-/*\r
- * This class was automatically generated with\r
- * <a href="http://www.castor.org">Castor 0.9.6</a>, using an XML\r
- * Schema.\r
- * $Id$\r
- */\r
-\r
-package jalview.schemabinding.version2;\r
-\r
-//---------------------------------/\r
-//- Imported classes and packages -/\r
-//---------------------------------/\r
-\r
-import java.util.*;\r
-\r
-import org.exolab.castor.xml.*;\r
-\r
-/**\r
- * Class Pdbentry.\r
- *\r
- * @version $Revision$ $Date$\r
- */\r
-public class Pdbentry\r
- implements java.io.Serializable\r
-{\r
-\r
- //--------------------------/\r
- //- Class/Member Variables -/\r
- //--------------------------/\r
-\r
- /**\r
- * Field _id\r
- */\r
- private java.lang.String _id;\r
-\r
- /**\r
- * Field _type\r
- */\r
- private java.lang.String _type;\r
-\r
- /**\r
- * Field _file\r
- */\r
- private java.lang.String _file;\r
-\r
- /**\r
- * Field _items\r
- */\r
- private java.util.Vector _items;\r
-\r
- //----------------/\r
- //- Constructors -/\r
- //----------------/\r
-\r
- public Pdbentry()\r
- {\r
- super();\r
- _items = new Vector();\r
- } //-- jalview.schemabinding.version2.Pdbentry()\r
-\r
- //-----------/\r
- //- Methods -/\r
- //-----------/\r
-\r
- /**\r
- * Method addPdbentryItem\r
- *\r
- *\r
- *\r
- * @param vPdbentryItem\r
- */\r
- public void addPdbentryItem(jalview.schemabinding.version2.PdbentryItem\r
- vPdbentryItem)\r
- throws java.lang.IndexOutOfBoundsException\r
- {\r
- _items.addElement(vPdbentryItem);\r
- } //-- void addPdbentryItem(jalview.schemabinding.version2.PdbentryItem)\r
-\r
- /**\r
- * Method addPdbentryItem\r
- *\r
- *\r
- *\r
- * @param index\r
- * @param vPdbentryItem\r
- */\r
- public void addPdbentryItem(int index,\r
- jalview.schemabinding.version2.PdbentryItem\r
- vPdbentryItem)\r
- throws java.lang.IndexOutOfBoundsException\r
- {\r
- _items.insertElementAt(vPdbentryItem, index);\r
- } //-- void addPdbentryItem(int, jalview.schemabinding.version2.PdbentryItem)\r
-\r
- /**\r
- * Method enumeratePdbentryItem\r
- *\r
- *\r
- *\r
- * @return Enumeration\r
- */\r
- public java.util.Enumeration enumeratePdbentryItem()\r
- {\r
- return _items.elements();\r
- } //-- java.util.Enumeration enumeratePdbentryItem()\r
-\r
- /**\r
- * Returns the value of field 'file'.\r
- *\r
- * @return String\r
- * @return the value of field 'file'.\r
- */\r
- public java.lang.String getFile()\r
- {\r
- return this._file;\r
- } //-- java.lang.String getFile()\r
-\r
- /**\r
- * Returns the value of field 'id'.\r
- *\r
- * @return String\r
- * @return the value of field 'id'.\r
- */\r
- public java.lang.String getId()\r
- {\r
- return this._id;\r
- } //-- java.lang.String getId()\r
-\r
- /**\r
- * Method getPdbentryItem\r
- *\r
- *\r
- *\r
- * @param index\r
- * @return PdbentryItem\r
- */\r
- public jalview.schemabinding.version2.PdbentryItem getPdbentryItem(int index)\r
- throws java.lang.IndexOutOfBoundsException\r
- {\r
- //-- check bounds for index\r
- if ( (index < 0) || (index > _items.size()))\r
- {\r
- throw new IndexOutOfBoundsException();\r
- }\r
-\r
- return (jalview.schemabinding.version2.PdbentryItem) _items.elementAt(index);\r
- } //-- jalview.schemabinding.version2.PdbentryItem getPdbentryItem(int)\r
-\r
- /**\r
- * Method getPdbentryItem\r
- *\r
- *\r
- *\r
- * @return PdbentryItem\r
- */\r
- public jalview.schemabinding.version2.PdbentryItem[] getPdbentryItem()\r
- {\r
