-/*\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle\r
- * \r
- * This file is part of Jalview.\r
- * \r
- * Jalview is free software: you can redistribute it and/or\r
- * modify it under the terms of the GNU General Public License \r
- * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.\r
- * \r
- * Jalview is distributed in the hope that it will be useful, but \r
- * WITHOUT ANY WARRANTY; without even the implied warranty \r
- * of MERCHANTABILITY or FITNESS FOR A PARTICULAR \r
- * PURPOSE. See the GNU General Public License for more details.\r
- * \r
- * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.\r
- */\r
-package jalview.schemabinding.version2;\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 Alcodon.\r
- * \r
- * @version $Revision$ $Date$\r
- */\r
-public class Alcodon implements java.io.Serializable\r
-{\r
-\r
- // --------------------------/\r
- // - Class/Member Variables -/\r
- // --------------------------/\r
-\r
- /**\r
- * Field _pos1.\r
- */\r
- private long _pos1;\r
-\r
- /**\r
- * keeps track of state for field: _pos1\r
- */\r
- private boolean _has_pos1;\r
-\r
- /**\r
- * Field _pos2.\r
- */\r
- private long _pos2;\r
-\r
- /**\r
- * keeps track of state for field: _pos2\r
- */\r
- private boolean _has_pos2;\r
-\r
- /**\r
- * Field _pos3.\r
- */\r
- private long _pos3;\r
-\r
- /**\r
- * keeps track of state for field: _pos3\r
- */\r
- private boolean _has_pos3;\r
-\r
- // ----------------/\r
- // - Constructors -/\r
- // ----------------/\r
-\r
- public Alcodon()\r
- {\r
- super();\r
- }\r
-\r
- // -----------/\r
- // - Methods -/\r
- // -----------/\r
-\r
- /**\r
- */\r
- public void deletePos1()\r
- {\r
- this._has_pos1 = false;\r
- }\r
-\r
- /**\r
- */\r
- public void deletePos2()\r
- {\r
- this._has_pos2 = false;\r
- }\r
-\r
- /**\r
- */\r
- public void deletePos3()\r
- {\r
- this._has_pos3 = false;\r
- }\r
-\r
- /**\r
- * Returns the value of field 'pos1'.\r
- * \r
- * @return the value of field 'Pos1'.\r
- */\r
- public long getPos1()\r
- {\r
- return this._pos1;\r
- }\r
-\r
- /**\r
- * Returns the value of field 'pos2'.\r
- * \r
- * @return the value of field 'Pos2'.\r
- */\r
- public long getPos2()\r
- {\r
- return this._pos2;\r
- }\r
-\r
- /**\r
- * Returns the value of field 'pos3'.\r
- * \r
- * @return the value of field 'Pos3'.\r
- */\r
- public long getPos3()\r
- {\r
- return this._pos3;\r
- }\r
-\r
- /**\r
- * Method hasPos1.\r
- * \r
- * @return true if at least one Pos1 has been added\r
- */\r
- public boolean hasPos1()\r
- {\r
- return this._has_pos1;\r
- }\r
-\r
- /**\r
- * Method hasPos2.\r
- * \r
- * @return true if at least one Pos2 has been added\r
- */\r
- public boolean hasPos2()\r
- {\r
- return this._has_pos2;\r
- }\r
-\r
- /**\r
- * Method hasPos3.\r
- * \r
- * @return true if at least one Pos3 has been added\r
- */\r
- public boolean hasPos3()\r
- {\r
- return this._has_pos3;\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
- {\r
- validate();\r
- } catch (org.exolab.castor.xml.ValidationException vex)\r
- {\r
- return false;\r
- }\r
- return true;\r
- }\r
-\r
- /**\r
- * \r
- * \r
- * @param out\r
- * @throws org.exolab.castor.xml.MarshalException\r
- * if object is null or if any SAXException is thrown during\r
- * marshaling\r
- * @throws org.exolab.castor.xml.ValidationException\r
- * if this object is an invalid instance according to the schema\r
- */\r
- public void marshal(final java.io.Writer out)\r
- throws org.exolab.castor.xml.MarshalException,\r
- org.exolab.castor.xml.ValidationException\r
- {\r
- Marshaller.marshal(this, out);\r
- }\r
-\r
- /**\r
- * \r
- * \r
- * @param handler\r
- * @throws java.io.IOException\r
- * if an IOException occurs during marshaling\r
- * @throws org.exolab.castor.xml.ValidationException\r
- * if this object is an invalid instance according to the schema\r
- * @throws org.exolab.castor.xml.MarshalException\r
- * if object is null or if any SAXException is thrown during\r
- * marshaling\r
- */\r
- public void marshal(final org.xml.sax.ContentHandler handler)\r
- throws java.io.IOException,\r
- org.exolab.castor.xml.MarshalException,\r
- org.exolab.castor.xml.ValidationException\r
- {\r
- Marshaller.marshal(this, handler);\r
- }\r
-\r
- /**\r
- * Sets the value of field 'pos1'.\r
- * \r
- * @param pos1\r
- * the value of field 'pos1'.\r
- */\r
- public void setPos1(final long pos1)\r
- {\r
- this._pos1 = pos1;\r
- this._has_pos1 = true;\r
- }\r
-\r
- /**\r
- * Sets the value of field 'pos2'.\r
- * \r
- * @param pos2\r
- * the value of field 'pos2'.\r
- */\r
- public void setPos2(final long pos2)\r
