2 * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
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
10 * of the License, or (at your option) any later version.
12 * Jalview is distributed in the hope that it will be useful, but
13 * WITHOUT ANY WARRANTY; without even the implied warranty
14 * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
15 * PURPOSE. See the GNU General Public License for more details.
17 * You should have received a copy of the GNU General Public License
18 * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
19 * The Jalview Authors are detailed in the 'AUTHORS' file.
21 package jalview.schemabinding.version2.descriptors;
23 //---------------------------------/
24 //- Imported classes and packages -/
25 //---------------------------------/
27 import jalview.schemabinding.version2.Feature;
30 * Class FeatureDescriptor.
32 * @version $Revision$ $Date$
34 public class FeatureDescriptor extends
35 org.exolab.castor.xml.util.XMLClassDescriptorImpl
38 // --------------------------/
39 // - Class/Member Variables -/
40 // --------------------------/
43 * Field _elementDefinition.
45 private boolean _elementDefinition;
50 private java.lang.String _nsPrefix;
55 private java.lang.String _nsURI;
60 private java.lang.String _xmlName;
66 public FeatureDescriptor()
69 _nsURI = "www.jalview.org";
71 _elementDefinition = false;
73 // -- set grouping compositor
74 setCompositorAsSequence();
75 org.exolab.castor.xml.util.XMLFieldDescriptorImpl desc = null;
76 org.exolab.castor.mapping.FieldHandler handler = null;
77 org.exolab.castor.xml.FieldValidator fieldValidator = null;
78 // -- initialize attribute descriptors
81 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
82 java.lang.Integer.TYPE, "_begin", "begin",
83 org.exolab.castor.xml.NodeType.Attribute);
84 handler = new org.exolab.castor.xml.XMLFieldHandler()
86 public java.lang.Object getValue(java.lang.Object object)
87 throws IllegalStateException
89 Feature target = (Feature) object;
90 if (!target.hasBegin())
94 return new java.lang.Integer(target.getBegin());
97 public void setValue(java.lang.Object object, java.lang.Object value)
98 throws IllegalStateException, IllegalArgumentException
102 Feature target = (Feature) object;
103 // ignore null values for non optional primitives
109 target.setBegin(((java.lang.Integer) value).intValue());
110 } catch (java.lang.Exception ex)
112 throw new IllegalStateException(ex.toString());
116 public java.lang.Object newInstance(java.lang.Object parent)
121 desc.setHandler(handler);
122 desc.setRequired(true);
123 desc.setMultivalued(false);
124 addFieldDescriptor(desc);
126 // -- validation code for: _begin
127 fieldValidator = new org.exolab.castor.xml.FieldValidator();
128 fieldValidator.setMinOccurs(1);
130 org.exolab.castor.xml.validators.IntValidator typeValidator;
131 typeValidator = new org.exolab.castor.xml.validators.IntValidator();
132 fieldValidator.setValidator(typeValidator);
133 typeValidator.setMinInclusive(-2147483648);
134 typeValidator.setMaxInclusive(2147483647);
136 desc.setValidator(fieldValidator);
138 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
139 java.lang.Integer.TYPE, "_end", "end",
140 org.exolab.castor.xml.NodeType.Attribute);
141 handler = new org.exolab.castor.xml.XMLFieldHandler()
143 public java.lang.Object getValue(java.lang.Object object)
144 throws IllegalStateException
146 Feature target = (Feature) object;
147 if (!target.hasEnd())
151 return new java.lang.Integer(target.getEnd());
154 public void setValue(java.lang.Object object, java.lang.Object value)
155 throws IllegalStateException, IllegalArgumentException
159 Feature target = (Feature) object;
160 // ignore null values for non optional primitives
166 target.setEnd(((java.lang.Integer) value).intValue());
167 } catch (java.lang.Exception ex)
169 throw new IllegalStateException(ex.toString());
173 public java.lang.Object newInstance(java.lang.Object parent)
178 desc.setHandler(handler);
179 desc.setRequired(true);
180 desc.setMultivalued(false);
181 addFieldDescriptor(desc);
183 // -- validation code for: _end
184 fieldValidator = new org.exolab.castor.xml.FieldValidator();
185 fieldValidator.setMinOccurs(1);
187 org.exolab.castor.xml.validators.IntValidator typeValidator;
188 typeValidator = new org.exolab.castor.xml.validators.IntValidator();
189 fieldValidator.setValidator(typeValidator);
190 typeValidator.setMinInclusive(-2147483648);
191 typeValidator.setMaxInclusive(2147483647);
193 desc.setValidator(fieldValidator);
195 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
196 java.lang.String.class, "_type", "type",
