2 * Jalview - A Sequence Alignment Editor and Viewer
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3 * Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
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5 * This program is free software; you can redistribute it and/or
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6 * modify it under the terms of the GNU General Public License
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7 * as published by the Free Software Foundation; either version 2
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8 * of the License, or (at your option) any later version.
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10 * This program is distributed in the hope that it will be useful,
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11 * but WITHOUT ANY WARRANTY; without even the implied warranty of
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12 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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13 * GNU General Public License for more details.
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15 * You should have received a copy of the GNU General Public License
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16 * along with this program; if not, write to the Free Software
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17 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
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19 package jalview.gui;
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21 import jalview.datamodel.*;
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23 import jalview.jbgui.*;
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25 import jalview.schemes.*;
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27 import java.awt.event.*;
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31 import javax.swing.*;
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32 import javax.swing.event.*;
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39 * @version $Revision$
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41 public class SliderPanel extends GSliderPanel
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43 static JInternalFrame conservationSlider;
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44 static JInternalFrame PIDSlider;
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46 boolean forConservation = true;
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47 boolean forAnnotation = false;
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51 * Creates a new SliderPanel object.
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53 * @param ap DOCUMENT ME!
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54 * @param value DOCUMENT ME!
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55 * @param forConserve DOCUMENT ME!
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56 * @param cs DOCUMENT ME!
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58 public SliderPanel(AlignmentPanel ap, int value, boolean forConserve,
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63 forConservation = forConserve;
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64 undoButton.setVisible(false);
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65 applyButton.setVisible(false);
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67 if (forConservation)
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69 label.setText("Enter value to increase conservation visibility");
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70 slider.setMinimum(0);
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71 slider.setMaximum(100);
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75 label.setText("Enter % identity above which to colour residues");
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76 slider.setMinimum(0);
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77 slider.setMaximum(100);
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80 slider.addChangeListener(new ChangeListener()
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82 public void stateChanged(ChangeEvent evt)
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84 valueField.setText(slider.getValue() + "");
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85 valueChanged(slider.getValue());
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89 slider.setValue(value);
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90 valueField.setText(value + "");
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93 public SliderPanel(final AlignmentAnnotation annotation, final AlignmentPanel ap)
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95 forAnnotation = true;
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96 undoButton.setVisible(false);
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97 applyButton.setVisible(false);
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98 allGroupsCheck.setVisible(false);
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99 label.setText("Adjust value - "+annotation.getGraphLine(0).label);
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101 float range = annotation.graphMax * 1000 - annotation.graphMin * 1000;
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103 slider.setMinimum( (int) (annotation.graphMin * 1000));
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104 slider.setMaximum( (int) (annotation.graphMax * 1000));
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105 slider.setValue( (int) (annotation.getGraphLine(0).value * 1000));
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106 valueField.setText( annotation.getGraphLine(0).value + "");
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107 slider.setMajorTickSpacing( (int) (range / 10f));
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108 slider.setMinorTickSpacing( (int) (range / 100f));
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109 slider.setPaintTicks(true);
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111 JInternalFrame slideFrame = new JInternalFrame();
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112 slideFrame.setLayer(JLayeredPane.PALETTE_LAYER);
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113 Desktop.addInternalFrame(slideFrame,
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114 "Adjust " + annotation.label +" value",
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117 slideFrame.setContentPane(this);
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118 slider.addChangeListener(new ChangeListener()
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120 public void stateChanged(ChangeEvent evt)
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122 valueField.setText( ((float)slider.getValue()/1000f) + "");
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123 annotation.getGraphLine(0).value = (float)slider.getValue()/1000f;
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134 * @param ap DOCUMENT ME!
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135 * @param cs DOCUMENT ME!
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136 * @param source DOCUMENT ME!
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138 * @return DOCUMENT ME!
