5 import java.awt.event.*;
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6 import jalview.datamodel.*;
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7 import jalview.appletgui.*;
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8 import java.awt.event.ActionListener;
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9 import java.awt.event.ActionEvent;
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12 public class AppletPDBViewer extends Frame
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16 AppletPDBCanvas pdbcanvas;
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19 public AppletPDBViewer(String pdbtext,
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21 SeqCanvas seqcanvas)
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29 catch (Exception ex)
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31 ex.printStackTrace();
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34 pdbcanvas = new AppletPDBCanvas(seqcanvas, seq);
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36 add(pdbcanvas, BorderLayout.CENTER);
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38 StringBuffer title = new StringBuffer(sequence.getName() + ":");
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40 jalview.bin.JalviewLite.addFrame(this,title.toString(),400, 400);
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43 PDBfile pdbfile = new PDBfile(pdbtext, "Paste");
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44 pdbcanvas.setPDBFile(pdbfile);
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45 }catch(Exception ex){ex.printStackTrace();}
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49 private void jbInit()
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52 this.setMenuBar(jMenuBar1);
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53 fileMenu.setLabel("File");
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54 coloursMenu.setLabel("Colours");
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55 mapping.setLabel("View Mapping");
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56 mapping.addActionListener(new ActionListener()
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58 public void actionPerformed(ActionEvent e)
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60 mapping_actionPerformed();
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63 wire.setLabel("Wireframe");
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64 wire.addItemListener(new ItemListener()
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66 public void itemStateChanged(ItemEvent e)
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68 wire_actionPerformed();
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71 depth.setState(true);
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72 depth.setLabel("Depthcue");
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73 depth.addItemListener(new ItemListener()
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75 public void itemStateChanged(ItemEvent e)
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77 depth_actionPerformed();
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80 zbuffer.setState(true);
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81 zbuffer.setLabel("Z Buffering");
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82 zbuffer.addItemListener(new ItemListener()
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84 public void itemStateChanged(ItemEvent e)
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86 zbuffer_actionPerformed();
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89 charge.setLabel("Charge & Cysteine");
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90 charge.addActionListener(new ActionListener()
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92 public void actionPerformed(ActionEvent e)
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94 charge_actionPerformed();
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97 hydro.setLabel("Hydrophobicity");
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98 hydro.addActionListener(new ActionListener()
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100 public void actionPerformed(ActionEvent e)
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102 hydro_actionPerformed();
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105 chain.setLabel("By Chain");
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106 chain.addActionListener(new ActionListener()
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108 public void actionPerformed(ActionEvent e)
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110 chain_actionPerformed();
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113 seqButton.setLabel("By Sequence");
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114 seqButton.addActionListener(new ActionListener()
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116 public void actionPerformed(ActionEvent e){
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117 seqButton_actionPerformed();
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120 molecule.setLabel("By Molecule");
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121 molecule.addItemListener(new ItemListener()
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123 public void itemStateChanged(ItemEvent e)
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125 molecule_actionPerformed();
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128 allchains.setLabel("All Chains Visible");
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129 allchains.addItemListener(new ItemListener()
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131 public void itemStateChanged(ItemEvent itemEvent)
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133 allchains_itemStateChanged(itemEvent);
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136 jMenuBar1.add(fileMenu);
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137 jMenuBar1.add(coloursMenu);
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138 fileMenu.add(mapping);;
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140 coloursMenu.add(seqButton);
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141 coloursMenu.add(chain);
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142 coloursMenu.add(hydro);
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143 coloursMenu.add(charge);
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144 coloursMenu.add(molecule);
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145 coloursMenu.addSeparator();
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146 coloursMenu.add(wire);
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147 coloursMenu.add(depth);
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148 coloursMenu.add(zbuffer);
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149 coloursMenu.add(allchains);
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150 allchains.setState(true);
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153 MenuBar jMenuBar1 = new MenuBar();
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154 Menu fileMenu = new Menu();
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155 Menu coloursMenu = new Menu();
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156 MenuItem mapping = new MenuItem();
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157 CheckboxGroup bg = new CheckboxGroup();
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158 CheckboxMenuItem wire = new CheckboxMenuItem();
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159 CheckboxMenuItem depth = new CheckboxMenuItem();
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160 CheckboxMenuItem zbuffer = new CheckboxMenuItem();
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162 MenuItem charge = new MenuItem();
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163 MenuItem hydro = new MenuItem();
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164 MenuItem chain = new MenuItem();
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165 MenuItem seqButton = new MenuItem();
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167 CheckboxMenuItem molecule = new CheckboxMenuItem();
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168 CheckboxMenuItem allchains = new CheckboxMenuItem();
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170 public void charge_actionPerformed()
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172 clearButtonGroup();
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173 pdbcanvas.pdb.setChargeColours();
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174 pdbcanvas.redrawneeded=true;
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175 pdbcanvas.repaint();
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178 public void hydro_actionPerformed()
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180 clearButtonGroup();
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181 pdbcanvas.pdb.setHydrophobicityColours();
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182 pdbcanvas.redrawneeded=true;
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183 pdbcanvas.repaint();
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186 public void chain_actionPerformed()
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188 clearButtonGroup();
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189 pdbcanvas.pdb.setChainColours();
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190 pdbcanvas.redrawneeded=true;
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191 pdbcanvas.repaint();
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194 public void zbuffer_actionPerformed()
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196 pdbcanvas.zbuffer = ! pdbcanvas.zbuffer;
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197 pdbcanvas.redrawneeded=true;
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198 pdbcanvas.repaint();
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201 public void molecule_actionPerformed()
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203 pdbcanvas.bymolecule = ! pdbcanvas.bymolecule;
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204 pdbcanvas.redrawneeded=true;
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205 pdbcanvas.repaint();
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208 public void depth_actionPerformed()
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210 pdbcanvas.depthcue = ! pdbcanvas.depthcue;
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211 pdbcanvas.redrawneeded=true;
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212 pdbcanvas.repaint();
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215 public void wire_actionPerformed()
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217 pdbcanvas.wire = ! pdbcanvas.wire;
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218 pdbcanvas.redrawneeded=true;
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219 pdbcanvas.repaint();
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222 public void seqButton_actionPerformed()
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224 clearButtonGroup();
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225 pdbcanvas.bysequence = true;
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226 pdbcanvas.updateSeqColours();
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229 void clearButtonGroup()
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231 pdbcanvas.bysequence = false;
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232 pdbcanvas.bymolecule = false;
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235 public void mapping_actionPerformed()
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237 jalview.appletgui.CutAndPasteTransfer cap
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238 = new jalview.appletgui.CutAndPasteTransfer(false, null);
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239 Frame frame = new Frame();
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241 jalview.bin.JalviewLite.addFrame(frame, "PDB - Sequence Mapping", 500, 600);
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242 cap.setText(pdbcanvas.mappingDetails.toString());
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245 public void allchains_itemStateChanged(ItemEvent itemEvent)
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247 pdbcanvas.setAllchainsVisible(allchains.getState());
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