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package jalview.gui; |
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import jalview.datamodel.ColumnSelection; |
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import jalview.datamodel.HiddenColumns; |
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import jalview.datamodel.SequenceGroup; |
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import jalview.datamodel.SequenceI; |
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import jalview.renderer.ScaleRenderer; |
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import jalview.renderer.ScaleRenderer.ScaleMark; |
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import jalview.util.MessageManager; |
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import jalview.util.Platform; |
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import jalview.viewmodel.ViewportListenerI; |
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import jalview.viewmodel.ViewportRanges; |
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import java.awt.Color; |
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import java.awt.FontMetrics; |
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import java.awt.Graphics; |
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import java.awt.Graphics2D; |
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import java.awt.Point; |
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import java.awt.RenderingHints; |
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import java.awt.event.ActionEvent; |
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import java.awt.event.ActionListener; |
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import java.awt.event.MouseEvent; |
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import java.awt.event.MouseListener; |
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import java.awt.event.MouseMotionListener; |
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import java.beans.PropertyChangeEvent; |
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import java.util.Iterator; |
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import java.util.List; |
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import javax.swing.JMenuItem; |
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import javax.swing.JPanel; |
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import javax.swing.JPopupMenu; |
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import javax.swing.SwingUtilities; |
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import javax.swing.ToolTipManager; |
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| 29.4% |
Uncovered Elements: 180 (255) |
Complexity: 57 |
Complexity Density: 0.34 |
|
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public class ScalePanel extends JPanel |
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implements MouseMotionListener, MouseListener, ViewportListenerI |
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{ |
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protected int offy = 4; |
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public int width; |
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protected AlignViewport av; |
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AlignmentPanel ap; |
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boolean stretchingGroup = false; |
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int min; |
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int max; |
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boolean mouseDragging = false; |
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int[] reveal; |
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@param |
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@param |
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| 100% |
Uncovered Elements: 0 (5) |
Complexity: 1 |
Complexity Density: 0.2 |
|
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public ScalePanel(AlignViewport av, AlignmentPanel ap)... |
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{ |
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this.av = av; |
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this.ap = ap; |
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addMouseListener(this); |
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addMouseMotionListener(this); |
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av.getRanges().addPropertyChangeListener(this); |
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} |
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@param |
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| 0% |
Uncovered Elements: 22 (22) |
Complexity: 6 |
Complexity Density: 0.43 |
|
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@Override... |
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public void mousePressed(MouseEvent evt) |
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{ |
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int x = (evt.getX() / av.getCharWidth()) + av.getRanges().getStartRes(); |
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final int res; |
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if (av.hasHiddenColumns()) |
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{ |
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x = av.getAlignment().getHiddenColumns().visibleToAbsoluteColumn(x); |
