Object readRGB48(InputStream in) throws IOException { if (fi.compression > FileInfo.COMPRESSION_NONE) return readCompressedRGB48(in); int channels = fi.samplesPerPixel; short[][] stack = new short[channels][nPixels]; DataInputStream dis = new DataInputStream(in); int pixel = 0; int min = 65535, max = 0; if (fi.stripLengths == null) { fi.stripLengths = new int[fi.stripOffsets.length]; fi.stripLengths[0] = width * height * bytesPerPixel; } for (int i = 0; i < fi.stripOffsets.length; i++) { if (i > 0) { long skip = (fi.stripOffsets[i] & 0xffffffffL) - (fi.stripOffsets[i - 1] & 0xffffffffL) - fi.stripLengths[i - 1]; if (skip > 0L) dis.skip(skip); } int len = fi.stripLengths[i]; int bytesToGo = (nPixels - pixel) * channels * 2; if (len > bytesToGo) len = bytesToGo; byte[] buffer = new byte[len]; dis.readFully(buffer); int value; int channel = 0; boolean intel = fi.intelByteOrder; for (int base = 0; base < len; base += 2) { if (intel) value = ((buffer[base + 1] & 0xff) << 8) | (buffer[base] & 0xff); else value = ((buffer[base] & 0xff) << 8) | (buffer[base + 1] & 0xff); if (value < min) min = value; if (value > max) max = value; stack[channel][pixel] = (short) (value); channel++; if (channel == channels) { channel = 0; pixel++; } } showProgress(i + 1, fi.stripOffsets.length); } this.min = min; this.max = max; return stack; }
Object readCompressedRGB48(InputStream in) throws IOException { if (fi.compression == FileInfo.LZW_WITH_DIFFERENCING) throw new IOException("ImageJ cannot open 48-bit LZW compressed TIFFs with predictor"); int channels = 3; short[][] stack = new short[channels][nPixels]; DataInputStream dis = new DataInputStream(in); int pixel = 0; int min = 65535, max = 0; for (int i = 0; i < fi.stripOffsets.length; i++) { if (i > 0) { long skip = (fi.stripOffsets[i] & 0xffffffffL) - (fi.stripOffsets[i - 1] & 0xffffffffL) - fi.stripLengths[i - 1]; if (skip > 0L) dis.skip(skip); } int len = fi.stripLengths[i]; byte[] buffer = new byte[len]; dis.readFully(buffer); buffer = uncompress(buffer); len = buffer.length; if (len % 2 != 0) len--; int value; int channel = 0; boolean intel = fi.intelByteOrder; for (int base = 0; base < len && pixel < nPixels; base += 2) { if (intel) value = ((buffer[base + 1] & 0xff) << 8) | (buffer[base] & 0xff); else value = ((buffer[base] & 0xff) << 8) | (buffer[base + 1] & 0xff); if (value < min) min = value; if (value > max) max = value; stack[channel][pixel] = (short) (value); channel++; if (channel == channels) { channel = 0; pixel++; } } showProgress(i + 1, fi.stripOffsets.length); } this.min = min; this.max = max; return stack; }