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.renderer.seqfeatures.FeatureColourFinder;
26 import jalview.viewmodel.OverviewDimensions;
28 import java.awt.Color;
29 import java.awt.Dimension;
30 import java.awt.Graphics;
31 import java.awt.image.BufferedImage;
33 import javax.swing.JComponent;
35 public class OverviewCanvas extends JComponent
37 private static final Color TRANS_GREY = new Color(100, 100, 100, 25);
39 // This is set true if the alignment view changes whilst
40 // the overview is being calculated
41 private volatile boolean restart = false;
43 private volatile boolean updaterunning = false;
45 private BufferedImage miniMe;
47 private BufferedImage lastMiniMe = null;
49 // Can set different properties in this seqCanvas than
50 // main visible SeqCanvas
51 private SequenceRenderer sr;
53 private jalview.renderer.seqfeatures.FeatureRenderer fr;
55 private OverviewDimensions od;
57 private AlignViewportI av;
59 public OverviewCanvas(OverviewDimensions overviewDims,
60 AlignViewportI alignvp)
65 sr = new SequenceRenderer(av);
66 sr.renderGaps = false;
67 sr.forOverview = true;
68 fr = new jalview.renderer.seqfeatures.FeatureRenderer(av);
72 * Update the overview dimensions object used by the canvas (e.g. if we change
73 * from showing hidden columns to hiding them or vice versa)
77 public void resetOviewDims(OverviewDimensions overviewDims)
83 * Signals to drawing code that the associated alignment viewport has changed
84 * and a redraw will be required
86 public boolean restartDraw()
103 * Draw the overview sequences
105 * @param showSequenceFeatures
106 * true if sequence features are to be shown
107 * @param showAnnotation
108 * true if the annotation is to be shown
109 * @param transferRenderer
110 * the renderer to transfer feature colouring from
112 public void draw(boolean showSequenceFeatures, boolean showAnnotation,
113 FeatureRenderer transferRenderer)
117 if (showSequenceFeatures)
119 fr.transferSettings(transferRenderer);
121 FeatureColourFinder finder = new FeatureColourFinder(fr);
123 setPreferredSize(new Dimension(od.getWidth(), od.getHeight()));
125 OverviewRenderer or = new OverviewRenderer(sr, finder, od);
126 miniMe = or.draw(od.getRows(av.getAlignment()),
127 od.getColumns(av.getAlignment().getHiddenColumns()));
129 Graphics mg = miniMe.getGraphics();
133 mg.translate(0, od.getSequencesHeight());
134 or.drawGraph(mg, av.getAlignmentConservationAnnotation(),
135 av.getCharWidth(), od.getGraphHeight(),
136 od.getColumns(av.getAlignment().getHiddenColumns()));
137 mg.translate(0, -od.getSequencesHeight());
144 draw(showSequenceFeatures, showAnnotation, transferRenderer);
148 updaterunning = false;
154 public void paintComponent(Graphics g)
158 if (lastMiniMe == null)
160 g.setColor(Color.white);
161 g.fillRect(0, 0, getWidth(), getHeight());
165 g.drawImage(lastMiniMe, 0, 0, getWidth(), getHeight(), this);
167 g.setColor(TRANS_GREY);
168 g.fillRect(0, 0, getWidth(), getHeight());
170 else if (lastMiniMe != null)
172 g.drawImage(lastMiniMe, 0, 0, this);
173 if (lastMiniMe != miniMe)
175 g.setColor(TRANS_GREY);
176 g.fillRect(0, 0, getWidth(), getHeight());
180 g.setColor(Color.red);