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} |
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if (x >= av.getAlignment().getWidth()) |
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{ |
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res = av.getAlignment().getWidth() - 1; |
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} |
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else |
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{ |
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res = x; |
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} |
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min = res; |
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max = res; |
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if (evt.isPopupTrigger()) |
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{ |
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rightMouseButtonPressed(evt, res); |
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} |
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else if (SwingUtilities.isRightMouseButton(evt) && !Platform.isAMac()) |
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{ |
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return; |
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} |
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else |
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{ |
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leftMouseButtonPressed(evt, res); |
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} |
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} |
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@param |
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@param |
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| 0% |
Uncovered Elements: 21 (21) |
Complexity: 4 |
Complexity Density: 0.27 |
|
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protected void rightMouseButtonPressed(MouseEvent evt, final int res)... |
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{ |
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JPopupMenu pop = new JPopupMenu(); |
162 |
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if (reveal != null) |
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{ |
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JMenuItem item = new JMenuItem( |
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MessageManager.getString("label.reveal")); |
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item.addActionListener(new ActionListener() |
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{ |
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| 0% |
Uncovered Elements: 4 (4) |
Complexity: 1 |
Complexity Density: 0.25 |
|
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0 |
@Override... |
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public void actionPerformed(ActionEvent e) |
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{ |
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av.showColumn(reveal[0]); |
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reveal = null; |
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ap.paintAlignment(true, true); |
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av.sendSelection(); |
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} |
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}); |
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pop.add(item); |
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if (av.getAlignment().getHiddenColumns().hasMultiHiddenColumnRegions()) |
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{ |
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item = new JMenuItem(MessageManager.getString("action.reveal_all")); |
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item.addActionListener(new ActionListener() |
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{ |
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| 0% |
Uncovered Elements: 4 (4) |
Complexity: 1 |
Complexity Density: 0.25 |
|
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0 |
@Override... |
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public void actionPerformed(ActionEvent e) |
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{ |
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av.showAllHiddenColumns(); |
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reveal = null; |
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ap.paintAlignment(true, true); |
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av.sendSelection(); |
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} |
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}); |
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pop.add(item); |
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} |
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pop.show(this, evt.getX(), evt.getY()); |
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} |
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else if (av.getColumnSelection().contains(res)) |
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{ |
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JMenuItem item = new JMenuItem( |
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MessageManager.getString("label.hide_columns")); |
