+/*\r
+ * This class was automatically generated with \r
+ * <a href="http://www.castor.org">Castor 1.1</a>, using an XML\r
+ * Schema.\r
+ * $Id$\r
+ */\r
+\r
+package uk.ac.vamsas.objects.core;\r
+\r
+ //---------------------------------/\r
+ //- Imported classes and packages -/\r
+//---------------------------------/\r
+\r
+import org.exolab.castor.xml.Marshaller;\r
+import org.exolab.castor.xml.Unmarshaller;\r
+\r
+/**\r
+ * Class SequenceMapping.\r
+ * \r
+ * @version $Revision$ $Date$\r
+ */\r
+public class SequenceMapping extends uk.ac.vamsas.client.Vobject \r
+implements java.io.Serializable\r
+{\r
+\r
+\r
+ //--------------------------/\r
+ //- Class/Member Variables -/\r
+ //--------------------------/\r
+\r
+ /**\r
+ * Field _sequenceA.\r
+ */\r
+ private java.lang.Object _sequenceA;\r
+\r
+ /**\r
+ * Field _sequenceB.\r
+ */\r
+ private java.lang.Object _sequenceB;\r
+\r
+ /**\r
+ * Field _id.\r
+ */\r
+ private java.lang.String _id;\r
+\r
+ /**\r
+ * Field _rangeList.\r
+ */\r
+ private java.util.Vector _rangeList;\r
+\r
+ /**\r
+ * Field _provenance.\r
+ */\r
+ private uk.ac.vamsas.objects.core.Provenance _provenance;\r
+\r
+\r
+ //----------------/\r
+ //- Constructors -/\r
+ //----------------/\r
+\r
+ public SequenceMapping() {\r
+ super();\r
+ this._rangeList = new java.util.Vector();\r
+ }\r
+\r
+\r
+ //-----------/\r
+ //- Methods -/\r
+ //-----------/\r
+\r
+ /**\r
+ * \r
+ * \r
+ * @param vRange\r
+ * @throws java.lang.IndexOutOfBoundsException if the index\r
+ * given is outside the bounds of the collection\r
+ */\r
+ public void addRange(\r
+ final uk.ac.vamsas.objects.core.Range vRange)\r
+ throws java.lang.IndexOutOfBoundsException {\r
+ this._rangeList.addElement(vRange);\r
+ }\r
+\r
+ /**\r
+ * \r
+ * \r
+ * @param index\r
+ * @param vRange\r
+ * @throws java.lang.IndexOutOfBoundsException if the index\r
+ * given is outside the bounds of the collection\r
+ */\r
+ public void addRange(\r
+ final int index,\r
+ final uk.ac.vamsas.objects.core.Range vRange)\r
+ throws java.lang.IndexOutOfBoundsException {\r
+ this._rangeList.add(index, vRange);\r
+ }\r
+\r
+ /**\r
+ * Method enumerateRange.\r
+ * \r
+ * @return an Enumeration over all\r
+ * uk.ac.vamsas.objects.core.Range elements\r
+ */\r
+ public java.util.Enumeration enumerateRange(\r
+ ) {\r
+ return this._rangeList.elements();\r
+ }\r
+\r
+ /**\r
+ * Overrides the java.lang.Object.equals method.\r
+ * \r
+ * @param obj\r
+ * @return true if the objects are equal.\r
+ */\r
+ public boolean equals(\r
+ final java.lang.Object obj) {\r
+ if ( this == obj )\r
+ return true;\r
+ \r
+ if (super.equals(obj)==false)\r
+ return false;\r
+ \r
+ if (obj instanceof SequenceMapping) {\r
+ \r
+ SequenceMapping temp = (SequenceMapping)obj;\r
+ if (this._sequenceA != null) {\r
+ if (temp._sequenceA == null) return false;\r
+ else if (!(this._sequenceA.equals(temp._sequenceA))) \r
+ return false;\r
+ }\r
+ else if (temp._sequenceA != null)\r
+ return false;\r
+ if (this._sequenceB != null) {\r
+ if (temp._sequenceB == null) return false;\r
+ else if (!(this._sequenceB.equals(temp._sequenceB))) \r
+ return false;\r
+ }\r
+ else if (temp._sequenceB != null)\r
+ return false;\r
+ if (this._id != null) {\r
