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(SearchResults 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 = results.getResultSequence(0);
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251 int seqIndex = av.alignment.findIndex(seq);
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252 int start = seq.findIndex(results.getResultStart(0)) - 1;
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253 int end = seq.findIndex(results.getResultEnd(0)) - 1;
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255 if(!av.wrapAlignment)
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257 if ( (av.getStartRes() > end) || (av.getEndRes() < start) ||
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258 ( (av.getStartSeq() > seqIndex) || (av.getEndSeq() < seqIndex)))
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260 setScrollValues(start, seqIndex);
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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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269 av.startRes = vscroll.getValue() * cwidth;
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278 * @return DOCUMENT ME!
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280 public OverviewPanel getOverviewPanel()
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282 return overviewPanel;
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288 * @param op DOCUMENT ME!
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290 public void setOverviewPanel(OverviewPanel op)
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292 overviewPanel = op;
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298 * @param b DOCUMENT ME!
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300 public void setAnnotationVisible(boolean b)
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302 if (!av.wrapAlignment)
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304 annotationSpaceFillerHolder.setVisible(b);
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305 annotationScroller.setVisible(b);
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313 * @param wrap DOCUMENT ME!
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315 public void setWrapAlignment(boolean wrap)
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318 scalePanelHolder.setVisible(!wrap);
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319 hscroll.setVisible(!wrap);
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320 idwidthAdjuster.setVisible(!wrap);
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324 annotationScroller.setVisible(false);
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325 annotationSpaceFillerHolder.setVisible(false);
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327 else if (av.showAnnotation)
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329 annotationScroller.setVisible(true);
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330 annotationSpaceFillerHolder.setVisible(true);
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333 idSpaceFillerPanel1.setVisible(!wrap);
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338 // return value is true if the scroll is valid
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339 public boolean scrollUp(boolean up)
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343 if (vscroll.getValue() < 1)
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349 vscroll.setValue(vscroll.getValue() - 1);
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353 if ( (vextent + vscroll.getValue()) >= av.getAlignment().getHeight())
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359 vscroll.setValue(vscroll.getValue() + 1);
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370 * @param right DOCUMENT ME!
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372 * @return DOCUMENT ME!
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374 public boolean scrollRight(boolean right)
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378 if (hscroll.getValue() < 1)
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384 hscroll.setValue(hscroll.getValue() - 1);
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388 if ( (hextent + hscroll.getValue()) >= av.getAlignment().getWidth())
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394 hscroll.setValue(hscroll.getValue() + 1);
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405 * @param x DOCUMENT ME!
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406 * @param y DOCUMENT ME!
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408 public void setScrollValues(int x, int y)
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410 av.setEndRes( (x + (seqPanel.seqCanvas.getWidth() / av.getCharWidth())) -
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413 hextent = seqPanel.seqCanvas.getWidth() / av.charWidth;
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414 vextent = seqPanel.seqCanvas.getHeight() / av.charHeight;
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416 if (hextent > av.alignment.getWidth())
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418 hextent = av.alignment.getWidth();
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421 if (vextent > av.alignment.getHeight())
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423 vextent = av.alignment.getHeight();
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426 if ( (hextent + x) > av.getAlignment().getWidth())
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428 x = av.getAlignment().getWidth() - hextent;
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431 if ( (vextent + y) > av.getAlignment().getHeight())
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433 y = av.getAlignment().getHeight() - vextent;
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446 hscroll.setValues(x, hextent, 0, av.getAlignment().getWidth());
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447 vscroll.setValues(y, vextent, 0, av.getAlignment().getHeight());
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453 * @param evt DOCUMENT ME!
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455 public void adjustmentValueChanged(AdjustmentEvent evt)
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458 int oldX = av.getStartRes();
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459 int oldY = av.getStartSeq();
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461 if (evt.getSource() == hscroll)
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463 int x = hscroll.getValue();
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466 (seqPanel.seqCanvas.getWidth() / av.getCharWidth())) - 1);
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469 if (evt.getSource() == vscroll)
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471 int offy = vscroll.getValue();
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473 if (av.getWrapAlignment())
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475 int rowSize = seqPanel.seqCanvas.getWrappedCanvasWidth(seqPanel.
