/*
- * This class was automatically generated with
- * <a href="http://www.castor.org">Castor 1.1</a>, using an XML
- * Schema.
- * $Id$
+ * This file is part of the Vamsas Client version 0.1.
+ * Copyright 2009 by Jim Procter, Iain Milne, Pierre Marguerite,
+ * Andrew Waterhouse and Dominik Lindner.
+ *
+ * Earlier versions have also been incorporated into Jalview version 2.4
+ * since 2008, and TOPALi version 2 since 2007.
+ *
+ * The Vamsas Client is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
+ *
+ * The Vamsas Client 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 Lesser General Public License for more details.
+ *
+ * You should have received a copy of the GNU Lesser General Public License
+ * along with the Vamsas Client. If not, see <http://www.gnu.org/licenses/>.
*/
-
package uk.ac.vamsas.objects.core;
- //---------------------------------/
- //- Imported classes and packages -/
+//---------------------------------/
+//- Imported classes and packages -/
//---------------------------------/
import org.exolab.castor.xml.Marshaller;
/**
* Class ApplicationData.
*
- * @version $Revision$ $Date$
+ * @version $Revision$ $Date: 2007-06-28 14:51:44 +0100 (Thu, 28 Jun 2007)
+ * $
*/
-public class ApplicationData extends uk.ac.vamsas.objects.core.AppData
-implements java.io.Serializable
-{
-
-
- //--------------------------/
- //- Class/Member Variables -/
- //--------------------------/
-
- /**
- * Version string describing the application specific
- * data storage version used
- */
- private java.lang.String _version;
-
- /**
- * Canonical name of application
- */
- private java.lang.String _name;
-
- /**
- * Field _userList.
- */
- private java.util.Vector _userList;
-
- /**
- * Field _common.
- */
- private uk.ac.vamsas.objects.core.Common _common;
-
- /**
- * Field _instanceList.
- */
- private java.util.Vector _instanceList;
-
-
- //----------------/
- //- Constructors -/
- //----------------/
-
- public ApplicationData() {
- super();
- this._userList = new java.util.Vector();
- this._instanceList = new java.util.Vector();
- }
-
-
- //-----------/
- //- Methods -/
- //-----------/
-
- /**
- *
- *
- * @param vInstance
- * @throws java.lang.IndexOutOfBoundsException if the index
- * given is outside the bounds of the collection
- */
- public void addInstance(
- final uk.ac.vamsas.objects.core.Instance vInstance)
- throws java.lang.IndexOutOfBoundsException {
- this._instanceList.addElement(vInstance);
- }
-
- /**
- *
- *
- * @param index
- * @param vInstance
- * @throws java.lang.IndexOutOfBoundsException if the index
- * given is outside the bounds of the collection
- */
- public void addInstance(
- final int index,
- final uk.ac.vamsas.objects.core.Instance vInstance)
- throws java.lang.IndexOutOfBoundsException {
- this._instanceList.add(index, vInstance);
- }
-
- /**
- *
- *
- * @param vUser
- * @throws java.lang.IndexOutOfBoundsException if the index
- * given is outside the bounds of the collection
- */
- public void addUser(
- final uk.ac.vamsas.objects.core.User vUser)
- throws java.lang.IndexOutOfBoundsException {
- this._userList.addElement(vUser);
- }
-
- /**
- *
- *
- * @param index
- * @param vUser
- * @throws java.lang.IndexOutOfBoundsException if the index
- * given is outside the bounds of the collection
- */
- public void addUser(
- final int index,
- final uk.ac.vamsas.objects.core.User vUser)
- throws java.lang.IndexOutOfBoundsException {
- this._userList.add(index, vUser);
- }
-
- /**
- * Method enumerateInstance.
- *
- * @return an Enumeration over all
- * uk.ac.vamsas.objects.core.Instance elements
- */
- public java.util.Enumeration enumerateInstance(
- ) {
- return this._instanceList.elements();
- }
-
- /**
- * Method enumerateUser.
- *
- * @return an Enumeration over all
- * uk.ac.vamsas.objects.core.User elements
- */
- public java.util.Enumeration enumerateUser(
- ) {
- return this._userList.elements();
- }
-
- /**
- * Overrides the java.lang.Object.equals method.
- *
- * @param obj
- * @return true if the objects are equal.
- */
- public boolean equals(
- final java.lang.Object obj) {
- if ( this == obj )
- return true;
-
- if (super.equals(obj)==false)
+public class ApplicationData extends uk.ac.vamsas.objects.core.AppData
+ implements java.io.Serializable {
+
+ // --------------------------/
+ // - Class/Member Variables -/
+ // --------------------------/
+
+ /**
+ * Version string describing the application specific data storage version
+ * used
+ */
+ private java.lang.String _version;
+
+ /**
+ * Canonical name of application
+ */
+ private java.lang.String _name;
+
+ /**
+ * Field _userList.
+ */
+ private java.util.Vector _userList;
+
+ /**
+ * Field _common.
+ */
+ private uk.ac.vamsas.objects.core.Common _common;
+
+ /**
+ * Field _instanceList.
