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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28 import java.awt.event.*;
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29 import java.awt.print.*;
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33 import javax.swing.*;
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40 * @version $Revision$
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42 public class AlignmentPanel extends GAlignmentPanel
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43 implements AdjustmentListener, Printable
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45 public AlignViewport av;
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46 OverviewPanel overviewPanel;
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49 IdwidthAdjuster idwidthAdjuster;
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51 /** DOCUMENT ME!! */
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52 public AlignFrame alignFrame;
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53 ScalePanel scalePanel;
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54 AnnotationPanel annotationPanel;
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55 AnnotationLabels alabels;
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57 // this value is set false when selection area being dragged
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58 boolean fastPaint = true;
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63 * Creates a new AlignmentPanel object.
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65 * @param af DOCUMENT ME!
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66 * @param av DOCUMENT ME!
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68 public AlignmentPanel(AlignFrame af, final AlignViewport av)
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72 seqPanel = new SeqPanel(av, this);
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73 idPanel = new IdPanel(av, this);
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75 scalePanel = new ScalePanel(av, this);
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77 idPanelHolder.add(idPanel, BorderLayout.CENTER);
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78 idwidthAdjuster = new IdwidthAdjuster(this);
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79 idSpaceFillerPanel1.add(idwidthAdjuster, BorderLayout.CENTER);
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81 annotationPanel = new AnnotationPanel(this);
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82 alabels = new AnnotationLabels(this);
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85 annotationScroller.setViewportView(annotationPanel);
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86 annotationSpaceFillerHolder.add(alabels, BorderLayout.CENTER);
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90 scalePanelHolder.add(scalePanel, BorderLayout.CENTER);
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91 seqPanelHolder.add(seqPanel, BorderLayout.CENTER);
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93 setScrollValues(0, 0);
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95 annotationPanel.adjustPanelHeight();
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96 annotationSpaceFillerHolder.setPreferredSize(annotationPanel.
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97 getPreferredSize());
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98 annotationScroller.setPreferredSize(annotationPanel.
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99 getPreferredSize());
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100 setAnnotationVisible(av.getShowAnnotation());
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102 hscroll.addAdjustmentListener(this);
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103 vscroll.addAdjustmentListener(this);
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105 af.addKeyListener(new KeyAdapter()
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107 public void keyPressed(KeyEvent evt)
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109 switch (evt.getKeyCode())
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111 case 27: // escape key
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112 av.setSelectionGroup(null);
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117 case KeyEvent.VK_DOWN:
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118 alignFrame.moveSelectedSequences(false);
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122 case KeyEvent.VK_UP:
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123 alignFrame.moveSelectedSequences(true);
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127 case KeyEvent.VK_BACK_SPACE:
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128 case KeyEvent.VK_DELETE:
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129 alignFrame.cut_actionPerformed(null);
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132 case KeyEvent.VK_P:
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133 seqPanel.seqCanvas.increaseAARatio();
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135 case KeyEvent.VK_L:
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136 seqPanel.seqCanvas.decreaseAARation();
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146 public void fontChanged()
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148 // set idCanvas bufferedImage to null
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149 // to prevent drawing old image
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150 FontMetrics fm = getFontMetrics(av.getFont());
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152 scalePanelHolder.setPreferredSize(new Dimension(10,
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153 av.charHeight + fm.getDescent()));
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154 idSpaceFillerPanel1.setPreferredSize(new Dimension(10,
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155 av.charHeight + fm.getDescent()));
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157 idPanel.idCanvas.gg = null;
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158 seqPanel.seqCanvas.img = null;
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159 annotationPanel.adjustPanelHeight();
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161 Dimension d = calculateIdWidth();
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162 d.setSize(d.width + 4, d.height);
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163 idPanel.idCanvas.setPreferredSize(d);
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164 hscrollFillerPanel.setPreferredSize(d);
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166 if (av.getWrapAlignment())
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168 int max = av.alignment.getWidth() /
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169 seqPanel.seqCanvas.getWrappedCanvasWidth(seqPanel.seqCanvas.getWidth());
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170 vscroll.setMaximum(max);
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171 vscroll.setUnitIncrement(1);
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172 vscroll.setVisibleAmount(1);
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176 setScrollValues(av.getStartRes(), av.getStartSeq());
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179 if (overviewPanel != null)
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180 overviewPanel.setBoxPosition();
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188 * @return DOCUMENT ME!