+ if (temp._id == null) return false;\r
+ else if (!(this._id.equals(temp._id))) \r
+ return false;\r
+ }\r
+ else if (temp._id != null)\r
+ return false;\r
+ if (this._rangeList != null) {\r
+ if (temp._rangeList == null) return false;\r
+ else if (!(this._rangeList.equals(temp._rangeList))) \r
+ return false;\r
+ }\r
+ else if (temp._rangeList != null)\r
+ return false;\r
+ if (this._provenance != null) {\r
+ if (temp._provenance == null) return false;\r
+ else if (!(this._provenance.equals(temp._provenance))) \r
+ return false;\r
+ }\r
+ else if (temp._provenance != null)\r
+ return false;\r
+ return true;\r
+ }\r
+ return false;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'id'.\r
+ * \r
+ * @return the value of field 'Id'.\r
+ */\r
+ public java.lang.String getId(\r
+ ) {\r
+ return this._id;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'provenance'.\r
+ * \r
+ * @return the value of field 'Provenance'.\r
+ */\r
+ public uk.ac.vamsas.objects.core.Provenance getProvenance(\r
+ ) {\r
+ return this._provenance;\r
+ }\r
+\r
+ /**\r
+ * Method getRange.\r
+ * \r
+ * @param index\r
+ * @throws java.lang.IndexOutOfBoundsException if the index\r
+ * given is outside the bounds of the collection\r
+ * @return the value of the uk.ac.vamsas.objects.core.Range at\r
+ * the given index\r
+ */\r
+ public uk.ac.vamsas.objects.core.Range getRange(\r
+ final int index)\r
+ throws java.lang.IndexOutOfBoundsException {\r
+ // check bounds for index\r
+ if (index < 0 || index >= this._rangeList.size()) {\r
+ throw new IndexOutOfBoundsException("getRange: Index value '" + index + "' not in range [0.." + (this._rangeList.size() - 1) + "]");\r
+ }\r
+ \r
+ return (uk.ac.vamsas.objects.core.Range) _rangeList.get(index);\r
+ }\r
+\r
+ /**\r
+ * Method getRange.Returns the contents of the collection in an\r
+ * Array. <p>Note: Just in case the collection contents are\r
+ * changing in another thread, we pass a 0-length Array of the\r
+ * correct type into the API call. This way we <i>know</i>\r
+ * that the Array returned is of exactly the correct length.\r
+ * \r
+ * @return this collection as an Array\r
+ */\r
+ public uk.ac.vamsas.objects.core.Range[] getRange(\r
+ ) {\r
+ uk.ac.vamsas.objects.core.Range[] array = new uk.ac.vamsas.objects.core.Range[0];\r
+ return (uk.ac.vamsas.objects.core.Range[]) this._rangeList.toArray(array);\r
+ }\r
+\r
+ /**\r
+ * Method getRangeAsReference.Returns a reference to\r
+ * '_rangeList'. No type checking is performed on any\r
+ * modifications to the Vector.\r
+ * \r
+ * @return a reference to the Vector backing this class\r
+ */\r
+ public java.util.Vector getRangeAsReference(\r
+ ) {\r
+ return this._rangeList;\r
+ }\r
+\r
+ /**\r
+ * Method getRangeCount.\r
+ * \r
+ * @return the size of this collection\r
+ */\r
+ public int getRangeCount(\r
+ ) {\r
+ return this._rangeList.size();\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'sequenceA'.\r
+ * \r
+ * @return the value of field 'SequenceA'.\r
+ */\r
+ public java.lang.Object getSequenceA(\r
+ ) {\r
+ return this._sequenceA;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'sequenceB'.\r
+ * \r
+ * @return the value of field 'SequenceB'.\r
+ */\r
+ public java.lang.Object getSequenceB(\r