- int size = _items.size();\r
- jalview.schemabinding.version2.PdbentryItem[] mArray = new jalview.\r
- schemabinding.version2.PdbentryItem[size];\r
- for (int index = 0; index < size; index++)\r
- {\r
- mArray[index] = (jalview.schemabinding.version2.PdbentryItem) _items.\r
- elementAt(index);\r
- }\r
- return mArray;\r
- } //-- jalview.schemabinding.version2.PdbentryItem[] getPdbentryItem()\r
-\r
- /**\r
- * Method getPdbentryItemCount\r
- *\r
- *\r
- *\r
- * @return int\r
- */\r
- public int getPdbentryItemCount()\r
- {\r
- return _items.size();\r
- } //-- int getPdbentryItemCount()\r
-\r
- /**\r
- * Returns the value of field 'type'.\r
- *\r
- * @return String\r
- * @return the value of field 'type'.\r
- */\r
- public java.lang.String getType()\r
- {\r
- return this._type;\r
- } //-- java.lang.String getType()\r
-\r
- /**\r
- * Method isValid\r
- *\r
- *\r
- *\r
- * @return boolean\r
- */\r
- public boolean isValid()\r
- {\r
- try\r
- {\r
- validate();\r
- }\r
- catch (org.exolab.castor.xml.ValidationException vex)\r
- {\r
- return false;\r
- }\r
- return true;\r
- } //-- boolean isValid()\r
-\r
- /**\r
- * Method marshal\r
- *\r
- *\r
- *\r
- * @param out\r
- */\r
- public void marshal(java.io.Writer out)\r
- throws org.exolab.castor.xml.MarshalException,\r
- org.exolab.castor.xml.ValidationException\r
- {\r
-\r
- Marshaller.marshal(this, out);\r
- } //-- void marshal(java.io.Writer)\r
-\r
- /**\r
- * Method marshal\r
- *\r
- *\r
- *\r
- * @param handler\r
- */\r
- public void marshal(org.xml.sax.ContentHandler handler)\r
- throws java.io.IOException, org.exolab.castor.xml.MarshalException,\r
- org.exolab.castor.xml.ValidationException\r
- {\r
-\r
- Marshaller.marshal(this, handler);\r
- } //-- void marshal(org.xml.sax.ContentHandler)\r
-\r
- /**\r
- * Method removeAllPdbentryItem\r
- *\r
- */\r
- public void removeAllPdbentryItem()\r
- {\r
- _items.removeAllElements();\r
- } //-- void removeAllPdbentryItem()\r
-\r
- /**\r
- * Method removePdbentryItem\r
- *\r
- *\r
- *\r
- * @param index\r
- * @return PdbentryItem\r
- */\r
- public jalview.schemabinding.version2.PdbentryItem removePdbentryItem(int\r
- index)\r
- {\r
- java.lang.Object obj = _items.elementAt(index);\r
- _items.removeElementAt(index);\r
- return (jalview.schemabinding.version2.PdbentryItem) obj;\r
- } //-- jalview.schemabinding.version2.PdbentryItem removePdbentryItem(int)\r
-\r
- /**\r
- * Sets the value of field 'file'.\r
- *\r
- * @param file the value of field 'file'.\r
- */\r
- public void setFile(java.lang.String file)\r
- {\r
- this._file = file;\r
- } //-- void setFile(java.lang.String)\r
-\r
- /**\r
- * Sets the value of field 'id'.\r
- *\r
- * @param id the value of field 'id'.\r
- */\r
- public void setId(java.lang.String id)\r
- {\r
- this._id = id;\r
- } //-- void setId(java.lang.String)\r
-\r
- /**\r
- * Method setPdbentryItem\r
- *\r
- *\r
- *\r
- * @param index\r
- * @param vPdbentryItem\r
- */\r
- public void setPdbentryItem(int index,\r
- jalview.schemabinding.version2.PdbentryItem\r
- vPdbentryItem)\r
- throws java.lang.IndexOutOfBoundsException\r
- {\r
- //-- check bounds for index\r
- if ( (index < 0) || (index > _items.size()))\r
- {\r
- throw new IndexOutOfBoundsException();\r
- }\r
- _items.setElementAt(vPdbentryItem, index);\r
- } //-- void setPdbentryItem(int, jalview.schemabinding.version2.PdbentryItem)\r
-\r
- /**\r
- * Method setPdbentryItem\r