197 org.exolab.castor.xml.NodeType.Attribute);
198 desc.setImmutable(true);
199 handler = new org.exolab.castor.xml.XMLFieldHandler()
201 public java.lang.Object getValue(java.lang.Object object)
202 throws IllegalStateException
204 Feature target = (Feature) object;
205 return target.getType();
208 public void setValue(java.lang.Object object, java.lang.Object value)
209 throws IllegalStateException, IllegalArgumentException
213 Feature target = (Feature) object;
214 target.setType((java.lang.String) value);
215 } catch (java.lang.Exception ex)
217 throw new IllegalStateException(ex.toString());
221 public java.lang.Object newInstance(java.lang.Object parent)
226 desc.setHandler(handler);
227 desc.setRequired(true);
228 desc.setMultivalued(false);
229 addFieldDescriptor(desc);
231 // -- validation code for: _type
232 fieldValidator = new org.exolab.castor.xml.FieldValidator();
233 fieldValidator.setMinOccurs(1);
235 org.exolab.castor.xml.validators.StringValidator typeValidator;
236 typeValidator = new org.exolab.castor.xml.validators.StringValidator();
237 fieldValidator.setValidator(typeValidator);
238 typeValidator.setWhiteSpace("preserve");
240 desc.setValidator(fieldValidator);
242 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
243 java.lang.String.class, "_description", "description",
244 org.exolab.castor.xml.NodeType.Attribute);
245 desc.setImmutable(true);
246 handler = new org.exolab.castor.xml.XMLFieldHandler()
248 public java.lang.Object getValue(java.lang.Object object)
249 throws IllegalStateException
251 Feature target = (Feature) object;
252 return target.getDescription();
255 public void setValue(java.lang.Object object, java.lang.Object value)
256 throws IllegalStateException, IllegalArgumentException
260 Feature target = (Feature) object;
261 target.setDescription((java.lang.String) value);
262 } catch (java.lang.Exception ex)
264 throw new IllegalStateException(ex.toString());
268 public java.lang.Object newInstance(java.lang.Object parent)
273 desc.setHandler(handler);
274 desc.setMultivalued(false);
275 addFieldDescriptor(desc);
277 // -- validation code for: _description
278 fieldValidator = new org.exolab.castor.xml.FieldValidator();
280 org.exolab.castor.xml.validators.StringValidator typeValidator;
281 typeValidator = new org.exolab.castor.xml.validators.StringValidator();
282 fieldValidator.setValidator(typeValidator);
283 typeValidator.setWhiteSpace("preserve");
285 desc.setValidator(fieldValidator);
287 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
288 java.lang.String.class, "_status", "status",
289 org.exolab.castor.xml.NodeType.Attribute);
290 desc.setImmutable(true);
291 handler = new org.exolab.castor.xml.XMLFieldHandler()
293 public java.lang.Object getValue(java.lang.Object object)
294 throws IllegalStateException
296 Feature target = (Feature) object;
297 return target.getStatus();
300 public void setValue(java.lang.Object object, java.lang.Object value)
301 throws IllegalStateException, IllegalArgumentException
305 Feature target = (Feature) object;
306 target.setStatus((java.lang.String) value);
307 } catch (java.lang.Exception ex)
309 throw new IllegalStateException(ex.toString());
313 public java.lang.Object newInstance(java.lang.Object parent)
318 desc.setHandler(handler);
319 desc.setMultivalued(false);
320 addFieldDescriptor(desc);
322 // -- validation code for: _status
323 fieldValidator = new org.exolab.castor.xml.FieldValidator();
325 org.exolab.castor.xml.validators.StringValidator typeValidator;
326 typeValidator = new org.exolab.castor.xml.validators.StringValidator();
327 fieldValidator.setValidator(typeValidator);
328 typeValidator.setWhiteSpace("preserve");
330 desc.setValidator(fieldValidator);
332 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
333 java.lang.String.class, "_featureGroup", "featureGroup",
334 org.exolab.castor.xml.NodeType.Attribute);
335 desc.setImmutable(true);
336 handler = new org.exolab.castor.xml.XMLFieldHandler()
338 public java.lang.Object getValue(java.lang.Object object)
339 throws IllegalStateException
341 Feature target = (Feature) object;
342 return target.getFeatureGroup();
345 public void setValue(java.lang.Object object, java.lang.Object value)
346 throws IllegalStateException, IllegalArgumentException
350 Feature target = (Feature) object;
351 target.setFeatureGroup((java.lang.String) value);
352 } catch (java.lang.Exception ex)
354 throw new IllegalStateException(ex.toString());
358 public java.lang.Object newInstance(java.lang.Object parent)
363 desc.setHandler(handler);
364 desc.setMultivalued(false);
365 addFieldDescriptor(desc);
