src/org/vamsas/objects/core/SequenceSetDescriptor.java

   1 /*
   2  * This class was automatically generated with
   3  * <a href="http://www.castor.org">Castor 0.9.9M2</a>, using an XML
   4  * Schema.
   5  * $Id$
   6  */
   7
   8 package org.vamsas.objects.core;
   9
  10   //---------------------------------/
  11  //- Imported classes and packages -/
  12 //---------------------------------/
  13
  14 import org.exolab.castor.mapping.AccessMode;
  15 import org.exolab.castor.xml.TypeValidator;
  16 import org.exolab.castor.xml.XMLFieldDescriptor;
  17 import org.exolab.castor.xml.validators.*;
  18
  19 /**
  20  * Class SequenceSetDescriptor.
  21  *
  22  * @version $Revision$ $Date$
  23  */
  24 public class SequenceSetDescriptor extends org.exolab.castor.xml.util.XMLClassDescriptorImpl {
  25
  26
  27       //--------------------------/
  28      //- Class/Member Variables -/
  29     //--------------------------/
  30
  31     /**
  32      * Field nsPrefix
  33      */
  34     private java.lang.String nsPrefix;
  35
  36     /**
  37      * Field nsURI
  38      */
  39     private java.lang.String nsURI;
  40
  41     /**
  42      * Field xmlName
  43      */
  44     private java.lang.String xmlName;
  45
  46     /**
  47      * Field identity
  48      */
  49     private org.exolab.castor.xml.XMLFieldDescriptor identity;
  50
  51
  52       //----------------/
  53      //- Constructors -/
  54     //----------------/
  55
  56     public SequenceSetDescriptor()
  57      {
  58         super();
  59         nsURI = "http://www.vamsas.org";
  60         xmlName = "SequenceSet";
  61
  62         //-- set grouping compositor
  63         setCompositorAsSequence();
  64         org.exolab.castor.xml.util.XMLFieldDescriptorImpl  desc           = null;
  65         org.exolab.castor.mapping.FieldHandler             handler        = null;
  66         org.exolab.castor.xml.FieldValidator               fieldValidator = null;
  67         //-- initialize attribute descriptors
  68
  69         //-- _gapChar
  70         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_gapChar", "gapChar", org.exolab.castor.xml.NodeType.Attribute);
  71         desc.setImmutable(true);
  72         handler = new org.exolab.castor.xml.XMLFieldHandler() {
  73             public java.lang.Object getValue( java.lang.Object object )
  74                 throws IllegalStateException
  75             {
  76                 SequenceSet target = (SequenceSet) object;
  77                 return target.getGapChar();
  78             }
  79             public void setValue( java.lang.Object object, java.lang.Object value)
  80                 throws IllegalStateException, IllegalArgumentException
  81             {
  82                 try {
  83                     SequenceSet target = (SequenceSet) object;
  84                     target.setGapChar( (java.lang.String) value);
  85                 }
  86                 catch (java.lang.Exception ex) {
  87                     throw new IllegalStateException(ex.toString());
  88                 }
  89             }
  90             public java.lang.Object newInstance( java.lang.Object parent ) {
  91                 return null;
  92             }
  93         };
  94         desc.setHandler(handler);
  95         desc.setRequired(true);
  96         desc.setMultivalued(false);
  97         addFieldDescriptor(desc);
  98
  99         //-- validation code for: _gapChar
 100         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 101         fieldValidator.setMinOccurs(1);
 102         { //-- local scope
 103             StringValidator typeValidator = new StringValidator();
 104             typeValidator.setWhiteSpace("preserve");
 105             fieldValidator.setValidator(typeValidator);
 106         }
 107         desc.setValidator(fieldValidator);
 108         //-- _aligned
 109         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_aligned", "aligned", org.exolab.castor.xml.NodeType.Attribute);
 110         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 111             public java.lang.Object getValue( java.lang.Object object )
 112                 throws IllegalStateException
 113             {
 114                 SequenceSet target = (SequenceSet) object;
 115                 if(!target.hasAligned())
 116                     return null;
 117                 return (target.getAligned() ? java.lang.Boolean.TRUE : java.lang.Boolean.FALSE);
 118             }
 119             public void setValue( java.lang.Object object, java.lang.Object value)
 120                 throws IllegalStateException, IllegalArgumentException
 121             {