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190 public Dimension calculateIdWidth()
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192 Container c = new Container();
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194 FontMetrics fm = c.getFontMetrics(av.font);
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195 AlignmentI al = av.getAlignment();
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201 while ( (i < al.getHeight()) && (al.getSequenceAt(i) != null))
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203 SequenceI s = al.getSequenceAt(i);
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205 id = s.getDisplayId(av.getShowJVSuffix());
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207 if (fm.stringWidth(id) > idWidth)
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209 idWidth = fm.stringWidth(id);
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215 // Also check annotation label widths
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218 if (al.getAlignmentAnnotation() != null)
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220 fm = c.getFontMetrics(alabels.getFont());
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222 while (i < al.getAlignmentAnnotation().length)
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224 String label = al.getAlignmentAnnotation()[i].label;
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226 if (fm.stringWidth(label) > idWidth)
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228 idWidth = fm.stringWidth(label);
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235 return new Dimension(idWidth, 12);
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241 * @param results DOCUMENT ME!
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243 public void highlightSearchResults(int[] results)
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245 seqPanel.seqCanvas.highlightSearchResults(results);
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247 // do we need to scroll the panel?
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248 if (results != null)
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250 SequenceI seq = av.alignment.getSequenceAt(results[0]);
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251 int start = seq.findIndex(results[1]) - 1;
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252 int end = seq.findIndex(results[2]) - 1;
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254 if(!av.wrapAlignment)
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256 if ( (av.getStartRes() > start) || (av.getEndRes() < end) ||
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257 ( (av.getStartSeq() > results[0]) ||
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258 (av.getEndSeq() < results[0])))
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260 setScrollValues(start, results[0]);
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265 int cwidth = seqPanel.seqCanvas.getWrappedCanvasWidth(seqPanel.seqCanvas.getWidth());
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266 if( start<av.getStartRes() || start>(av.getStartRes()+cwidth) )
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268 vscroll.setValue(start / cwidth);
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277 * @return DOCUMENT ME!
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279 public OverviewPanel getOverviewPanel()
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281 return overviewPanel;
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287 * @param op DOCUMENT ME!
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289 public void setOverviewPanel(OverviewPanel op)
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291 overviewPanel = op;
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297 * @param b DOCUMENT ME!
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299 public void setAnnotationVisible(boolean b)
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301 if (!av.wrapAlignment)
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303 annotationSpaceFillerHolder.setVisible(b);
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304 annotationScroller.setVisible(b);
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312 * @param wrap DOCUMENT ME!
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314 public void setWrapAlignment(boolean wrap)
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317 scalePanelHolder.setVisible(!wrap);
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318 hscroll.setVisible(!wrap);
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319 idwidthAdjuster.setVisible(!wrap);
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323 annotationScroller.setVisible(false);
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324 annotationSpaceFillerHolder.setVisible(false);
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326 else if (av.showAnnotation)
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328 annotationScroller.setVisible(true);
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329 annotationSpaceFillerHolder.setVisible(true);
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332 idSpaceFillerPanel1.setVisible(!wrap);
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337 // return value is true if the scroll is valid
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338 public boolean scrollUp(boolean up)
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342 if (vscroll.getValue() < 1)
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348 vscroll.setValue(vscroll.getValue() - 1);
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352 if ( (vextent + vscroll.getValue()) >= av.getAlignment().getHeight())
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358 vscroll.setValue(vscroll.getValue() + 1);
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369 * @param right DOCUMENT ME!
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371 * @return DOCUMENT ME!
