2 * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8)
3 * Copyright (C) 2012 J Procter, AM Waterhouse, LM Lui, J Engelhardt, G Barton, M Clamp, S Searle
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 of the License, or (at your option) any later version.
11 * Jalview is distributed in the hope that it will be useful, but
12 * WITHOUT ANY WARRANTY; without even the implied warranty
13 * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
14 * PURPOSE. See the GNU General Public License for more details.
16 * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
22 import java.awt.event.*;
24 import javax.swing.event.*;
26 import jalview.datamodel.*;
27 import jalview.jbgui.*;
28 import jalview.schemes.*;
36 public class SliderPanel extends GSliderPanel
38 static JInternalFrame conservationSlider;
40 static JInternalFrame PIDSlider;
44 boolean forConservation = true;
49 * Creates a new SliderPanel object.
60 public SliderPanel(final AlignmentPanel ap, int value,
61 boolean forConserve, ColourSchemeI cs)
65 forConservation = forConserve;
66 undoButton.setVisible(false);
67 applyButton.setVisible(false);
71 label.setText("Enter value to increase conservation visibility");
73 slider.setMaximum(100);
77 label.setText("Enter % identity above which to colour residues");
79 slider.setMaximum(100);
82 slider.addChangeListener(new ChangeListener()
84 public void stateChanged(ChangeEvent evt)
86 valueField.setText(slider.getValue() + "");
87 valueChanged(slider.getValue());
91 slider.addMouseListener(new MouseAdapter()
93 public void mouseReleased(MouseEvent evt)
95 ap.paintAlignment(true);
99 slider.setValue(value);
100 valueField.setText(value + "");
113 * @return DOCUMENT ME!
115 public static int setConservationSlider(AlignmentPanel ap,
116 ColourSchemeI cs, String source)
118 SliderPanel sp = null;
120 if (conservationSlider == null)
122 sp = new SliderPanel(ap, cs.getConservationInc(), true, cs);
123 conservationSlider = new JInternalFrame();
124 conservationSlider.setContentPane(sp);
125 conservationSlider.setLayer(JLayeredPane.PALETTE_LAYER);
129 sp = (SliderPanel) conservationSlider.getContentPane();
133 conservationSlider.setTitle("Conservation Colour Increment (" + source
136 if (ap.av.getAlignment().getGroups() != null)
138 sp.setAllGroupsCheckEnabled(true);
142 sp.setAllGroupsCheckEnabled(false);
145 return sp.getValue();
151 public static void showConservationSlider()
155 PIDSlider.setClosed(true);
157 } catch (Exception ex)
161 if (!conservationSlider.isVisible())
163 Desktop.addInternalFrame(conservationSlider,
164 conservationSlider.getTitle(), 420, 90, false);
166 .addInternalFrameListener(new javax.swing.event.InternalFrameAdapter()
168 public void internalFrameClosed(
169 javax.swing.event.InternalFrameEvent e)
171 conservationSlider = null;
174 conservationSlider.setLayer(JLayeredPane.PALETTE_LAYER);
188 * @return DOCUMENT ME!
190 public static int setPIDSliderSource(AlignmentPanel ap, ColourSchemeI cs,
193 SliderPanel pid = null;
195 int threshold = cs.getThreshold();
197 if (PIDSlider == null)
199 pid = new SliderPanel(ap, threshold, false, cs);
200 PIDSlider = new JInternalFrame();
201 PIDSlider.setContentPane(pid);
202 PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);
206 pid = (SliderPanel) PIDSlider.getContentPane();
210 PIDSlider.setTitle("Percentage Identity Threshold (" + source + ")");
212 if (ap.av.getAlignment().getGroups() != null)
214 pid.setAllGroupsCheckEnabled(true);
218 pid.setAllGroupsCheckEnabled(false);
221 return pid.getValue();
227 public static void showPIDSlider()
231 conservationSlider.setClosed(true);
232 conservationSlider = null;
233 } catch (Exception ex)
237 if (!PIDSlider.isVisible())
239 Desktop.addInternalFrame(PIDSlider, PIDSlider.getTitle(), 420, 90,
241 PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);
243 .addInternalFrameListener(new javax.swing.event.InternalFrameAdapter()
245 public void internalFrameClosed(
246 javax.swing.event.InternalFrameEvent e)
251 PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);
261 public void valueChanged(int i)
268 ColourSchemeI toChange = null;
269 List<SequenceGroup> allGroups = null;
272 if (allGroupsCheck.isSelected())
274 allGroups = ap.av.getAlignment().getGroups();
275 groupIndex = allGroups.size() - 1;
282 while (groupIndex > -1)
284 if (allGroups != null)
286 toChange = ((SequenceGroup) allGroups.get(groupIndex)).cs;
288 if (toChange == null)
298 if (toChange.conservationApplied())
300 toChange.setConservationInc(i);
305 toChange.setThreshold(i, ap.av.getIgnoreGapsConsensus());
311 ap.seqPanel.seqCanvas.repaint();
320 public void setAllGroupsCheckEnabled(boolean b)
322 allGroupsCheck.setEnabled(b);
331 public void valueField_actionPerformed(ActionEvent e)
335 int i = Integer.parseInt(valueField.getText());
337 } catch (NumberFormatException ex)
339 valueField.setText(slider.getValue() + "");
349 public void setValue(int value)
351 slider.setValue(value);
357 * @return DOCUMENT ME!
359 public int getValue()
361 return Integer.parseInt(valueField.getText());
364 public void slider_mouseReleased(MouseEvent e)
366 if (ap.overviewPanel != null)
368 ap.overviewPanel.updateOverviewImage();