+ */
+ private java.util.Vector _instanceList;
+
+ // ----------------/
+ // - Constructors -/
+ // ----------------/
+
+ public ApplicationData() {
+ super();
+ this._userList = new java.util.Vector();
+ this._instanceList = new java.util.Vector();
+ }
+
+ // -----------/
+ // - Methods -/
+ // -----------/
+
+ /**
+ *
+ *
+ * @param vInstance
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void addInstance(final uk.ac.vamsas.objects.core.Instance vInstance)
+ throws java.lang.IndexOutOfBoundsException {
+ this._instanceList.addElement(vInstance);
+ }
+
+ /**
+ *
+ *
+ * @param index
+ * @param vInstance
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void addInstance(final int index,
+ final uk.ac.vamsas.objects.core.Instance vInstance)
+ throws java.lang.IndexOutOfBoundsException {
+ this._instanceList.add(index, vInstance);
+ }
+
+ /**
+ *
+ *
+ * @param vUser
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void addUser(final uk.ac.vamsas.objects.core.User vUser)
+ throws java.lang.IndexOutOfBoundsException {
+ this._userList.addElement(vUser);
+ }
+
+ /**
+ *
+ *
+ * @param index
+ * @param vUser
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void addUser(final int index,
+ final uk.ac.vamsas.objects.core.User vUser)
+ throws java.lang.IndexOutOfBoundsException {
+ this._userList.add(index, vUser);
+ }
+
+ /**
+ * Method enumerateInstance.
+ *
+ * @return an Enumeration over all uk.ac.vamsas.objects.core.Instance elements
+ */
+ public java.util.Enumeration enumerateInstance() {
+ return this._instanceList.elements();
+ }
+
+ /**
+ * Method enumerateUser.
+ *
+ * @return an Enumeration over all uk.ac.vamsas.objects.core.User elements
+ */
+ public java.util.Enumeration enumerateUser() {
+ return this._userList.elements();
+ }
+
+ /**
+ * Overrides the java.lang.Object.equals method.
+ *
+ * @param obj
+ * @return true if the objects are equal.
+ */
+ public boolean equals(final java.lang.Object obj) {
+ if (this == obj)
+ return true;
+
+ if (super.equals(obj) == false)
+ return false;
+
+ if (obj instanceof ApplicationData) {
+
+ ApplicationData temp = (ApplicationData) obj;
+ boolean thcycle;
+ boolean tmcycle;
+ if (this._version != null) {
+ if (temp._version == null)
+ return false;
+ if (this._version != temp._version) {
+ thcycle = org.castor.util.CycleBreaker.startingToCycle(this._version);
+ tmcycle = org.castor.util.CycleBreaker.startingToCycle(temp._version);
+ if (thcycle != tmcycle) {
+ if (!thcycle) {
+ org.castor.util.CycleBreaker.releaseCycleHandle(this._version);
+ }
+ ;
+ if (!tmcycle) {
+ org.castor.util.CycleBreaker.releaseCycleHandle(temp._version);
+ }
+ ;
return false;
-
- if (obj instanceof ApplicationData) {
-
- ApplicationData temp = (ApplicationData)obj;
- boolean thcycle;
- boolean tmcycle;
- if (this._version != null) {
- if (temp._version == null) return false;
- if (this._version != temp._version) {
- thcycle=org.castor.util.CycleBreaker.startingToCycle(this._version);
- tmcycle=org.castor.util.CycleBreaker.startingToCycle(temp._version);
- if (thcycle!=tmcycle) {
- if (!thcycle) { org.castor.util.CycleBreaker.releaseCycleHandle(this._version); };
- if (!tmcycle) { org.castor.util.CycleBreaker.releaseCycleHandle(temp._version); };
- return false;
- }
- if (!thcycle) {
- if (!this._version.equals(temp._version)) {
- org.castor.util.CycleBreaker.releaseCycleHandle(this._version);
- org.castor.util.CycleBreaker.releaseCycleHandle(temp._version);
- return false;
- }
- org.castor.util.CycleBreaker.releaseCycleHandle(this._version);
- org.castor.util.CycleBreaker.releaseCycleHandle(temp._version);
- }
- }
- } else if (temp._version != null)
- return false;
- if (this._name != null) {
- if (temp._name == null) return false;
- if (this._name != temp._name) {
- thcycle=org.castor.util.CycleBreaker.startingToCycle(this._name);
- tmcycle=org.castor.util.CycleBreaker.startingToCycle(temp._name);
- if (thcycle!=tmcycle) {
- if (!thcycle) { org.castor.util.CycleBreaker.releaseCycleHandle(this._name); };
- if (!tmcycle) { org.castor.util.CycleBreaker.releaseCycleHandle(temp._name); };
- return false;
- }
- if (!thcycle) {
- if (!this._name.equals(temp._name)) {
- org.castor.util.CycleBreaker.releaseCycleHandle(this._name);
- org.castor.util.CycleBreaker.releaseCycleHandle(temp._name);
- return false;
- }
- org.castor.util.CycleBreaker.releaseCycleHandle(this._name);
- org.castor.util.CycleBreaker.releaseCycleHandle(temp._name);
- }
- }
- } else if (temp._name != null)