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item.addActionListener(new ActionListener() |
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{ |
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| 0% |
Uncovered Elements: 7 (7) |
Complexity: 3 |
Complexity Density: 0.6 |
|
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0 |
@Override... |
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public void actionPerformed(ActionEvent e) |
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{ |
206 |
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av.hideColumns(res, res); |
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if (av.getSelectionGroup() != null && av.getSelectionGroup() |
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.getSize() == av.getAlignment().getHeight()) |
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{ |
210 |
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av.setSelectionGroup(null); |
211 |
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} |
212 |
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|
213 |
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ap.paintAlignment(true, true); |
214 |
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av.sendSelection(); |
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} |
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}); |
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pop.add(item); |
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pop.show(this, evt.getX(), evt.getY()); |
219 |
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} |
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} |
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223 |
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|
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@param |
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@param |
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| 0% |
Uncovered Elements: 29 (29) |
Complexity: 6 |
Complexity Density: 0.29 |
|
228 |
0 |
protected void leftMouseButtonPressed(MouseEvent evt, final int res)... |
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{ |
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231 |
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235 |
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if (!Platform.isControlDown(evt) && !evt.isShiftDown()) |
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{ |
237 |
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av.getColumnSelection().clear(); |
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} |
239 |
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|
240 |
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av.getColumnSelection().addElement(res); |
241 |
0 |
SequenceGroup sg = new SequenceGroup(); |
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|
243 |
0 |
SequenceI[] iVec = av.getAlignment().getSequencesArray(); |
244 |
0 |
for (int i = 0; i < iVec.length; i++) |
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{ |
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0 |
sg.addSequence(iVec[i], false); |
247 |
0 |
iVec[i] = null; |
248 |
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} |
249 |
0 |
iVec = null; |
250 |
0 |
sg.setStartRes(res); |
251 |
0 |
sg.setEndRes(res); |
252 |
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|
253 |
0 |
if (evt.isShiftDown()) |
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{ |
255 |
0 |
int min = Math.min(av.getColumnSelection().getMin(), res); |
256 |
0 |
int max = Math.max(av.getColumnSelection().getMax(), res); |
257 |
0 |
for (int i = min; i < max; i++) |
258 |
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{ |
259 |
0 |
av.getColumnSelection().addElement(i); |
260 |
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} |
261 |
0 |
sg.setStartRes(min); |
262 |
0 |
sg.setEndRes(max); |
263 |
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} |
264 |
0 |
av.setSelectionGroup(sg); |
265 |
0 |
ap.paintAlignment(false, false); |
266 |
0 |
av.sendSelection(); |
267 |
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} |
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269 |
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270 |
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271 |
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272 |
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273 |
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@param |
274 |
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| 0% |
Uncovered Elements: 32 (32) |
Complexity: 7 |
Complexity Density: 0.35 |
|
275 |
0 |
@Override... |
276 |
|
public void mouseReleased(MouseEvent evt) |
277 |
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{ |
278 |
0 |
mouseDragging = false; |
279 |
0 |
ap.getSeqPanel().stopScrolling(); |
280 |
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|
281 |
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|
282 |
0 |
int res = (evt.getX() / av.getCharWidth()) |
283 |
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+ av.getRanges().getStartRes(); |
284 |
0 |
if (av.hasHiddenColumns()) |
285 |
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{ |
286 |
0 |
res = av.getAlignment().getHiddenColumns() |
287 |
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.visibleToAbsoluteColumn(res); |
288 |
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} |
289 |
0 |
res = Math.min(res, av.getAlignment().getWidth() - 1); |
290 |
