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.util.MessageManager;
24 import jalview.util.Platform;
25 import jalview.viewmodel.OverviewDimensions;
26 import jalview.viewmodel.OverviewDimensionsHideHidden;
27 import jalview.viewmodel.OverviewDimensionsShowHidden;
29 import java.awt.BorderLayout;
30 import java.awt.Dimension;
31 import java.awt.event.ActionEvent;
32 import java.awt.event.ActionListener;
33 import java.awt.event.ComponentAdapter;
34 import java.awt.event.ComponentEvent;
35 import java.awt.event.MouseAdapter;
36 import java.awt.event.MouseEvent;
37 import java.awt.event.MouseMotionAdapter;
39 import javax.swing.JCheckBoxMenuItem;
40 import javax.swing.JPanel;
41 import javax.swing.JPopupMenu;
42 import javax.swing.SwingUtilities;
45 * Panel displaying an overview of the full alignment, with an interactive box
46 * representing the viewport onto the alignment.
51 public class OverviewPanel extends JPanel implements Runnable
53 private OverviewDimensions od;
55 private OverviewCanvas oviewCanvas;
57 private AlignViewport av;
59 private AlignmentPanel ap;
61 private JCheckBoxMenuItem displayToggle;
63 private boolean showHidden = true;
66 * Creates a new OverviewPanel object.
69 * The alignment panel which is shown in the overview panel
71 public OverviewPanel(AlignmentPanel alPanel)
76 od = new OverviewDimensionsShowHidden(av.getRanges(),
77 (av.isShowAnnotation() && av
78 .getAlignmentConservationAnnotation() != null));
80 oviewCanvas = new OverviewCanvas(od, av);
81 setLayout(new BorderLayout());
82 add(oviewCanvas, BorderLayout.CENTER);
84 addComponentListener(new ComponentAdapter()
87 public void componentResized(ComponentEvent evt)
89 if ((getWidth() != od.getWidth())
90 || (getHeight() != (od.getHeight())))
92 updateOverviewImage();
97 addMouseMotionListener(new MouseMotionAdapter()
100 public void mouseDragged(MouseEvent evt)
102 if (!SwingUtilities.isRightMouseButton(evt)
103 && !av.getWrapAlignment())
105 od.updateViewportFromMouse(evt.getX(), evt.getY(), av
106 .getAlignment().getHiddenSequences(), av.getAlignment()
107 .getHiddenColumns());
108 ap.setScrollValues(od.getScrollCol(), od.getScrollRow());
113 addMouseListener(new MouseAdapter()
116 public void mousePressed(MouseEvent evt)
118 if (SwingUtilities.isRightMouseButton(evt))
120 if (!Platform.isAMac())
125 else if (!av.getWrapAlignment())
127 od.updateViewportFromMouse(evt.getX(), evt.getY(), av
128 .getAlignment().getHiddenSequences(), av.getAlignment()
129 .getHiddenColumns());
130 ap.setScrollValues(od.getScrollCol(), od.getScrollRow());
135 public void mouseClicked(MouseEvent evt)
137 if (SwingUtilities.isRightMouseButton(evt))
145 updateOverviewImage();
149 * Displays the popup menu and acts on user input
151 private void showPopupMenu(MouseEvent e)
153 JPopupMenu popup = new JPopupMenu();
154 ActionListener menuListener = new ActionListener()
157 public void actionPerformed(ActionEvent event)
159 // switch on/off the hidden columns view
160 toggleHiddenColumns();
161 displayToggle.setSelected(showHidden);
164 displayToggle = new JCheckBoxMenuItem(
165 MessageManager.getString("label.togglehidden"));
166 displayToggle.setEnabled(true);
167 displayToggle.setSelected(showHidden);
168 popup.add(displayToggle);
169 displayToggle.addActionListener(menuListener);
170 popup.show(this, e.getX(), e.getY());
174 * Toggle overview display between showing hidden columns and hiding hidden columns
176 private void toggleHiddenColumns()
181 od = new OverviewDimensionsHideHidden(av.getRanges(),
182 (av.isShowAnnotation() && av
183 .getAlignmentConservationAnnotation() != null));
188 od = new OverviewDimensionsShowHidden(av.getRanges(),
189 (av.isShowAnnotation() && av
190 .getAlignmentConservationAnnotation() != null));
192 oviewCanvas.resetOviewDims(od);
193 updateOverviewImage();
197 * Updates the overview image when the related alignment panel is updated
199 public void updateOverviewImage()
201 if ((getWidth() > 0) && (getHeight() > 0))
203 od.setWidth(getWidth());
204 od.setHeight(getHeight());
207 setPreferredSize(new Dimension(od.getWidth(), od.getHeight()));
209 if (oviewCanvas.restartDraw())
214 Thread thread = new Thread(this);
223 oviewCanvas.draw(av.isShowSequenceFeatures(),
224 (av.isShowAnnotation() && av
225 .getAlignmentConservationAnnotation() != null), ap
226 .getSeqPanel().seqCanvas.getFeatureRenderer());
231 * Update the overview panel box when the associated alignment panel is
235 public void setBoxPosition()
237 od.setBoxPosition(av.getAlignment().getHiddenSequences(), av
238 .getAlignment().getHiddenColumns());