- return false;
- if (this._userList != null) {
- if (temp._userList == null) return false;
- if (this._userList != temp._userList) {
- thcycle=org.castor.util.CycleBreaker.startingToCycle(this._userList);
- tmcycle=org.castor.util.CycleBreaker.startingToCycle(temp._userList);
- if (thcycle!=tmcycle) {
- if (!thcycle) { org.castor.util.CycleBreaker.releaseCycleHandle(this._userList); };
- if (!tmcycle) { org.castor.util.CycleBreaker.releaseCycleHandle(temp._userList); };
- return false;
- }
- if (!thcycle) {
- if (!this._userList.equals(temp._userList)) {
- org.castor.util.CycleBreaker.releaseCycleHandle(this._userList);
- org.castor.util.CycleBreaker.releaseCycleHandle(temp._userList);
- return false;
- }
- org.castor.util.CycleBreaker.releaseCycleHandle(this._userList);
- org.castor.util.CycleBreaker.releaseCycleHandle(temp._userList);
- }
- }
- } else if (temp._userList != null)
- return false;
- if (this._common != null) {
- if (temp._common == null) return false;
- if (this._common != temp._common) {
- thcycle=org.castor.util.CycleBreaker.startingToCycle(this._common);
- tmcycle=org.castor.util.CycleBreaker.startingToCycle(temp._common);
- if (thcycle!=tmcycle) {
- if (!thcycle) { org.castor.util.CycleBreaker.releaseCycleHandle(this._common); };
- if (!tmcycle) { org.castor.util.CycleBreaker.releaseCycleHandle(temp._common); };
- return false;
- }
- if (!thcycle) {
- if (!this._common.equals(temp._common)) {
- org.castor.util.CycleBreaker.releaseCycleHandle(this._common);
- org.castor.util.CycleBreaker.releaseCycleHandle(temp._common);
- return false;
- }
- org.castor.util.CycleBreaker.releaseCycleHandle(this._common);
- org.castor.util.CycleBreaker.releaseCycleHandle(temp._common);
- }
- }
- } else if (temp._common != null)
- return false;
- if (this._instanceList != null) {
- if (temp._instanceList == null) return false;
- if (this._instanceList != temp._instanceList) {
- thcycle=org.castor.util.CycleBreaker.startingToCycle(this._instanceList);
- tmcycle=org.castor.util.CycleBreaker.startingToCycle(temp._instanceList);
- if (thcycle!=tmcycle) {
- if (!thcycle) { org.castor.util.CycleBreaker.releaseCycleHandle(this._instanceList); };
- if (!tmcycle) { org.castor.util.CycleBreaker.releaseCycleHandle(temp._instanceList); };
- return false;
- }
- if (!thcycle) {
- if (!this._instanceList.equals(temp._instanceList)) {
- org.castor.util.CycleBreaker.releaseCycleHandle(this._instanceList);
- org.castor.util.CycleBreaker.releaseCycleHandle(temp._instanceList);
- return false;
- }
- org.castor.util.CycleBreaker.releaseCycleHandle(this._instanceList);
- org.castor.util.CycleBreaker.releaseCycleHandle(temp._instanceList);
- }
- }
- } else if (temp._instanceList != null)
- return false;
- return true;
+ }
+ if (!thcycle) {
+ if (!this._version.equals(temp._version)) {
+ org.castor.util.CycleBreaker.releaseCycleHandle(this._version);
+ org.castor.util.CycleBreaker.releaseCycleHandle(temp._version);
+ return false;
+ }
+ org.castor.util.CycleBreaker.releaseCycleHandle(this._version);
+ org.castor.util.CycleBreaker.releaseCycleHandle(temp._version);
+ }
}
+ } else if (temp._version != null)
return false;
- }
-
- /**
- * Returns the value of field 'common'.
- *
- * @return the value of field 'Common'.
- */
- public uk.ac.vamsas.objects.core.Common getCommon(
- ) {
- return this._common;
- }
-
- /**
- * Method getInstance.
- *
- * @param index
- * @throws java.lang.IndexOutOfBoundsException if the index
- * given is outside the bounds of the collection
- * @return the value of the uk.ac.vamsas.objects.core.Instance
- * at the given index
- */
- public uk.ac.vamsas.objects.core.Instance getInstance(
- final int index)
- throws java.lang.IndexOutOfBoundsException {
- // check bounds for index
- if (index < 0 || index >= this._instanceList.size()) {
- throw new IndexOutOfBoundsException("getInstance: Index value '" + index + "' not in range [0.." + (this._instanceList.size() - 1) + "]");
- }
-
- return (uk.ac.vamsas.objects.core.Instance) _instanceList.get(index);
- }
-
- /**
- * Method getInstance.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 uk.ac.vamsas.objects.core.Instance[] getInstance(
- ) {
- uk.ac.vamsas.objects.core.Instance[] array = new uk.ac.vamsas.objects.core.Instance[0];
- return (uk.ac.vamsas.objects.core.Instance[]) this._instanceList.toArray(array);
- }
-
- /**
- * Method getInstanceAsReference.Returns a reference to
- * '_instanceList'. No type checking is performed on any
- * modifications to the Vector.
