X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fbinding%2FResidue.java;h=2588f380b242b18ef7c09bb5b60a549934cbad41;hb=52fd681e0f239e20df19fd7560d4b999104ba222;hp=ff0cb63152ca4f09c6caf8f9fcab83ec68f6802d;hpb=588042b69abf8e60bcc950b24c283933c7dd422f;p=jalview.git

diff --git a/src/jalview/binding/Residue.java b/src/jalview/binding/Residue.java
index ff0cb63..2588f38 100755
--- a/src/jalview/binding/Residue.java
+++ b/src/jalview/binding/Residue.java
@@ -4,205 +4,196 @@
  * Schema.
  * $Id$
  */
-/*
-* Jalview - A Sequence Alignment Editor and Viewer
-* Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
-*
-* This program 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 2
-* of the License, or (at your option) any later version.
-*
-* This program 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 this program; if not, write to the Free Software
-* Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA
-*/
-package jalview.binding;
 
-import org.exolab.castor.xml.MarshalException;
-import org.exolab.castor.xml.Marshaller;
-import org.exolab.castor.xml.Unmarshaller;
-import org.exolab.castor.xml.ValidationException;
-
-import org.xml.sax.ContentHandler;
+package jalview.binding;
 
 //---------------------------------/
 //- Imported classes and packages -/
 //---------------------------------/
-import java.io.IOException;
-import java.io.Reader;
-import java.io.Serializable;
-import java.io.Writer;
 
+import org.exolab.castor.xml.*;
 
