byte[] uncompress(byte[] input) {
if (fi.compression == FileInfo.PACK_BITS)
return packBitsUncompress(input, fi.rowsPerStrip * fi.width * fi.getBytesPerPixel());
else if (fi.compression == FileInfo.LZW || fi.compression == FileInfo.LZW_WITH_DIFFERENCING)
return lzwUncompress(input);
else if (fi.compression == FileInfo.ZIP) return zipUncompress(input);
else return input;
}
static void error(String msg, FileInfo fi, long offset, long length) {
IJ.error(
"FileOpener",
"FileInfo parameter error. \n"
+ msg
+ "\n \n"
+ " Width: "
+ fi.width
+ "\n"
+ " Height: "
+ fi.height
+ "\n"
+ " Offset: "
+ offset
+ "\n"
+ " Bytes/pixel: "
+ fi.getBytesPerPixel()
+ "\n"
+ (length > 0 ? " File length: " + length + "\n" : ""));
}
static boolean validateFileInfo(File f, FileInfo fi) {
long offset = fi.getOffset();
long length = 0;
if (fi.width <= 0 || fi.height < 0) {
error("Width or height <= 0.", fi, offset, length);
return false;
}
if (offset >= 0 && offset < 1000L) return true;
if (offset < 0L) {
error("Offset is negative.", fi, offset, length);
return false;
}
if (fi.fileType == FileInfo.BITMAP || fi.compression != FileInfo.COMPRESSION_NONE) return true;
length = f.length();
long size = fi.width * fi.height * fi.getBytesPerPixel();
size = fi.nImages > 1 ? size : size / 4;
if (fi.height == 1) size = 0; // allows plugins to read info of unknown length at end of file
if (offset + size > length) {
error("Offset + image size > file length.", fi, offset, length);
return false;
}
return true;
}
/**
* Writes the image to the specified OutputStream. The OutputStream is not closed. The fi.pixels
* field must contain the image data. If fi.nImages>1 then fi.pixels must be a 2D array, for
* example an array of images returned by ImageStack.getImageArray()). The fi.offset field is
* ignored.
*/
public void write(OutputStream out) throws IOException {
if (fi.pixels == null && fi.virtualStack == null)
throw new IOException("ImageWriter: fi.pixels==null");
if (fi.nImages > 1 && fi.virtualStack == null && !(fi.pixels instanceof Object[]))
throw new IOException("ImageWriter: fi.pixels not a stack");
if (fi.width * fi.height * fi.getBytesPerPixel() < 26214400)
showProgressBar = false; // don't show progress bar if image<25MB
switch (fi.fileType) {
case FileInfo.GRAY8:
case FileInfo.COLOR8:
if (fi.nImages > 1 && fi.virtualStack != null) write8BitVirtualStack(out, fi.virtualStack);
else if (fi.nImages > 1) write8BitStack(out, (Object[]) fi.pixels);
else write8BitImage(out, (byte[]) fi.pixels);
break;
case FileInfo.GRAY16_SIGNED:
case FileInfo.GRAY16_UNSIGNED:
if (fi.nImages > 1 && fi.virtualStack != null) write16BitVirtualStack(out, fi.virtualStack);
else if (fi.nImages > 1) write16BitStack(out, (Object[]) fi.pixels);
else write16BitImage(out, (short[]) fi.pixels);
break;
case FileInfo.RGB48:
writeRGB48Image(out, (Object[]) fi.pixels);
break;
case FileInfo.GRAY32_FLOAT:
if (fi.nImages > 1 && fi.virtualStack != null) writeFloatVirtualStack(out, fi.virtualStack);
else if (fi.nImages > 1) writeFloatStack(out, (Object[]) fi.pixels);
else writeFloatImage(out, (float[]) fi.pixels);
break;
case FileInfo.RGB:
if (fi.nImages > 1 && fi.virtualStack != null) writeRGBVirtualStack(out, fi.virtualStack);
else if (fi.nImages > 1) writeRGBStack(out, (Object[]) fi.pixels);
else writeRGBImage(out, (int[]) fi.pixels);
break;
default:
}
}
/**
* Reads the image from the InputStream and returns the pixel array (byte, short, int or float).
* Returns null if there was an IO exception. Does not close the InputStream.
*/
public Object readPixels(InputStream in) {
Object pixels;
startTime = System.currentTimeMillis();
try {
switch (fi.fileType) {
case FileInfo.GRAY8:
case FileInfo.COLOR8:
bytesPerPixel = 1;
skip(in);
pixels = (Object) read8bitImage(in);
break;
case FileInfo.GRAY16_SIGNED:
case FileInfo.GRAY16_UNSIGNED:
bytesPerPixel = 2;
skip(in);
pixels = (Object) read16bitImage(in);
break;
case FileInfo.GRAY32_INT:
case FileInfo.GRAY32_UNSIGNED:
case FileInfo.GRAY32_FLOAT:
bytesPerPixel = 4;
skip(in);
pixels = (Object) read32bitImage(in);
break;
case FileInfo.GRAY64_FLOAT:
bytesPerPixel = 8;
skip(in);
pixels = (Object) read64bitImage(in);
break;
case FileInfo.RGB:
case FileInfo.BGR:
case FileInfo.ARGB:
case FileInfo.ABGR:
case FileInfo.BARG:
case FileInfo.CMYK:
bytesPerPixel = fi.getBytesPerPixel();
skip(in);
pixels = (Object) readChunkyRGB(in);
break;
case FileInfo.RGB_PLANAR:
bytesPerPixel = 3;
skip(in);
pixels = (Object) readPlanarRGB(in);
break;
case FileInfo.BITMAP:
bytesPerPixel = 1;
skip(in);
pixels = (Object) read1bitImage(in);
break;
case FileInfo.RGB48:
bytesPerPixel = 6;
skip(in);
pixels = (Object) readRGB48(in);
break;
case FileInfo.RGB48_PLANAR:
bytesPerPixel = 2;
skip(in);
pixels = (Object) readRGB48Planar(in);
break;
case FileInfo.GRAY12_UNSIGNED:
skip(in);
short[] data = read12bitImage(in);
pixels = (Object) data;
break;
case FileInfo.GRAY24_UNSIGNED:
skip(in);
pixels = (Object) read24bitImage(in);
break;
default:
pixels = null;
}
showProgress(1, 1);
return pixels;
} catch (IOException e) {
IJ.log("" + e);
return null;
}
}