Hello please find below some code I wrote to use the jpeg codec which is a
standard part of the java 1.3 package. There is also batik (svg) code in
there. Hopefully, you'll find this code helpful.
-Brian
-----------------------
Brian Gilman <[EMAIL PROTECTED]>
Sr. Software Engineer MIT/Whitehead Inst. Center for Genome Research
One Kendall Square, Bldg. 300 / Cambridge, MA 02139-1561 USA
phone +1 617 252 1069 / fax +1 617 252 1902
On Sat, 12 Jan 2002, Mark Schreiber wrote:
> Hi I have been meaning to post this for a while, It is some source for a
> logoPainter that I made for an upcomming bioinformatics paper regarding
> the correction for signals in a biased genome.
>
> It is based on a Biojava-live (although perhaps a slightly earlier
> release so it made need the odd tweak) Anyhow it demonstrates some writing
> to Jpeg Tiff bmp etc. Uses the Java Advanced Image Library (JAI 1.1 from
> Sun). Please feel free to use / review the code as you see fit. Perhaps
> ask permission before selling it ;)
>
> I would be happy for it to be made part of the CVS if people want. It
> could probably do with some peer review so to speak as it has a few rough
> edges in the code that others might be able to make more elegant.
>
> Enjoy
>
> Mark
>
>
>
> On Fri, 11 Jan 2002, Bert Coessens wrote:
>
> > Dear all,
> >
> > Does anybody know how to write a graphics object to a jpeg file? I
> > already tried almost everything but still with no result. The code
> > beneath is what I think should work, but if I run it, I only get a black
> > image of 300 by 300. Can anybody tell me what I'm doing wrong?
> >
> > * variable dist is some distance
> > * sLogo is not a null object, I can visualise it inside a JFrame object
> >
> > code:
> > {
> > DistributionLogo sLogo = new DistributionLogo();
> > TextLogoPainter logoPainter = new TextLogoPainter();
> > sLogo.setLogoPainter(logoPainter);
> > sLogo.setStyle(new DNAStyle());
> > sLogo.setDistribution(dist);
> >
> > BufferedImage bufIm = new BufferedImage(300, 300,
> > BufferedImage.TYPE_INT_RGB);
> > Graphics g = bufIm.createGraphics();
> > logoPainter.paintLogo(g, sLogo);
> >
> > File outfile = new File("motif.jpeg");
> > FileOutputStream outstream = new FileOutputStream(outfile);
> > com.sun.image.codec.jpeg.JPEGImageEncoder encoder =
> >
> > com.sun.image.codec.jpeg.JPEGCodec.createJPEGEncoder(outstream);
> > encoder.encode(img);
> > }
> >
> > Thanks in advance!!
> > Bert
> >
> > _______________________________________________
> > Biojava-l mailing list - [EMAIL PROTECTED]
> > http://biojava.org/mailman/listinfo/biojava-l
> >
>
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> Mark Schreiber Ph: 64 3 4797875
> Rm 218 email [EMAIL PROTECTED]
> Department of Biochemistry
> University of Otago
> PO Box 56
> Dunedin
> New Zealand
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
package org.ensembl.draw;
import javax.swing.*;
import java.awt.*;
import java.awt.event.*;
import java.awt.image.*;
import java.io.*;
/*******************
* For SVG Generation
* Added 12/08/01
*******************/
import org.apache.batik.svggen.*;
import org.apache.batik.dom.*;
import org.w3c.dom.*;
import org.apache.batik.transcoder.*;
import org.apache.batik.transcoder.image.*;
import org.apache.batik.bridge.*;
import org.apache.fop.svg.*;
import org.apache.fop.*;
import com.sun.image.codec.jpeg.*;
/*
* WHITEHEAD INSTITUTE
* SOFTWARE COPYRIGHT NOTICE AGREEMENT
* This software and its documentation are copyright 2001 by the
* Whitehead Institute for Biomedical Research. All rights are reserved.
*
* This software is supplied without any warranty or guaranteed support
* whatsoever. The Whitehead Institute can not be responsible for its
* use, misuse, or functionality.
*
* We would like to thank Ewan Birney and the Ensembl team at the Sanger Centre
* for providing the original source code which was used as a template for this
* API and code base.
