//
// SMCameraReader.java
//
/*
OME Bio-Formats package for reading and converting biological file formats.
Copyright (C) 2005-@year@ UW-Madison LOCI and Glencoe Software, Inc.
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, write to the Free Software
Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
*/
package loci.formats.in;
import java.io.IOException;
import loci.common.RandomAccessInputStream;
import loci.formats.FormatException;
import loci.formats.FormatReader;
import loci.formats.FormatTools;
import loci.formats.MetadataTools;
import loci.formats.meta.MetadataStore;
/**
* SMCameraReader is the file format reader for SM camera files.
*
* <dl><dt><b>Source code:</b></dt>
* <dd><a href="http://trac.openmicroscopy.org.uk/ome/browser/bioformats.git/components/bio-formats/src/loci/formats/in/SMCameraReader.java">Trac</a>,
* <a href="http://git.openmicroscopy.org/?p=bioformats.git;a=blob;f=components/bio-formats/src/loci/formats/in/SMCameraReader.java;hb=HEAD">Gitweb</a></dd></dl>
*/
public class SMCameraReader extends FormatReader {
// -- Constants --
private static final byte[] SMC_MAGIC = new byte[] {
0, 0, 0, 0, 2, 0, 0, 5, (byte) 0xc9, (byte) 0x88, 0, 5, (byte) 0xcb,
(byte) 0x88, 0, 0
};
private static final int HEADER_SIZE = 548;
// -- Fields --
// -- Constructor --
/** Constructs a new SM camera reader. */
public SMCameraReader() {
super("SM Camera", "");
domains = new String[] {FormatTools.SEM_DOMAIN};
suffixSufficient = false;
suffixNecessary = false;
}
// -- IFormatReader API methods --
/* @see loci.formats.IFormatReader#isThisType(RandomAccessInputStream) */
public boolean isThisType(RandomAccessInputStream stream) throws IOException {
final int blockLen = 16;
if (!FormatTools.validStream(stream, blockLen, false)) return false;
byte[] magic = new byte[blockLen];
stream.read(magic);
for (int i=0; i<magic.length; i++) {
if (magic[i] != SMC_MAGIC[i]) return false;
}
return true;
}
/**
* @see loci.formats.IFormatReader#openBytes(int, byte[], int, int, int, int)
*/
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);
in.seek(HEADER_SIZE);
readPlane(in, x, y, w, h, buf);
return buf;
}
// -- Internal FormatReader API methods --
/* @see loci.formats.FormatReader#initFile(String) */
protected void initFile(String id) throws FormatException, IOException {
super.initFile(id);
in = new RandomAccessInputStream(id);
in.seek(524);
core[0].sizeY = in.readShort();
in.skipBytes(6);
core[0].sizeX = in.readShort();
core[0].pixelType = FormatTools.UINT8;
core[0].sizeZ = 1;
core[0].sizeC = 1;
core[0].sizeT = 1;
core[0].imageCount = 1;
core[0].dimensionOrder = "XYZCT";
core[0].littleEndian = false;
addGlobalMeta("Image width", getSizeX());
addGlobalMeta("Image height", getSizeY());
MetadataStore store = makeFilterMetadata();
MetadataTools.populatePixels(store, this);
MetadataTools.setDefaultCreationDate(store, currentId, 0);
}
}