How to use

BMPReader

in

loci.formats.in

addGlobalMeta("Magic identifier", in.readString(2));
addGlobalMeta("File size (in bytes)", in.readInt());
in.skipBytes(4);
global = in.readInt();
if (getSizeX() < 1) {
 LOGGER.trace("Invalid width: {}; using the absolute value", getSizeX());
 m.sizeX = Math.abs(getSizeX());
if (getSizeY() < 1) {
 LOGGER.trace("Invalid height: {}; using the absolute value", getSizeY());
 m.sizeY = Math.abs(getSizeY());
 invertY = true;
addGlobalMeta("Color planes", in.readShort());
bpp = in.readShort();
if (bpp > 8) bpp /= getSizeC();
m.rgb = getSizeC() > 1;
m.littleEndian = true;
m.interleaved = true;
m.metadataComplete = true;
m.indexed = palette != null;
if (isIndexed()) {
 m.sizeC = 1;
 m.rgb = false;

@Override
public void close(boolean fileOnly) throws IOException {
 super.close(fileOnly);
 if (thumbReader != null) thumbReader.close(fileOnly);

int rowsToSkip = invertY ? y : getSizeY() - (h + y);
int rowLength = (getSizeX() * (isIndexed() ? 1 : getSizeC()) * bpp) / 8;
else pad *= getSizeC();
int planeSize = getSizeX() * getSizeC() * h;
if (bpp >= 8) planeSize *= (bpp / 8);
else planeSize /= (8 / bpp);
 if (planeSize + getSizeY() + in.getFilePointer() <= in.length()) {
  pad = 1;
  planeSize += h;
int effectiveC = palette != null && palette[0].length > 0 ? 1 : getSizeC();
   int nBits = (getSizeX() - w - x) * bpp * effectiveC + pad * 8;
 boolean endOfFile = false;
 int index = 0;
 byte[] plane = new byte[getSizeX() * getSizeY() * getRGBChannelCount()];
 while(!endOfFile) {
  byte firstByte = (byte) (in.readBits(bpp) & 0xff);
  readPlane(s, x, y, w, h, buf);
if (getRGBChannelCount() > 1) {
 ImageTools.bgrToRgb(buf, isInterleaved(), 1, getRGBChannelCount());

tiffs = new ArrayList<String>(getImageCount());
thumbReader = new BMPReader();
if (thumbId != null) {
 thumbId = replaceExtension(thumbId, "pty", "bmp");
 thumb.close();
 Location.mapFile("thumbnail.bmp", new ByteArrayHandle(b));
 thumbReader.setId("thumbnail.bmp");
 for (int i=0; i<getSeriesCount(); i++) {
  core.get(i).thumbSizeX = thumbReader.getSizeX();
  core.get(i).thumbSizeY = thumbReader.getSizeY();
 thumbReader.close();
 Location.mapFile("thumbnail.bmp", null);

if (reader == null) {
 file = "tile.bmp";
 reader = new BMPReader();

tiffs = new ArrayList<String>(getImageCount());
thumbReader = new BMPReader();
if (thumbId != null) {
 thumbId = replaceExtension(thumbId, "pty", "bmp");
 thumb.close();
 Location.mapFile("thumbnail.bmp", new ByteArrayHandle(b));
 thumbReader.setId("thumbnail.bmp");
 for (int i=0; i<getSeriesCount(); i++) {
  core.get(i).thumbSizeX = thumbReader.getSizeX();
  core.get(i).thumbSizeY = thumbReader.getSizeY();
 thumbReader.close();
 Location.mapFile("thumbnail.bmp", null);

if (reader == null) {
 file = "tile.bmp";
 reader = new BMPReader();

addGlobalMeta("Magic identifier", in.readString(2));
addGlobalMeta("File size (in bytes)", in.readInt());
in.skipBytes(4);
global = in.readInt();
if (getSizeX() < 1) {
 LOGGER.trace("Invalid width: {}; using the absolute value", getSizeX());
 m.sizeX = Math.abs(getSizeX());
if (getSizeY() < 1) {
 LOGGER.trace("Invalid height: {}; using the absolute value", getSizeY());
 m.sizeY = Math.abs(getSizeY());
 invertY = true;
addGlobalMeta("Color planes", in.readShort());
bpp = in.readShort();
if (bpp > 8) bpp /= getSizeC();
m.rgb = getSizeC() > 1;
m.littleEndian = true;
m.interleaved = true;
m.metadataComplete = true;
m.indexed = palette != null;
if (isIndexed()) {
 m.sizeC = 1;
 m.rgb = false;

int rowsToSkip = invertY ? y : getSizeY() - (h + y);
int rowLength = (getSizeX() * (isIndexed() ? 1 : getSizeC()) * bpp) / 8;
else pad *= getSizeC();
int planeSize = getSizeX() * getSizeC() * h;
if (bpp >= 8) planeSize *= (bpp / 8);
else planeSize /= (8 / bpp);
 if (planeSize + getSizeY() + in.getFilePointer() <= in.length()) {
  pad = 1;
  planeSize += h;
int effectiveC = palette != null && palette[0].length > 0 ? 1 : getSizeC();
   int nBits = (getSizeX() - w - x) * bpp * effectiveC + pad * 8;
 boolean endOfFile = false;
 int index = 0;
 byte[] plane = new byte[getSizeX() * getSizeY() * getRGBChannelCount()];
 while(!endOfFile) {
  byte firstByte = (byte) (in.readBits(bpp) & 0xff);
  readPlane(s, x, y, w, h, buf);
if (getRGBChannelCount() > 1) {
 ImageTools.bgrToRgb(buf, isInterleaved(), 1, getRGBChannelCount());

@Override
public void close(boolean fileOnly) throws IOException {
 super.close(fileOnly);
 if (thumbReader != null) thumbReader.close(fileOnly);