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         //-- initialize element descriptors
 185
 186         //-- _alignmentAnnotations
 187         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.AlignmentAnnotations.class, "_alignmentAnnotations", "AlignmentAnnotations", 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                 Alignment target = (Alignment) object;
 193                 return target.getAlignmentAnnotations();
 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                     target.setAlignmentAnnotations( (org.vamsas.objects.core.AlignmentAnnotations) 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.AlignmentAnnotations();
 208             }
 209         };
 210         desc.setHandler(handler);
 211         desc.setNameSpaceURI("http://www.vamsas.org");
 212         desc.setMultivalued(false);
 213         addFieldDescriptor(desc);
 214
 215         //-- validation code for: _alignmentAnnotations
 216         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 217         { //-- local scope
 218         }
 219         desc.setValidator(fieldValidator);
 220         //-- _treeList
 221         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.Tree.class, "_treeList", "Tree", org.exolab.castor.xml.NodeType.Element);
 222         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 223             public java.lang.Object getValue( java.lang.Object object )
 224                 throws IllegalStateException
 225             {
 226                 Alignment target = (Alignment) object;
 227                 return target.getTree();
 228             }
 229             public void setValue( java.lang.Object object, java.lang.Object value)
 230                 throws IllegalStateException, IllegalArgumentException
 231             {
 232                 try {
 233                     Alignment target = (Alignment) object;
 234                     target.addTree( (org.vamsas.objects.core.Tree) value);
 235                 }
 236                 catch (java.lang.Exception ex) {
 237                     throw new IllegalStateException(ex.toString());
 238                 }
 239             }
 240             public java.lang.Object newInstance( java.lang.Object parent ) {
 241                 return new org.vamsas.objects.core.Tree();
 242             }
 243         };
 244         desc.setHandler(handler);
 245         desc.setNameSpaceURI("http://www.vamsas.org");
 246         desc.setMultivalued(true);
 247         addFieldDescriptor(desc);
 248
 249         //-- validation code for: _treeList
 250         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 251         fieldValidator.setMinOccurs(0);
 252         { //-- local scope
 253         }
 254         desc.setValidator(fieldValidator);
 255         //-- _alignmentSequenceList
 256         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.AlignmentSequence.class, "_alignmentSequenceList", "alignmentSequence", org.exolab.castor.xml.NodeType.Element);
 257         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 258             public java.lang.Object getValue( java.lang.Object object )
 259                 throws IllegalStateException
 260             {
 261                 Alignment target = (Alignment) object;
 262                 return target.getAlignmentSequence();
 263             }
 264             public void setValue( java.lang.Object object, java.lang.Object value)
 265                 throws IllegalStateException, IllegalArgumentException
 266             {
 267                 try {
 268                     Alignment target = (Alignment) object;
 269                     target.addAlignmentSequence( (org.vamsas.objects.core.AlignmentSequence) value);
 270                 }
 271                 catch (java.lang.Exception ex) {
 272                     throw new IllegalStateException(ex.toString());
 273                 }
 274             }
 275             public java.lang.Object newInstance( java.lang.Object parent ) {
 276                 return new org.vamsas.objects.core.AlignmentSequence();
 277             }
 278         };
 279         desc.setHandler(handler);
 280         desc.setNameSpaceURI("http://www.vamsas.org");
 281         desc.setRequired(true);
 282         desc.setMultivalued(true);
 283         addFieldDescriptor(desc);
 284
 285         //-- validation code for: _alignmentSequenceList