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|
291 |
0 |
if (!stretchingGroup) |
292 |
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{ |
293 |
0 |
if (evt.isPopupTrigger()) |
294 |
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{ |
295 |
0 |
rightMouseButtonPressed(evt, res); |
296 |
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} |
297 |
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else |
298 |
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{ |
299 |
0 |
ap.paintAlignment(false, false); |
300 |
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} |
301 |
0 |
return; |
302 |
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} |
303 |
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|
304 |
0 |
SequenceGroup sg = av.getSelectionGroup(); |
305 |
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|
306 |
0 |
if (sg != null) |
307 |
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{ |
308 |
0 |
if (res > sg.getStartRes()) |
309 |
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{ |
310 |
0 |
sg.setEndRes(res); |
311 |
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} |
312 |
0 |
else if (res < sg.getStartRes()) |
313 |
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{ |
314 |
0 |
sg.setStartRes(res); |
315 |
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} |
316 |
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} |
317 |
0 |
stretchingGroup = false; |
318 |
0 |
ap.paintAlignment(false, false); |
319 |
0 |
av.sendSelection(); |
320 |
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} |
321 |
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322 |
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323 |
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324 |
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325 |
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326 |
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@param |
327 |
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| 0% |
Uncovered Elements: 16 (16) |
Complexity: 2 |
Complexity Density: 0.14 |
|
328 |
0 |
@Override... |
329 |
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public void mouseDragged(MouseEvent evt) |
330 |
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{ |
331 |
0 |
mouseDragging = true; |
332 |
0 |
ColumnSelection cs = av.getColumnSelection(); |
333 |
0 |
HiddenColumns hidden = av.getAlignment().getHiddenColumns(); |
334 |
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|
335 |
0 |
int res = (evt.getX() / av.getCharWidth()) |
336 |
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+ av.getRanges().getStartRes(); |
337 |
0 |
res = Math.max(0, res); |
338 |
0 |
res = hidden.visibleToAbsoluteColumn(res); |
339 |
0 |
res = Math.min(res, av.getAlignment().getWidth() - 1); |
340 |
0 |
min = Math.min(res, min); |
341 |
0 |
max = Math.max(res, max); |
342 |
|
|
343 |
0 |
SequenceGroup sg = av.getSelectionGroup(); |
344 |
0 |
if (sg != null) |
345 |
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{ |
346 |
0 |
stretchingGroup = true; |
347 |
0 |
cs.stretchGroup(res, sg, min, max); |
348 |
0 |
ap.paintAlignment(false, false); |
349 |
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} |
350 |
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} |
351 |
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|
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| 0% |
Uncovered Elements: 5 (5) |
Complexity: 2 |
Complexity Density: 0.67 |
|
352 |
0 |
@Override... |
353 |
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public void mouseEntered(MouseEvent evt) |
354 |
|
{ |
355 |
0 |
if (mouseDragging) |
356 |
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{ |
357 |
0 |
mouseDragging = false; |
358 |
0 |
ap.getSeqPanel().stopScrolling(); |
359 |
|
} |
360 |
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} |
361 |
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|
362 |
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|
363 |
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|
364 |
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|
365 |
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|
366 |
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|
367 |
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|
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|
| 0% |
Uncovered Elements: 4 (4) |
Complexity: 2 |
Complexity Density: 1 |
|
368 |
0 |
@Override... |
369 |
|
public void mouseExited(MouseEvent evt) |
370 |
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{ |
371 |
0 |
if (mouseDragging) |
372 |
|
{ |
373 |
0 |
ap.getSeqPanel().startScrolling(new Point(evt.getX(), 0)); |
374 |
|
} |
375 |
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} |
376 |
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| - |
Uncovered Elements: 0 (0) |
Complexity: 1 |
Complexity Density: - |
|
377 |
0 |
@Override... |
378 |
|
public void mouseClicked(MouseEvent evt) |
379 |
|
{ |
380 |
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} |
381 |
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|
382 |
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|
383 |
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|
384 |
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|
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| 0% |
Uncovered Elements: 12 (12) |
Complexity: 2 |
Complexity Density: 0.2 |
|
385 |
0 |
@Override... |
386 |
|