- *
- * @return a reference to the Vector backing this class
- */
- public java.util.Vector getInstanceAsReference(
- ) {
- return this._instanceList;
- }
-
- /**
- * Method getInstanceCount.
- *
- * @return the size of this collection
- */
- public int getInstanceCount(
- ) {
- return this._instanceList.size();
- }
-
- /**
- * Returns the value of field 'name'. The field 'name' has the
- * following description: Canonical name of application
- *
- * @return the value of field 'Name'.
- */
- public java.lang.String getName(
- ) {
- return this._name;
- }
-
- /**
- * Method getUser.
- *
- * @param index
- * @throws java.lang.IndexOutOfBoundsException if the index
- * given is outside the bounds of the collection
- * @return the value of the uk.ac.vamsas.objects.core.User at
- * the given index
- */
- public uk.ac.vamsas.objects.core.User getUser(
- final int index)
- throws java.lang.IndexOutOfBoundsException {
- // check bounds for index
- if (index < 0 || index >= this._userList.size()) {
- throw new IndexOutOfBoundsException("getUser: Index value '" + index + "' not in range [0.." + (this._userList.size() - 1) + "]");
- }
-
- return (uk.ac.vamsas.objects.core.User) _userList.get(index);
- }
-
- /**
- * Method getUser.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 uk.ac.vamsas.objects.core.User[] getUser(
- ) {
- uk.ac.vamsas.objects.core.User[] array = new uk.ac.vamsas.objects.core.User[0];
- return (uk.ac.vamsas.objects.core.User[]) this._userList.toArray(array);
- }
-
- /**
- * Method getUserAsReference.Returns a reference to
- * '_userList'. No type checking is performed on any
- * modifications to the Vector.
- *
- * @return a reference to the Vector backing this class
- */
- public java.util.Vector getUserAsReference(
- ) {
- return this._userList;
- }
-
- /**
- * Method getUserCount.
- *
- * @return the size of this collection
- */
- public int getUserCount(
- ) {
- return this._userList.size();
- }
-
- /**
- * Returns the value of field 'version'. The field 'version'
- * has the following description: Version string describing the
- * application specific
- * data storage version used
- *
- * @return the value of field 'Version'.
- */
- public java.lang.String getVersion(
- ) {
- return this._version;
- }
-
- /**
- * Overrides the java.lang.Object.hashCode method.
- * <p>
- * The following steps came from <b>Effective Java Programming
- * Language Guide</b> by Joshua Bloch, Chapter 3
- *
- * @return a hash code value for the object.
- */
- public int hashCode(
- ) {
- int result = super.hashCode();
-
- long tmp;
- if (_version != null
- && !org.castor.util.CycleBreaker.startingToCycle(_version)) {
- result = 37 * result + _version.hashCode();
- org.castor.util.CycleBreaker.releaseCycleHandle(_version);
- }
- if (_name != null
- && !org.castor.util.CycleBreaker.startingToCycle(_name)) {
- result = 37 * result + _name.hashCode();
- org.castor.util.CycleBreaker.releaseCycleHandle(_name);
- }
- if (_userList != null
- && !org.castor.util.CycleBreaker.startingToCycle(_userList)) {
- result = 37 * result + _userList.hashCode();
- org.castor.util.CycleBreaker.releaseCycleHandle(_userList);
- }
- if (_common != null
- && !org.castor.util.CycleBreaker.startingToCycle(_common)) {
- result = 37 * result + _common.hashCode();
- org.castor.util.CycleBreaker.releaseCycleHandle(_common);
- }
- if (_instanceList != null
- && !org.castor.util.CycleBreaker.startingToCycle(_instanceList)) {
- result = 37 * result + _instanceList.hashCode();
- org.castor.util.CycleBreaker.releaseCycleHandle(_instanceList);
- }
-
- return result;
- }
-
- /**
- * 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) {
+ if (this._name != null) {
+ if (temp._name == null)
+ return false;
+ if (this._name != temp._name) {
+ thcycle = org.castor.util.CycleBreaker.startingToCycle(this._name);
+ tmcycle = org.castor.util.CycleBreaker.startingToCycle(temp._name);
+ if (thcycle != tmcycle) {
+ if (!thcycle) {
+ org.castor.util.CycleBreaker.releaseCycleHandle(this._name);
+ }
+ ;
+ if (!tmcycle) {
+ org.castor.util.CycleBreaker.releaseCycleHandle(temp._name);
+ }
+ ;
return false;
+ }
+ if (!thcycle) {
+ if (!this._name.equals(temp._name)) {
+ org.castor.util.CycleBreaker.releaseCycleHandle(this._name);
+ org.castor.util.CycleBreaker.releaseCycleHandle(temp._name);
+ return false;
+ }
+ org.castor.util.CycleBreaker.releaseCycleHandle(this._name);
+ org.castor.util.CycleBreaker.releaseCycleHandle(temp._name);
+ }
}
- 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 removeAllInstance(
- ) {
- this._instanceList.clear();
- }
-
- /**
- */
- public void removeAllUser(
- ) {
- this._userList.clear();
- }
-
- /**
- * Method removeInstance.
