2 * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
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3 * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
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5 * This file is part of Jalview.
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7 * Jalview is free software: you can redistribute it and/or
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8 * modify it under the terms of the GNU General Public License
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9 * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
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11 * Jalview is distributed in the hope that it will be useful, but
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12 * WITHOUT ANY WARRANTY; without even the implied warranty
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13 * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
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14 * PURPOSE. See the GNU General Public License for more details.
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16 * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
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18 package jalview.schemabinding.version2.descriptors;
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20 //---------------------------------/
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21 //- Imported classes and packages -/
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22 //---------------------------------/
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24 import jalview.schemabinding.version2.Feature;
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27 * Class FeatureDescriptor.
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29 * @version $Revision$ $Date$
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31 public class FeatureDescriptor extends
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32 org.exolab.castor.xml.util.XMLClassDescriptorImpl
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35 // --------------------------/
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36 // - Class/Member Variables -/
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37 // --------------------------/
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40 * Field _elementDefinition.
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42 private boolean _elementDefinition;
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47 private java.lang.String _nsPrefix;
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52 private java.lang.String _nsURI;
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57 private java.lang.String _xmlName;
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59 // ----------------/
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60 // - Constructors -/
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61 // ----------------/
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63 public FeatureDescriptor()
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66 _nsURI = "www.jalview.org";
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67 _xmlName = "feature";
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68 _elementDefinition = false;
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70 // -- set grouping compositor
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71 setCompositorAsSequence();
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72 org.exolab.castor.xml.util.XMLFieldDescriptorImpl desc = null;
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73 org.exolab.castor.mapping.FieldHandler handler = null;
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74 org.exolab.castor.xml.FieldValidator fieldValidator = null;
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75 // -- initialize attribute descriptors
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78 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
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79 java.lang.Integer.TYPE, "_begin", "begin",
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80 org.exolab.castor.xml.NodeType.Attribute);
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81 handler = new org.exolab.castor.xml.XMLFieldHandler()
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83 public java.lang.Object getValue(java.lang.Object object)
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84 throws IllegalStateException
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86 Feature target = (Feature) object;
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87 if (!target.hasBegin())
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91 return new java.lang.Integer(target.getBegin());
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94 public void setValue(java.lang.Object object, java.lang.Object value)
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95 throws IllegalStateException, IllegalArgumentException
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99 Feature target = (Feature) object;
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100 // ignore null values for non optional primitives
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106 target.setBegin(((java.lang.Integer) value).intValue());
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107 } catch (java.lang.Exception ex)
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109 throw new IllegalStateException(ex.toString());
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113 public java.lang.Object newInstance(java.lang.Object parent)
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118 desc.setHandler(handler);
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119 desc.setRequired(true);
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120 desc.setMultivalued(false);
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121 addFieldDescriptor(desc);
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123 // -- validation code for: _begin
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124 fieldValidator = new org.exolab.castor.xml.FieldValidator();
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125 fieldValidator.setMinOccurs(1);
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126 { // -- local scope
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127 org.exolab.castor.xml.validators.IntValidator typeValidator;
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128 typeValidator = new org.exolab.castor.xml.validators.IntValidator();
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129 fieldValidator.setValidator(typeValidator);
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130 typeValidator.setMinInclusive(-2147483648);
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131 typeValidator.setMaxInclusive(2147483647);
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133 desc.setValidator(fieldValidator);
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135 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
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136 java.lang.Integer.TYPE, "_end", "end",
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137 org.exolab.castor.xml.NodeType.Attribute);
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138 handler = new org.exolab.castor.xml.XMLFieldHandler()
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140 public java.lang.Object getValue(java.lang.Object object)
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141 throws IllegalStateException
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143 Feature target = (Feature) object;
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144 if (!target.hasEnd())
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148 return new java.lang.Integer(target.getEnd());
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151 public void setValue(java.lang.Object object, java.lang.Object value)
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152 throws IllegalStateException, IllegalArgumentException
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156 Feature target = (Feature) object;
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157 // ignore null values for non optional primitives
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163 target.setEnd(((java.lang.Integer) value).intValue());
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164 } catch (java.lang.Exception ex)
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166 throw new IllegalStateException(ex.toString());
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170 public java.lang.Object newInstance(java.lang.Object parent)
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175 desc.setHandler(handler);
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176 desc.setRequired(true);
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177 desc.setMultivalued(false);
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178 addFieldDescriptor(desc);
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180 // -- validation code for: _end
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181 fieldValidator = new org.exolab.castor.xml.FieldValidator();
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182 fieldValidator.setMinOccurs(1);
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183 { // -- local scope
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184 org.exolab.castor.xml.validators.IntValidator typeValidator;
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185 typeValidator = new org.exolab.castor.xml.validators.IntValidator();
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186 fieldValidator.setValidator(typeValidator);
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187 typeValidator.setMinInclusive(-2147483648);
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188 typeValidator.setMaxInclusive(2147483647);
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190 desc.setValidator(fieldValidator);
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192 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
