2 * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1)
3 * Copyright (C) 2014 The Jalview Authors
5 * This file is part of Jalview.
7 * Jalview is free software: you can redistribute it and/or
8 * modify it under the terms of the GNU General Public License
9 * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
11 * Jalview is distributed in the hope that it will be useful, but
12 * WITHOUT ANY WARRANTY; without even the implied warranty
13 * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
14 * PURPOSE. See the GNU General Public License for more details.
16 * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
17 * The Jalview Authors are detailed in the 'AUTHORS' file.
19 package jalview.schemabinding.version2.descriptors;
21 //---------------------------------/
22 //- Imported classes and packages -/
23 //---------------------------------/
25 import jalview.schemabinding.version2.Feature;
28 * Class FeatureDescriptor.
30 * @version $Revision$ $Date$
32 public class FeatureDescriptor extends
33 org.exolab.castor.xml.util.XMLClassDescriptorImpl
36 // --------------------------/
37 // - Class/Member Variables -/
38 // --------------------------/
41 * Field _elementDefinition.
43 private boolean _elementDefinition;
48 private java.lang.String _nsPrefix;
53 private java.lang.String _nsURI;
58 private java.lang.String _xmlName;
64 public FeatureDescriptor()
67 _nsURI = "www.jalview.org";
69 _elementDefinition = false;
71 // -- set grouping compositor
72 setCompositorAsSequence();
73 org.exolab.castor.xml.util.XMLFieldDescriptorImpl desc = null;
74 org.exolab.castor.mapping.FieldHandler handler = null;
75 org.exolab.castor.xml.FieldValidator fieldValidator = null;
76 // -- initialize attribute descriptors
79 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
80 java.lang.Integer.TYPE, "_begin", "begin",
81 org.exolab.castor.xml.NodeType.Attribute);
82 handler = new org.exolab.castor.xml.XMLFieldHandler()
84 public java.lang.Object getValue(java.lang.Object object)
85 throws IllegalStateException
87 Feature target = (Feature) object;
88 if (!target.hasBegin())
92 return new java.lang.Integer(target.getBegin());
95 public void setValue(java.lang.Object object, java.lang.Object value)
96 throws IllegalStateException, IllegalArgumentException
100 Feature target = (Feature) object;
101 // ignore null values for non optional primitives
107 target.setBegin(((java.lang.Integer) value).intValue());
108 } catch (java.lang.Exception ex)
110 throw new IllegalStateException(ex.toString());
114 public java.lang.Object newInstance(java.lang.Object parent)
119 desc.setHandler(handler);
120 desc.setRequired(true);
121 desc.setMultivalued(false);
122 addFieldDescriptor(desc);
124 // -- validation code for: _begin
125 fieldValidator = new org.exolab.castor.xml.FieldValidator();
126 fieldValidator.setMinOccurs(1);
128 org.exolab.castor.xml.validators.IntValidator typeValidator;
129 typeValidator = new org.exolab.castor.xml.validators.IntValidator();
130 fieldValidator.setValidator(typeValidator);
131 typeValidator.setMinInclusive(-2147483648);
132 typeValidator.setMaxInclusive(2147483647);
134 desc.setValidator(fieldValidator);
136 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
137 java.lang.Integer.TYPE, "_end", "end",
138 org.exolab.castor.xml.NodeType.Attribute);
139 handler = new org.exolab.castor.xml.XMLFieldHandler()
141 public java.lang.Object getValue(java.lang.Object object)
142 throws IllegalStateException
144 Feature target = (Feature) object;
145 if (!target.hasEnd())
149 return new java.lang.Integer(target.getEnd());
152 public void setValue(java.lang.Object object, java.lang.Object value)
153 throws IllegalStateException, IllegalArgumentException
157 Feature target = (Feature) object;
158 // ignore null values for non optional primitives
164 target.setEnd(((java.lang.Integer) value).intValue());
165 } catch (java.lang.Exception ex)
167 throw new IllegalStateException(ex.toString());
171 public java.lang.Object newInstance(java.lang.Object parent)
176 desc.setHandler(handler);
177 desc.setRequired(true);
178 desc.setMultivalued(false);
179 addFieldDescriptor(desc);
181 // -- validation code for: _end
182 fieldValidator = new org.exolab.castor.xml.FieldValidator();
183 fieldValidator.setMinOccurs(1);
185 org.exolab.castor.xml.validators.IntValidator typeValidator;
186 typeValidator = new org.exolab.castor.xml.validators.IntValidator();
187 fieldValidator.setValidator(typeValidator);
188 typeValidator.setMinInclusive(-2147483648);
189 typeValidator.setMaxInclusive(2147483647);
191 desc.setValidator(fieldValidator);
193 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