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476 seqCanvas.getWidth());
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477 av.setStartRes(vscroll.getValue() * rowSize);
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478 av.setEndRes( (vscroll.getValue() + 1) * rowSize);
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482 av.setStartSeq(offy);
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483 av.setEndSeq(offy +
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484 (seqPanel.seqCanvas.getHeight() / av.getCharHeight()));
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488 if (overviewPanel != null)
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490 overviewPanel.setBoxPosition();
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493 int scrollX = av.startRes - oldX;
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494 int scrollY = av.startSeq - oldY;
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496 if (av.getWrapAlignment() || !fastPaint)
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502 // Make sure we're not trying to draw a panel
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503 // larger than the visible window
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504 if(scrollX>av.endRes-av.startRes)
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505 scrollX = av.endRes-av.startRes;
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506 else if(scrollX<av.startRes-av.endRes)
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507 scrollX = av.startRes - av.endRes;
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509 if(scrollX!=0 || scrollY!=0)
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511 idPanel.idCanvas.fastPaint(scrollY);
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512 seqPanel.seqCanvas.fastPaint(scrollX,
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514 scalePanel.repaint();
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516 if (av.getShowAnnotation())
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518 annotationPanel.fastPaint(scrollX);
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527 * @param g DOCUMENT ME!
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529 public void paintComponent(Graphics g)
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533 Dimension d = idPanel.idCanvas.getPreferredSize();
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534 idPanelHolder.setPreferredSize(d);
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535 hscrollFillerPanel.setPreferredSize(new Dimension(d.width, 12));
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538 if (av.getWrapAlignment())
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540 int max = av.alignment.getWidth() /
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541 seqPanel.seqCanvas.getWrappedCanvasWidth(seqPanel.seqCanvas.getWidth()) +1;
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542 vscroll.setMaximum(max);
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543 vscroll.setUnitIncrement(1);
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544 vscroll.setVisibleAmount(1);
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548 setScrollValues(av.getStartRes(), av.getStartSeq());
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552 if( this.getVisibleRect().getBounds() == g.getClipBounds() )
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554 if (overviewPanel != null)
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555 overviewPanel.updateOverviewImage();
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562 * @param pg DOCUMENT ME!
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563 * @param pf DOCUMENT ME!
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564 * @param pi DOCUMENT ME!
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566 * @return DOCUMENT ME!
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568 * @throws PrinterException DOCUMENT ME!
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570 public int print(Graphics pg, PageFormat pf, int pi)
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571 throws PrinterException
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573 pg.translate( (int) pf.getImageableX(), (int) pf.getImageableY());
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575 int pwidth = (int) pf.getImageableWidth();
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576 int pheight = (int) pf.getImageableHeight();
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578 if (av.getWrapAlignment())
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580 return printWrappedAlignment(pg, pwidth, pheight, pi);
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584 return printUnwrapped(pg, pwidth, pheight, pi);
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591 * @param pg DOCUMENT ME!
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592 * @param pwidth DOCUMENT ME!
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593 * @param pheight DOCUMENT ME!
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594 * @param pi DOCUMENT ME!
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596 * @return DOCUMENT ME!
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598 * @throws PrinterException DOCUMENT ME!
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600 public int printUnwrapped(Graphics pg, int pwidth, int pheight, int pi)
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601 throws PrinterException
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603 int idWidth = calculateIdWidth().width + 4;
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604 FontMetrics fm = getFontMetrics(av.getFont());
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605 int scaleHeight = av.charHeight + fm.getDescent();
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607 pg.setColor(Color.white);
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608 pg.fillRect(0, 0, pwidth, pheight);
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609 pg.setFont(av.getFont());
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611 ////////////////////////////////////
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612 /// How many sequences and residues can we fit on a printable page?