367 // -- validation code for: _featureGroup
368 fieldValidator = new org.exolab.castor.xml.FieldValidator();
370 org.exolab.castor.xml.validators.StringValidator typeValidator;
371 typeValidator = new org.exolab.castor.xml.validators.StringValidator();
372 fieldValidator.setValidator(typeValidator);
373 typeValidator.setWhiteSpace("preserve");
375 desc.setValidator(fieldValidator);
377 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
378 java.lang.Float.TYPE, "_score", "score",
379 org.exolab.castor.xml.NodeType.Attribute);
380 handler = new org.exolab.castor.xml.XMLFieldHandler()
382 public java.lang.Object getValue(java.lang.Object object)
383 throws IllegalStateException
385 Feature target = (Feature) object;
386 if (!target.hasScore())
390 return new java.lang.Float(target.getScore());
393 public void setValue(java.lang.Object object, java.lang.Object value)
394 throws IllegalStateException, IllegalArgumentException
398 Feature target = (Feature) object;
399 // if null, use delete method for optional primitives
402 target.deleteScore();
405 target.setScore(((java.lang.Float) value).floatValue());
406 } catch (java.lang.Exception ex)
408 throw new IllegalStateException(ex.toString());
412 public java.lang.Object newInstance(java.lang.Object parent)
417 desc.setHandler(handler);
418 desc.setMultivalued(false);
419 addFieldDescriptor(desc);
421 // -- validation code for: _score
422 fieldValidator = new org.exolab.castor.xml.FieldValidator();
424 org.exolab.castor.xml.validators.FloatValidator typeValidator;
425 typeValidator = new org.exolab.castor.xml.validators.FloatValidator();
426 fieldValidator.setValidator(typeValidator);
427 typeValidator.setMinInclusive((float) -3.4028235E38);
428 typeValidator.setMaxInclusive((float) 3.4028235E38);
430 desc.setValidator(fieldValidator);
431 // -- initialize element descriptors
434 desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(
435 jalview.schemabinding.version2.OtherData.class,
436 "_otherDataList", "otherData",
437 org.exolab.castor.xml.NodeType.Element);
438 handler = new org.exolab.castor.xml.XMLFieldHandler()
440 public java.lang.Object getValue(java.lang.Object object)
441 throws IllegalStateException
443 Feature target = (Feature) object;
444 return target.getOtherData();
447 public void setValue(java.lang.Object object, java.lang.Object value)
448 throws IllegalStateException, IllegalArgumentException
452 Feature target = (Feature) object;
453 target.addOtherData((jalview.schemabinding.version2.OtherData) value);
454 } catch (java.lang.Exception ex)
456 throw new IllegalStateException(ex.toString());
460 public void resetValue(Object object) throws IllegalStateException,
461 IllegalArgumentException
465 Feature target = (Feature) object;
466 target.removeAllOtherData();
467 } catch (java.lang.Exception ex)
469 throw new IllegalStateException(ex.toString());
473 public java.lang.Object newInstance(java.lang.Object parent)
475 return new jalview.schemabinding.version2.OtherData();
478 desc.setHandler(handler);
479 desc.setNameSpaceURI("www.jalview.org");
480 desc.setMultivalued(true);
481 addFieldDescriptor(desc);
483 // -- validation code for: _otherDataList
484 fieldValidator = new org.exolab.castor.xml.FieldValidator();
485 fieldValidator.setMinOccurs(0);
488 desc.setValidator(fieldValidator);
496 * Method getAccessMode.
498 * @return the access mode specified for this class.
500 public org.exolab.castor.mapping.AccessMode getAccessMode()
506 * Method getIdentity.
508 * @return the identity field, null if this class has no identity.
510 public org.exolab.castor.mapping.FieldDescriptor getIdentity()
512 return super.getIdentity();
516 * Method getJavaClass.
518 * @return the Java class represented by this descriptor.
520 public java.lang.Class getJavaClass()
522 return jalview.schemabinding.version2.Feature.class;
526 * Method getNameSpacePrefix.
528 * @return the namespace prefix to use when marshaling as XML.
530 public java.lang.String getNameSpacePrefix()
536 * Method getNameSpaceURI.
538 * @return the namespace URI used when marshaling and unmarshaling as XML.
540 public java.lang.String getNameSpaceURI()
546 * Method getValidator.
548 * @return a specific validator for the class described by this
551 public org.exolab.castor.xml.TypeValidator getValidator()
559 * @return the XML Name for the Class being described.
561 public java.lang.String getXMLName()
567 * Method isElementDefinition.
569 * @return true if XML schema definition of this Class is that of a global
570 * element or element with anonymous type definition.
572 public boolean isElementDefinition()
574 return _elementDefinition;