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373 public boolean scrollRight(boolean right)
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377 if (hscroll.getValue() < 1)
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383 hscroll.setValue(hscroll.getValue() - 1);
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387 if ( (hextent + hscroll.getValue()) >= av.getAlignment().getWidth())
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393 hscroll.setValue(hscroll.getValue() + 1);
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404 * @param x DOCUMENT ME!
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405 * @param y DOCUMENT ME!
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407 public void setScrollValues(int x, int y)
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409 av.setEndRes( (x + (seqPanel.seqCanvas.getWidth() / av.getCharWidth())) -
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412 hextent = seqPanel.seqCanvas.getWidth() / av.charWidth;
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413 vextent = seqPanel.seqCanvas.getHeight() / av.charHeight;
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415 if (hextent > av.alignment.getWidth())
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417 hextent = av.alignment.getWidth();
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420 if (vextent > av.alignment.getHeight())
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422 vextent = av.alignment.getHeight();
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425 if ( (hextent + x) > av.getAlignment().getWidth())
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427 x = av.getAlignment().getWidth() - hextent;
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430 if ( (vextent + y) > av.getAlignment().getHeight())
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432 y = av.getAlignment().getHeight() - vextent;
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445 hscroll.setValues(x, hextent, 0, av.getAlignment().getWidth());
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446 vscroll.setValues(y, vextent, 0, av.getAlignment().getHeight());
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452 * @param evt DOCUMENT ME!
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454 public void adjustmentValueChanged(AdjustmentEvent evt)
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457 int oldX = av.getStartRes();
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458 int oldY = av.getStartSeq();
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460 if (evt.getSource() == hscroll)
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462 int x = hscroll.getValue();
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465 (seqPanel.seqCanvas.getWidth() / av.getCharWidth())) - 1);
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468 if (evt.getSource() == vscroll)
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470 int offy = vscroll.getValue();
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472 if (av.getWrapAlignment())
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474 int rowSize = seqPanel.seqCanvas.getWrappedCanvasWidth(seqPanel.
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475 seqCanvas.getWidth());
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476 av.setStartRes(vscroll.getValue() * rowSize);
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477 av.setEndRes( (vscroll.getValue() + 1) * rowSize);
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481 av.setStartSeq(offy);
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482 av.setEndSeq(offy +
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483 (seqPanel.seqCanvas.getHeight() / av.getCharHeight()));
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487 if (overviewPanel != null)
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489 overviewPanel.setBoxPosition();
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492 int scrollX = av.startRes - oldX;
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493 int scrollY = av.startSeq - oldY;
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495 if (av.getWrapAlignment() || !fastPaint)
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501 // Make sure we're not trying to draw a panel
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502 // larger than the visible window
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503 if(scrollX>av.endRes-av.startRes)
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504 scrollX = av.endRes-av.startRes;
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505 else if(scrollX<av.startRes-av.endRes)
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506 scrollX = av.startRes - av.endRes;
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508 if(scrollX!=0 || scrollY!=0)
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510 idPanel.idCanvas.fastPaint(scrollY);
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511 seqPanel.seqCanvas.fastPaint(scrollX,
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513 scalePanel.repaint();
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515 if (av.getShowAnnotation())
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517 annotationPanel.fastPaint(scrollX);
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526 * @param g DOCUMENT ME!
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528 public void paintComponent(Graphics g)
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532 Dimension d = idPanel.idCanvas.getPreferredSize();
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533 idPanelHolder.setPreferredSize(d);
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534 hscrollFillerPanel.setPreferredSize(new Dimension(d.width, 12));
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537 if (av.getWrapAlignment())
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539 int max = av.alignment.getWidth() /
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540 seqPanel.seqCanvas.getWrappedCanvasWidth(seqPanel.seqCanvas.getWidth()) +1;
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541 vscroll.setMaximum(max);
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542 vscroll.setUnitIncrement(1);
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543 vscroll.setVisibleAmount(1);
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547 setScrollValues(av.getStartRes(), av.getStartSeq());
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551 if( this.getVisibleRect().getBounds() == g.getClipBounds() )
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553 if (overviewPanel != null)
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554 overviewPanel.updateOverviewImage();
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561 * @param pg DOCUMENT ME!