- *\r
- *\r
- *\r
- * @param pdbentryItemArray\r
- */\r
- public void setPdbentryItem(jalview.schemabinding.version2.PdbentryItem[]\r
- pdbentryItemArray)\r
- {\r
- //-- copy array\r
- _items.removeAllElements();\r
- for (int i = 0; i < pdbentryItemArray.length; i++)\r
- {\r
- _items.addElement(pdbentryItemArray[i]);\r
- }\r
- } //-- void setPdbentryItem(jalview.schemabinding.version2.PdbentryItem)\r
-\r
- /**\r
- * Sets the value of field 'type'.\r
- *\r
- * @param type the value of field 'type'.\r
- */\r
- public void setType(java.lang.String type)\r
- {\r
- this._type = type;\r
- } //-- void setType(java.lang.String)\r
-\r
- /**\r
- * Method unmarshal\r
- *\r
- *\r
- *\r
- * @param reader\r
- * @return Object\r
- */\r
- public static java.lang.Object unmarshal(java.io.Reader reader)\r
- throws org.exolab.castor.xml.MarshalException,\r
- org.exolab.castor.xml.ValidationException\r
- {\r
- return (jalview.schemabinding.version2.Pdbentry) Unmarshaller.unmarshal(\r
- jalview.schemabinding.version2.Pdbentry.class, reader);\r
- } //-- java.lang.Object unmarshal(java.io.Reader)\r
-\r
- /**\r
- * Method validate\r
- *\r
- */\r
- public void validate()\r
- throws org.exolab.castor.xml.ValidationException\r
- {\r
- org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.\r
- Validator();\r
- validator.validate(this);\r
- } //-- void validate()\r
-\r
-}\r
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1)
+ * Copyright (C) 2014 The Jalview Authors
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview.
+ * If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ ******************************************************************************/
+/*
+ * This class was automatically generated with
+ * <a href="http://www.castor.org">Castor 1.1</a>, using an XML
+ * Schema.
+ * $Id$
+ */
+
+package jalview.schemabinding.version2;
+
+//---------------------------------/
+//- Imported classes and packages -/
+//---------------------------------/
+
+import org.exolab.castor.xml.Marshaller;
+import org.exolab.castor.xml.Unmarshaller;
+
+/**
+ * Class Pdbentry.
+ *
+ * @version $Revision$ $Date$
+ */
+public class Pdbentry implements java.io.Serializable
+{
+
+ // --------------------------/
+ // - Class/Member Variables -/
+ // --------------------------/
+
+ /**
+ * Field _id.
+ */
+ private java.lang.String _id;
+
+ /**
+ * Field _type.
+ */
+ private java.lang.String _type;
+
+ /**
+ * Field _file.
+ */
+ private java.lang.String _file;
+
+ /**
+ * Field _items.
+ */
+ private java.util.Vector _items;
+
+ // ----------------/
+ // - Constructors -/
+ // ----------------/
+
+ public Pdbentry()
+ {
+ super();
+ this._items = new java.util.Vector();
+ }
+
+ // -----------/
+ // - Methods -/
+ // -----------/
+
+ /**
+ *
+ *
+ * @param vPdbentryItem
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void addPdbentryItem(
+ final jalview.schemabinding.version2.PdbentryItem vPdbentryItem)
+ throws java.lang.IndexOutOfBoundsException
+ {
+ this._items.addElement(vPdbentryItem);
+ }
+
+ /**
+ *
+ *
+ * @param index
+ * @param vPdbentryItem
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void addPdbentryItem(final int index,
+ final jalview.schemabinding.version2.PdbentryItem vPdbentryItem)
+ throws java.lang.IndexOutOfBoundsException
+ {
+ this._items.add(index, vPdbentryItem);
+ }
+
+ /**
+ * Method enumeratePdbentryItem.