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140 public static int setConservationSlider(AlignmentPanel ap,
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141 ColourSchemeI cs, String source)
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143 SliderPanel sp = null;
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145 if (conservationSlider == null)
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147 sp = new SliderPanel(ap, cs.getConservationInc(), true, cs);
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148 conservationSlider = new JInternalFrame();
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149 conservationSlider.setContentPane(sp);
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150 conservationSlider.setLayer(JLayeredPane.PALETTE_LAYER);
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154 sp = (SliderPanel) conservationSlider.getContentPane();
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158 conservationSlider.setTitle("Conservation Colour Increment (" +
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161 if (ap.av.alignment.getGroups() != null)
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163 sp.setAllGroupsCheckEnabled(true);
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167 sp.setAllGroupsCheckEnabled(false);
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170 return sp.getValue();
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176 public static void showConservationSlider()
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180 PIDSlider.setClosed(true);
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183 catch (Exception ex)
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187 if (!conservationSlider.isVisible())
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189 Desktop.addInternalFrame(conservationSlider,
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190 conservationSlider.getTitle(), 420, 90, false);
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191 conservationSlider.addInternalFrameListener(new javax.swing.event.InternalFrameAdapter()
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193 public void internalFrameClosed(
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194 javax.swing.event.InternalFrameEvent e)
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196 conservationSlider = null;
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199 conservationSlider.setLayer(JLayeredPane.PALETTE_LAYER);
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206 * @param ap DOCUMENT ME!
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207 * @param cs DOCUMENT ME!
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208 * @param source DOCUMENT ME!
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210 * @return DOCUMENT ME!
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212 public static int setPIDSliderSource(AlignmentPanel ap, ColourSchemeI cs,
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215 SliderPanel pid = null;
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217 int threshold = cs.getThreshold();
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219 if (PIDSlider == null)
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221 pid = new SliderPanel(ap, threshold, false, cs);
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222 PIDSlider = new JInternalFrame();
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223 PIDSlider.setContentPane(pid);
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224 PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);
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228 pid = (SliderPanel) PIDSlider.getContentPane();
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232 PIDSlider.setTitle("Percentage Identity Threshold (" + source + ")");
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234 if (ap.av.alignment.getGroups() != null)
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236 pid.setAllGroupsCheckEnabled(true);
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240 pid.setAllGroupsCheckEnabled(false);
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243 return pid.getValue();
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249 public static void showPIDSlider()
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253 conservationSlider.setClosed(true);
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254 conservationSlider = null;
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256 catch (Exception ex)
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260 if (!PIDSlider.isVisible())
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262 Desktop.addInternalFrame(PIDSlider, PIDSlider.getTitle(), 420, 90,
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264 PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);
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265 PIDSlider.addInternalFrameListener(new javax.swing.event.InternalFrameAdapter()
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267 public void internalFrameClosed(
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268 javax.swing.event.InternalFrameEvent e)
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273 PIDSlider.setLayer(JLayeredPane.PALETTE_LAYER);
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280 * @param i DOCUMENT ME!
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282 public void valueChanged(int i)
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285 {System.out.println("cs is null");
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291 ColourSchemeI toChange = null;
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292 Vector allGroups = null;
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293 int groupIndex = 0;
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295 if (allGroupsCheck.isSelected())
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297 allGroups = ap.av.alignment.getGroups();
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298 groupIndex = allGroups.size() - 1;
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306 while (groupIndex > -1)
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308 if (allGroups != null)
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310 toChange = ((SequenceGroup) allGroups.get(groupIndex)).cs;
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312 if (toChange == null)
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320 if (forConservation)
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322 if (toChange.conservationApplied())
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324 toChange.setConservationInc(i);
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329 toChange.setThreshold(i, ap.av.getIgnoreGapsConsensus());
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335 ap.seqPanel.seqCanvas.repaint();
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341 * @param b DOCUMENT ME!
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343 public void setAllGroupsCheckEnabled(boolean b)
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345 allGroupsCheck.setEnabled(b);
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351 * @param e DOCUMENT ME!
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353 public void valueField_actionPerformed(ActionEvent e)
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359 float f = Float.parseFloat(valueField.getText());
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360 slider.setValue( (int)( f * 1000 ));
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364 int i = Integer.parseInt(valueField.getText());
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365 slider.setValue(i);
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368 catch (Exception ex)
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370 valueField.setText(slider.getValue() + "");
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377 * @param value DOCUMENT ME!
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379 public void setValue(int value)
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381 slider.setValue(value);
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387 * @return DOCUMENT ME!
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389 public int getValue()
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391 return Integer.parseInt(valueField.getText());
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