+ ) {\r
+ return this._sequenceB;\r
+ }\r
+\r
+ /**\r
+ * Overrides the java.lang.Object.hashCode method.\r
+ * <p>\r
+ * The following steps came from <b>Effective Java Programming\r
+ * Language Guide</b> by Joshua Bloch, Chapter 3\r
+ * \r
+ * @return a hash code value for the object.\r
+ */\r
+ public int hashCode(\r
+ ) {\r
+ int result = super.hashCode();\r
+ \r
+ long tmp;\r
+ if (_sequenceA != null) {\r
+ result = 37 * result + _sequenceA.hashCode();\r
+ }\r
+ if (_sequenceB != null) {\r
+ result = 37 * result + _sequenceB.hashCode();\r
+ }\r
+ if (_id != null) {\r
+ result = 37 * result + _id.hashCode();\r
+ }\r
+ if (_rangeList != null) {\r
+ result = 37 * result + _rangeList.hashCode();\r
+ }\r
+ if (_provenance != null) {\r
+ result = 37 * result + _provenance.hashCode();\r
+ }\r
+ \r
+ return result;\r
+ }\r
+\r
+ /**\r
+ * Method isValid.\r
+ * \r
+ * @return true if this object is valid according to the schema\r
+ */\r
+ public boolean isValid(\r
+ ) {\r
+ try {\r
+ validate();\r
+ } catch (org.exolab.castor.xml.ValidationException vex) {\r
+ return false;\r
+ }\r
+ return true;\r
+ }\r
+\r
+ /**\r
+ * \r
+ * \r
+ * @param out\r
+ * @throws org.exolab.castor.xml.MarshalException if object is\r
+ * null or if any SAXException is thrown during marshaling\r
+ * @throws org.exolab.castor.xml.ValidationException if this\r
+ * object is an invalid instance according to the schema\r
+ */\r
+ public void marshal(\r
+ final java.io.Writer out)\r
+ throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException {\r
+ Marshaller.marshal(this, out);\r
+ }\r
+\r
+ /**\r
+ * \r
+ * \r
+ * @param handler\r
+ * @throws java.io.IOException if an IOException occurs during\r
+ * marshaling\r
+ * @throws org.exolab.castor.xml.ValidationException if this\r
+ * object is an invalid instance according to the schema\r
+ * @throws org.exolab.castor.xml.MarshalException if object is\r
+ * null or if any SAXException is thrown during marshaling\r
+ */\r
+ public void marshal(\r
+ final org.xml.sax.ContentHandler handler)\r
+ throws java.io.IOException, org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException {\r
+ Marshaller.marshal(this, handler);\r
+ }\r
+\r
+ /**\r
+ */\r
+ public void removeAllRange(\r
+ ) {\r
+ this._rangeList.clear();\r
+ }\r
+\r
+ /**\r
+ * Method removeRange.\r
+ * \r
+ * @param vRange\r
+ * @return true if the object was removed from the collection.\r
+ */\r
+ public boolean removeRange(\r
+ final uk.ac.vamsas.objects.core.Range vRange) {\r
+ boolean removed = _rangeList.remove(vRange);\r
+ return removed;\r
+ }\r
+\r
+ /**\r
+ * Method removeRangeAt.\r
+ * \r
+ * @param index\r
+ * @return the element removed from the collection\r
+ */\r
+ public uk.ac.vamsas.objects.core.Range removeRangeAt(\r
+ final int index) {\r
+ java.lang.Object obj = this._rangeList.remove(index);\r
+ return (uk.ac.vamsas.objects.core.Range) obj;\r
+ }\r
+\r
+ /**\r
+ * Sets the value of field 'id'.\r
+ * \r
+ * @param id the value of field 'id'.\r
+ */\r
+ public void setId(\r
+ final java.lang.String id) {\r
+ this._id = id;\r
+ }\r
+\r
+ /**\r
+ * Sets the value of field 'provenance'.\r
+ * \r
+ * @param provenance the value of field 'provenance'.\r
+ */\r
+ public void setProvenance(\r