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613 int totalRes = (pwidth - idWidth) / av.getCharWidth();
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615 int totalSeq = (int) ( (pheight - scaleHeight) / av.getCharHeight()) -
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618 int pagesWide = (av.getAlignment().getWidth() / totalRes) + 1;
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620 /////////////////////////////
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621 /// Only print these sequences and residues on this page
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624 /////////////////////////////
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625 /// Only print these sequences and residues on this page
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628 /////////////////////////////
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629 /// Only print these sequences and residues on this page
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632 /////////////////////////////
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633 /// Only print these sequences and residues on this page
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635 startRes = (pi % pagesWide) * totalRes;
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636 endRes = (startRes + totalRes) - 1;
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638 if (endRes > (av.getAlignment().getWidth() - 1))
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640 endRes = av.getAlignment().getWidth() - 1;
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643 startSeq = (pi / pagesWide) * totalSeq;
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644 endSeq = startSeq + totalSeq;
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646 if (endSeq > av.getAlignment().getHeight())
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648 endSeq = av.getAlignment().getHeight();
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651 int pagesHigh = ( (av.alignment.getHeight() / totalSeq) + 1) * pheight;
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653 if (av.showAnnotation)
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655 pagesHigh += annotationPanel.adjustPanelHeight() + 3;
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658 pagesHigh /= pheight;
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660 if (pi >= (pagesWide * pagesHigh))
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662 return Printable.NO_SUCH_PAGE;
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666 pg.translate(idWidth, 0);
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667 scalePanel.drawScale(pg, startRes, endRes, pwidth - idWidth, scaleHeight);
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668 pg.translate( -idWidth, scaleHeight);
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672 Color currentColor = null;
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673 Color currentTextColor = null;
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675 pg.setFont(new Font(av.getFont().getName(),
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677 av.getFont().getSize()));
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678 for (int i = startSeq; i < endSeq; i++)
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680 if ( (av.getSelectionGroup() != null) &&
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681 av.getSelectionGroup().sequences.contains(
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682 av.getAlignment().getSequenceAt(i)))
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684 currentColor = Color.gray;
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685 currentTextColor = Color.black;
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689 currentColor = av.getAlignment().getSequenceAt(i).getColor();
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690 currentTextColor = Color.black;
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693 pg.setColor(currentColor);
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694 pg.fillRect(0, (i - startSeq) * av.charHeight, idWidth,
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695 av.getCharHeight());
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697 pg.setColor(currentTextColor);
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699 String string = av.getAlignment().getSequenceAt(i).getDisplayId
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700 ( av.getShowJVSuffix());
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702 pg.drawString(string, 0,
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703 ( ( (i - startSeq) * av.charHeight) + av.getCharHeight()) -
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704 (av.getCharHeight() / 5));
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707 pg.setFont(av.getFont());
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709 // draw main sequence panel
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710 pg.translate(idWidth, 0);
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711 seqPanel.seqCanvas.drawPanel(pg, startRes, endRes, startSeq, endSeq,
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712 startRes, startSeq, 0);
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714 if (av.showAnnotation && (endSeq == av.alignment.getHeight()))
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716 pg.translate( -idWidth-3, (endSeq - startSeq) * av.charHeight + 3);
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717 alabels.drawComponent( (Graphics2D) pg, idWidth);
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718 pg.translate(idWidth+3, 0);
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719 annotationPanel.drawComponent( (Graphics2D) pg, startRes, endRes +
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723 return Printable.PAGE_EXISTS;
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729 * @param pg DOCUMENT ME!
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730 * @param pwidth DOCUMENT ME!
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731 * @param pheight DOCUMENT ME!
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732 * @param pi DOCUMENT ME!
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734 * @return DOCUMENT ME!
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736 * @throws PrinterException DOCUMENT ME!
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738 public int printWrappedAlignment(Graphics pg, int pwidth, int pheight,
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740 throws PrinterException
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743 int annotationHeight = 0;