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193 java.lang.String.class, "_type", "type",
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194 org.exolab.castor.xml.NodeType.Attribute);
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195 desc.setImmutable(true);
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196 handler = new org.exolab.castor.xml.XMLFieldHandler()
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198 public java.lang.Object getValue(java.lang.Object object)
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199 throws IllegalStateException
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201 Feature target = (Feature) object;
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202 return target.getType();
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205 public void setValue(java.lang.Object object, java.lang.Object value)
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206 throws IllegalStateException, IllegalArgumentException
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210 Feature target = (Feature) object;
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211 target.setType((java.lang.String) value);
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212 } catch (java.lang.Exception ex)
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214 throw new IllegalStateException(ex.toString());
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218 public java.lang.Object newInstance(java.lang.Object parent)
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223 desc.setHandler(handler);
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224 desc.setRequired(true);
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225 desc.setMultivalued(false);
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226 addFieldDescriptor(desc);
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228 // -- validation code for: _type
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229 fieldValidator = new org.exolab.castor.xml.FieldValidator();
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230 fieldValidator.setMinOccurs(1);
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231 { // -- local scope
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232 org.exolab.castor.xml.validators.StringValidator typeValidator;
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233 typeValidator = new org.exolab.castor.xml.validators.StringValidator();
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234 fieldValidator.setValidator(typeValidator);
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235 typeValidator.setWhiteSpace("preserve");
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237 desc.setValidator(fieldValidator);
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239 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
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240 java.lang.String.class, "_description", "description",
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241 org.exolab.castor.xml.NodeType.Attribute);
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242 desc.setImmutable(true);
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243 handler = new org.exolab.castor.xml.XMLFieldHandler()
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245 public java.lang.Object getValue(java.lang.Object object)
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246 throws IllegalStateException
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248 Feature target = (Feature) object;
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249 return target.getDescription();
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252 public void setValue(java.lang.Object object, java.lang.Object value)
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253 throws IllegalStateException, IllegalArgumentException
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257 Feature target = (Feature) object;
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258 target.setDescription((java.lang.String) value);
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259 } catch (java.lang.Exception ex)
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261 throw new IllegalStateException(ex.toString());
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265 public java.lang.Object newInstance(java.lang.Object parent)
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270 desc.setHandler(handler);
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271 desc.setMultivalued(false);
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272 addFieldDescriptor(desc);
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274 // -- validation code for: _description
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275 fieldValidator = new org.exolab.castor.xml.FieldValidator();
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276 { // -- local scope
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277 org.exolab.castor.xml.validators.StringValidator typeValidator;
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278 typeValidator = new org.exolab.castor.xml.validators.StringValidator();
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279 fieldValidator.setValidator(typeValidator);
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280 typeValidator.setWhiteSpace("preserve");
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282 desc.setValidator(fieldValidator);
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284 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
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285 java.lang.String.class, "_status", "status",
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286 org.exolab.castor.xml.NodeType.Attribute);
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287 desc.setImmutable(true);
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288 handler = new org.exolab.castor.xml.XMLFieldHandler()
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290 public java.lang.Object getValue(java.lang.Object object)
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291 throws IllegalStateException
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293 Feature target = (Feature) object;
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294 return target.getStatus();
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297 public void setValue(java.lang.Object object, java.lang.Object value)
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298 throws IllegalStateException, IllegalArgumentException
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302 Feature target = (Feature) object;
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303 target.setStatus((java.lang.String) value);
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304 } catch (java.lang.Exception ex)
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306 throw new IllegalStateException(ex.toString());
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310 public java.lang.Object newInstance(java.lang.Object parent)
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315 desc.setHandler(handler);
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316 desc.setMultivalued(false);
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317 addFieldDescriptor(desc);
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319 // -- validation code for: _status
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320 fieldValidator = new org.exolab.castor.xml.FieldValidator();
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321 { // -- local scope
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322 org.exolab.castor.xml.validators.StringValidator typeValidator;
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323 typeValidator = new org.exolab.castor.xml.validators.StringValidator();
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324 fieldValidator.setValidator(typeValidator);
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325 typeValidator.setWhiteSpace("preserve");
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327 desc.setValidator(fieldValidator);
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328 // -- _featureGroup
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329 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
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330 java.lang.String.class, "_featureGroup", "featureGroup",
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331 org.exolab.castor.xml.NodeType.Attribute);
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332 desc.setImmutable(true);
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333 handler = new org.exolab.castor.xml.XMLFieldHandler()
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335 public java.lang.Object getValue(java.lang.Object object)
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336 throws IllegalStateException
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338 Feature target = (Feature) object;
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339 return target.getFeatureGroup();
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342 public void setValue(java.lang.Object object, java.lang.Object value)
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343 throws IllegalStateException, IllegalArgumentException
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347 Feature target = (Feature) object;
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348 target.setFeatureGroup((java.lang.String) value);
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349 } catch (java.lang.Exception ex)
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351 throw new IllegalStateException(ex.toString());
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355 public java.lang.Object newInstance(java.lang.Object parent)
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360 desc.setHandler(handler);
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361 desc.setMultivalued(false);
