src/org/vamsas/objects/core/AlignmentDescriptor.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 AlignmentDescriptor.
  21  *
  22  * @version $Revision$ $Date$
  23  */
  24 public class AlignmentDescriptor 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 AlignmentDescriptor()
  57      {
  58         super();
  59         nsURI = "http://www.vamsas.org";
  60         xmlName = "Alignment";
  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                 Alignment target = (Alignment) 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                     Alignment target = (Alignment) 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                 Alignment target = (Alignment) 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                     Alignment target = (Alignment) 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                 Alignment target = (Alignment) 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                     Alignment target = (Alignment) 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         //-- _modifiable
 185         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_modifiable", "modifiable", org.exolab.castor.xml.NodeType.Attribute);
 186         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 187             public java.lang.Object getValue( java.lang.Object object )
 188                 throws IllegalStateException
 189             {
 190                 Alignment target = (Alignment) object;
 191                 if(!target.hasModifiable())
 192                     return null;
 193                 return (target.getModifiable() ? java.lang.Boolean.TRUE : java.lang.Boolean.FALSE);
 194             }
 195             public void setValue( java.lang.Object object, java.lang.Object value)
 196                 throws IllegalStateException, IllegalArgumentException
 197             {
 198                 try {
 199                     Alignment target = (Alignment) object;
 200                     // if null, use delete method for optional primitives
 201                     if (value == null) {
 202                         target.deleteModifiable();
 203                         return;
 204                     }
 205                     target.setModifiable( ((java.lang.Boolean)value).booleanValue());
 206                 }
 207                 catch (java.lang.Exception ex) {
 208                     throw new IllegalStateException(ex.toString());
 209                 }
 210             }
 211             public java.lang.Object newInstance( java.lang.Object parent ) {
 212                 return null;
 213             }
 214         };
 215         desc.setHandler(handler);
 216         desc.setMultivalued(false);
 217         addFieldDescriptor(desc);
 218
 219         //-- validation code for: _modifiable
 220         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 221         { //-- local scope
 222             BooleanValidator typeValidator = new BooleanValidator();
 223             fieldValidator.setValidator(typeValidator);
 224         }
 225         desc.setValidator(fieldValidator);
 226         //-- initialize element descriptors
 227
 228         //-- _alignmentAnnotationList
 229         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.AlignmentAnnotation.class, "_alignmentAnnotationList", "AlignmentAnnotation", org.exolab.castor.xml.NodeType.Element);
 230         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 231             public java.lang.Object getValue( java.lang.Object object )
 232                 throws IllegalStateException
 233             {
 234                 Alignment target = (Alignment) object;
 235                 return target.getAlignmentAnnotation();
 236             }
 237             public void setValue( java.lang.Object object, java.lang.Object value)
 238                 throws IllegalStateException, IllegalArgumentException
 239             {
 240                 try {
 241                     Alignment target = (Alignment) object;
 242                     target.addAlignmentAnnotation( (org.vamsas.objects.core.AlignmentAnnotation) value);
 243                 }
 244                 catch (java.lang.Exception ex) {
 245                     throw new IllegalStateException(ex.toString());
 246                 }
 247             }
 248             public java.lang.Object newInstance( java.lang.Object parent ) {
 249                 return new org.vamsas.objects.core.AlignmentAnnotation();
 250             }
 251         };
 252         desc.setHandler(handler);
 253         desc.setNameSpaceURI("http://www.vamsas.org");
 254         desc.setMultivalued(true);
 255         addFieldDescriptor(desc);
 256
 257         //-- validation code for: _alignmentAnnotationList