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744 AnnotationLabels labels = null;
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745 if (av.showAnnotation)
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747 annotationHeight = annotationPanel.adjustPanelHeight();
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748 labels = new AnnotationLabels(av);
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751 int hgap = av.charHeight;
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752 if (av.scaleAboveWrapped)
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753 hgap += av.charHeight;
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755 int cHeight = av.getAlignment().getHeight() * av.charHeight
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757 + annotationHeight;
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759 int idWidth = calculateIdWidth().width + 4;
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761 int resWidth = seqPanel.seqCanvas.getWrappedCanvasWidth(pwidth -
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764 int totalHeight = cHeight * (av.alignment.getWidth() / resWidth + 1);
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766 pg.setColor(Color.white);
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767 pg.fillRect(0, 0, pwidth, pheight);
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768 pg.setFont(av.getFont());
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772 pg.setColor(Color.black);
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774 pg.translate(0, -pi * pheight);
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776 pg.setClip(0, pi * pheight, pwidth, pheight);
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779 Font italic = new Font(av.getFont().getName(), Font.ITALIC,
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780 av.getFont().getSize());
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781 pg.setFont(italic);
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785 for (int i = 0; i < av.alignment.getHeight(); i++)
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787 SequenceI s = av.alignment.getSequenceAt(i);
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788 String string = s.getDisplayId( av.getShowJVSuffix());
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790 pg.drawString(string, 0,
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791 ( (i * av.charHeight) + ypos + av.charHeight) -
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792 (av.charHeight / 5));
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794 if (labels != null)
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798 (av.getAlignment().getHeight() * av.charHeight));
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800 pg.setFont(av.getFont());
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801 labels.drawComponent(pg, idWidth);
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802 pg.setFont(italic);
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805 (av.getAlignment().getHeight() * av.charHeight));
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810 while (ypos < totalHeight);
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812 pg.translate(idWidth, 0);
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814 seqPanel.seqCanvas.drawWrappedPanel(pg, pwidth - idWidth, totalHeight, 0);
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816 if ( (pi * pheight) < totalHeight)
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818 return Printable.PAGE_EXISTS;
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823 return Printable.NO_SUCH_PAGE;
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827 void makeAlignmentImage(int type, File file)
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829 int height = ( (av.alignment.getHeight() + 1) * av.charHeight) + 30;
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830 int width = idPanel.getWidth() + (av.alignment.getWidth() * av.charWidth);
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832 if (idPanel.getWidth() == 0)
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834 width += calculateIdWidth().getWidth() + 4;
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837 if (av.getWrapAlignment())
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839 height = getWrappedHeight();
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840 width = seqPanel.getWidth() + idPanel.getWidth();
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842 else if (av.getShowAnnotation())
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844 height += annotationPanel.adjustPanelHeight() + 3;
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847 jalview.util.ImageMaker im;
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848 if(type==jalview.util.ImageMaker.PNG)
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849 im = new jalview.util.ImageMaker(this,
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850 jalview.util.ImageMaker.PNG,
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851 "Create PNG image from alignment",
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852 width, height, file, null);
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854 im = new jalview.util.ImageMaker(this,
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855 jalview.util.ImageMaker.EPS,
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856 "Create EPS file from alignment",
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857 width, height, file, alignFrame.getTitle() );
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861 if (av.getWrapAlignment())
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863 if(im.getGraphics()!=null)
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865 printWrappedAlignment(im.getGraphics(), width, height, 0);
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871 if(im.getGraphics()!=null)
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873 printUnwrapped(im.getGraphics(), width, height, 0);
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878 catch (OutOfMemoryError err)
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880 System.out.println("########################\n"
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881 + "OUT OF MEMORY " + file + "\n"
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882 + "########################");
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884 JOptionPane.showInternalMessageDialog(Desktop.desktop,
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885 "Out of Memory Creating Image!!"
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887 "\nSee help files for increasing Java Virtual Machine memory."
