(req.operationCode() & 0xFF)
+ ']');
keyFlags = U.bytesToShort(extras, 0);
valFlags = U.bytesToShort(extras, 2);
}
if (req.key() != null) {
assert req.key() instanceof byte[];
byte[] rawKey = (byte[]) req.key();
// Only values can be hessian-encoded.
req.key(decodeObj(keyFlags, rawKey));
}
if (req.value() != null) {
assert req.value() instanceof byte[];
byte[] rawVal = (byte[]) req.value();
req.value(decodeObj(valFlags, rawVal));
}
}
if (req.hasExpiration()) {
if (extras == null || extras.length < 8)
throw new IOException(
"Failed to parse incoming packet (expiration value required for command) [ses="
+ ses
+ ", opCode="
+ Integer.toHexString(req.operationCode() & 0xFF)
+ ']');
req.expiration(U.bytesToInt(extras, 4) & 0xFFFFFFFFL);
}
if (req.hasInitial()) {
if (extras == null || extras.length < 16)
throw new IOException(
"Failed to parse incoming packet (initial value required for command) [ses="
+ ses
+ ", opCode="
+ Integer.toHexString(req.operationCode() & 0xFF)
+ ']');
req.initial(U.bytesToLong(extras, 8));
}
if (req.hasDelta()) {
if (extras == null || extras.length < 8)
throw new IOException(
"Failed to parse incoming packet (delta value required for command) [ses="
+ ses
+ ", opCode="
+ Integer.toHexString(req.operationCode() & 0xFF)
+ ']');
req.delta(U.bytesToLong(extras, 0));
}
if (extras != null) {
// Clients that include cache name must always include flags.
int length = 4;
if (req.hasExpiration()) length += 4;
if (req.hasDelta()) length += 8;
if (req.hasInitial()) length += 8;
if (extras.length - length > 0) {
byte[] cacheName = new byte[extras.length - length];
System.arraycopy(extras, length, cacheName, 0, extras.length - length);
req.cacheName(new String(cacheName));
}
}
return req;
}