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362 addFieldDescriptor(desc);
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364 // -- validation code for: _featureGroup
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365 fieldValidator = new org.exolab.castor.xml.FieldValidator();
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366 { // -- local scope
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367 org.exolab.castor.xml.validators.StringValidator typeValidator;
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368 typeValidator = new org.exolab.castor.xml.validators.StringValidator();
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369 fieldValidator.setValidator(typeValidator);
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370 typeValidator.setWhiteSpace("preserve");
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372 desc.setValidator(fieldValidator);
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374 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
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375 java.lang.Float.TYPE, "_score", "score",
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376 org.exolab.castor.xml.NodeType.Attribute);
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377 handler = new org.exolab.castor.xml.XMLFieldHandler()
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379 public java.lang.Object getValue(java.lang.Object object)
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380 throws IllegalStateException
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382 Feature target = (Feature) object;
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383 if (!target.hasScore())
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387 return new java.lang.Float(target.getScore());
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390 public void setValue(java.lang.Object object, java.lang.Object value)
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391 throws IllegalStateException, IllegalArgumentException
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395 Feature target = (Feature) object;
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396 // if null, use delete method for optional primitives
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399 target.deleteScore();
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402 target.setScore(((java.lang.Float) value).floatValue());
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403 } catch (java.lang.Exception ex)
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405 throw new IllegalStateException(ex.toString());
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409 public java.lang.Object newInstance(java.lang.Object parent)
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414 desc.setHandler(handler);
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415 desc.setMultivalued(false);
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416 addFieldDescriptor(desc);
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418 // -- validation code for: _score
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419 fieldValidator = new org.exolab.castor.xml.FieldValidator();
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420 { // -- local scope
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421 org.exolab.castor.xml.validators.FloatValidator typeValidator;
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422 typeValidator = new org.exolab.castor.xml.validators.FloatValidator();
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423 fieldValidator.setValidator(typeValidator);
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424 typeValidator.setMinInclusive((float) -3.4028235E38);
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425 typeValidator.setMaxInclusive((float) 3.4028235E38);
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427 desc.setValidator(fieldValidator);
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428 // -- initialize element descriptors
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430 // -- _otherDataList
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431 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
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432 jalview.schemabinding.version2.OtherData.class,
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433 "_otherDataList", "otherData",
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434 org.exolab.castor.xml.NodeType.Element);
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435 handler = new org.exolab.castor.xml.XMLFieldHandler()
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437 public java.lang.Object getValue(java.lang.Object object)
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438 throws IllegalStateException
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440 Feature target = (Feature) object;
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441 return target.getOtherData();
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444 public void setValue(java.lang.Object object, java.lang.Object value)
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445 throws IllegalStateException, IllegalArgumentException
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449 Feature target = (Feature) object;
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450 target.addOtherData((jalview.schemabinding.version2.OtherData) value);
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451 } catch (java.lang.Exception ex)
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453 throw new IllegalStateException(ex.toString());
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457 public void resetValue(Object object) throws IllegalStateException,
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458 IllegalArgumentException
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462 Feature target = (Feature) object;
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463 target.removeAllOtherData();
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464 } catch (java.lang.Exception ex)
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466 throw new IllegalStateException(ex.toString());
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470 public java.lang.Object newInstance(java.lang.Object parent)
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472 return new jalview.schemabinding.version2.OtherData();
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475 desc.setHandler(handler);
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476 desc.setNameSpaceURI("www.jalview.org");
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477 desc.setMultivalued(true);
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478 addFieldDescriptor(desc);
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480 // -- validation code for: _otherDataList
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481 fieldValidator = new org.exolab.castor.xml.FieldValidator();
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482 fieldValidator.setMinOccurs(0);
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483 { // -- local scope
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485 desc.setValidator(fieldValidator);
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493 * Method getAccessMode.
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495 * @return the access mode specified for this class.
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497 public org.exolab.castor.mapping.AccessMode getAccessMode()
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503 * Method getIdentity.
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505 * @return the identity field, null if this class has no identity.
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507 public org.exolab.castor.mapping.FieldDescriptor getIdentity()
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509 return super.getIdentity();
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513 * Method getJavaClass.
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515 * @return the Java class represented by this descriptor.
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517 public java.lang.Class getJavaClass()
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519 return jalview.schemabinding.version2.Feature.class;
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523 * Method getNameSpacePrefix.
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525 * @return the namespace prefix to use when marshaling as XML.
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527 public java.lang.String getNameSpacePrefix()
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533 * Method getNameSpaceURI.
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535 * @return the namespace URI used when marshaling and unmarshaling as XML.
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537 public java.lang.String getNameSpaceURI()
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543 * Method getValidator.
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545 * @return a specific validator for the class described by this
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548 public org.exolab.castor.xml.TypeValidator getValidator()
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554 * Method getXMLName.
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556 * @return the XML Name for the Class being described.
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558 public java.lang.String getXMLName()
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564 * Method isElementDefinition.
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566 * @return true if XML schema definition of this Class is that of a global
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567 * element or element with anonymous type definition.
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569 public boolean isElementDefinition()
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571 return _elementDefinition;
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