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889 JOptionPane.WARNING_MESSAGE);
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890 System.out.println("Create IMAGE: " + err);
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894 catch (Exception ex)
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896 ex.printStackTrace();
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902 public void makeEPS(File epsFile)
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904 makeAlignmentImage(jalview.util.ImageMaker.EPS, epsFile);
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910 public void makePNG(File pngFile)
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912 makeAlignmentImage(jalview.util.ImageMaker.PNG, pngFile);
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915 public void makePNGImageMap(File imgMapFile, String imageName)
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917 ///////ONLY WORKS WITH NONE WRAPPED ALIGNMENTS
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918 //////////////////////////////////////////////
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919 int idWidth = calculateIdWidth().width + 4;
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920 FontMetrics fm = getFontMetrics(av.getFont());
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921 int scaleHeight = av.charHeight + fm.getDescent();
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924 //////////////////////////////////
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925 if (imgMapFile != null)
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929 int s, sSize = av.alignment.getHeight(),
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930 res, alwidth = av.alignment.getWidth(), g, gSize, f, fSize, sy;
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931 StringBuffer text = new StringBuffer();
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932 PrintWriter out = new PrintWriter(new FileWriter(imgMapFile));
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933 out.println(jalview.io.HTMLOutput.getImageMapHTML());
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934 out.println("<img src=\"" + imageName +
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935 "\" border=\"0\" usemap=\"#Map\" >"
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936 + "<map name=\"Map\">");
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938 for (s = 0; s < sSize; s++)
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940 sy = s * av.charHeight + scaleHeight;
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942 SequenceI seq = av.alignment.getSequenceAt(s);
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943 java.util.Vector features = seq.getDatasetSequence().getSequenceFeatures();
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944 SequenceGroup[] groups = av.alignment.findAllGroups(seq);
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945 for(res =0; res<alwidth; res++)
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947 text = new StringBuffer();
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949 if(av.alignment.isNucleotide())
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950 obj = ResidueProperties.nucleotideName.get(seq.getCharAt(res)+"" );
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952 obj = ResidueProperties.aa2Triplet.get(
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953 seq.getCharAt(res) + "");
\r
958 String triplet = obj.toString();
\r
959 int alIndex = seq.findPosition(res);
\r
960 gSize = groups.length;
\r
961 for (g = 0; g < gSize; g++)
\r
963 if(text.length()<1)
\r
965 text.append("<area shape=\"rect\" coords=\""
\r
966 + (idWidth + res * av.charWidth) + ","
\r
968 + (idWidth + (res + 1) * av.charWidth) + ","
\r
969 + (av.charHeight + sy) + "\""
\r
970 + " onMouseOver=\"toolTip('"
\r
971 + alIndex + " " + triplet );
\r
974 if(groups[g].getStartRes()<res && groups[g].getEndRes()>res)
\r
975 text.append("<br><em>" + groups[g].getName() + "</em>");
\r
978 if (features != null)
\r
980 if(text.length()<1)
\r
982 text.append("<area shape=\"rect\" coords=\""
\r
983 + (idWidth + res * av.charWidth) + ","
\r
985 + (idWidth + (res + 1) * av.charWidth) + ","
\r
986 + (av.charHeight + sy) + "\""
\r
987 + " onMouseOver=\"toolTip('"
\r
988 + alIndex + " " + triplet );
\r
990 fSize = features.size();
\r
991 for (f = 0; f < fSize; f++)
\r
993 SequenceFeature sf = (SequenceFeature) features.elementAt(f);
\r
995 if ( (sf.getBegin() <= seq.findPosition(res)) &&
\r
996 (sf.getEnd() >= seq.findPosition(res)))
\r
998 if (sf.getType().equals("disulfide bond"))
\r
1000 if (sf.getBegin() == seq.findPosition(res)
\r
1001 || sf.getEnd() == seq.findPosition(res))
\r
1003 text.append("<br>disulfide bond " + sf.getBegin() + ":" +
\r
1009 text.append("<br>");
\r
1010 text.append(sf.getType());
\r
1011 if (sf.getDescription() != null && !sf.getType().equals(sf.getDescription()))
\r
1012 text.append(" " + sf.getDescription());
\r
1014 if (sf.getStatus() != null && sf.getStatus().length()>0)
\r
1016 text.append(" (" + sf.getStatus() + ")");
\r
1023 if(text.length()>1)
\r
1025 text.append("')\"; onMouseOut=\"toolTip()\"; href=\"#\">");
\r
1026 out.println(text.toString());
\r
1030 out.println("</map></body></html>");
\r
1034 catch (Exception ex)
\r
1036 ex.printStackTrace();
\r
1038 } ///////////END OF IMAGE MAP
\r
1042 int getWrappedHeight()
\r
1045 int chunkWidth = seqPanel.seqCanvas.getWrappedCanvasWidth(
\r
1046 seqPanel.seqCanvas.getWidth());
\r
1048 int hgap = av.charHeight;
\r
1049 if (av.scaleAboveWrapped)
\r
1050 hgap += av.charHeight;
\r
1052 int annotationHeight = 0;
\r
1053 if (av.showAnnotation)
\r
1055 annotationHeight = annotationPanel.adjustPanelHeight();
\r
1058 int cHeight = av.getAlignment().getHeight() * av.charHeight
\r
1060 + annotationHeight;
\r
1062 int height = ( (av.alignment.getWidth() / chunkWidth) + 1) * cHeight;
\r
1070 * @author $author$
\r
1071 * @version $Revision$
\r
1077 * Creates a new Preview object.
\r
1079 * @param image DOCUMENT ME!
\r
1081 public Preview(Image image)
\r
1083 setResizable(true);
\r
1084 setSize(image.getWidth(this), image.getHeight(this));
\r
1086 getContentPane().setLayout(new BorderLayout());
\r
1087 getContentPane().add(new PreviewPanel(image), BorderLayout.CENTER);
\r
1096 * @author $author$
\r
1097 * @version $Revision$
\r
1099 class PreviewPanel
\r
1105 * Creates a new PreviewPanel object.
\r
1107 * @param image DOCUMENT ME!
\r
1109 public PreviewPanel(Image image)
\r
1111 this.image = image;
\r
1117 * @param g DOCUMENT ME!
\r
1119 public void paintComponent(Graphics g)
\r
1121 if (image != null)
\r
1123 g.drawImage(image, 0, 0, this);
\r
1127 System.out.println("DEBUG:image is null");
\r