/*\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.4.1)\r
- * Copyright (C) 2009 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\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 program 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 2\r
- * of the License, or (at your option) any later version.\r
+ * This file is part of Jalview.\r
* \r
- * This program is distributed in the hope that it will be useful,\r
- * but WITHOUT ANY WARRANTY; without even the implied warranty of\r
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the\r
- * GNU General Public License for more details.\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
- * You should have received a copy of the GNU General Public License\r
- * along with this program; if not, write to the Free Software\r
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA\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
+//- Imported classes and packages -/\r
//---------------------------------/\r
\r
import org.exolab.castor.xml.Marshaller;\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
- //----------------/\r
- //- Constructors -/\r
- //----------------/\r
-\r
- public Alcodon() {\r
- super();\r
- }\r
-\r
-\r
- //-----------/\r
- //- Methods -/\r
- //-----------/\r
-\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
+ public void deletePos1()\r
+ {\r
+ this._has_pos1 = false;\r
+ }\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
- 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
- * Sets the value of field 'pos1'.\r
- * \r
- * @param pos1 the value of field 'pos1'.\r
- */\r
- public void setPos1(\r
- final long pos1) {\r
- this._pos1 = pos1;\r
- this._has_pos1 = true;\r
- }\r
-\r
- /**\r
- * Sets the value of field 'pos2'.\r
- * \r
- * @param pos2 the value of field 'pos2'.\r
- */\r
- public void setPos2(\r
- final long pos2) {\r
- this._pos2 = pos2;\r
- this._has_pos2 = true;\r
- }\r
-\r
- /**\r
- * Sets the value of field 'pos3'.\r
- * \r
- * @param pos3 the value of field 'pos3'.\r
- */\r
- public void setPos3(\r
- final long pos3) {\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 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 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, org.exolab.castor.xml.ValidationException {\r
- return (jalview.schemabinding.version2.Alcodon) Unmarshaller.unmarshal(jalview.schemabinding.version2.Alcodon.class, reader);\r
- }\r
+ public void deletePos2()\r
+ {\r
+ this._has_pos2 = false;\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
*/\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
+ 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
git://source.jalview.org / jalview.git / blobdiff