/* * BioJava development code * * This code may be freely distributed and modified under the * terms of the GNU Lesser General Public Licence. This should * be distributed with the code. If you do not have a copy, * see: * * http://www.gnu.org/copyleft/lesser.html * * Copyright for this code is held jointly by the individual * authors. These should be listed in @author doc comments. * * For more information on the BioJava project and its aims, * or to join the biojava-l mailing list, visit the home page * at: * * http://www.biojava.org/ * */ package org.biojava.bio.gui.sequence; import java.awt.Graphics2D; import java.awt.Rectangle; import java.awt.event.MouseEvent; import java.awt.geom.AffineTransform; import java.io.Serializable; import java.net.URL; import org.biojava.bio.seq.Feature; import org.biojava.bio.seq.FeatureHolder; import org.biojava.bio.seq.OptimizableFilter; import org.biojava.bio.symbol.Location; import org.biojava.utils.ChangeVetoException; import org.biojava.utils.net.URLFactory; /** * RectangularImapRenderer is a decorator for * RectangularBeadRenderer which adds the ability to * create HTML image map coordinates which correspond to the feature * rendering produced by the RectangularBeadRenderer. * * @author Keith James * @since 1.3 */ public class RectangularImapRenderer implements BeadFeatureRenderer, ImageMapRenderer, Serializable { private RectangularBeadRenderer renderer; private ImageMap imageMap; private URLFactory urlFactory; /** * Creates a new RectangularImapRenderer. * * @param renderer a RectangularBeadRenderer. * @param imageMap an ImageMap. * @param urlFactory a URLFactory which should be * capable of creating a suitable URL from each * Feature on the Sequence to be * rendered. */ public RectangularImapRenderer(RectangularBeadRenderer renderer, ImageMap imageMap, URLFactory urlFactory) { this.renderer = renderer; this.imageMap = imageMap; this.urlFactory = urlFactory; } /** * getImageMap returns the current image map. * * @return an ImageMap. */ public ImageMap getImageMap() { return imageMap; } /** * setImageMap sets the current image map. * * @param imageMap an ImageMap. */ public void setImageMap(ImageMap imageMap) { this.imageMap = imageMap; } /** * setDelegateRenderer for the specified filter. * * @param filter an OptimizableFilter. * @param renderer a BeadFeatureRenderer. */ public void setDelegateRenderer(OptimizableFilter filter, BeadFeatureRenderer renderer) { this.renderer.setDelegateRenderer(filter, renderer); } /** *

renderImageMap writes a set of image map * coordinates corresponding to the rectangle drawn by the * renderer. The hotspots created by this method have the rendered * Feature set as their user object.

* *

This method is called by renderFeature when a * raster image is rendered.

* * @param g2 a Graphics2D. * @param f a Feature. * @param context a SequenceRenderContext. */ public void renderImageMap(Graphics2D g2, Feature f, SequenceRenderContext context) { Rectangle bounds = g2.getDeviceConfiguration().getBounds(); // Safe to cast as bounds come from raster int mapWidth = (int) bounds.getWidth(); int mapHeight = (int) bounds.getHeight(); URL url = urlFactory.createURL(f); double beadDepth = getBeadDepth(); double beadDisplacement = getBeadDisplacement(); boolean scaleHeight = getHeightScaling(); AffineTransform t = g2.getTransform(); double transX = t.getTranslateX(); double transY = t.getTranslateY(); int min, max, dif, x1, y1, x2, y2; double posXW, posYN, width, height; Location loc = f.getLocation(); min = loc.getMin(); max = loc.getMax(); dif = max - min; if (context.getDirection() == SequenceRenderContext.HORIZONTAL) { posXW = context.sequenceToGraphics(min); posYN = beadDisplacement; width = Math.max(((double) (dif + 1)) * context.getScale(), 1.0); if (scaleHeight) { height = Math.min(beadDepth, width / 2.0); // If the bead height occupies less than the full height // of the renderer, move it down so that it is central if (height < beadDepth) posYN += ((beadDepth - height) / 2.0); } else { height = beadDepth; } } else { posXW = beadDisplacement; posYN = context.sequenceToGraphics(min); height = Math.max(((double) dif + 1) * context.getScale(), 1.0); if (scaleHeight) { width = Math.min(beadDepth, height / 2.0); if (width < beadDepth) posXW += ((beadDepth - width) / 2.0); } else { width = beadDepth; } } // Apply translation and round x1 = (int) Math.floor(posXW + transX); y1 = (int) Math.floor(posYN + transY); x2 = (int) Math.floor(posXW + width + transX); y2 = (int) Math.floor(posYN + height + transY); // If the whole rectangle is outside the image then ignore // it if (! (x1 > mapWidth || y1 > mapHeight || x2 < 0 || y2 < 0)) { x1 = Math.max(x1, 0); y1 = Math.max(y1, 0); x2 = Math.min(x2, mapWidth); y2 = Math.min(y2, mapHeight); Integer [] coordinates = new Integer[4]; coordinates[0] = new Integer(x1); coordinates[1] = new Integer(y1); coordinates[2] = new Integer(x2); coordinates[3] = new Integer(y2); imageMap.addHotSpot(new ImageMap.HotSpot(ImageMap.RECT, url, coordinates, f)); } } public void renderFeature(Graphics2D g2, Feature f, SequenceRenderContext context) { renderImageMap(g2, f, context); renderer.renderFeature(g2, f, context); } public void renderBead(Graphics2D g2, Feature f, SequenceRenderContext context) { renderer.renderBead(g2, f, context); } public double getDepth(SequenceRenderContext context) { return renderer.getDepth(context); } public double getBeadDepth() { return renderer.getBeadDepth(); } public double getBeadDisplacement() { return renderer.getBeadDisplacement(); } /** * getHeightScaling returns the state of the height * scaling policy. * * @return a boolean true if height scaling is * enabled. */ public boolean getHeightScaling() { return renderer.getHeightScaling(); } /** * setHeightScaling sets the height scaling * policy. Default behaviour is for this to be enabled leading to * features being drawn with a height equal to half their width, * subject to a maximum height restriction equal to the * beadDepth set in the constructor. If disabled, * features will always be drawn at the maximum height allowed by * the beadDepth parameter. * * @param isEnabled a boolean. * * @exception ChangeVetoException if an error occurs. */ public void setHeightScaling(boolean isEnabled) throws ChangeVetoException { renderer.setHeightScaling(isEnabled); } public FeatureHolder processMouseEvent(FeatureHolder holder, SequenceRenderContext context, MouseEvent mEvent) { return renderer.processMouseEvent(holder, context, mEvent); } }