net.sf.ij_plugins.imageio.ImagePlusFactory Maven / Gradle / Ivy
Go to download
Show more of this group Show more artifacts with this name
Show all versions of ijp_imageio Show documentation
Show all versions of ijp_imageio Show documentation
ijp-ImageIO enable reading and writing images using Java ImageIO codecs. The core ImageIO formats: JPEG, PNG, BMP, WBMP, and GIF. IJP-ImageIO is also using JAI codes adding support for TIFF, JPEG200, PNM, and PCX. TIFF supports reading and writing using various compression schemes: LZW, JPEG, ZIP, and Deflate. For more detailed information see IJP-ImageIO home page: https://github.com/ij-plugins/ijp-imageio/wiki.
/*
* Image/J Plugins
* Copyright (C) 2002-2016 Jarek Sacha
* Author's email: jpsacha at gmail.com
*
* This library is free software; you can redistribute it and/or
* modify it under the terms of the GNU Lesser General Public
* License as published by the Free Software Foundation; either
* version 2.1 of the License, or (at your option) any later version.
*
* This library is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
* Lesser General Public License for more details.
*
* You should have received a copy of the GNU Lesser General Public
* License along with this library; if not, write to the Free Software
* Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
*
* Latest release available at http://sourceforge.net/projects/ij-plugins/
*/
package net.sf.ij_plugins.imageio;
import com.github.jaiimageio.impl.plugins.tiff.TIFFImageMetadata;
import com.github.jaiimageio.plugins.tiff.BaselineTIFFTagSet;
import com.github.jaiimageio.plugins.tiff.TIFFField;
import ij.ImagePlus;
import ij.measure.Calibration;
import ij.process.*;
import java.awt.image.*;
/**
* Creates/converts Image/J's image objects from Java2D/JAI representation.
*
* @author Jarek Sacha
*/
public class ImagePlusFactory {
private ImagePlusFactory() {
}
/**
* Force Rendered image to set all the tails that it may have. In multi-tile
* images not all tiles may be updated when a RenderedImage is created.
*
* @param ri image that may need tile update.
* @return WritableRaster with all tiles updated.
*/
public static WritableRaster forceTileUpdate(final RenderedImage ri) {
Raster r = ri.getData();
if (!(r instanceof WritableRaster)) {
r = Raster.createWritableRaster(r.getSampleModel(), r.getDataBuffer(), null);
}
final WritableRaster wr = (WritableRaster) r;
final int xTiles = ri.getNumXTiles();
final int yTiles = ri.getNumYTiles();
for (int ty = 0; ty < yTiles; ++ty) {
for (int tx = 0; tx < xTiles; ++tx) {
wr.setRect(ri.getTile(tx, ty));
}
}
return wr;
}
/**
* Create an ImageProcessor object from a DataBuffer.
*
* @param w Image width.
* @param h Image height.
* @param buffer Data buffer.
* @param cm Color model.
* @return Image processor object.
* @throws IJImageIOException If data buffer is in unknown format.
*/
public static ImageProcessor createProcessor(final int w, final int h, final DataBuffer buffer,
final ColorModel cm) throws IJImageIOException {
if (buffer.getOffset() != 0) {
throw new IJImageIOException("Expecting BufferData with no offset.");
}
switch (buffer.getDataType()) {
case DataBuffer.TYPE_BYTE:
return new ByteProcessor(w, h, ((DataBufferByte) buffer).getData(), cm);
case DataBuffer.TYPE_USHORT:
return new ShortProcessor(w, h, ((DataBufferUShort) buffer).getData(), cm);
case DataBuffer.TYPE_SHORT:
final short[] pixels = ((DataBufferShort) buffer).getData();
for (int i = 0; i < pixels.length; ++i) {
pixels[i] = (short) (pixels[i] + 32768);
}
return new ShortProcessor(w, h, pixels, cm);
case DataBuffer.TYPE_INT:
return new FloatProcessor(w, h, ((DataBufferInt) buffer).getData());
case DataBuffer.TYPE_FLOAT: {
final DataBufferFloat dbFloat = (DataBufferFloat) buffer;
return new FloatProcessor(w, h, dbFloat.getData(), cm);
}
case DataBuffer.TYPE_DOUBLE:
return new FloatProcessor(w, h, ((DataBufferDouble) buffer).getData());
case DataBuffer.TYPE_UNDEFINED:
// ENH: Should this be reported as data problem?
throw new IJImageIOException("Pixel type is undefined.");
default:
throw new IJImageIOException("Unrecognized DataBuffer data type");
}
}
/**
* Convert BufferedImage to ImageProcessor.
*
* @param src image to be converted.
* @return Instance of ImageProcessor, for instance, ColorProcessor.
* @throws IJImageIOException when unable to determine how to convert the image.
*/
public static ImageProcessor createProcessor(final BufferedImage src) throws IJImageIOException {
// TODO verify that short pixels are converted correctly
final Raster raster = src.getRaster();
ColorModel colorModel = src.getColorModel();
final DataBuffer dataBuffer = raster.getDataBuffer();
final int numBanks = dataBuffer.getNumBanks();
if (numBanks > 1 && colorModel == null) {
throw new IJImageIOException("Don't know what to do with image with no " +
"color model and multiple banks.");
}
final SampleModel sm = raster.getSampleModel();
if (numBanks > 1 || sm.getNumBands() > 1
) {
// If image has multiple banks or multiple color components, assume that it
// is a color image and relay on AWT for proper decoding.
return new ColorProcessor(src);
} else if (sm.getSampleSize(0) < 8) {
// Temporary fix for less then 8 bit images
return new ByteProcessor(src);
} else {
if (!(colorModel instanceof IndexColorModel)) {
// Image/J (as of version 1.26r) can not properly deal with non color
// images and ColorModel that is not an instance of IndexedColorModel.
colorModel = null;
}
return createProcessor(raster.getWidth(), raster.getHeight(), raster.getDataBuffer(), colorModel);
}
}
/**
* Create instance of ImagePlus from a BufferedImage.
