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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24 import java.awt.event.*;
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25 import java.awt.image.*;
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27 import javax.swing.*;
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34 * @version $Revision$
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36 public class AnnotationLabels extends JPanel implements MouseListener,
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37 MouseMotionListener, ActionListener
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39 static String ADDNEW = "Add New Row";
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40 static String HIDE = "Hide This Row";
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41 static String DELETE = "Delete This Row";
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42 static String SHOWALL = "Show All Hidden Rows";
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43 static String OUTPUT_TEXT = "Show Values In Textbox";
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44 boolean active = false;
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48 boolean resizing = false;
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51 int selectedRow = 0;
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52 int scrollOffset = 0;
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53 Font font = new Font("Arial", Font.PLAIN, 11);
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57 * Creates a new AnnotationLabels object.
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59 * @param ap DOCUMENT ME!
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61 public AnnotationLabels(AlignmentPanel ap)
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66 java.net.URL url = getClass().getResource("/images/idwidth.gif");
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71 temp = java.awt.Toolkit.getDefaultToolkit().createImage(url);
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76 MediaTracker mt = new MediaTracker(this);
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77 mt.addImage(temp, 0);
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80 catch (Exception ex)
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84 BufferedImage bi = new BufferedImage(temp.getHeight(this),
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85 temp.getWidth(this), BufferedImage.TYPE_INT_RGB);
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86 Graphics2D g = (Graphics2D) bi.getGraphics();
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87 g.rotate(Math.toRadians(90));
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88 g.drawImage(temp, 0, -bi.getWidth(this), this);
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91 addMouseListener(this);
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92 addMouseMotionListener(this);
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95 public AnnotationLabels(AlignViewport av)
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103 * @param y DOCUMENT ME!
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105 public void setScrollOffset(int y)
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114 * @param evt DOCUMENT ME!
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116 public void actionPerformed(ActionEvent evt)
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119 AlignmentAnnotation[] aa = ap.av.alignment.getAlignmentAnnotation();
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121 if (evt.getActionCommand().equals(ADDNEW))
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123 String label = JOptionPane.showInputDialog(this,
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124 "Label for annotation");
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131 AlignmentAnnotation newAnnotation = new AlignmentAnnotation(label,
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133 new Annotation[ap.av.alignment.getWidth()]);
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135 ap.av.alignment.addAnnotation(newAnnotation);
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136 ap.av.alignment.setAnnotationIndex(newAnnotation, 0);
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137 dif = aa[aa.length - 1].height;
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139 else if (evt.getActionCommand().equals(HIDE))
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141 aa[selectedRow].visible = false;
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143 if (aa[selectedRow].label.equals("Conservation"))
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145 ap.av.showConservation = false;
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148 if (aa[selectedRow].label.equals("Quality"))
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150 ap.av.showQuality = false;
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153 if (aa[selectedRow].label.equals("Consensus"))
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155 ap.av.showIdentity = false;
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158 dif = aa[selectedRow].height * -1;
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160 else if (evt.getActionCommand().equals(DELETE))
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162 ap.av.alignment.deleteAnnotation(aa[selectedRow]);
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163 dif = aa[selectedRow].height * -1;
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165 else if (evt.getActionCommand().equals(SHOWALL))
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167 for (int i = 0; i < aa.length; i++)
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169 if (!aa[i].visible)
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171 dif += aa[i].height;
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172 aa[i].visible = true;
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176 else if (evt.getActionCommand().equals(OUTPUT_TEXT))
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178 CutAndPasteTransfer cap = new CutAndPasteTransfer();
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179 Desktop.addInternalFrame(cap,
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180 ap.alignFrame.getTitle() + " - " + aa[selectedRow].label, 500,
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182 cap.setText(aa[selectedRow].toString());
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186 ap.annotationPanel.adjustPanelHeight();
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187 ap.annotationScroller.validate();
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194 * @param evt DOCUMENT ME!
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196 public void mousePressed(MouseEvent evt)
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204 * @param evt DOCUMENT ME!
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206 public void mouseReleased(MouseEvent evt)
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215 * @param evt DOCUMENT ME!
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217 public void mouseEntered(MouseEvent evt)
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226 * @param evt DOCUMENT ME!
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228 public void mouseExited(MouseEvent evt)
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237 * @param evt DOCUMENT ME!
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239 public void mouseDragged(MouseEvent evt)
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243 Dimension d = ap.annotationScroller.getPreferredSize();
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244 int dif = evt.getY() - oldY;
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246 dif /= ap.av.charHeight;
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247 dif *= ap.av.charHeight;
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249 if ((d.height - dif) > 20)
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251 ap.annotationScroller.setPreferredSize(new Dimension(d.width,
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253 d = ap.annotationSpaceFillerHolder.getPreferredSize();
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254 ap.annotationSpaceFillerHolder.setPreferredSize(new Dimension(
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255 d.width, d.height - dif));
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265 * @param evt DOCUMENT ME!
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267 public void mouseMoved(MouseEvent evt)
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274 * @param evt DOCUMENT ME!