194 java.lang.String.class, "_type", "type",
195 org.exolab.castor.xml.NodeType.Attribute);
196 desc.setImmutable(true);
197 handler = new org.exolab.castor.xml.XMLFieldHandler()
199 public java.lang.Object getValue(java.lang.Object object)
200 throws IllegalStateException
202 Feature target = (Feature) object;
203 return target.getType();
206 public void setValue(java.lang.Object object, java.lang.Object value)
207 throws IllegalStateException, IllegalArgumentException
211 Feature target = (Feature) object;
212 target.setType((java.lang.String) value);
213 } catch (java.lang.Exception ex)
215 throw new IllegalStateException(ex.toString());
219 public java.lang.Object newInstance(java.lang.Object parent)
224 desc.setHandler(handler);
225 desc.setRequired(true);
226 desc.setMultivalued(false);
227 addFieldDescriptor(desc);
229 // -- validation code for: _type
230 fieldValidator = new org.exolab.castor.xml.FieldValidator();
231 fieldValidator.setMinOccurs(1);
233 org.exolab.castor.xml.validators.StringValidator typeValidator;
234 typeValidator = new org.exolab.castor.xml.validators.StringValidator();
235 fieldValidator.setValidator(typeValidator);
236 typeValidator.setWhiteSpace("preserve");
238 desc.setValidator(fieldValidator);
240 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
241 java.lang.String.class, "_description", "description",
242 org.exolab.castor.xml.NodeType.Attribute);
243 desc.setImmutable(true);
244 handler = new org.exolab.castor.xml.XMLFieldHandler()
246 public java.lang.Object getValue(java.lang.Object object)
247 throws IllegalStateException
249 Feature target = (Feature) object;
250 return target.getDescription();
253 public void setValue(java.lang.Object object, java.lang.Object value)
254 throws IllegalStateException, IllegalArgumentException
258 Feature target = (Feature) object;
259 target.setDescription((java.lang.String) value);
260 } catch (java.lang.Exception ex)
262 throw new IllegalStateException(ex.toString());
266 public java.lang.Object newInstance(java.lang.Object parent)
271 desc.setHandler(handler);
272 desc.setMultivalued(false);
273 addFieldDescriptor(desc);
275 // -- validation code for: _description
276 fieldValidator = new org.exolab.castor.xml.FieldValidator();
278 org.exolab.castor.xml.validators.StringValidator typeValidator;
279 typeValidator = new org.exolab.castor.xml.validators.StringValidator();
280 fieldValidator.setValidator(typeValidator);
281 typeValidator.setWhiteSpace("preserve");
283 desc.setValidator(fieldValidator);
285 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
286 java.lang.String.class, "_status", "status",
287 org.exolab.castor.xml.NodeType.Attribute);
288 desc.setImmutable(true);
289 handler = new org.exolab.castor.xml.XMLFieldHandler()
291 public java.lang.Object getValue(java.lang.Object object)
292 throws IllegalStateException
294 Feature target = (Feature) object;
295 return target.getStatus();
298 public void setValue(java.lang.Object object, java.lang.Object value)
299 throws IllegalStateException, IllegalArgumentException
303 Feature target = (Feature) object;
304 target.setStatus((java.lang.String) value);
305 } catch (java.lang.Exception ex)
307 throw new IllegalStateException(ex.toString());
311 public java.lang.Object newInstance(java.lang.Object parent)
316 desc.setHandler(handler);
317 desc.setMultivalued(false);
318 addFieldDescriptor(desc);
320 // -- validation code for: _status
321 fieldValidator = new org.exolab.castor.xml.FieldValidator();
323 org.exolab.castor.xml.validators.StringValidator typeValidator;
324 typeValidator = new org.exolab.castor.xml.validators.StringValidator();
325 fieldValidator.setValidator(typeValidator);
326 typeValidator.setWhiteSpace("preserve");
328 desc.setValidator(fieldValidator);
330 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
331 java.lang.String.class, "_featureGroup", "featureGroup",
332 org.exolab.castor.xml.NodeType.Attribute);
333 desc.setImmutable(true);
334 handler = new org.exolab.castor.xml.XMLFieldHandler()
336 public java.lang.Object getValue(java.lang.Object object)
337 throws IllegalStateException
339 Feature target = (Feature) object;
340 return target.getFeatureGroup();
343 public void setValue(java.lang.Object object, java.lang.Object value)
344 throws IllegalStateException, IllegalArgumentException
348 Feature target = (Feature) object;
349 target.setFeatureGroup((java.lang.String) value);
350 } catch (java.lang.Exception ex)
352 throw new IllegalStateException(ex.toString());
356 public java.lang.Object newInstance(java.lang.Object parent)
361 desc.setHandler(handler);
362 desc.setMultivalued(false);