- *
- * @param vInstance
- * @return true if the object was removed from the collection.
- */
- public boolean removeInstance(
- final uk.ac.vamsas.objects.core.Instance vInstance) {
- boolean removed = _instanceList.remove(vInstance);
- return removed;
- }
-
- /**
- * Method removeInstanceAt.
- *
- * @param index
- * @return the element removed from the collection
- */
- public uk.ac.vamsas.objects.core.Instance removeInstanceAt(
- final int index) {
- java.lang.Object obj = this._instanceList.remove(index);
- return (uk.ac.vamsas.objects.core.Instance) obj;
- }
-
- /**
- * Method removeUser.
- *
- * @param vUser
- * @return true if the object was removed from the collection.
- */
- public boolean removeUser(
- final uk.ac.vamsas.objects.core.User vUser) {
- boolean removed = _userList.remove(vUser);
- return removed;
- }
-
- /**
- * Method removeUserAt.
- *
- * @param index
- * @return the element removed from the collection
- */
- public uk.ac.vamsas.objects.core.User removeUserAt(
- final int index) {
- java.lang.Object obj = this._userList.remove(index);
- return (uk.ac.vamsas.objects.core.User) obj;
- }
-
- /**
- * Sets the value of field 'common'.
- *
- * @param common the value of field 'common'.
- */
- public void setCommon(
- final uk.ac.vamsas.objects.core.Common common) {
- this._common = common;
- }
-
- /**
- *
- *
- * @param index
- * @param vInstance
- * @throws java.lang.IndexOutOfBoundsException if the index
- * given is outside the bounds of the collection
- */
- public void setInstance(
- final int index,
- final uk.ac.vamsas.objects.core.Instance vInstance)
- throws java.lang.IndexOutOfBoundsException {
- // check bounds for index
- if (index < 0 || index >= this._instanceList.size()) {
- throw new IndexOutOfBoundsException("setInstance: Index value '" + index + "' not in range [0.." + (this._instanceList.size() - 1) + "]");
- }
-
- this._instanceList.set(index, vInstance);
- }
-
- /**
- *
- *
- * @param vInstanceArray
- */
- public void setInstance(
- final uk.ac.vamsas.objects.core.Instance[] vInstanceArray) {
- //-- copy array
- _instanceList.clear();
-
- for (int i = 0; i < vInstanceArray.length; i++) {
- this._instanceList.add(vInstanceArray[i]);
+ } else if (temp._name != null)
+ return false;
+ if (this._userList != null) {
+ if (temp._userList == null)
+ return false;
+ if (this._userList != temp._userList) {
+ thcycle = org.castor.util.CycleBreaker
+ .startingToCycle(this._userList);
+ tmcycle = org.castor.util.CycleBreaker
+ .startingToCycle(temp._userList);
+ if (thcycle != tmcycle) {
+ if (!thcycle) {
+ org.castor.util.CycleBreaker.releaseCycleHandle(this._userList);
+ }
+ ;
+ if (!tmcycle) {
+ org.castor.util.CycleBreaker.releaseCycleHandle(temp._userList);
+ }
+ ;
+ return false;
+ }
+ if (!thcycle) {
+ if (!this._userList.equals(temp._userList)) {
+ org.castor.util.CycleBreaker.releaseCycleHandle(this._userList);
+ org.castor.util.CycleBreaker.releaseCycleHandle(temp._userList);
+ return false;
+ }
+ org.castor.util.CycleBreaker.releaseCycleHandle(this._userList);
+ org.castor.util.CycleBreaker.releaseCycleHandle(temp._userList);
+ }
}
- }
-
- /**
- * Sets the value of '_instanceList' by copying the given
- * Vector. All elements will be checked for type safety.
- *
- * @param vInstanceList the Vector to copy.
- */
- public void setInstance(
- final java.util.Vector vInstanceList) {
- // copy vector
- this._instanceList.clear();
-
- this._instanceList.addAll(vInstanceList);
- }
-
- /**
- * Sets the value of '_instanceList' by setting it to the given
- * Vector. No type checking is performed.
- * @deprecated
- *
- * @param instanceVector the Vector to set.
- */
- public void setInstanceAsReference(
- final java.util.Vector instanceVector) {
- this._instanceList = instanceVector;
- }
-
- /**
- * Sets the value of field 'name'. The field 'name' has the
- * following description: Canonical name of application
- *
- * @param name the value of field 'name'.