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276 public void mouseClicked(MouseEvent evt)
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278 int y = evt.getY() - scrollOffset;
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279 AlignmentAnnotation[] aa = ap.av.alignment.getAlignmentAnnotation();
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281 if ((aa == null) || (aa.length == 0))
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283 JPopupMenu pop = new JPopupMenu("Annotations");
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284 JMenuItem item = new JMenuItem(ADDNEW);
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285 item.addActionListener(this);
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287 pop.show(this, evt.getX(), evt.getY());
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294 for (int i = 0; i < aa.length; i++)
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296 if (!aa[i].visible)
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301 height += aa[i].height;
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311 JPopupMenu pop = new JPopupMenu("Annotations");
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312 JMenuItem item = new JMenuItem(ADDNEW);
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313 item.addActionListener(this);
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315 item = new JMenuItem(HIDE);
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316 item.addActionListener(this);
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318 item = new JMenuItem(DELETE);
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319 item.addActionListener(this);
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321 item = new JMenuItem(SHOWALL);
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322 item.addActionListener(this);
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324 item = new JMenuItem(OUTPUT_TEXT);
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325 item.addActionListener(this);
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328 if (aa[selectedRow].label.equals("Consensus"))
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330 pop.addSeparator();
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331 final JCheckBoxMenuItem cbmi = new JCheckBoxMenuItem(
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332 "Ignore Gaps In Consensus",
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333 ap.av.getIgnoreGapsConsensus());
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334 cbmi.addActionListener(new ActionListener()
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335 {public void actionPerformed(ActionEvent e)
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337 ap.av.setIgnoreGapsConsensus(cbmi.getState());
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345 pop.show(this, evt.getX(), evt.getY());
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351 * @param g1 DOCUMENT ME!
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353 public void paintComponent(Graphics g)
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356 int width = getWidth();
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358 width = ap.calculateIdWidth().width + 4;
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360 Graphics2D g2 = (Graphics2D) g;
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362 g2.setRenderingHint(RenderingHints.KEY_ANTIALIASING,
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363 RenderingHints.VALUE_ANTIALIAS_ON);
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365 drawComponent(g2, width);
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372 * @param g DOCUMENT ME!
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374 public void drawComponent(Graphics g, int width)
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376 if(av.getFont().getSize()<10)
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377 g.setFont(new Font("Arial", Font.PLAIN, av.getFont().getSize()-1));
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381 FontMetrics fm = g.getFontMetrics(g.getFont());
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382 g.setColor(Color.white);
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383 g.fillRect(0, 0, getWidth(), getHeight());
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385 g.translate(0, scrollOffset);
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386 g.setColor(Color.black);
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388 AlignmentAnnotation[] aa = av.alignment.getAlignmentAnnotation();
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389 int fontHeight = g.getFont().getSize();
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390 int y = fontHeight;
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392 int graphExtras = 0;
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398 for (int i = 0; i < aa.length; i++)
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400 if (!aa[i].visible)
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405 x = width - fm.stringWidth(aa[i].label) - 3;
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411 y += (aa[i].height / 3);
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413 if(aa[i].graphGroup<0)
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414 graphExtras = y + fontHeight;
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417 if(aa[i].graphGroup>-1)
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420 for (int gg = 0; gg < aa.length; gg++)
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422 if (aa[gg].graphGroup == aa[i].graphGroup)
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426 if(groupSize * (fontHeight+8) < aa[i].height)
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427 graphExtras += (aa[i].height -( groupSize * (fontHeight+8)) )/2;
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429 for(int gg=0; gg<aa.length; gg++)
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431 if(aa[gg].graphGroup==aa[i].graphGroup)
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433 x = width - fm.stringWidth(aa[gg].label) - 3;
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434 g.drawString(aa[gg].label, x, graphExtras );
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435 if(aa[gg].annotations[0]!=null)
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436 g.setColor(aa[gg].annotations[0].colour);
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438 g.drawLine( x, graphExtras+3,
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439 x+fm.stringWidth(aa[gg].label),
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442 g.setColor(Color.black);
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443 graphExtras += fontHeight+8;
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448 g.drawString(aa[i].label, x, y);
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452 /* if (aa[i].graphLines != null)
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454 for (int gl = 0; gl < aa[i].graphLines.size(); gl++)
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456 x = width - fm.stringWidth(aa[i].getGraphLine(gl).label) - 3;
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457 g.drawString(aa[i].getGraphLine(gl).label, x, graphExtras);
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458 g.setColor(aa[i].getGraphLine(gl).colour);
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459 Graphics2D g2 = (Graphics2D) g;
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460 g2.setStroke(new BasicStroke(1,
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461 BasicStroke.CAP_SQUARE,
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462 BasicStroke.JOIN_ROUND, 3f,
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468 g.drawLine(x, graphExtras,
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469 x+fm.stringWidth(aa[i].label),
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471 g2.setStroke(new BasicStroke());
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474 y += ((2 * aa[i].height) / 3);
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487 g.drawImage(image, 2, 0 - scrollOffset, this);
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491 if ((aa == null) || (aa.length < 1))
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493 g.drawString("Right click", 2, 8);
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494 g.drawString("to add annotation", 2, 18);
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