 122                 try {
 123                     SequenceSet target = (SequenceSet) object;
 124                     // if null, use delete method for optional primitives
 125                     if (value == null) {
 126                         target.deleteAligned();
 127                         return;
 128                     }
 129                     target.setAligned( ((java.lang.Boolean)value).booleanValue());
 130                 }
 131                 catch (java.lang.Exception ex) {
 132                     throw new IllegalStateException(ex.toString());
 133                 }
 134             }
 135             public java.lang.Object newInstance( java.lang.Object parent ) {
 136                 return null;
 137             }
 138         };
 139         desc.setHandler(handler);
 140         desc.setMultivalued(false);
 141         addFieldDescriptor(desc);
 142
 143         //-- validation code for: _aligned
 144         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 145         { //-- local scope
 146             BooleanValidator typeValidator = new BooleanValidator();
 147             fieldValidator.setValidator(typeValidator);
 148         }
 149         desc.setValidator(fieldValidator);
 150         //-- _id
 151         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_id", "id", org.exolab.castor.xml.NodeType.Attribute);
 152         this.identity = desc;
 153         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 154             public java.lang.Object getValue( java.lang.Object object )
 155                 throws IllegalStateException
 156             {
 157                 SequenceSet target = (SequenceSet) object;
 158                 return target.getId();
 159             }
 160             public void setValue( java.lang.Object object, java.lang.Object value)
 161                 throws IllegalStateException, IllegalArgumentException
 162             {
 163                 try {
 164                     SequenceSet target = (SequenceSet) object;
 165                     target.setId( (java.lang.String) value);
 166                 }
 167                 catch (java.lang.Exception ex) {
 168                     throw new IllegalStateException(ex.toString());
 169                 }
 170             }
 171             public java.lang.Object newInstance( java.lang.Object parent ) {
 172                 return new java.lang.String();
 173             }
 174         };
 175         desc.setHandler(handler);
 176         desc.setMultivalued(false);
 177         addFieldDescriptor(desc);
 178
 179         //-- validation code for: _id
 180         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 181         { //-- local scope
 182         }
 183         desc.setValidator(fieldValidator);
 184         //-- initialize element descriptors
 185
 186         //-- _sequenceList
 187         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.Sequence.class, "_sequenceList", "Sequence", org.exolab.castor.xml.NodeType.Element);
 188         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 189             public java.lang.Object getValue( java.lang.Object object )
 190                 throws IllegalStateException
 191             {
 192                 SequenceSet target = (SequenceSet) object;
 193                 return target.getSequence();
 194             }
 195             public void setValue( java.lang.Object object, java.lang.Object value)
 196                 throws IllegalStateException, IllegalArgumentException
 197             {
 198                 try {
 199                     SequenceSet target = (SequenceSet) object;
 200                     target.addSequence( (org.vamsas.objects.core.Sequence) value);
 201                 }
 202                 catch (java.lang.Exception ex) {
 203                     throw new IllegalStateException(ex.toString());
 204                 }
 205             }
 206             public java.lang.Object newInstance( java.lang.Object parent ) {
 207                 return new org.vamsas.objects.core.Sequence();
 208             }
 209         };
 210         desc.setHandler(handler);
 211         desc.setNameSpaceURI("http://www.vamsas.org");
 212         desc.setRequired(true);
 213         desc.setMultivalued(true);
 214         addFieldDescriptor(desc);
 215
 216         //-- validation code for: _sequenceList
 217         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 218         fieldValidator.setMinOccurs(1);
 219         { //-- local scope
 220         }
 221         desc.setValidator(fieldValidator);
 222         //-- _sequenceSetAnnotationsList