public void mouseMoved(MouseEvent evt) |
387 |
|
{ |
388 |
0 |
this.setToolTipText(null); |
389 |
0 |
reveal = null; |
390 |
0 |
if (!av.hasHiddenColumns()) |
391 |
|
{ |
392 |
0 |
return; |
393 |
|
} |
394 |
|
|
395 |
0 |
int res = (evt.getX() / av.getCharWidth()) |
396 |
|
+ av.getRanges().getStartRes(); |
397 |
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|
398 |
0 |
reveal = av.getAlignment().getHiddenColumns() |
399 |
|
.getRegionWithEdgeAtRes(res); |
400 |
|
|
401 |
0 |
res = av.getAlignment().getHiddenColumns().visibleToAbsoluteColumn(res); |
402 |
|
|
403 |
0 |
ToolTipManager.sharedInstance().registerComponent(this); |
404 |
0 |
this.setToolTipText( |
405 |
|
MessageManager.getString("label.reveal_hidden_columns")); |
406 |
0 |
repaint(); |
407 |
|
} |
408 |
|
|
409 |
|
|
410 |
|
|
411 |
|
|
412 |
|
@param |
413 |
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|
414 |
|
|
|
|
| 80% |
Uncovered Elements: 1 (5) |
Complexity: 2 |
Complexity Density: 0.67 |
|
415 |
733 |
@Override... |
416 |
|
public void paintComponent(Graphics g) |
417 |
|
{ |
418 |
733 |
super.paintComponent(g); |
419 |
|
|
420 |
|
|
421 |
|
|
422 |
|
|
423 |
|
|
424 |
733 |
if (!av.getWrapAlignment()) |
425 |
|
{ |
426 |
733 |
drawScale(g, av.getRanges().getStartRes(), av.getRanges().getEndRes(), |
427 |
|
getWidth(), getHeight()); |
428 |
|
} |
429 |
|
} |
430 |
|
|
431 |
|
|
|
|
| 84.1% |
Uncovered Elements: 11 (69) |
Complexity: 13 |
Complexity Density: 0.28 |
|
432 |
733 |
public void drawScale(Graphics g, int startx, int endx, int width,... |
433 |
|
int height) |
434 |
|
{ |
435 |
733 |
Graphics2D gg = (Graphics2D) g; |
436 |
733 |
gg.setFont(av.getFont()); |
437 |
|
|
438 |
733 |
if (av.antiAlias) |
439 |
|
{ |
440 |
0 |
gg.setRenderingHint(RenderingHints.KEY_ANTIALIASING, |
441 |
|
RenderingHints.VALUE_ANTIALIAS_ON); |
442 |
|
} |
443 |
|
|
444 |
|
|
445 |
733 |
gg.setColor(Color.white); |
446 |
733 |
gg.fillRect(0, 0, width, height); |
447 |
733 |
gg.setColor(Color.black); |
448 |
|
|
449 |
|
|
450 |
733 |
ColumnSelection cs = av.getColumnSelection(); |
451 |
733 |
HiddenColumns hidden = av.getAlignment().getHiddenColumns(); |
452 |
733 |
int avCharWidth = av.getCharWidth(); |
453 |
733 |
int avCharHeight = av.getCharHeight(); |
454 |
|
|
455 |
733 |
if (cs != null) |
456 |
|
{ |
457 |
733 |
gg.setColor(new Color(220, 0, 0)); |
458 |
|
|
459 |
733 |
for (int sel : cs.getSelected()) |
460 |
|
{ |
461 |
|
|
462 |
|
|
463 |
|
|
464 |
14 |
if (av.hasHiddenColumns()) |
465 |
|
{ |
466 |
0 |
if (hidden.isVisible(sel)) |
467 |
|
{ |
468 |
0 |
sel = hidden.absoluteToVisibleColumn(sel); |
469 |
|
} |
470 |
|
else |
471 |
|
{ |
472 |
0 |
continue; |
473 |
|
} |
474 |
|
} |
475 |
|
|
476 |
14 |
if ((sel >= startx) && (sel <= endx)) |
477 |
|
{ |
478 |
14 |
gg.fillRect((sel - startx) * avCharWidth, 0, avCharWidth, |
479 |
|
getHeight()); |
480 |
|
} |
481 |
|
} |
482 |
|
} |
483 |
|
|
484 |
733 |
int widthx = 1 + endx - startx; |
485 |
|
|
486 |
733 |
FontMetrics fm = gg.getFontMetrics(av.getFont()); |
487 |
733 |
int y = avCharHeight; |
488 |
733 |
int yOf = fm.getDescent(); |
489 |
733 |
y -= yOf; |
490 |
733 |
if (av.hasHiddenColumns()) |
491 |
|
{ |
492 |
|
|
493 |
128 |
gg.setColor(Color.blue); |
494 |
128 |
int res; |
495 |
|
|
496 |
128 |
if (av.getShowHiddenMarkers()) |
497 |
|
{ |
498 |
128 |
Iterator<Integer> it = hidden.getStartRegionIterator(startx, |
499 |
|
startx + widthx + 1); |
500 |
256 |
while (it.hasNext()) |
501 |
|
{ |
502 |
128 |
res = it.next() - startx; |
503 |
|
|
504 |
128 |
gg.fillPolygon( |
505 |
|
new int[] |
506 |
|
{ -1 + res * avCharWidth - avCharHeight / 4, |
507 |
|
-1 + res * avCharWidth + avCharHeight / 4, |
508 |
|
-1 + res * avCharWidth }, new int[] |
509 |
|
{ y, y, y + 2 * yOf }, 3); |
510 |
|
} |
511 |
|
} |
512 |
|
} |
513 |
|
|
514 |
733 |
gg.setColor(Color.black); |
515 |
|
|
516 |
733 |
int maxX = 0; |
517 |
733 |
List<ScaleMark> marks = new ScaleRenderer().calculateMarks(av, startx, |
518 |
|
endx); |
519 |
|
|
520 |
733 |
for (ScaleMark mark : marks) |
521 |
|
{ |
522 |
9092 |
boolean major = mark.major; |
523 |
9092 |
int mpos = mark.column; |
524 |
9092 |
String mstring = mark.text; |
525 |
9092 |
if (mstring != null) |
526 |
|
{ |
527 |
4241 |
if (mpos * avCharWidth > maxX) |
528 |
|
{ |
529 |
4177 |
gg.drawString(mstring, mpos * avCharWidth, y); |
530 |
4177 |
maxX = (mpos + 2) * avCharWidth + fm.stringWidth(mstring); |
531 |
|
} |
532 |
|
} |
533 |
9092 |
if (major) |
534 |
|
{ |
535 |
4241 |
gg.drawLine((mpos * avCharWidth) + (avCharWidth / 2), y + 2, |
536 |
|
(mpos * avCharWidth) + (avCharWidth / 2), y + (yOf * 2)); |
537 |
|
} |
538 |
|
else |
539 |
|
{ |
540 |
4851 |
gg.drawLine((mpos * avCharWidth) + (avCharWidth / 2), y + yOf, |
541 |
|
(mpos * avCharWidth) + (avCharWidth / 2), y + (yOf * 2)); |
542 |
|
} |
543 |
|
} |
544 |
|
} |
545 |
|
|
|
|
| 100% |
Uncovered Elements: 0 (4) |
Complexity: 4 |
Complexity Density: 2 |
|
546 |
452 |
@Override... |
547 |
|
public void propertyChange(PropertyChangeEvent evt) |
548 |
|
{ |
549 |
|
|
550 |
|
|
551 |
|
|
552 |
|
|
553 |
|
|
554 |
|
|
555 |
452 |
if (evt.getPropertyName().equals(ViewportRanges.STARTRES) |
556 |
|
|| evt.getPropertyName().equals(ViewportRanges.STARTRESANDSEQ) |
557 |
|
|| evt.getPropertyName().equals(ViewportRanges.MOVE_VIEWPORT)) |
558 |
|
{ |
559 |
|
|
560 |
|
|
561 |
|
|
562 |
|
|
563 |
|
|
564 |
42 |
av.getAlignPanel().repaint(); |
565 |
|
} |
566 |
|
} |
567 |
|
|
568 |
|
} |