2 * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
3 * Copyright (C) $$Year-Rel$$ The Jalview Authors
5 * This file is part of Jalview.
7 * Jalview is free software: you can redistribute it and/or
8 * modify it under the terms of the GNU General Public License
9 * as published by the Free Software Foundation, either version 3
10 * of the License, or (at your option) any later version.
12 * Jalview is distributed in the hope that it will be useful, but
13 * WITHOUT ANY WARRANTY; without even the implied warranty
14 * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
15 * PURPOSE. See the GNU General Public License for more details.
17 * You should have received a copy of the GNU General Public License
18 * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
19 * The Jalview Authors are detailed in the 'AUTHORS' file.
23 import jalview.api.AlignViewportI;
24 import jalview.renderer.OverviewRenderer;
25 import jalview.viewmodel.OverviewDimensions;
27 import java.awt.AlphaComposite;
28 import java.awt.Color;
29 import java.awt.Graphics;
30 import java.awt.Graphics2D;
31 import java.awt.event.ActionEvent;
32 import java.awt.event.ActionListener;
33 import java.awt.image.BufferedImage;
35 import javax.swing.JComponent;
36 import javax.swing.Timer;
38 public class OverviewCanvas extends JComponent
40 private static final long RUNNING_TIME = 1000;
42 private static final int SPEED = 40;
44 private static final Color TRANS_GREY = new Color(100, 100, 100, 25);
46 // This is set true if the alignment view changes whilst
47 // the overview is being calculated
48 private volatile boolean restart = false;
50 private volatile boolean updaterunning = false;
52 private boolean dispose = false;
54 private BufferedImage miniMe;
56 private BufferedImage lastMiniMe = null;
58 private BufferedImage veryLastMiniMe = null;
60 // Can set different properties in this seqCanvas than
61 // main visible SeqCanvas
62 private SequenceRenderer sr;
64 private jalview.renderer.seqfeatures.FeatureRenderer fr;
66 private OverviewDimensions od;
68 private OverviewRenderer or = null;
70 private AlignViewportI av;
72 private float alpha = 0f;
74 private long startTime = -1;
76 private final Timer timer;
78 private ProgressPanel progressPanel;
80 public OverviewCanvas(OverviewDimensions overviewDims,
81 AlignViewportI alignvp, ProgressPanel pp)
87 sr = new SequenceRenderer(av);
88 sr.renderGaps = false;
89 sr.forOverview = true;
90 fr = new jalview.renderer.seqfeatures.FeatureRenderer(av);
92 setSize(od.getWidth(), od.getHeight());
94 timer = new Timer(SPEED, new ActionListener()
98 public void actionPerformed(ActionEvent e)
102 startTime = System.currentTimeMillis();
107 long time = System.currentTimeMillis();
108 long duration = time - startTime;
109 if (duration >= RUNNING_TIME)
112 ((Timer) e.getSource()).stop();
117 alpha = 1f - ((float) duration / (float) RUNNING_TIME);
126 * Update the overview dimensions object used by the canvas (e.g. if we change
127 * from showing hidden columns to hiding them or vice versa)
129 * @param overviewDims
131 public void resetOviewDims(OverviewDimensions overviewDims)
137 * Signals to drawing code that the associated alignment viewport has changed
138 * and a redraw will be required
140 public boolean restartDraw()
154 updaterunning = true;
161 * Draw the overview sequences
163 * @param showSequenceFeatures
164 * true if sequence features are to be shown
165 * @param showAnnotation
166 * true if the annotation is to be shown
167 * @param transferRenderer
168 * the renderer to transfer feature colouring from
170 public void draw(boolean showSequenceFeatures, boolean showAnnotation,
171 FeatureRenderer transferRenderer)
174 veryLastMiniMe = lastMiniMe;
176 if (showSequenceFeatures)
178 fr.transferSettings(transferRenderer);
181 or = new OverviewRenderer(sr, fr, od);
182 or.addPropertyChangeListener(progressPanel);
183 miniMe = or.draw(od.getRows(av.getAlignment()),
184 od.getColumns(av.getAlignment()));
186 Graphics mg = miniMe.getGraphics();
190 mg.translate(0, od.getSequencesHeight());
191 or.drawGraph(mg, av.getAlignmentConservationAnnotation(),
192 av.getCharWidth(), od.getGraphHeight(),
193 od.getColumns(av.getAlignment()));
194 mg.translate(0, -od.getSequencesHeight());
198 or.removePropertyChangeListener(progressPanel);
205 draw(showSequenceFeatures, showAnnotation, transferRenderer);
210 updaterunning = false;
218 public void paintComponent(Graphics g)
222 if (lastMiniMe == null)
224 g.setColor(Color.white);
225 g.fillRect(0, 0, getWidth(), getHeight());
229 g.drawImage(lastMiniMe, 0, 0, getWidth(), getHeight(), this);
231 g.setColor(TRANS_GREY);
232 g.fillRect(0, 0, getWidth(), getHeight());
234 else if (lastMiniMe != null)
237 if ((getWidth() > 0) && (getHeight() > 0)
238 && ((getWidth() != od.getWidth())
239 || (getHeight() != od.getHeight())))
241 // if there is annotation, scale the alignment and annotation separately
242 if (od.getGraphHeight() > 0)
244 BufferedImage topImage = lastMiniMe.getSubimage(0, 0,
245 od.getWidth(), od.getSequencesHeight());
246 BufferedImage bottomImage = lastMiniMe.getSubimage(0,
247 od.getSequencesHeight(), od.getWidth(),
248 od.getGraphHeight());
250 // must be done at this point as we rely on using old width/height
251 // above, and new width/height below
252 od.setWidth(getWidth());
253 od.setHeight(getHeight());
255 // stick the images back together so lastMiniMe is consistent in the
256 // event of a repaint - BUT probably not thread safe
257 lastMiniMe = new BufferedImage(od.getWidth(), od.getHeight(),
258 BufferedImage.TYPE_INT_RGB);
259 Graphics lg = lastMiniMe.getGraphics();
260 lg.drawImage(topImage, 0, 0, od.getWidth(),
261 od.getSequencesHeight(), null);
262 lg.drawImage(bottomImage, 0, od.getSequencesHeight(),
263 od.getWidth(), od.getGraphHeight(), this);
268 od.setWidth(getWidth());
269 od.setHeight(getHeight());
272 // scale lastMiniMe to the new size
273 g.drawImage(lastMiniMe, 0, 0, getWidth(), getHeight(), this);
275 // make sure the box is in the right place
276 od.setBoxPosition(av.getAlignment().getHiddenSequences(),
277 av.getAlignment().getHiddenColumns());
281 if (alpha != 0) // this is a timer triggered dissolve
283 Graphics2D g2d = (Graphics2D) g.create();
285 // draw the original image
286 g2d.drawImage(veryLastMiniMe, 0, 0, getWidth(), getHeight(),
289 // draw the new image on top with varying degrees of transparency
290 g2d.setComposite(AlphaComposite.SrcOver.derive(1f - alpha));
291 g2d.drawImage(lastMiniMe, 0, 0, getWidth(), getHeight(), this);
297 // fall back to normal behaviour
298 g.drawImage(lastMiniMe, 0, 0, getWidth(), getHeight(), this);
304 g.setColor(Color.red);
308 public void dispose()