*
*@author John Mayer and the OmniGene team
*/
public class ContigView extends JPanel {
public ChromPane chromPane;
public OverviewPane overviewPane;
public DetailedPane detailedPane;
int width = 800;
OmniView appFrame;
ContigView(OmniView appFrame) {
this.appFrame = appFrame;
setLayout(null);
setBackground(Color.white);
detailedPane = new DetailedPane(appFrame,this);
chromPane = new ChromPane(appFrame,this,detailedPane.selPanel);
overviewPane = new OverviewPane(appFrame,this,detailedPane.selPanel);
detailedPane.refreshConfig();
position();
PopupManager popMan = new PopupManager(this);
addMouseListener(popMan);
addMouseMotionListener(popMan);
JMenuBar mbar = new JMenuBar();
JMenu fileMenu = new JMenu("File");
JMenu editMenu = new JMenu("Edit");
JMenuItem exitItem = new JMenuItem("Exit");
JMenuItem optionItem = new JMenuItem("Options");
JMenu exportItem = new JMenu("Export...");
JMenuItem asSVG = new JMenuItem("As SVG");
JMenuItem asPDF = new JMenuItem("As PDF");
JMenuItem asJPEG =new JMenuItem("As JPEG");
optionItem.addActionListener(new ConfigurationHandler(appFrame, this) );
asSVG.addActionListener(new ExportHandler(this, "svg"));
asPDF.addActionListener(new ExportHandler(this,"pdf"));
asJPEG.addActionListener(new ExportHandler(this,"jpeg"));
appFrame.setJMenuBar(mbar);
mbar.add(fileMenu);
mbar.add(editMenu);
fileMenu.add(exportItem);
fileMenu.add(exitItem);
editMenu.add(optionItem);
exportItem.add(asSVG);
exportItem.add(asPDF);
exportItem.add(asJPEG);
exitItem.addActionListener(new ActionListener() {
public void actionPerformed(ActionEvent ae) {
System.exit(0);
}
});
}
void position() {
Dimension chromDim = chromPane.plannedSize(),
overviewDim = overviewPane.plannedSize(),
detailedDim = detailedPane.plannedSize();
int overviewTop = chromDim.height;
int detailedviewTop = overviewTop+overviewDim.height;
chromPane.position(0,0,width,chromDim.height);
overviewPane.position(0,overviewTop,width,overviewDim.height);
detailedPane.position(0,detailedviewTop,width,detailedDim.height);
}
public Pane paneIncludingPoint(int x, int y) {
Dimension chromDim = chromPane.plannedSize(),
overviewDim = overviewPane.plannedSize(),
detailedDim = detailedPane.plannedSize();
int overviewTop = chromDim.height;
int detailedviewTop = overviewTop+overviewDim.height;
if (new Rectangle(0,0,width,chromDim.height).contains(x,y))
return chromPane;
if (new Rectangle(0,overviewTop,width,overviewDim.height).contains(x,y))
return overviewPane;
if (new Rectangle(0,detailedviewTop,width,detailedDim.height).contains(x,y))
return detailedPane;
return null;
}
BufferedImage bufferImage;
public void paintComponent(Graphics g) {
super.paintComponent(g);
if (plannedSize().height == 0) return;
bufferImage = new BufferedImage(width,plannedSize().height,
BufferedImage.TYPE_INT_RGB);
Graphics bufferg = bufferImage.getGraphics();
super.paintComponent(bufferg);
chromPane.paint(bufferg);
overviewPane.paint(bufferg);
detailedPane.paint(bufferg);
g.drawImage(bufferImage,0,0,this);
}
public Dimension getPreferredSize() {
return plannedSize();
}
Dimension plannedSize() {
int plannedHeight =
chromPane.plannedSize().height +
overviewPane.plannedSize().height +
detailedPane.plannedSize().height;
return new Dimension(800,plannedHeight);
}
public void exportAsSVG() throws IOException,
UnsupportedEncodingException,FileNotFoundException{
//Get an instance of a DOM tree to represent the graphics in this pane
DOMImplementation domImpl = GenericDOMImplementation.getDOMImplementation();
//Get an instance document
Document doc = domImpl.createDocument(null, "svg", null);
//Create an instance of an SVG Generator
SVGGraphics2D svgGen = new SVGGraphics2D(doc);
//send the genetator to our paint routine
this.paintComponent(svgGen);
//now stream this all out as SVG
boolean useCSS = true;
Writer out = new OutputStreamWriter(new FileOutputStream("./Output.svg"),
"UTF-8");
svgGen.stream(out,useCSS);
out.close();
}
public void exportAsJPEG() throws IOException,FileNotFoundException{
OutputStream out = new FileOutputStream("Output.jpeg");
JPEGImageEncoder encoder = JPEGCodec.createJPEGEncoder(out);
encoder.encode(bufferImage);
out.flush();
out.close();
}
public void exportAsPDF() throws IOException,
UnsupportedEncodingException,FileNotFoundException,TranscoderException{
//first export this as an SVG
exportAsSVG();
//now get in instance of a JPEG transcoder
PDFTranscoder t = new PDFTranscoder();
//set some transcoding hints...
//t.addTranscodingHint(JPEGTranscoder.KEY_QUALITY, new Float(.8));
//t.addTranscodingHint(JPEGTranscoder.KEY_WIDTH, new Integer(100));
//get the SVGFile we created
TranscoderInput input = new TranscoderInput(new
File("Output.svg").toURL().toString());
//Create an output
OutputStream ostream = new FileOutputStream("Output.pdf");
TranscoderOutput output = new TranscoderOutput(ostream);
//save the image
t.transcode(input, output);
//flush everything down the pipe
ostream.flush();
ostream.close();
}
}