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562 * @param pf DOCUMENT ME!
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563 * @param pi DOCUMENT ME!
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565 * @return DOCUMENT ME!
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567 * @throws PrinterException DOCUMENT ME!
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569 public int print(Graphics pg, PageFormat pf, int pi)
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570 throws PrinterException
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572 pg.translate( (int) pf.getImageableX(), (int) pf.getImageableY());
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574 int pwidth = (int) pf.getImageableWidth();
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575 int pheight = (int) pf.getImageableHeight();
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577 if (av.getWrapAlignment())
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579 return printWrappedAlignment(pg, pwidth, pheight, pi);
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583 return printUnwrapped(pg, pwidth, pheight, pi);
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590 * @param pg DOCUMENT ME!
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591 * @param pwidth DOCUMENT ME!
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592 * @param pheight DOCUMENT ME!
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593 * @param pi DOCUMENT ME!
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595 * @return DOCUMENT ME!
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597 * @throws PrinterException DOCUMENT ME!
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599 public int printUnwrapped(Graphics pg, int pwidth, int pheight, int pi)
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600 throws PrinterException
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602 int idWidth = calculateIdWidth().width + 4;
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603 FontMetrics fm = getFontMetrics(av.getFont());
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604 int scaleHeight = av.charHeight + fm.getDescent();
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606 pg.setColor(Color.white);
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607 pg.fillRect(0, 0, pwidth, pheight);
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608 pg.setFont(av.getFont());
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610 ////////////////////////////////////
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611 /// How many sequences and residues can we fit on a printable page?
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612 int totalRes = (pwidth - idWidth) / av.getCharWidth();
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614 int totalSeq = (int) ( (pheight - scaleHeight) / av.getCharHeight()) -
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617 int pagesWide = (av.getAlignment().getWidth() / totalRes) + 1;
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619 /////////////////////////////
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620 /// Only print these sequences and residues on this page
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623 /////////////////////////////
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624 /// Only print these sequences and residues on this page
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627 /////////////////////////////
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628 /// Only print these sequences and residues on this page
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631 /////////////////////////////
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632 /// Only print these sequences and residues on this page
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634 startRes = (pi % pagesWide) * totalRes;
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635 endRes = (startRes + totalRes) - 1;
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637 if (endRes > (av.getAlignment().getWidth() - 1))
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639 endRes = av.getAlignment().getWidth() - 1;
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642 startSeq = (pi / pagesWide) * totalSeq;
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643 endSeq = startSeq + totalSeq;
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645 if (endSeq > av.getAlignment().getHeight())
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647 endSeq = av.getAlignment().getHeight();
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650 int pagesHigh = ( (av.alignment.getHeight() / totalSeq) + 1) * pheight;
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652 if (av.showAnnotation)
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654 pagesHigh += annotationPanel.adjustPanelHeight() + 3;
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657 pagesHigh /= pheight;
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659 if (pi >= (pagesWide * pagesHigh))
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661 return Printable.NO_SUCH_PAGE;
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665 pg.translate(idWidth, 0);
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666 scalePanel.drawScale(pg, startRes, endRes, pwidth - idWidth, scaleHeight);
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667 pg.translate( -idWidth, scaleHeight);
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671 Color currentColor = null;
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672 Color currentTextColor = null;
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674 pg.setFont(new Font(av.getFont().getName(),
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676 av.getFont().getSize()));
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677 for (int i = startSeq; i < endSeq; i++)
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679 if ( (av.getSelectionGroup() != null) &&
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680 av.getSelectionGroup().sequences.contains(
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681 av.getAlignment().getSequenceAt(i)))
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683 currentColor = Color.gray;
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684 currentTextColor = Color.black;
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688 currentColor = av.getAlignment().getSequenceAt(i).getColor();
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689 currentTextColor = Color.black;
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692 pg.setColor(currentColor);
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693 pg.fillRect(0, (i - startSeq) * av.charHeight, idWidth,
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694 av.getCharHeight());
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696 pg.setColor(currentTextColor);
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698 String string = av.getAlignment().getSequenceAt(i).getDisplayId
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699 ( av.getShowJVSuffix());
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701 pg.drawString(string, 0,
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702 ( ( (i - startSeq) * av.charHeight) + av.getCharHeight()) -
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703 (av.getCharHeight() / 5));
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706 pg.setFont(av.getFont());
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708 // draw main sequence panel
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709 pg.translate(idWidth, 0);
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710 seqPanel.seqCanvas.drawPanel(pg, startRes, endRes, startSeq, endSeq,
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711 startRes, startSeq, 0);
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713 if (av.showAnnotation && (endSeq == av.alignment.getHeight()))
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715 pg.translate( -idWidth-3, (endSeq - startSeq) * av.charHeight + 3);
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716 alabels.drawComponent( (Graphics2D) pg, idWidth);
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717 pg.translate(idWidth+3, 0);
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718 annotationPanel.drawComponent( (Graphics2D) pg, startRes, endRes +
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722 return Printable.PAGE_EXISTS;
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728 * @param pg DOCUMENT ME!