363 addFieldDescriptor(desc);
365 // -- validation code for: _featureGroup
366 fieldValidator = new org.exolab.castor.xml.FieldValidator();
368 org.exolab.castor.xml.validators.StringValidator typeValidator;
369 typeValidator = new org.exolab.castor.xml.validators.StringValidator();
370 fieldValidator.setValidator(typeValidator);
371 typeValidator.setWhiteSpace("preserve");
373 desc.setValidator(fieldValidator);
375 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
376 java.lang.Float.TYPE, "_score", "score",
377 org.exolab.castor.xml.NodeType.Attribute);
378 handler = new org.exolab.castor.xml.XMLFieldHandler()
380 public java.lang.Object getValue(java.lang.Object object)
381 throws IllegalStateException
383 Feature target = (Feature) object;
384 if (!target.hasScore())
388 return new java.lang.Float(target.getScore());
391 public void setValue(java.lang.Object object, java.lang.Object value)
392 throws IllegalStateException, IllegalArgumentException
396 Feature target = (Feature) object;
397 // if null, use delete method for optional primitives
400 target.deleteScore();
403 target.setScore(((java.lang.Float) value).floatValue());
404 } catch (java.lang.Exception ex)
406 throw new IllegalStateException(ex.toString());
410 public java.lang.Object newInstance(java.lang.Object parent)
415 desc.setHandler(handler);
416 desc.setMultivalued(false);
417 addFieldDescriptor(desc);
419 // -- validation code for: _score
420 fieldValidator = new org.exolab.castor.xml.FieldValidator();
422 org.exolab.castor.xml.validators.FloatValidator typeValidator;
423 typeValidator = new org.exolab.castor.xml.validators.FloatValidator();
424 fieldValidator.setValidator(typeValidator);
425 typeValidator.setMinInclusive((float) -3.4028235E38);
426 typeValidator.setMaxInclusive((float) 3.4028235E38);
428 desc.setValidator(fieldValidator);
429 // -- initialize element descriptors
432 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
433 jalview.schemabinding.version2.OtherData.class,
434 "_otherDataList", "otherData",
435 org.exolab.castor.xml.NodeType.Element);
436 handler = new org.exolab.castor.xml.XMLFieldHandler()
438 public java.lang.Object getValue(java.lang.Object object)
439 throws IllegalStateException
441 Feature target = (Feature) object;
442 return target.getOtherData();
445 public void setValue(java.lang.Object object, java.lang.Object value)
446 throws IllegalStateException, IllegalArgumentException
450 Feature target = (Feature) object;
451 target.addOtherData((jalview.schemabinding.version2.OtherData) value);
452 } catch (java.lang.Exception ex)
454 throw new IllegalStateException(ex.toString());
458 public void resetValue(Object object) throws IllegalStateException,
459 IllegalArgumentException
463 Feature target = (Feature) object;
464 target.removeAllOtherData();
465 } catch (java.lang.Exception ex)
467 throw new IllegalStateException(ex.toString());
471 public java.lang.Object newInstance(java.lang.Object parent)
473 return new jalview.schemabinding.version2.OtherData();
476 desc.setHandler(handler);
477 desc.setNameSpaceURI("www.jalview.org");
478 desc.setMultivalued(true);
479 addFieldDescriptor(desc);
481 // -- validation code for: _otherDataList
482 fieldValidator = new org.exolab.castor.xml.FieldValidator();
483 fieldValidator.setMinOccurs(0);
486 desc.setValidator(fieldValidator);
494 * Method getAccessMode.
496 * @return the access mode specified for this class.
498 public org.exolab.castor.mapping.AccessMode getAccessMode()
504 * Method getIdentity.
506 * @return the identity field, null if this class has no identity.
508 public org.exolab.castor.mapping.FieldDescriptor getIdentity()
510 return super.getIdentity();
514 * Method getJavaClass.
516 * @return the Java class represented by this descriptor.
518 public java.lang.Class getJavaClass()
520 return jalview.schemabinding.version2.Feature.class;
524 * Method getNameSpacePrefix.
526 * @return the namespace prefix to use when marshaling as XML.
528 public java.lang.String getNameSpacePrefix()
534 * Method getNameSpaceURI.
536 * @return the namespace URI used when marshaling and unmarshaling as XML.
538 public java.lang.String getNameSpaceURI()
544 * Method getValidator.
546 * @return a specific validator for the class described by this
549 public org.exolab.castor.xml.TypeValidator getValidator()
557 * @return the XML Name for the Class being described.
559 public java.lang.String getXMLName()
565 * Method isElementDefinition.
567 * @return true if XML schema definition of this Class is that of a global
568 * element or element with anonymous type definition.
570 public boolean isElementDefinition()
572 return _elementDefinition;