+ *
+ * @return an Enumeration over all jalview.schemabinding.version2.PdbentryItem
+ * elements
+ */
+ public java.util.Enumeration enumeratePdbentryItem()
+ {
+ return this._items.elements();
+ }
+
+ /**
+ * Returns the value of field 'file'.
+ *
+ * @return the value of field 'File'.
+ */
+ public java.lang.String getFile()
+ {
+ return this._file;
+ }
+
+ /**
+ * Returns the value of field 'id'.
+ *
+ * @return the value of field 'Id'.
+ */
+ public java.lang.String getId()
+ {
+ return this._id;
+ }
+
+ /**
+ * Method getPdbentryItem.
+ *
+ * @param index
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ * @return the value of the jalview.schemabinding.version2.PdbentryItem at the
+ * given inde
+ */
+ public jalview.schemabinding.version2.PdbentryItem getPdbentryItem(
+ final int index) throws java.lang.IndexOutOfBoundsException
+ {
+ // check bounds for index
+ if (index < 0 || index >= this._items.size())
+ {
+ throw new IndexOutOfBoundsException("getPdbentryItem: Index value '"
+ + index + "' not in range [0.." + (this._items.size() - 1)
+ + "]");
+ }
+
+ return (jalview.schemabinding.version2.PdbentryItem) _items.get(index);
+ }
+
+ /**
+ * Method getPdbentryItem.Returns the contents of the collection in an Array.
+ * <p>
+ * Note: Just in case the collection contents are changing in another thread,
+ * we pass a 0-length Array of the correct type into the API call. This way we
+ * <i>know</i> that the Array returned is of exactly the correct length.
+ *
+ * @return this collection as an Array
+ */
+ public jalview.schemabinding.version2.PdbentryItem[] getPdbentryItem()
+ {
+ jalview.schemabinding.version2.PdbentryItem[] array = new jalview.schemabinding.version2.PdbentryItem[0];
+ return (jalview.schemabinding.version2.PdbentryItem[]) this._items
+ .toArray(array);
+ }
+
+ /**
+ * Method getPdbentryItemCount.
+ *
+ * @return the size of this collection
+ */
+ public int getPdbentryItemCount()
+ {
+ return this._items.size();
+ }
+
+ /**
+ * Returns the value of field 'type'.
+ *
+ * @return the value of field 'Type'.
+ */
+ public java.lang.String getType()
+ {
+ return this._type;
+ }
+
+ /**
+ * Method isValid.
+ *
+ * @return true if this object is valid according to the schema
+ */
+ public boolean isValid()
+ {
+ try
+ {
+ validate();
+ } catch (org.exolab.castor.xml.ValidationException vex)
+ {
+ return false;
+ }
+ return true;
+ }
+
+ /**
+ *
+ *
+ * @param out
+ * @throws org.exolab.castor.xml.MarshalException
+ * if object is null or if any SAXException is thrown during
+ * marshaling
+ * @throws org.exolab.castor.xml.ValidationException
+ * if this object is an invalid instance according to the schema
+ */
+ public void marshal(final java.io.Writer out)
+ throws org.exolab.castor.xml.MarshalException,
+ org.exolab.castor.xml.ValidationException
+ {
+ Marshaller.marshal(this, out);
+ }
+
+ /**
+ *
+ *
+ * @param handler
+ * @throws java.io.IOException
+ * if an IOException occurs during marshaling
+ * @throws org.exolab.castor.xml.ValidationException
+ * if this object is an invalid instance according to the schema
+ * @throws org.exolab.castor.xml.MarshalException
+ * if object is null or if any SAXException is thrown during
+ * marshaling
+ */
+ public void marshal(final org.xml.sax.ContentHandler handler)
+ throws java.io.IOException,
+ org.exolab.castor.xml.MarshalException,
+ org.exolab.castor.xml.ValidationException
+ {
+ Marshaller.marshal(this, handler);
+ }
+
+ /**
+ */
+ public void removeAllPdbentryItem()
+ {
+ this._items.clear();
+ }
+
+ /**
+ * Method removePdbentryItem.