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729 * @param pwidth DOCUMENT ME!
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730 * @param pheight DOCUMENT ME!
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731 * @param pi DOCUMENT ME!
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733 * @return DOCUMENT ME!
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735 * @throws PrinterException DOCUMENT ME!
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737 public int printWrappedAlignment(Graphics pg, int pwidth, int pheight,
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739 throws PrinterException
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742 int annotationHeight = 0;
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743 AnnotationLabels labels = null;
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744 if (av.showAnnotation)
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746 annotationHeight = annotationPanel.adjustPanelHeight();
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747 labels = new AnnotationLabels(av);
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750 int hgap = av.charHeight;
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751 if (av.scaleAboveWrapped)
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752 hgap += av.charHeight;
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754 int cHeight = av.getAlignment().getHeight() * av.charHeight
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756 + annotationHeight;
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758 int idWidth = calculateIdWidth().width + 4;
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760 int resWidth = seqPanel.seqCanvas.getWrappedCanvasWidth(pwidth -
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763 int totalHeight = cHeight * (av.alignment.getWidth() / resWidth + 1);
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765 pg.setColor(Color.white);
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766 pg.fillRect(0, 0, pwidth, pheight);
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767 pg.setFont(av.getFont());
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771 pg.setColor(Color.black);
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773 pg.translate(0, -pi * pheight);
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775 pg.setClip(0, pi * pheight, pwidth, pheight);
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778 Font italic = new Font(av.getFont().getName(), Font.ITALIC,
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779 av.getFont().getSize());
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780 pg.setFont(italic);
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784 for (int i = 0; i < av.alignment.getHeight(); i++)
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786 SequenceI s = av.alignment.getSequenceAt(i);
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787 String string = s.getDisplayId( av.getShowJVSuffix());
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789 pg.drawString(string, 0,
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790 ( (i * av.charHeight) + ypos + av.charHeight) -
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791 (av.charHeight / 5));
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793 if (labels != null)
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797 (av.getAlignment().getHeight() * av.charHeight));
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799 pg.setFont(av.getFont());
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800 labels.drawComponent(pg, idWidth);
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801 pg.setFont(italic);
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804 (av.getAlignment().getHeight() * av.charHeight));
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809 while (ypos < totalHeight);
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811 pg.translate(idWidth, 0);
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813 seqPanel.seqCanvas.drawWrappedPanel(pg, pwidth - idWidth, totalHeight, 0);
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815 if ( (pi * pheight) < totalHeight)
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817 return Printable.PAGE_EXISTS;
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822 return Printable.NO_SUCH_PAGE;
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826 void makeAlignmentImage(int type, File file)
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828 int height = ( (av.alignment.getHeight() + 1) * av.charHeight) + 30;
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829 int width = idPanel.getWidth() + (av.alignment.getWidth() * av.charWidth);