- */
- public void setName(
- final java.lang.String name) {
- this._name = name;
- }
-
- /**
- *
- *
- * @param index
- * @param vUser
- * @throws java.lang.IndexOutOfBoundsException if the index
- * given is outside the bounds of the collection
- */
- public void setUser(
- final int index,
- final uk.ac.vamsas.objects.core.User vUser)
- throws java.lang.IndexOutOfBoundsException {
- // check bounds for index
- if (index < 0 || index >= this._userList.size()) {
- throw new IndexOutOfBoundsException("setUser: Index value '" + index + "' not in range [0.." + (this._userList.size() - 1) + "]");
+ } else if (temp._userList != null)
+ return false;
+ if (this._common != null) {
+ if (temp._common == null)
+ return false;
+ if (this._common != temp._common) {
+ thcycle = org.castor.util.CycleBreaker.startingToCycle(this._common);
+ tmcycle = org.castor.util.CycleBreaker.startingToCycle(temp._common);
+ if (thcycle != tmcycle) {
+ if (!thcycle) {
+ org.castor.util.CycleBreaker.releaseCycleHandle(this._common);
+ }
+ ;
+ if (!tmcycle) {
+ org.castor.util.CycleBreaker.releaseCycleHandle(temp._common);
+ }
+ ;
+ return false;
+ }
+ if (!thcycle) {
+ if (!this._common.equals(temp._common)) {
+ org.castor.util.CycleBreaker.releaseCycleHandle(this._common);
+ org.castor.util.CycleBreaker.releaseCycleHandle(temp._common);
+ return false;
+ }
+ org.castor.util.CycleBreaker.releaseCycleHandle(this._common);
+ org.castor.util.CycleBreaker.releaseCycleHandle(temp._common);
+ }
}
-
- this._userList.set(index, vUser);
- }
-
- /**
- *
- *
- * @param vUserArray
- */
- public void setUser(
- final uk.ac.vamsas.objects.core.User[] vUserArray) {
- //-- copy array
- _userList.clear();
-
- for (int i = 0; i < vUserArray.length; i++) {
- this._userList.add(vUserArray[i]);
+ } else if (temp._common != null)
+ return false;
+ if (this._instanceList != null) {
+ if (temp._instanceList == null)
+ return false;
+ if (this._instanceList != temp._instanceList) {
+ thcycle = org.castor.util.CycleBreaker
+ .startingToCycle(this._instanceList);
+ tmcycle = org.castor.util.CycleBreaker
+ .startingToCycle(temp._instanceList);
+ if (thcycle != tmcycle) {
+ if (!thcycle) {
+ org.castor.util.CycleBreaker
+ .releaseCycleHandle(this._instanceList);
+ }
+ ;
+ if (!tmcycle) {
+ org.castor.util.CycleBreaker
+ .releaseCycleHandle(temp._instanceList);
+ }
+ ;
+ return false;
+ }
+ if (!thcycle) {
+ if (!this._instanceList.equals(temp._instanceList)) {
+ org.castor.util.CycleBreaker
+ .releaseCycleHandle(this._instanceList);
+ org.castor.util.CycleBreaker
+ .releaseCycleHandle(temp._instanceList);
+ return false;
+ }
+ org.castor.util.CycleBreaker.releaseCycleHandle(this._instanceList);
+ org.castor.util.CycleBreaker.releaseCycleHandle(temp._instanceList);
+ }
}
- }
-
- /**
- * Sets the value of '_userList' by copying the given Vector.
- * All elements will be checked for type safety.
- *
- * @param vUserList the Vector to copy.
- */
- public void setUser(
- final java.util.Vector vUserList) {
- // copy vector
- this._userList.clear();
-
- this._userList.addAll(vUserList);
- }
-
- /**
- * Sets the value of '_userList' by setting it to the given
- * Vector. No type checking is performed.
- * @deprecated
- *
- * @param userVector the Vector to set.
- */
- public void setUserAsReference(
- final java.util.Vector userVector) {
- this._userList = userVector;
- }
-
- /**
- * Sets the value of field 'version'. The field 'version' has
- * the following description: Version string describing the
- * application specific
- * data storage version used
- *
- * @param version the value of field 'version'.
- */
- public void setVersion(
- final java.lang.String version) {
- this._version = version;
- }
-
- /**
- * 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 uk.ac.vamsas.objects.core.AppData
- */
- public static uk.ac.vamsas.objects.core.AppData unmarshal(
- final java.io.Reader reader)
- throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException {
- return (uk.ac.vamsas.objects.core.AppData) Unmarshaller.unmarshal(uk.ac.vamsas.objects.core.ApplicationData.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);
- }
+ } else if (temp._instanceList != null)
+ return false;
+ return true;
+ }
+ return false;
+ }
+
+ /**
+ * Returns the value of field 'common'.
+ *
+ * @return the value of field 'Common'.
+ */
+ public uk.ac.vamsas.objects.core.Common getCommon() {
+ return this._common;
+ }
+
+ /**
+ * Method getInstance.
+ *
+ * @param index
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ * @return the value of the uk.ac.vamsas.objects.core.Instance at the given
+ * index
+ */
+ public uk.ac.vamsas.objects.core.Instance getInstance(final int index)
+ throws java.lang.IndexOutOfBoundsException {
+ // check bounds for index
+ if (index < 0 || index >= this._instanceList.size()) {
+ throw new IndexOutOfBoundsException("getInstance: Index value '" + index
+ + "' not in range [0.." + (this._instanceList.size() - 1) + "]");
+ }
+
+ return (uk.ac.vamsas.objects.core.Instance) _instanceList.get(index);
+ }
+
+ /**
+ * Method getInstance.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 uk.ac.vamsas.objects.core.Instance[] getInstance() {
+ uk.ac.vamsas.objects.core.Instance[] array = new uk.ac.vamsas.objects.core.Instance[0];
+ return (uk.ac.vamsas.objects.core.Instance[]) this._instanceList
+ .toArray(array);
+ }
+
+ /**
+ * Method getInstanceAsReference.Returns a reference to '_instanceList'. No
+ * type checking is performed on any modifications to the Vector.
