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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22 import java.awt.event.*;
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23 import javax.swing.*;
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25 import jalview.datamodel.*;
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27 public class IdPanel
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28 extends JPanel implements MouseListener,
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31 protected IdCanvas idCanvas;
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32 protected AlignViewport av;
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33 protected AlignmentPanel alignPanel;
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34 ScrollThread scrollThread = null;
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38 boolean mouseDragging = false;
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40 public IdPanel(AlignViewport av, AlignmentPanel parent)
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43 alignPanel = parent;
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44 idCanvas = new IdCanvas(av);
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45 setLayout(new BorderLayout());
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46 add(idCanvas, BorderLayout.CENTER);
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47 addMouseListener(this);
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48 addMouseMotionListener(this);
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51 public void mouseMoved(MouseEvent e)
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55 public void mouseDragged(MouseEvent e)
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57 mouseDragging = true;
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61 if (av.getWrapAlignment())
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63 y -= (2 * av.charHeight);
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66 int seq = av.getIndex(y);
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75 selectSeqs(lastid - 1, seq);
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77 else if (seq > lastid)
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79 selectSeqs(lastid + 1, seq);
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83 alignPanel.repaint();
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86 public void mouseClicked(MouseEvent e)
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88 if (e.getClickCount() == 2)
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92 if (av.getWrapAlignment())
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94 y -= (2 * av.charHeight);
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97 int seq = av.getIndex(y);
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98 String id = av.getAlignment().getSequenceAt(seq).getName();
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102 jalview.util.BrowserLauncher.openURL(
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103 "http://srs.ebi.ac.uk/srs7bin/cgi-bin/wgetz?-e+[swall-id:" +
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106 catch (Exception ex)
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108 // TODO: JBPNote : state dependent error message for real browserLaunch problems rather than unix misconfiguration.
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109 System.err.println(ex.getMessage() +
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110 "\nUnixers: Try adding this jalview.browser property line \n" +
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111 "in your jalview.properties file (/usr/local/bin/firefox is an exanmple browser path):\n" +
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112 "jalview.browser=/usr/local/bin/firefox\n");
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114 //ex.printStackTrace();
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119 public void mouseEntered(MouseEvent e)
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121 if (scrollThread != null)
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123 scrollThread.running = false;
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127 public void mouseExited(MouseEvent e)
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129 if (av.getWrapAlignment())
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134 if (mouseDragging && (e.getY() < 0) && (av.getStartSeq() > 0))
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136 scrollThread = new ScrollThread(true);
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139 if (mouseDragging && (e.getY() >= getHeight()) &&
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140 (av.alignment.getHeight() > av.getEndSeq()))
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142 scrollThread = new ScrollThread(false);
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146 public void mousePressed(MouseEvent e)
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148 if (e.getClickCount() == 2)
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155 if (av.getWrapAlignment())
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157 y -= (2 * av.charHeight);
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160 int seq = av.getIndex(y);
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167 if (javax.swing.SwingUtilities.isRightMouseButton(e))
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169 jalview.gui.PopupMenu pop = new jalview.gui.PopupMenu(alignPanel,
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170 (Sequence) av.getAlignment().getSequenceAt(seq));
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171 pop.show(this, e.getX(), y);
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176 if (!e.isControlDown() && !e.isShiftDown() &&
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177 (av.alignment.findGroup(av.alignment.getSequenceAt(seq)) != null))
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179 SequenceGroup selection = new SequenceGroup();
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180 SequenceGroup sg = av.alignment.findGroup(av.alignment.getSequenceAt(
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182 selection.setStartRes(0);
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183 selection.setEndRes(av.alignment.getWidth() - 1);
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185 for (int i = 0; i < sg.getSize(); i++)
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187 selection.addSequence(sg.getSequenceAt(i), true);
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190 av.setSelectionGroup(selection);
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195 if ( (av.getSelectionGroup() == null) ||
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196 (!e.isControlDown() && (av.getSelectionGroup() != null)))
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198 av.setSelectionGroup(new SequenceGroup());
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201 av.getSelectionGroup().setStartRes(0);
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202 av.getSelectionGroup().setEndRes(av.alignment.getWidth() - 1);
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204 if (e.isShiftDown() && (lastid != -1))
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206 selectSeqs(lastid, seq);
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213 alignPanel.repaint();
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216 void selectSeq(int seq)
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220 SequenceI pickedSeq = av.getAlignment().getSequenceAt(seq);
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221 av.getSelectionGroup().addOrRemove(pickedSeq, true);
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224 void selectSeqs(int start, int end)
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236 for (int i = start; i <= end; i++)
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238 av.getSelectionGroup().addSequence(av.getAlignment().getSequenceAt(i), true);
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242 public void mouseReleased(MouseEvent e)
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244 if (scrollThread != null)
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246 scrollThread.running = false;
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249 mouseDragging = false;
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250 PaintRefresher.Refresh(av.alignment);
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253 public void highlightSearchResults(java.util.Vector found)
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255 idCanvas.setHighlighted(found);
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262 int index = av.alignment.findIndex( (SequenceI) found.get(0));
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264 // do we need to scroll the panel?
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265 if ( (av.getStartSeq() > index) || (av.getEndSeq() < index))
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267 alignPanel.setScrollValues(av.getStartRes(), index);
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271 // this class allows scrolling off the bottom of the visible alignment
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275 boolean running = false;
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278 public ScrollThread(boolean up)
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284 public void stopScrolling()
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295 if (alignPanel.scrollUp(up))
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297 // scroll was ok, so add new sequence to selection
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298 int seq = av.getStartSeq();
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302 seq = av.getEndSeq();
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307 selectSeqs(lastid - 1, seq);
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309 else if (seq > lastid)
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311 selectSeqs(lastid + 1, seq);
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321 alignPanel.repaint();
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327 catch (Exception ex)
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