 223         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.SequenceSetAnnotations.class, "_sequenceSetAnnotationsList", "SequenceSetAnnotations", org.exolab.castor.xml.NodeType.Element);
 224         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 225             public java.lang.Object getValue( java.lang.Object object )
 226                 throws IllegalStateException
 227             {
 228                 SequenceSet target = (SequenceSet) object;
 229                 return target.getSequenceSetAnnotations();
 230             }
 231             public void setValue( java.lang.Object object, java.lang.Object value)
 232                 throws IllegalStateException, IllegalArgumentException
 233             {
 234                 try {
 235                     SequenceSet target = (SequenceSet) object;
 236                     target.addSequenceSetAnnotations( (org.vamsas.objects.core.SequenceSetAnnotations) value);
 237                 }
 238                 catch (java.lang.Exception ex) {
 239                     throw new IllegalStateException(ex.toString());
 240                 }
 241             }
 242             public java.lang.Object newInstance( java.lang.Object parent ) {
 243                 return new org.vamsas.objects.core.SequenceSetAnnotations();
 244             }
 245         };
 246         desc.setHandler(handler);
 247         desc.setNameSpaceURI("http://www.vamsas.org");
 248         desc.setMultivalued(true);
 249         addFieldDescriptor(desc);
 250
 251         //-- validation code for: _sequenceSetAnnotationsList
 252         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 253         fieldValidator.setMinOccurs(0);
 254         { //-- local scope
 255         }
 256         desc.setValidator(fieldValidator);
 257         //-- _alignmentList
 258         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.Alignment.class, "_alignmentList", "Alignment", org.exolab.castor.xml.NodeType.Element);
 259         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 260             public java.lang.Object getValue( java.lang.Object object )
 261                 throws IllegalStateException
 262             {
 263                 SequenceSet target = (SequenceSet) object;
 264                 return target.getAlignment();
 265             }
 266             public void setValue( java.lang.Object object, java.lang.Object value)
 267                 throws IllegalStateException, IllegalArgumentException
 268             {
 269                 try {
 270                     SequenceSet target = (SequenceSet) object;
 271                     target.addAlignment( (org.vamsas.objects.core.Alignment) value);
 272                 }
 273                 catch (java.lang.Exception ex) {
 274                     throw new IllegalStateException(ex.toString());
 275                 }
 276             }
 277             public java.lang.Object newInstance( java.lang.Object parent ) {
 278                 return new org.vamsas.objects.core.Alignment();
 279             }
 280         };
 281         desc.setHandler(handler);
 282         desc.setNameSpaceURI("http://www.vamsas.org");
 283         desc.setMultivalued(true);
 284         addFieldDescriptor(desc);
 285
 286         //-- validation code for: _alignmentList
 287         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 288         fieldValidator.setMinOccurs(0);
 289         { //-- local scope
 290         }
 291         desc.setValidator(fieldValidator);
 292         //-- _treeList
 293         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.Tree.class, "_treeList", "Tree", org.exolab.castor.xml.NodeType.Element);
 294         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 295             public java.lang.Object getValue( java.lang.Object object )
 296                 throws IllegalStateException
 297             {
 298                 SequenceSet target = (SequenceSet) object;
 299                 return target.getTree();
 300             }
 301             public void setValue( java.lang.Object object, java.lang.Object value)
 302                 throws IllegalStateException, IllegalArgumentException
 303             {
 304                 try {
 305                     SequenceSet target = (SequenceSet) object;
 306                     target.addTree( (org.vamsas.objects.core.Tree) value);
 307                 }
 308                 catch (java.lang.Exception ex) {
 309                     throw new IllegalStateException(ex.toString());
 310                 }
 311             }
 312             public java.lang.Object newInstance( java.lang.Object parent ) {
 313                 return new org.vamsas.objects.core.Tree();
 314             }
 315         };
