3 import jalview.gui.*;
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4 import jalview.datamodel.*;
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5 import jalview.schemes.*;
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7 import javax.swing.*;
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12 public class HTMLOutput
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14 SequenceRenderer sr = new SequenceRenderer(null);
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16 public HTMLOutput(AlignViewport av)
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19 JFileChooser chooser = new JFileChooser(jalview.bin.Cache.LAST_DIRECTORY);
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20 chooser.setDialogTitle("Save as HTML");
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21 chooser.setToolTipText("Save");
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22 int value = chooser.showSaveDialog(null);
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23 if(value == JFileChooser.APPROVE_OPTION)
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25 String choice = chooser.getSelectedFile().getPath();
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26 jalview.bin.Cache.LAST_DIRECTORY = choice;
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28 PrintWriter out = new java.io.PrintWriter(new java.io.FileWriter(choice));
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29 out.println("<HTML>");
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30 out.println("<style type=\"text/css\">");
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31 out.println("<!--");
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32 out.println("td {font-family: \"Courier New\", Courier, mono;; font-size: medium; text-align: center; }");
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34 out.println("</style>");
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35 out.println("<BODY>");
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36 out.println("<table border=\"1\"><tr><td>\n");
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37 out.println("<table border=\"0\" cellpadding=\"0\" cellspacing=\"0\">\n");
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41 SequenceGroup group;
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44 AlignmentI alignment = av.getAlignment();
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46 for (int i = 0; i < alignment.getHeight(); i++)
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48 seq = alignment.getSequenceAt(i);
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49 group = alignment.findGroup( seq );
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50 out.println("<tr><td>"+seq.getName()+" </td>");
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51 for (int res = 0; res < seq.getLength(); res++)
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53 if(group!=null && group.getStartRes()<=res && group.getEndRes()>=res)
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56 cs = av.getGlobalColourScheme();
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58 color = sr.getResidueBoxColour(cs, seq, res);
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60 if(color.getRGB()<-1)
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62 r = Integer.toHexString(color.getRed());
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65 g = Integer.toHexString(color.getGreen());
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68 b = Integer.toHexString(color.getBlue());
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71 out.println("<td bgcolor=\"#"+ r + g + b + "\">"+seq.getCharAt(res)+"</td>");
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74 out.println("<td>"+seq.getCharAt(res)+"</td>");
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78 out.println("</tr>");
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81 out.println("</table>");
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82 out.println("</td></tr></table>\n</body>\n</html>");
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86 jalview.util.BrowserLauncher.openURL( choice );
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88 catch(Exception ex){}
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