+ final uk.ac.vamsas.objects.core.Provenance provenance) {\r
+ this._provenance = provenance;\r
+ }\r
+\r
+ /**\r
+ * \r
+ * \r
+ * @param index\r
+ * @param vRange\r
+ * @throws java.lang.IndexOutOfBoundsException if the index\r
+ * given is outside the bounds of the collection\r
+ */\r
+ public void setRange(\r
+ final int index,\r
+ final uk.ac.vamsas.objects.core.Range vRange)\r
+ throws java.lang.IndexOutOfBoundsException {\r
+ // check bounds for index\r
+ if (index < 0 || index >= this._rangeList.size()) {\r
+ throw new IndexOutOfBoundsException("setRange: Index value '" + index + "' not in range [0.." + (this._rangeList.size() - 1) + "]");\r
+ }\r
+ \r
+ this._rangeList.set(index, vRange);\r
+ }\r
+\r
+ /**\r
+ * \r
+ * \r
+ * @param vRangeArray\r
+ */\r
+ public void setRange(\r
+ final uk.ac.vamsas.objects.core.Range[] vRangeArray) {\r
+ //-- copy array\r
+ _rangeList.clear();\r
+ \r
+ for (int i = 0; i < vRangeArray.length; i++) {\r
+ this._rangeList.add(vRangeArray[i]);\r
+ }\r
+ }\r
+\r
+ /**\r
+ * Sets the value of '_rangeList' by copying the given Vector.\r
+ * All elements will be checked for type safety.\r
+ * \r
+ * @param vRangeList the Vector to copy.\r
+ */\r
+ public void setRange(\r
+ final java.util.Vector vRangeList) {\r
+ // copy vector\r
+ this._rangeList.clear();\r
+ \r
+ this._rangeList.addAll(vRangeList);\r
+ }\r
+\r
+ /**\r
+ * Sets the value of '_rangeList' by setting it to the given\r
+ * Vector. No type checking is performed.\r
+ * @deprecated\r
+ * \r
+ * @param rangeVector the Vector to set.\r
+ */\r
+ public void setRangeAsReference(\r
+ final java.util.Vector rangeVector) {\r
+ this._rangeList = rangeVector;\r
+ }\r
+\r
+ /**\r
+ * Sets the value of field 'sequenceA'.\r
+ * \r
+ * @param sequenceA the value of field 'sequenceA'.\r
+ */\r
+ public void setSequenceA(\r
+ final java.lang.Object sequenceA) {\r
+ this._sequenceA = sequenceA;\r
+ }\r
+\r
+ /**\r
+ * Sets the value of field 'sequenceB'.\r
+ * \r
+ * @param sequenceB the value of field 'sequenceB'.\r
+ */\r
+ public void setSequenceB(\r
+ final java.lang.Object sequenceB) {\r
+ this._sequenceB = sequenceB;\r
+ }\r
+\r
+ /**\r
+ * Method unmarshal.\r
+ * \r
+ * @param reader\r
+ * @throws org.exolab.castor.xml.MarshalException if object is\r
+ * null or if any SAXException is thrown during marshaling\r
+ * @throws org.exolab.castor.xml.ValidationException if this\r
+ * object is an invalid instance according to the schema\r
+ * @return the unmarshaled\r
+ * uk.ac.vamsas.objects.core.SequenceMapping\r
+ */\r
+ public static uk.ac.vamsas.objects.core.SequenceMapping unmarshal(\r
+ final java.io.Reader reader)\r
+ throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException {\r
+ return (uk.ac.vamsas.objects.core.SequenceMapping) Unmarshaller.unmarshal(uk.ac.vamsas.objects.core.SequenceMapping.class, reader);\r
+ }\r
+\r
+ /**\r
+ * \r
+ * \r
+ * @throws org.exolab.castor.xml.ValidationException if this\r
+ * object is an invalid instance according to the schema\r
+ */\r
+ public void validate(\r
+ )\r
+ throws org.exolab.castor.xml.ValidationException {\r
+ org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();\r
+ validator.validate(this);\r
+ }\r
+\r
+}\r