 316         desc.setHandler(handler);
 317         desc.setNameSpaceURI("http://www.vamsas.org");
 318         desc.setMultivalued(true);
 319         addFieldDescriptor(desc);
 320
 321         //-- validation code for: _treeList
 322         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 323         fieldValidator.setMinOccurs(0);
 324         { //-- local scope
 325         }
 326         desc.setValidator(fieldValidator);
 327         //-- _provenance
 328         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.Provenance.class, "_provenance", "Provenance", org.exolab.castor.xml.NodeType.Element);
 329         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 330             public java.lang.Object getValue( java.lang.Object object )
 331                 throws IllegalStateException
 332             {
 333                 SequenceSet target = (SequenceSet) object;
 334                 return target.getProvenance();
 335             }
 336             public void setValue( java.lang.Object object, java.lang.Object value)
 337                 throws IllegalStateException, IllegalArgumentException
 338             {
 339                 try {
 340                     SequenceSet target = (SequenceSet) object;
 341                     target.setProvenance( (org.vamsas.objects.core.Provenance) value);
 342                 }
 343                 catch (java.lang.Exception ex) {
 344                     throw new IllegalStateException(ex.toString());
 345                 }
 346             }
 347             public java.lang.Object newInstance( java.lang.Object parent ) {
 348                 return new org.vamsas.objects.core.Provenance();
 349             }
 350         };
 351         desc.setHandler(handler);
 352         desc.setNameSpaceURI("http://www.vamsas.org");
 353         desc.setRequired(true);
 354         desc.setMultivalued(false);
 355         addFieldDescriptor(desc);
 356
 357         //-- validation code for: _provenance
 358         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 359         fieldValidator.setMinOccurs(1);
 360         { //-- local scope
 361         }
 362         desc.setValidator(fieldValidator);
 363     } //-- org.vamsas.objects.core.SequenceSetDescriptor()
 364
 365
 366       //-----------/
 367      //- Methods -/
 368     //-----------/
 369
 370     /**
 371      * Method getAccessMode
 372      *
 373      *
 374      *
 375      * @return AccessMode
 376      */
 377     public org.exolab.castor.mapping.AccessMode getAccessMode()
 378     {
 379         return null;
 380     } //-- org.exolab.castor.mapping.AccessMode getAccessMode()
 381
 382     /**
 383      * Method getExtends
 384      *
 385      *
 386      *
 387      * @return ClassDescriptor
 388      */
 389     public org.exolab.castor.mapping.ClassDescriptor getExtends()
 390     {
 391         return null;
 392     } //-- org.exolab.castor.mapping.ClassDescriptor getExtends()
 393
 394     /**
 395      * Method getIdentity
 396      *
 397      *
 398      *
 399      * @return FieldDescriptor
 400      */
 401     public org.exolab.castor.mapping.FieldDescriptor getIdentity()
 402     {
 403         return identity;
 404     } //-- org.exolab.castor.mapping.FieldDescriptor getIdentity()
 405
 406     /**
 407      * Method getJavaClass
 408      *
 409      *
 410      *
 411      * @return Class
 412      */
 413     public java.lang.Class getJavaClass()
 414     {
 415         return org.vamsas.objects.core.SequenceSet.class;
 416     } //-- java.lang.Class getJavaClass()
 417
 418     /**
 419      * Method getNameSpacePrefix
 420      *
 421      *
 422      *
 423      * @return String
 424      */
 425     public java.lang.String getNameSpacePrefix()
 426     {
 427         return nsPrefix;
 428     } //-- java.lang.String getNameSpacePrefix()
 429
 430     /**
 431      * Method getNameSpaceURI
 432      *
 433      *
 434      *
 435      * @return String
 436      */
 437     public java.lang.String getNameSpaceURI()
 438     {
 439         return nsURI;
 440     } //-- java.lang.String getNameSpaceURI()
 441
 442     /**
 443      * Method getValidator
 444      *
 445      *
 446      *
 447      * @return TypeValidator
 448      */
 449     public org.exolab.castor.xml.TypeValidator getValidator()
 450     {
 451         return this;
 452     } //-- org.exolab.castor.xml.TypeValidator getValidator()
 453
 454     /**
 455      * Method getXMLName
 456      *
 457      *
 458      *
 459      * @return String
 460      */
 461     public java.lang.String getXMLName()
 462     {
 463         return xmlName;
 464     } //-- java.lang.String getXMLName()
 465
 466 }