+ *
+ * @return a reference to the Vector backing this class
+ */
+ public java.util.Vector getInstanceAsReference() {
+ return this._instanceList;
+ }
+
+ /**
+ * Method getInstanceCount.
+ *
+ * @return the size of this collection
+ */
+ public int getInstanceCount() {
+ return this._instanceList.size();
+ }
+
+ /**
+ * Returns the value of field 'name'. The field 'name' has the following
+ * description: Canonical name of application
+ *
+ * @return the value of field 'Name'.
+ */
+ public java.lang.String getName() {
+ return this._name;
+ }
+
+ /**
+ * Method getUser.
+ *
+ * @param index
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ * @return the value of the uk.ac.vamsas.objects.core.User at the given index
+ */
+ public uk.ac.vamsas.objects.core.User getUser(final int index)
+ throws java.lang.IndexOutOfBoundsException {
+ // check bounds for index
+ if (index < 0 || index >= this._userList.size()) {
+ throw new IndexOutOfBoundsException("getUser: Index value '" + index
+ + "' not in range [0.." + (this._userList.size() - 1) + "]");
+ }
+
+ return (uk.ac.vamsas.objects.core.User) _userList.get(index);
+ }
+
+ /**
+ * Method getUser.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 uk.ac.vamsas.objects.core.User[] getUser() {
+ uk.ac.vamsas.objects.core.User[] array = new uk.ac.vamsas.objects.core.User[0];
+ return (uk.ac.vamsas.objects.core.User[]) this._userList.toArray(array);
+ }
+
+ /**
+ * Method getUserAsReference.Returns a reference to '_userList'. No type
+ * checking is performed on any modifications to the Vector.
+ *
+ * @return a reference to the Vector backing this class
+ */
+ public java.util.Vector getUserAsReference() {
+ return this._userList;
+ }
+
+ /**
+ * Method getUserCount.
+ *
+ * @return the size of this collection
+ */
+ public int getUserCount() {
+ return this._userList.size();
+ }
+
+ /**
+ * Returns the value of field 'version'. The field 'version' has the following
+ * description: Version string describing the application specific data
+ * storage version used
+ *
+ * @return the value of field 'Version'.
+ */
+ public java.lang.String getVersion() {
+ return this._version;
+ }
+
+ /**
+ * Overrides the java.lang.Object.hashCode method.
+ * <p>
+ * The following steps came from <b>Effective Java Programming Language
+ * Guide</b> by Joshua Bloch, Chapter 3
+ *
+ * @return a hash code value for the object.
+ */
+ public int hashCode() {
+ int result = super.hashCode();
+
+ long tmp;
+ if (_version != null
+ && !org.castor.util.CycleBreaker.startingToCycle(_version)) {
+ result = 37 * result + _version.hashCode();
+ org.castor.util.CycleBreaker.releaseCycleHandle(_version);
+ }
+ if (_name != null && !org.castor.util.CycleBreaker.startingToCycle(_name)) {
+ result = 37 * result + _name.hashCode();
+ org.castor.util.CycleBreaker.releaseCycleHandle(_name);
+ }
+ if (_userList != null
+ && !org.castor.util.CycleBreaker.startingToCycle(_userList)) {
+ result = 37 * result + _userList.hashCode();
+ org.castor.util.CycleBreaker.releaseCycleHandle(_userList);
+ }
+ if (_common != null
+ && !org.castor.util.CycleBreaker.startingToCycle(_common)) {
+ result = 37 * result + _common.hashCode();
+ org.castor.util.CycleBreaker.releaseCycleHandle(_common);
+ }
+ if (_instanceList != null
+ && !org.castor.util.CycleBreaker.startingToCycle(_instanceList)) {
+ result = 37 * result + _instanceList.hashCode();
+ org.castor.util.CycleBreaker.releaseCycleHandle(_instanceList);
+ }
+
+ return result;
+ }
+
+ /**
+ * 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 removeAllInstance() {
+ this._instanceList.clear();
+ }
+
+ /**
+ */
+ public void removeAllUser() {
+ this._userList.clear();
+ }
+
+ /**
+ * Method removeInstance.
+ *
+ * @param vInstance
+ * @return true if the object was removed from the collection.
+ */
+ public boolean removeInstance(
+ final uk.ac.vamsas.objects.core.Instance vInstance) {
+ boolean removed = _instanceList.remove(vInstance);
+ return removed;
+ }
+
+ /**
+ * Method removeInstanceAt.
+ *
+ * @param index
+ * @return the element removed from the collection
+ */
+ public uk.ac.vamsas.objects.core.Instance removeInstanceAt(final int index) {
+ java.lang.Object obj = this._instanceList.remove(index);
+ return (uk.ac.vamsas.objects.core.Instance) obj;
+ }
+
+ /**
+ * Method removeUser.