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831 if (idPanel.getWidth() == 0)
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833 width += calculateIdWidth().getWidth() + 4;
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836 if (av.getWrapAlignment())
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838 height = getWrappedHeight();
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839 width = seqPanel.getWidth() + idPanel.getWidth();
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841 else if (av.getShowAnnotation())
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843 height += annotationPanel.adjustPanelHeight() + 3;
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846 jalview.util.ImageMaker im;
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847 if(type==jalview.util.ImageMaker.PNG)
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848 im = new jalview.util.ImageMaker(this,
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849 jalview.util.ImageMaker.PNG,
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850 "Create PNG image from alignment",
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851 width, height, file, null);
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853 im = new jalview.util.ImageMaker(this,
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854 jalview.util.ImageMaker.EPS,
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855 "Create EPS file from alignment",
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856 width, height, file, alignFrame.getTitle() );
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860 if (av.getWrapAlignment())
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862 if(im.getGraphics()!=null)
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864 printWrappedAlignment(im.getGraphics(), width, height, 0);
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870 if(im.getGraphics()!=null)
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872 printUnwrapped(im.getGraphics(), width, height, 0);
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877 catch (OutOfMemoryError err)
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879 System.out.println("########################\n"
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880 + "OUT OF MEMORY " + file + "\n"
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881 + "########################");
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883 JOptionPane.showInternalMessageDialog(Desktop.desktop,
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884 "Out of Memory Creating Image!!"
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886 "\nSee help files for increasing Java Virtual Machine memory."
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888 JOptionPane.WARNING_MESSAGE);
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889 System.out.println("Create IMAGE: " + err);
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893 catch (Exception ex)
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895 ex.printStackTrace();
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901 public void makeEPS(File epsFile)
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903 makeAlignmentImage(jalview.util.ImageMaker.EPS, epsFile);
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909 public void makePNG(File pngFile)
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911 makeAlignmentImage(jalview.util.ImageMaker.PNG, pngFile);
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914 public void makePNGImageMap(File imgMapFile, String imageName)
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916 ///////ONLY WORKS WITH NONE WRAPPED ALIGNMENTS
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917 //////////////////////////////////////////////
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918 int idWidth = calculateIdWidth().width + 4;
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919 FontMetrics fm = getFontMetrics(av.getFont());
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920 int scaleHeight = av.charHeight + fm.getDescent();
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923 //////////////////////////////////
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924 if (imgMapFile != null)
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928 int s, sSize = av.alignment.getHeight(),
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929 res, alwidth = av.alignment.getWidth(), g, gSize, f, fSize, sy;
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930 StringBuffer text = new StringBuffer();
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931 PrintWriter out = new PrintWriter(new FileWriter(imgMapFile));
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932 out.println(jalview.io.HTMLOutput.getImageMapHTML());