+ *
+ * @param vPdbentryItem
+ * @return true if the object was removed from the collection.
+ */
+ public boolean removePdbentryItem(
+ final jalview.schemabinding.version2.PdbentryItem vPdbentryItem)
+ {
+ boolean removed = _items.remove(vPdbentryItem);
+ return removed;
+ }
+
+ /**
+ * Method removePdbentryItemAt.
+ *
+ * @param index
+ * @return the element removed from the collection
+ */
+ public jalview.schemabinding.version2.PdbentryItem removePdbentryItemAt(
+ final int index)
+ {
+ java.lang.Object obj = this._items.remove(index);
+ return (jalview.schemabinding.version2.PdbentryItem) obj;
+ }
+
+ /**
+ * Sets the value of field 'file'.
+ *
+ * @param file
+ * the value of field 'file'.
+ */
+ public void setFile(final java.lang.String file)
+ {
+ this._file = file;
+ }
+
+ /**
+ * Sets the value of field 'id'.
+ *
+ * @param id
+ * the value of field 'id'.
+ */
+ public void setId(final java.lang.String id)
+ {
+ this._id = id;
+ }
+
+ /**
+ *
+ *
+ * @param index
+ * @param vPdbentryItem
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void setPdbentryItem(final int index,
+ final jalview.schemabinding.version2.PdbentryItem vPdbentryItem)
+ throws java.lang.IndexOutOfBoundsException
+ {
+ // check bounds for index
+ if (index < 0 || index >= this._items.size())
+ {
+ throw new IndexOutOfBoundsException("setPdbentryItem: Index value '"
+ + index + "' not in range [0.." + (this._items.size() - 1)
+ + "]");
+ }
+
+ this._items.set(index, vPdbentryItem);
+ }
+
+ /**
+ *
+ *
+ * @param vPdbentryItemArray
+ */
+ public void setPdbentryItem(
+ final jalview.schemabinding.version2.PdbentryItem[] vPdbentryItemArray)
+ {
+ // -- copy array
+ _items.clear();
+
+ for (int i = 0; i < vPdbentryItemArray.length; i++)
+ {
+ this._items.add(vPdbentryItemArray[i]);
+ }
+ }
+
+ /**
+ * Sets the value of field 'type'.
+ *
+ * @param type
+ * the value of field 'type'.
+ */
+ public void setType(final java.lang.String type)
+ {
+ this._type = type;
+ }
+
+ /**
+ * Method unmarshal.
+ *
+ * @param reader
+ * @throws org.exolab.castor.xml.MarshalException
+ * if object is null or if any SAXException is thrown during
+ * marshaling
+ * @throws org.exolab.castor.xml.ValidationException
+ * if this object is an invalid instance according to the schema
+ * @return the unmarshaled jalview.schemabinding.version2.Pdbentry
+ */
+ public static jalview.schemabinding.version2.Pdbentry unmarshal(
+ final java.io.Reader reader)
+ throws org.exolab.castor.xml.MarshalException,
+ org.exolab.castor.xml.ValidationException
+ {
+ return (jalview.schemabinding.version2.Pdbentry) Unmarshaller
+ .unmarshal(jalview.schemabinding.version2.Pdbentry.class,
+ reader);
+ }
+
+ /**
+ *
+ *
+ * @throws org.exolab.castor.xml.ValidationException
+ * if this object is an invalid instance according to the schema
+ */
+ public void validate() throws org.exolab.castor.xml.ValidationException
+ {
+ org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();
+ validator.validate(this);
+ }
+
+}
git://source.jalview.org / jalview.git / blobdiff