 258         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 259         fieldValidator.setMinOccurs(0);
 260         { //-- local scope
 261         }
 262         desc.setValidator(fieldValidator);
 263         //-- _treeList
 264         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.Tree.class, "_treeList", "Tree", org.exolab.castor.xml.NodeType.Element);
 265         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 266             public java.lang.Object getValue( java.lang.Object object )
 267                 throws IllegalStateException
 268             {
 269                 Alignment target = (Alignment) object;
 270                 return target.getTree();
 271             }
 272             public void setValue( java.lang.Object object, java.lang.Object value)
 273                 throws IllegalStateException, IllegalArgumentException
 274             {
 275                 try {
 276                     Alignment target = (Alignment) object;
 277                     target.addTree( (org.vamsas.objects.core.Tree) value);
 278                 }
 279                 catch (java.lang.Exception ex) {
 280                     throw new IllegalStateException(ex.toString());
 281                 }
 282             }
 283             public java.lang.Object newInstance( java.lang.Object parent ) {
 284                 return new org.vamsas.objects.core.Tree();
 285             }
 286         };
 287         desc.setHandler(handler);
 288         desc.setNameSpaceURI("http://www.vamsas.org");
 289         desc.setMultivalued(true);
 290         addFieldDescriptor(desc);
 291
 292         //-- validation code for: _treeList
 293         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 294         fieldValidator.setMinOccurs(0);
 295         { //-- local scope
 296         }
 297         desc.setValidator(fieldValidator);
 298         //-- _alignmentSequenceList
 299         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.AlignmentSequence.class, "_alignmentSequenceList", "alignmentSequence", org.exolab.castor.xml.NodeType.Element);
 300         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 301             public java.lang.Object getValue( java.lang.Object object )
 302                 throws IllegalStateException
 303             {
 304                 Alignment target = (Alignment) object;
 305                 return target.getAlignmentSequence();
 306             }
 307             public void setValue( java.lang.Object object, java.lang.Object value)
 308                 throws IllegalStateException, IllegalArgumentException
 309             {
 310                 try {
 311                     Alignment target = (Alignment) object;
 312                     target.addAlignmentSequence( (org.vamsas.objects.core.AlignmentSequence) value);
 313                 }
 314                 catch (java.lang.Exception ex) {
 315                     throw new IllegalStateException(ex.toString());
 316                 }
 317             }
 318             public java.lang.Object newInstance( java.lang.Object parent ) {
 319                 return new org.vamsas.objects.core.AlignmentSequence();
 320             }
 321         };
 322         desc.setHandler(handler);
 323         desc.setNameSpaceURI("http://www.vamsas.org");
 324         desc.setRequired(true);
 325         desc.setMultivalued(true);
 326         addFieldDescriptor(desc);
 327
 328         //-- validation code for: _alignmentSequenceList
 329         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 330         fieldValidator.setMinOccurs(1);
 331         { //-- local scope
 332         }
 333         desc.setValidator(fieldValidator);
 334         //-- _propertyList
 335         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.Property.class, "_propertyList", "property", org.exolab.castor.xml.NodeType.Element);
 336         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 337             public java.lang.Object getValue( java.lang.Object object )
 338                 throws IllegalStateException
 339             {
 340                 Alignment target = (Alignment) object;
 341                 return target.getProperty();
 342             }
 343             public void setValue( java.lang.Object object, java.lang.Object value)
 344                 throws IllegalStateException, IllegalArgumentException
 345             {
 346                 try {
 347                     Alignment target = (Alignment) object;
 348                     target.addProperty( (org.vamsas.objects.core.Property) value);
 349                 }
 350                 catch (java.lang.Exception ex) {
 351                     throw new IllegalStateException(ex.toString());
 352                 }
 353             }
 354             public java.lang.Object newInstance( java.lang.Object parent ) {