+ *
+ * @param vUser
+ * @return true if the object was removed from the collection.
+ */
+ public boolean removeUser(final uk.ac.vamsas.objects.core.User vUser) {
+ boolean removed = _userList.remove(vUser);
+ return removed;
+ }
+
+ /**
+ * Method removeUserAt.
+ *
+ * @param index
+ * @return the element removed from the collection
+ */
+ public uk.ac.vamsas.objects.core.User removeUserAt(final int index) {
+ java.lang.Object obj = this._userList.remove(index);
+ return (uk.ac.vamsas.objects.core.User) obj;
+ }
+
+ /**
+ * Sets the value of field 'common'.
+ *
+ * @param common
+ * the value of field 'common'.
+ */
+ public void setCommon(final uk.ac.vamsas.objects.core.Common common) {
+ this._common = common;
+ }
+
+ /**
+ *
+ *
+ * @param index
+ * @param vInstance
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void setInstance(final int index,
+ final uk.ac.vamsas.objects.core.Instance vInstance)
+ throws java.lang.IndexOutOfBoundsException {
+ // check bounds for index
+ if (index < 0 || index >= this._instanceList.size()) {
+ throw new IndexOutOfBoundsException("setInstance: Index value '" + index
+ + "' not in range [0.." + (this._instanceList.size() - 1) + "]");
+ }
+
+ this._instanceList.set(index, vInstance);
+ }
+
+ /**
+ *
+ *
+ * @param vInstanceArray
+ */
+ public void setInstance(
+ final uk.ac.vamsas.objects.core.Instance[] vInstanceArray) {
+ // -- copy array
+ _instanceList.clear();
+
+ for (int i = 0; i < vInstanceArray.length; i++) {
+ this._instanceList.add(vInstanceArray[i]);
+ }
+ }
+
+ /**
+ * Sets the value of '_instanceList' by copying the given Vector. All elements
+ * will be checked for type safety.
+ *
+ * @param vInstanceList
+ * the Vector to copy.
+ */
+ public void setInstance(final java.util.Vector vInstanceList) {
+ // copy vector
+ this._instanceList.clear();
+
+ this._instanceList.addAll(vInstanceList);
+ }
+
+ /**
+ * Sets the value of '_instanceList' by setting it to the given Vector. No
+ * type checking is performed.
+ *
+ * @deprecated
+ *
+ * @param instanceVector
+ * the Vector to set.
+ */
+ public void setInstanceAsReference(final java.util.Vector instanceVector) {
+ this._instanceList = instanceVector;
+ }
+
+ /**
+ * Sets the value of field 'name'. The field 'name' has the following
+ * description: Canonical name of application
+ *
+ * @param name
+ * the value of field 'name'.
+ */
+ public void setName(final java.lang.String name) {
+ this._name = name;
+ }
+
+ /**
+ *
+ *
+ * @param index
+ * @param vUser
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void setUser(final int index,
+ final uk.ac.vamsas.objects.core.User vUser)
+ throws java.lang.IndexOutOfBoundsException {
+ // check bounds for index
+ if (index < 0 || index >= this._userList.size()) {
+ throw new IndexOutOfBoundsException("setUser: Index value '" + index
+ + "' not in range [0.." + (this._userList.size() - 1) + "]");
+ }
+
+ this._userList.set(index, vUser);
+ }
+
+ /**
+ *
+ *
+ * @param vUserArray
+ */
+ public void setUser(final uk.ac.vamsas.objects.core.User[] vUserArray) {
+ // -- copy array
+ _userList.clear();
+
+ for (int i = 0; i < vUserArray.length; i++) {
+ this._userList.add(vUserArray[i]);
+ }
+ }
+
+ /**
+ * Sets the value of '_userList' by copying the given Vector. All elements
+ * will be checked for type safety.
+ *
+ * @param vUserList
+ * the Vector to copy.
+ */
+ public void setUser(final java.util.Vector vUserList) {
+ // copy vector
+ this._userList.clear();
+
+ this._userList.addAll(vUserList);
+ }
+
+ /**
+ * Sets the value of '_userList' by setting it to the given Vector. No type
+ * checking is performed.
+ *
+ * @deprecated
+ *
+ * @param userVector
+ * the Vector to set.
+ */
+ public void setUserAsReference(final java.util.Vector userVector) {
+ this._userList = userVector;
+ }
+
+ /**
+ * Sets the value of field 'version'. The field 'version' has the following
+ * description: Version string describing the application specific data
+ * storage version used
+ *
+ * @param version
+ * the value of field 'version'.
+ */
+ public void setVersion(final java.lang.String version) {
+ this._version = version;
+ }
+
+ /**
+ * 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 uk.ac.vamsas.objects.core.AppData
+ */
+ public static uk.ac.vamsas.objects.core.AppData unmarshal(
+ final java.io.Reader reader)
+ throws org.exolab.castor.xml.MarshalException,
+ org.exolab.castor.xml.ValidationException {
+ return (uk.ac.vamsas.objects.core.AppData) Unmarshaller.unmarshal(
+ uk.ac.vamsas.objects.core.ApplicationData.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 / vamsas.git / blobdiff