 286         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 287         fieldValidator.setMinOccurs(2);
 288         { //-- local scope
 289         }
 290         desc.setValidator(fieldValidator);
 291         //-- _provenance
 292         desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(org.vamsas.objects.core.Provenance.class, "_provenance", "Provenance", org.exolab.castor.xml.NodeType.Element);
 293         handler = new org.exolab.castor.xml.XMLFieldHandler() {
 294             public java.lang.Object getValue( java.lang.Object object )
 295                 throws IllegalStateException
 296             {
 297                 Alignment target = (Alignment) object;
 298                 return target.getProvenance();
 299             }
 300             public void setValue( java.lang.Object object, java.lang.Object value)
 301                 throws IllegalStateException, IllegalArgumentException
 302             {
 303                 try {
 304                     Alignment target = (Alignment) object;
 305                     target.setProvenance( (org.vamsas.objects.core.Provenance) value);
 306                 }
 307                 catch (java.lang.Exception ex) {
 308                     throw new IllegalStateException(ex.toString());
 309                 }
 310             }
 311             public java.lang.Object newInstance( java.lang.Object parent ) {
 312                 return new org.vamsas.objects.core.Provenance();
 313             }
 314         };
 315         desc.setHandler(handler);
 316         desc.setNameSpaceURI("http://www.vamsas.org");
 317         desc.setRequired(true);
 318         desc.setMultivalued(false);
 319         addFieldDescriptor(desc);
 320
 321         //-- validation code for: _provenance
 322         fieldValidator = new org.exolab.castor.xml.FieldValidator();
 323         fieldValidator.setMinOccurs(1);
 324         { //-- local scope
 325         }
 326         desc.setValidator(fieldValidator);
 327     } //-- org.vamsas.objects.core.AlignmentDescriptor()
 328
 329
 330       //-----------/
 331      //- Methods -/
 332     //-----------/
 333
 334     /**
 335      * Method getAccessMode
 336      *
 337      *
 338      *
 339      * @return AccessMode
 340      */
 341     public org.exolab.castor.mapping.AccessMode getAccessMode()
 342     {
 343         return null;
 344     } //-- org.exolab.castor.mapping.AccessMode getAccessMode()
 345
 346     /**
 347      * Method getExtends
 348      *
 349      *
 350      *
 351      * @return ClassDescriptor
 352      */
 353     public org.exolab.castor.mapping.ClassDescriptor getExtends()
 354     {
 355         return null;
 356     } //-- org.exolab.castor.mapping.ClassDescriptor getExtends()
 357
 358     /**
 359      * Method getIdentity
 360      *
 361      *
 362      *
 363      * @return FieldDescriptor
 364      */
 365     public org.exolab.castor.mapping.FieldDescriptor getIdentity()
 366     {
 367         return identity;
 368     } //-- org.exolab.castor.mapping.FieldDescriptor getIdentity()
 369
 370     /**
 371      * Method getJavaClass
 372      *
 373      *
 374      *
 375      * @return Class
 376      */
 377     public java.lang.Class getJavaClass()
 378     {
 379         return org.vamsas.objects.core.Alignment.class;
 380     } //-- java.lang.Class getJavaClass()
 381
 382     /**
 383      * Method getNameSpacePrefix
 384      *
 385      *
 386      *
 387      * @return String
 388      */
 389     public java.lang.String getNameSpacePrefix()
 390     {
 391         return nsPrefix;
 392     } //-- java.lang.String getNameSpacePrefix()
 393
 394     /**
 395      * Method getNameSpaceURI
 396      *
 397      *
 398      *
 399      * @return String
 400      */
 401     public java.lang.String getNameSpaceURI()
 402     {
 403         return nsURI;
 404     } //-- java.lang.String getNameSpaceURI()
 405
 406     /**
 407      * Method getValidator
 408      *
 409      *
 410      *
 411      * @return TypeValidator
 412      */
 413     public org.exolab.castor.xml.TypeValidator getValidator()
 414     {
 415         return this;
 416     } //-- org.exolab.castor.xml.TypeValidator getValidator()
 417
 418     /**
 419      * Method getXMLName
 420      *
 421      *
 422      *
 423      * @return String
 424      */
 425     public java.lang.String getXMLName()
 426     {
 427         return xmlName;
 428     } //-- java.lang.String getXMLName()
 429
 430 }