 /**
  * Class Residue.
  *
  * @version $Revision$ $Date$
  */
-public class Residue implements java.io.Serializable {
-    //--------------------------/
-    //- Class/Member Variables -/
-    //--------------------------/
-
-    /**
-     * Field _name
-     */
-    private java.lang.String _name;
-
-    /**
-     * Field _RGB
-     */
-    private int _RGB;
-
-    /**
-     * keeps track of state for field: _RGB
-     */
-    private boolean _has_RGB;
-
-    //----------------/
-    //- Constructors -/
-    //----------------/
-    public Residue() {
-        super();
-    }
-     //-- jalview.binding.Residue()
- //-----------/
-
-    public void deleteRGB() {
-        this._has_RGB = false;
-    }
-     //-- void deleteRGB()
-
-    /**
-     * Returns the value of field 'name'.
-     *
-     * @return String
-     * @return the value of field 'name'.
-     */
-    public java.lang.String getName() {
-        return this._name;
-    }
-     //-- java.lang.String getName()
-
-    /**
-     * Returns the value of field 'RGB'.
-     *
-     * @return int
-     * @return the value of field 'RGB'.
-     */
-    public int getRGB() {
-        return this._RGB;
+public class Residue
+    implements java.io.Serializable
+{
+
+  //--------------------------/
+  //- Class/Member Variables -/
+  //--------------------------/
+
+  /**
+   * Field _name
+   */
+  private java.lang.String _name;
+
+  /**
+   * Field _RGB
+   */
+  private int _RGB;
+
+  /**
+   * keeps track of state for field: _RGB
+   */
+  private boolean _has_RGB;
+
+  //----------------/
+  //- Constructors -/
+  //----------------/
+
+  public Residue()
+  {
+    super();
+  } //-- jalview.binding.Residue()
+
+  //-----------/
+  //- Methods -/
+  //-----------/
+
+  /**
+   * Method deleteRGB
+   *
+   */
+  public void deleteRGB()
+  {
+    this._has_RGB = false;
+  } //-- void deleteRGB()
+
+  /**
+   * Returns the value of field 'name'.
+   *
+   * @return String
+   * @return the value of field 'name'.
+   */
+  public java.lang.String getName()
+  {
+    return this._name;
+  } //-- java.lang.String getName()
+
+  /**
+   * Returns the value of field 'RGB'.
+   *
+   * @return int
+   * @return the value of field 'RGB'.
+   */
+  public int getRGB()
+  {
+    return this._RGB;
+  } //-- int getRGB()
+
+  /**
+   * Method hasRGB
+   *
+   *
+   *
+   * @return boolean
+   */
+  public boolean hasRGB()
+  {
+    return this._has_RGB;
+  } //-- boolean hasRGB()
+
+  /**
+   * Method isValid
+   *
+   *
+   *
+   * @return boolean
+   */
+  public boolean isValid()
+  {
+    try
+    {
+      validate();
     }
-     //-- int getRGB()
-
-    /**
-     * Method hasRGB
-     *
-     *
-     *
-     * @return boolean
-     */
-    public boolean hasRGB() {
-        return this._has_RGB;
+    catch (org.exolab.castor.xml.ValidationException vex)
+    {
+      return false;
     }
-     //-- boolean hasRGB()
-
-    /**
-     * Method isValid
-     *
-     *
-     *
-     * @return boolean
-     */
-    public boolean isValid() {
-        try {
-            validate();
-        } catch (org.exolab.castor.xml.ValidationException vex) {
-            return false;
-        }
-
-        return true;
-    }
-     //-- boolean isValid()
-
-    /**
-     * Method marshal
-     *
-     *
-     *
-     * @param out
-     */
-    public void marshal(java.io.Writer out)
-        throws org.exolab.castor.xml.MarshalException, 
-            org.exolab.castor.xml.ValidationException {
-        Marshaller.marshal(this, out);
-    }
-     //-- void marshal(java.io.Writer)
-
-    /**
-     * Method marshal
-     *
-     *
-     *
-     * @param handler
-     */
-    public void marshal(org.xml.sax.ContentHandler handler)
-        throws java.io.IOException, org.exolab.castor.xml.MarshalException, 
-            org.exolab.castor.xml.ValidationException {
-        Marshaller.marshal(this, handler);
-    }
-     //-- void marshal(org.xml.sax.ContentHandler)
-
-    /**
-     * Sets the value of field 'name'.
-     *
-     * @param name the value of field 'name'.
-     */
-    public void setName(java.lang.String name) {
-        this._name = name;
-    }
-     //-- void setName(java.lang.String)
-
-    /**
-     * Sets the value of field 'RGB'.
-     *
-     * @param RGB the value of field 'RGB'.
-     */
-    public void setRGB(int RGB) {
-        this._RGB = RGB;
-        this._has_RGB = true;
-    }
-     //-- void setRGB(int)
-
-    /**
-     * Method unmarshal
-     *
-     *
-     *
-     * @param reader
-     * @return Object
-     */
-    public static java.lang.Object unmarshal(java.io.Reader reader)
-        throws org.exolab.castor.xml.MarshalException, 
-            org.exolab.castor.xml.ValidationException {
-        return (jalview.binding.Residue) Unmarshaller.unmarshal(jalview.binding.Residue.class,
-            reader);
-    }
-     //-- java.lang.Object unmarshal(java.io.Reader)
-
-    /**
-     * Method validate
-     *
-     */
-    public void validate() throws org.exolab.castor.xml.ValidationException {
-        org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();
-        validator.validate(this);
-    }
-     //-- void validate()
+    return true;
+  } //-- boolean isValid()
+
+  /**
+   * Method marshal
+   *
+   *
+   *
+   * @param out
+   */
+  public void marshal(java.io.Writer out)
+      throws org.exolab.castor.xml.MarshalException,
+      org.exolab.castor.xml.ValidationException
+  {
+
+    Marshaller.marshal(this, out);
+  } //-- void marshal(java.io.Writer)
+
+  /**
+   * Method marshal
+   *
+   *
+   *
+   * @param handler
+   */
+  public void marshal(org.xml.sax.ContentHandler handler)
+      throws java.io.IOException, org.exolab.castor.xml.MarshalException,
+      org.exolab.castor.xml.ValidationException
+  {
+
+    Marshaller.marshal(this, handler);
+  } //-- void marshal(org.xml.sax.ContentHandler)
+
+  /**
+   * Sets the value of field 'name'.
+   *
+   * @param name the value of field 'name'.
+   */
+  public void setName(java.lang.String name)
+  {
+    this._name = name;
+  } //-- void setName(java.lang.String)
+
+  /**
+   * Sets the value of field 'RGB'.
+   *
+   * @param RGB the value of field 'RGB'.
+   */
+  public void setRGB(int RGB)
+  {
+    this._RGB = RGB;
+    this._has_RGB = true;
+  } //-- void setRGB(int)
+
+  /**
+   * Method unmarshal
+   *
+   *
+   *
+   * @param reader
+   * @return Object
+   */
+  public static java.lang.Object unmarshal(java.io.Reader reader)
+      throws org.exolab.castor.xml.MarshalException,
+      org.exolab.castor.xml.ValidationException
+  {
+    return (jalview.binding.Residue) Unmarshaller.unmarshal(jalview.binding.
+        Residue.class, reader);
+  } //-- java.lang.Object unmarshal(java.io.Reader)
+
+  /**
+   * Method validate
+   *
+   */
+  public void validate()
+      throws org.exolab.castor.xml.ValidationException
+  {
+    org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.
+        Validator();
+    validator.validate(this);
+  } //-- void validate()
+
 }