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933 out.println("<img src=\"" + imageName +
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934 "\" border=\"0\" usemap=\"#Map\" >"
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935 + "<map name=\"Map\">");
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937 for (s = 0; s < sSize; s++)
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939 sy = s * av.charHeight + scaleHeight;
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941 SequenceI seq = av.alignment.getSequenceAt(s);
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942 java.util.Vector features = seq.getDatasetSequence().getSequenceFeatures();
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943 SequenceGroup[] groups = av.alignment.findAllGroups(seq);
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944 for(res =0; res<alwidth; res++)
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946 text = new StringBuffer();
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948 if(av.alignment.isNucleotide())
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949 obj = ResidueProperties.nucleotideName.get(seq.getCharAt(res)+"" );
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951 obj = ResidueProperties.aa2Triplet.get(
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952 seq.getCharAt(res) + "");
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957 String triplet = obj.toString();
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958 int alIndex = seq.findPosition(res);
\r
959 gSize = groups.length;
\r
960 for (g = 0; g < gSize; g++)
\r
962 if(text.length()<1)
\r
964 text.append("<area shape=\"rect\" coords=\""
\r
965 + (idWidth + res * av.charWidth) + ","
\r
967 + (idWidth + (res + 1) * av.charWidth) + ","
\r
968 + (av.charHeight + sy) + "\""
\r
969 + " onMouseOver=\"toolTip('"
\r
970 + alIndex + " " + triplet );
\r
973 if(groups[g].getStartRes()<res && groups[g].getEndRes()>res)
\r
974 text.append("<br><em>" + groups[g].getName() + "</em>");
\r
977 if (features != null)
\r
979 if(text.length()<1)
\r
981 text.append("<area shape=\"rect\" coords=\""
\r
982 + (idWidth + res * av.charWidth) + ","
\r
984 + (idWidth + (res + 1) * av.charWidth) + ","
\r
985 + (av.charHeight + sy) + "\""
\r
986 + " onMouseOver=\"toolTip('"
\r
987 + alIndex + " " + triplet );
\r
989 fSize = features.size();
\r
990 for (f = 0; f < fSize; f++)
\r
992 SequenceFeature sf = (SequenceFeature) features.elementAt(f);
\r
994 if ( (sf.getBegin() <= seq.findPosition(res)) &&
\r
995 (sf.getEnd() >= seq.findPosition(res)))
\r
997 if (sf.getType().equals("disulfide bond"))
\r
999 if (sf.getBegin() == seq.findPosition(res)
\r
1000 || sf.getEnd() == seq.findPosition(res))
\r
1002 text.append("<br>disulfide bond " + sf.getBegin() + ":" +
\r
1008 text.append("<br>");
\r
1009 text.append(sf.getType());
\r
1010 if (sf.getDescription() != null && !sf.getType().equals(sf.getDescription()))
\r
1011 text.append(" " + sf.getDescription());
\r
1013 if (sf.getStatus() != null && sf.getStatus().length()>0)
\r
1015 text.append(" (" + sf.getStatus() + ")");
\r
1022 if(text.length()>1)
\r
1024 text.append("')\"; onMouseOut=\"toolTip()\"; href=\"#\">");
\r
1025 out.println(text.toString());
\r
1029 out.println("</map></body></html>");
\r
1033 catch (Exception ex)
\r
1035 ex.printStackTrace();
\r
1037 } ///////////END OF IMAGE MAP
\r
1041 int getWrappedHeight()
\r
1044 int chunkWidth = seqPanel.seqCanvas.getWrappedCanvasWidth(
\r
1045 seqPanel.seqCanvas.getWidth());
\r
1047 int hgap = av.charHeight;
\r
1048 if (av.scaleAboveWrapped)
\r
1049 hgap += av.charHeight;
\r
1051 int annotationHeight = 0;
\r
1052 if (av.showAnnotation)
\r
1054 annotationHeight = annotationPanel.adjustPanelHeight();
\r
1057 int cHeight = av.getAlignment().getHeight() * av.charHeight
\r
1059 + annotationHeight;
\r
1061 int height = ( (av.alignment.getWidth() / chunkWidth) + 1) * cHeight;
\r
1069 * @author $author$
\r
1070 * @version $Revision$
\r
1076 * Creates a new Preview object.
\r
1078 * @param image DOCUMENT ME!
\r
1080 public Preview(Image image)
\r
1082 setResizable(true);
\r
1083 setSize(image.getWidth(this), image.getHeight(this));
\r
1085 getContentPane().setLayout(new BorderLayout());
\r
1086 getContentPane().add(new PreviewPanel(image), BorderLayout.CENTER);
\r
1095 * @author $author$
\r
1096 * @version $Revision$
\r
1098 class PreviewPanel
\r
1104 * Creates a new PreviewPanel object.
\r
1106 * @param image DOCUMENT ME!
\r
1108 public PreviewPanel(Image image)
\r
1110 this.image = image;
\r
1116 * @param g DOCUMENT ME!
\r
1118 public void paintComponent(Graphics g)
\r
1120 if (image != null)
\r
1122 g.drawImage(image, 0, 0, this);
\r
1126 System.out.println("DEBUG:image is null");
\r