/*
* #%L
* OME Bio-Formats package for reading and converting biological file formats.
* %%
* Copyright (C) 2005 - 2015 Open Microscopy Environment:
* - Board of Regents of the University of Wisconsin-Madison
* - Glencoe Software, Inc.
* - University of Dundee
* %%
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as
* published by the Free Software Foundation, either version 2 of the
* License, or (at your option) any later version.
*
* This program 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 General Public License for more details.
*
* You should have received a copy of the GNU General Public
* License along with this program. If not, see
* <http://www.gnu.org/licenses/gpl-2.0.html>.
* #L%
*/
package loci.formats.in;
import java.io.IOException;
import loci.common.DataTools;
import loci.common.RandomAccessInputStream;
import loci.formats.CoreMetadata;
import loci.formats.FormatException;
import loci.formats.FormatReader;
import loci.formats.FormatTools;
import loci.formats.ImageTools;
import loci.formats.MetadataTools;
import loci.formats.meta.MetadataStore;
/**
* CanonRawReader is the file format reader for Canon RAW files.
*/
public class CanonRawReader extends FormatReader {
// -- Constants --
private static final int FILE_LENGTH = 18653760;
private static final int[] COLOR_MAP = {1, 0, 2, 1};
// -- Fields --
private short[] pix;
private byte[] plane;
// -- Constructor --
/** Constructs a new Canon RAW reader. */
public CanonRawReader() {
super("Canon RAW", new String[] {"cr2", "crw", "jpg", "thm", "wav"});
domains = new String[] {FormatTools.GRAPHICS_DOMAIN};
suffixNecessary = false;
suffixSufficient = false;
}
// -- IFormatReader API methods --
/* @see loci.formats.IFormatReader#isThisType(RandomAccessInputStream) */
@Override
public boolean isThisType(RandomAccessInputStream stream) throws IOException {
return stream.length() == FILE_LENGTH;
}
/**
* @see loci.formats.IFormatReader#openBytes(int, byte[], int, int, int, int)
*/
@Override
public byte[] openBytes(int no, byte[] buf, int x, int y, int w, int h)
throws FormatException, IOException
{
FormatTools.checkPlaneParameters(this, no, buf.length, x, y, w, h);
if (plane == null) {
plane = new byte[FormatTools.getPlaneSize(this)];
ImageTools.interpolate(
pix, plane, COLOR_MAP, getSizeX(), getSizeY(), isLittleEndian());
}
RandomAccessInputStream s = new RandomAccessInputStream(plane);
readPlane(s, x, y, w, h, buf);
s.close();
return buf;
}
/* @see loci.formats.IFormatReader#close(boolean) */
@Override
public void close(boolean fileOnly) throws IOException {
super.close(fileOnly);
if (!fileOnly) {
plane = null;
pix = null;
}
}
// -- Internal FormatReader API methods --
/* @see loci.formats.FormatReader#initFile(String) */
@Override
protected void initFile(String id) throws FormatException, IOException {
super.initFile(id);
in = new RandomAccessInputStream(id);
byte[] pixBuffer = new byte[FILE_LENGTH];
in.read(pixBuffer);
// reverse bytes in pairs
for (int i=0; i<pixBuffer.length; i+=2) {
byte v = pixBuffer[i];
pixBuffer[i] = pixBuffer[i + 1];
pixBuffer[i + 1] = v;
}
CoreMetadata m = core.get(0);
m.sizeX = 4080;
m.sizeY = 3048;
m.sizeC = 3;
m.sizeZ = 1;
m.sizeT = 1;
m.imageCount = getSizeZ() * getSizeT();
m.indexed = false;
m.littleEndian = true;
m.dimensionOrder = "XYCZT";
m.pixelType = FormatTools.UINT16;
m.bitsPerPixel = 12;
m.rgb = true;
m.interleaved = true;
pix = new short[getSizeX() * getSizeY() * 3];
int nextByte = 0;
boolean even = true;
int plane = getSizeX() * getSizeY();
for (int row=0; row<getSizeY(); row++) {
int rowOffset = row * getSizeX();
for (int col=0; col<getSizeX(); col++) {
int v = 0;
if (even) {
v = (pixBuffer[nextByte++] & 0xff) << 4 |
((pixBuffer[nextByte] & 0xf0) >> 4);
}
else {
v = ((pixBuffer[nextByte++] & 0xf) << 8) |
(pixBuffer[nextByte++] & 0xff);
}
short val = (short) (v & 0xffff);
even = !even;
int mapIndex = (row % 2) * 2 + (col % 2);
switch (COLOR_MAP[mapIndex]) {
case 0:
pix[rowOffset + col] = val;
break;
case 1:
pix[plane + rowOffset + col] = val;
break;
case 2:
pix[2 * plane + rowOffset + col] = val;
break;
}
}
}
MetadataStore store = makeFilterMetadata();
MetadataTools.populatePixels(store, this);
}
}