 355                 return new org.vamsas.objects.core.Property();
 356             }
 357         };
 358         desc.setHandler(handler);
 359         desc.setNameSpaceURI("http://www.vamsas.org");
 360         desc.setMultivalued(true);
 361         addFieldDescriptor(desc);
 362
 363         //-- validation code for: _propertyList
 364         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 365         fieldValidator.setMinOccurs(0);
 366         { //-- local scope
 367         }
 368         desc.setValidator(fieldValidator);
 369         //-- _provenance
 370         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.Provenance.class, "_provenance", "Provenance", org.exolab.castor.xml.NodeType.Element);
 371         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 372             public java.lang.Object getValue( java.lang.Object object )
 373                 throws IllegalStateException
 374             {
 375                 Alignment target = (Alignment) object;
 376                 return target.getProvenance();
 377             }
 378             public void setValue( java.lang.Object object, java.lang.Object value)
 379                 throws IllegalStateException, IllegalArgumentException
 380             {
 381                 try {
 382                     Alignment target = (Alignment) object;
 383                     target.setProvenance( (org.vamsas.objects.core.Provenance) value);
 384                 }
 385                 catch (java.lang.Exception ex) {
 386                     throw new IllegalStateException(ex.toString());
 387                 }
 388             }
 389             public java.lang.Object newInstance( java.lang.Object parent ) {
 390                 return new org.vamsas.objects.core.Provenance();
 391             }
 392         };
 393         desc.setHandler(handler);
 394         desc.setNameSpaceURI("http://www.vamsas.org");
 395         desc.setRequired(true);
 396         desc.setMultivalued(false);
 397         addFieldDescriptor(desc);
 398
 399         //-- validation code for: _provenance
 400         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 401         fieldValidator.setMinOccurs(1);
 402         { //-- local scope
 403         }
 404         desc.setValidator(fieldValidator);
 405     } //-- org.vamsas.objects.core.AlignmentDescriptor()
 406
 407
 408       //-----------/
 409      //- Methods -/
 410     //-----------/
 411
 412     /**
 413      * Method getAccessMode
 414      *
 415      *
 416      *
 417      * @return AccessMode
 418      */
 419     public org.exolab.castor.mapping.AccessMode getAccessMode()
 420     {
 421         return null;
 422     } //-- org.exolab.castor.mapping.AccessMode getAccessMode()
 423
 424     /**
 425      * Method getExtends
 426      *
 427      *
 428      *
 429      * @return ClassDescriptor
 430      */
 431     public org.exolab.castor.mapping.ClassDescriptor getExtends()
 432     {
 433         return null;
 434     } //-- org.exolab.castor.mapping.ClassDescriptor getExtends()
 435
 436     /**
 437      * Method getIdentity
 438      *
 439      *
 440      *
 441      * @return FieldDescriptor
 442      */
 443     public org.exolab.castor.mapping.FieldDescriptor getIdentity()
 444     {
 445         return identity;
 446     } //-- org.exolab.castor.mapping.FieldDescriptor getIdentity()
 447
 448     /**
 449      * Method getJavaClass
 450      *
 451      *
 452      *
 453      * @return Class
 454      */
 455     public java.lang.Class getJavaClass()
 456     {
 457         return org.vamsas.objects.core.Alignment.class;
 458     } //-- java.lang.Class getJavaClass()
 459
 460     /**
 461      * Method getNameSpacePrefix
 462      *
 463      *
 464      *
 465      * @return String
 466      */
 467     public java.lang.String getNameSpacePrefix()
 468     {
 469         return nsPrefix;
 470     } //-- java.lang.String getNameSpacePrefix()
 471
 472     /**
 473      * Method getNameSpaceURI
 474      *
 475      *
 476      *
 477      * @return String
 478      */
 479     public java.lang.String getNameSpaceURI()
 480     {
 481         return nsURI;
 482     } //-- java.lang.String getNameSpaceURI()
 483
 484     /**
 485      * Method getValidator
 486      *
 487      *
 488      *
 489      * @return TypeValidator
 490      */
 491     public org.exolab.castor.xml.TypeValidator getValidator()
 492     {
 493         return this;
 494     } //-- org.exolab.castor.xml.TypeValidator getValidator()
 495
 496     /**
 497      * Method getXMLName
 498      *
 499      *
 500      *
 501      * @return String
 502      */
 503     public java.lang.String getXMLName()
 504     {
 505         return xmlName;
 506     } //-- java.lang.String getXMLName()
 507
 508 }