- {\r
- this._pos2 = pos2;\r
- this._has_pos2 = true;\r
- }\r
-\r
- /**\r
- * Sets the value of field 'pos3'.\r
- * \r
- * @param pos3\r
- * the value of field 'pos3'.\r
- */\r
- public void setPos3(final long pos3)\r
- {\r
- this._pos3 = pos3;\r
- this._has_pos3 = true;\r
- }\r
-\r
- /**\r
- * Method unmarshal.\r
- * \r
- * @param reader\r
- * @throws org.exolab.castor.xml.MarshalException\r
- * if object is null or if any SAXException is thrown during\r
- * marshaling\r
- * @throws org.exolab.castor.xml.ValidationException\r
- * if this object is an invalid instance according to the schema\r
- * @return the unmarshaled jalview.schemabinding.version2.Alcodo\r
- */\r
- public static jalview.schemabinding.version2.Alcodon unmarshal(\r
- final java.io.Reader reader)\r
- throws org.exolab.castor.xml.MarshalException,\r
- org.exolab.castor.xml.ValidationException\r
- {\r
- return (jalview.schemabinding.version2.Alcodon) Unmarshaller.unmarshal(\r
- jalview.schemabinding.version2.Alcodon.class, reader);\r
- }\r
-\r
- /**\r
- * \r
- * \r
- * @throws org.exolab.castor.xml.ValidationException\r
- * if this object is an invalid instance according to the schema\r
- */\r
- public void validate() throws org.exolab.castor.xml.ValidationException\r
- {\r
- org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();\r
- validator.validate(this);\r
- }\r
-\r
-}\r
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle
+ *
+ * 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/>.
+ *******************************************************************************/
+/*
+ * 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 Alcodon.
+ *
+ * @version $Revision$ $Date$
+ */
+public class Alcodon implements java.io.Serializable {
+
+
+ //--------------------------/
+ //- Class/Member Variables -/
+ //--------------------------/
+
+ /**
+ * Field _pos1.
+ */
+ private long _pos1;
+
+ /**
+ * keeps track of state for field: _pos1
+ */
+ private boolean _has_pos1;
+
+ /**
+ * Field _pos2.
+ */
+ private long _pos2;
+
+ /**
+ * keeps track of state for field: _pos2
+ */
+ private boolean _has_pos2;
+
+ /**
+ * Field _pos3.
+ */
+ private long _pos3;
+
+ /**
+ * keeps track of state for field: _pos3
+ */
+ private boolean _has_pos3;
+
+
+ //----------------/
+ //- Constructors -/
+ //----------------/
+
+ public Alcodon() {
+ super();
+ }
+
+
+ //-----------/
+ //- Methods -/
+ //-----------/
+
+ /**
+ */
+ public void deletePos1(
+ ) {
+ this._has_pos1= false;
+ }
+
+ /**
+ */
+ public void deletePos2(
+ ) {
+ this._has_pos2= false;
+ }
+
+ /**
+ */
+ public void deletePos3(
+ ) {
+ this._has_pos3= false;
+ }
+
+ /**
+ * Returns the value of field 'pos1'.
+ *
+ * @return the value of field 'Pos1'.
+ */
+ public long getPos1(
+ ) {
+ return this._pos1;
+ }
+
+ /**
+ * Returns the value of field 'pos2'.
+ *
+ * @return the value of field 'Pos2'.
+ */
+ public long getPos2(
+ ) {
+ return this._pos2;
+ }
+
+ /**
+ * Returns the value of field 'pos3'.
+ *
+ * @return the value of field 'Pos3'.
+ */
+ public long getPos3(
+ ) {
+ return this._pos3;
+ }
+
+ /**
+ * Method hasPos1.
+ *
+ * @return true if at least one Pos1 has been added
+ */
+ public boolean hasPos1(
+ ) {
+ return this._has_pos1;
+ }
+
+ /**
+ * Method hasPos2.
+ *
+ * @return true if at least one Pos2 has been added
+ */
+ public boolean hasPos2(
+ ) {
+ return this._has_pos2;
+ }
+
+ /**
+ * Method hasPos3.
+ *
+ * @return true if at least one Pos3 has been added
+ */
+ public boolean hasPos3(
+ ) {
+ return this._has_pos3;
+ }
+
+ /**
+ * 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);
+ }
+
+ /**
+ * Sets the value of field 'pos1'.
+ *
+ * @param pos1 the value of field 'pos1'.
+ */
+ public void setPos1(
+ final long pos1) {
+ this._pos1 = pos1;
+ this._has_pos1 = true;
+ }
+
+ /**
+ * Sets the value of field 'pos2'.
+ *
+ * @param pos2 the value of field 'pos2'.
+ */
+ public void setPos2(
+ final long pos2) {
+ this._pos2 = pos2;
+ this._has_pos2 = true;
+ }
+
+ /**
+ * Sets the value of field 'pos3'.
+ *
+ * @param pos3 the value of field 'pos3'.
+ */
+ public void setPos3(
+ final long pos3) {
+ this._pos3 = pos3;
+ this._has_pos3 = true;
+ }
+
+ /**
+ * 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.Alcodo
+ */
+ public static jalview.schemabinding.version2.Alcodon unmarshal(
+ final java.io.Reader reader)
+ throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException {
+ return (jalview.schemabinding.version2.Alcodon) Unmarshaller.unmarshal(jalview.schemabinding.version2.Alcodon.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