*
* @param title name of the output image.
* @param bi source buffered image
* @return ImagePlus object created from WritableRaster r and
* ColorModel cm
* @throws IJImageIOException when enable to create ImagePlus.
* @see #create(String, WritableRaster, ColorModel)
*/
public static ImagePlus create(final String title, final BufferedImage bi) throws IJImageIOException {
return create(title, bi.getRaster(), bi.getColorModel());
}
public static ImagePlus create(final String title, final IJImageIO.ImageAndMetadata mi) throws IJImageIOException {
ImagePlus imp = create(title, mi.image.getRaster(), mi.image.getColorModel());
if (mi.metadata instanceof TIFFImageMetadata) {
TIFFImageMetadata tmd = (TIFFImageMetadata) mi.metadata;
TIFFField xResField = tmd.getTIFFField(BaselineTIFFTagSet.TAG_X_RESOLUTION);
if (xResField != null) {
long[] ls = xResField.getAsRational(0);
Calibration cal = imp.getCalibration();
cal.pixelWidth = ls[1] / (double) ls[0];
imp.setCalibration(cal);
}
TIFFField yResField = tmd.getTIFFField(BaselineTIFFTagSet.TAG_Y_RESOLUTION);
if (yResField != null) {
long[] ls = yResField.getAsRational(0);
Calibration cal = imp.getCalibration();
cal.pixelHeight = ls[1] / (double) ls[0];
imp.setCalibration(cal);
}
{
TIFFField field = tmd.getTIFFField(BaselineTIFFTagSet.TAG_IMAGE_DESCRIPTION);
if (field != null && field.getCount() > 0) {
String description = field.getAsString(0);
DescriptionStringCoder.decode(description, imp);
}
}
}
return imp;
}
/**
* Create instance of ImagePlus from WritableRaster r and ColorModel cm.
*
* @param title name of the output image.
* @param r Raster containing pixel data.
* @param cm Image color model (can be null).
* @return ImagePlus object created from WritableRaster r and
* ColorModel cm
* @throws IJImageIOException when enable to create ImagePlus.
*/
public static ImagePlus create(final String title, final WritableRaster r, ColorModel cm)
throws IJImageIOException {
final DataBuffer db = r.getDataBuffer();
final int numBanks = db.getNumBanks();
if (numBanks > 1 && cm == null) {
throw new IJImageIOException("Don't know what to do with image with no " +
"color model and multiple banks.");
}
final SampleModel sm = r.getSampleModel();
final ImagePlus result;
if (numBanks > 1 || sm.getNumBands() > 1
) {
// If image has multiple banks or multiple color components, assume that it
// is a color image and relay on AWT for proper decoding.
final BufferedImage bi = new BufferedImage(cm, r, false, null);
result = new ImagePlus(title, new ColorProcessor(bi));
} else if (sm.getSampleSize(0) < 8) {
// Temporary fix for less then 8 bit images
final BufferedImage bi = new BufferedImage(cm, r, false, null);
switch (bi.getType()) {
case BufferedImage.TYPE_BYTE_GRAY:
result = new ImagePlus(title, new ByteProcessor(bi));
break;
case BufferedImage.TYPE_BYTE_BINARY:
final int width = bi.getWidth();
final int height = bi.getHeight();
final ByteProcessor bp = new ByteProcessor(width, height);
final Raster data = bi.getData();
final int[] p = new int[1];
for (int y = 0; y < height; y++) {
for (int x = 0; x < width; x++) {
data.getPixel(x, y, p);
bp.set(x, y, p[0]);
}
}
bp.setColorModel(cm);
result = new ImagePlus(title, bp);
break;
default:
throw new IJImageIOException("Unable to process buffered image of type: " + bi.getType());
}
} else {
if (!(cm instanceof IndexColorModel)) {
// Image/J (as of version 1.26r) can not properly deal with non color
// images and ColorModel that is not an instance of IndexedColorModel.
cm = null;
}
final ImageProcessor ip = createProcessor(r.getWidth(), r.getHeight(),
r.getDataBuffer(), cm);
final ImagePlus im = new ImagePlus(title, ip);
// Add calibration function for 'short' pixels
if (db.getDataType() == DataBuffer.TYPE_SHORT) {
final Calibration cal = new Calibration(im);
final double[] coeff = new double[2];
coeff[0] = -32768.0;
coeff[1] = 1.0;
cal.setFunction(Calibration.STRAIGHT_LINE, coeff, "gray value");
im.setCalibration(cal);
} else if (cm == null) {
final Calibration cal = im.getCalibration();
im.setCalibration(null);
final ImageStatistics stats = im.getStatistics();
im.setCalibration(cal);
ip.setMinAndMax(stats.min, stats.max);
im.updateImage();
}
result = im;
}
return result;
}
}
© 2015 - 2025 Weber Informatics LLC | Privacy Policy