X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fbinding%2FAnnotationElement.java;h=16c3dab0c9962bcb27acfc8d0846ac61df915a20;hb=b8d09897dacc7b0ad203982b4578e2c1d8929142;hp=3c6eba4053d9deb192726137bbf134cb36ca0603;hpb=588042b69abf8e60bcc950b24c283933c7dd422f;p=jalview.git

diff --git a/src/jalview/binding/AnnotationElement.java b/src/jalview/binding/AnnotationElement.java
index 3c6eba4..16c3dab 100755
--- a/src/jalview/binding/AnnotationElement.java
+++ b/src/jalview/binding/AnnotationElement.java
@@ -4,24 +4,6 @@
  * 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;
@@ -45,7 +27,8 @@ import java.io.Writer;
  *
  * @version $Revision$ $Date$
  */
-public class AnnotationElement implements java.io.Serializable {
+public class AnnotationElement implements java.io.Serializable
+{
     //--------------------------/
     //- Class/Member Variables -/
     //--------------------------/
@@ -88,25 +71,34 @@ public class AnnotationElement implements java.io.Serializable {
     //----------------/
     //- Constructors -/
     //----------------/
-    public AnnotationElement() {
+    public AnnotationElement()
+    {
         super();
     }
-     //-- jalview.binding.AnnotationElement()
- //-----------/
 
-    public void deletePosition() {
+    //-- jalview.binding.AnnotationElement()
+    //-----------/
+
+    /**
+     * DOCUMENT ME!
+     */
+    public void deletePosition()
+    {
         this._has_position = false;
     }
-     //-- void deletePosition()
+
+    //-- void deletePosition() 
 
     /**
      * Method deleteValue
      *
      */
-    public void deleteValue() {
+    public void deleteValue()
+    {
         this._has_value = false;
     }
-     //-- void deleteValue()
+
+    //-- void deleteValue() 
 
     /**
      * Returns the value of field 'description'.
@@ -114,10 +106,12 @@ public class AnnotationElement implements java.io.Serializable {
      * @return String
      * @return the value of field 'description'.
      */
-    public java.lang.String getDescription() {
+    public java.lang.String getDescription()
+    {
         return this._description;
     }
-     //-- java.lang.String getDescription()
+
+    //-- java.lang.String getDescription() 
 
     /**
      * Returns the value of field 'displayCharacter'.
@@ -125,10 +119,12 @@ public class AnnotationElement implements java.io.Serializable {
      * @return String
      * @return the value of field 'displayCharacter'.
      */
-    public java.lang.String getDisplayCharacter() {
+    public java.lang.String getDisplayCharacter()
+    {
         return this._displayCharacter;
     }
-     //-- java.lang.String getDisplayCharacter()
+
+    //-- java.lang.String getDisplayCharacter() 
 
     /**
      * Returns the value of field 'position'.
@@ -136,10 +132,12 @@ public class AnnotationElement implements java.io.Serializable {
      * @return int
      * @return the value of field 'position'.
      */
-    public int getPosition() {
+    public int getPosition()
+    {
         return this._position;
     }
-     //-- int getPosition()
+
+    //-- int getPosition() 
 
     /**
      * Returns the value of field 'secondaryStructure'.
@@ -147,10 +145,12 @@ public class AnnotationElement implements java.io.Serializable {
      * @return String
      * @return the value of field 'secondaryStructure'.
      */
-    public java.lang.String getSecondaryStructure() {
+    public java.lang.String getSecondaryStructure()
+    {
         return this._secondaryStructure;
     }
-     //-- java.lang.String getSecondaryStructure()
+
+    //-- java.lang.String getSecondaryStructure() 
 
     /**
      * Returns the value of field 'value'.
@@ -158,10 +158,12 @@ public class AnnotationElement implements java.io.Serializable {
      * @return float
      * @return the value of field 'value'.
      */
-    public float getValue() {
+    public float getValue()
+    {
         return this._value;
     }
-     //-- float getValue()
+
+    //-- float getValue() 
 
     /**
      * Method hasPosition
@@ -170,10 +172,12 @@ public class AnnotationElement implements java.io.Serializable {
      *
      * @return boolean
      */
-    public boolean hasPosition() {
+    public boolean hasPosition()
+    {
         return this._has_position;
     }
-     //-- boolean hasPosition()
+
+    //-- boolean hasPosition() 
 
     /**
      * Method hasValue
@@ -182,10 +186,12 @@ public class AnnotationElement implements java.io.Serializable {
      *
      * @return boolean
      */
-    public boolean hasValue() {
+    public boolean hasValue()
+    {
         return this._has_value;
     }
-     //-- boolean hasValue()
+
+    //-- boolean hasValue() 
 
     /**
      * Method isValid
@@ -194,16 +200,21 @@ public class AnnotationElement implements java.io.Serializable {
      *
      * @return boolean
      */
-    public boolean isValid() {
-        try {
+    public boolean isValid()
+    {
+        try
+        {
             validate();
-        } catch (org.exolab.castor.xml.ValidationException vex) {
+        }
+        catch (org.exolab.castor.xml.ValidationException vex)
+        {
             return false;
         }
 
         return true;
     }
-     //-- boolean isValid()
+
+    //-- boolean isValid() 
 
     /**
      * Method marshal
@@ -214,10 +225,12 @@ public class AnnotationElement implements java.io.Serializable {
      */
     public void marshal(java.io.Writer out)
         throws org.exolab.castor.xml.MarshalException, 
-            org.exolab.castor.xml.ValidationException {
+            org.exolab.castor.xml.ValidationException
+    {
         Marshaller.marshal(this, out);
     }
-     //-- void marshal(java.io.Writer)
+
+    //-- void marshal(java.io.Writer) 
 
     /**
      * Method marshal
@@ -228,41 +241,49 @@ public class AnnotationElement implements java.io.Serializable {
      */
     public void marshal(org.xml.sax.ContentHandler handler)
         throws java.io.IOException, org.exolab.castor.xml.MarshalException, 
-            org.exolab.castor.xml.ValidationException {
+            org.exolab.castor.xml.ValidationException
+    {
         Marshaller.marshal(this, handler);
     }
-     //-- void marshal(org.xml.sax.ContentHandler)
+
+    //-- void marshal(org.xml.sax.ContentHandler) 
 
     /**
      * Sets the value of field 'description'.
      *
      * @param description the value of field 'description'.
      */
-    public void setDescription(java.lang.String description) {
+    public void setDescription(java.lang.String description)
+    {
         this._description = description;
     }
-     //-- void setDescription(java.lang.String)
+
+    //-- void setDescription(java.lang.String) 
 
     /**
      * Sets the value of field 'displayCharacter'.
      *
      * @param displayCharacter the value of field 'displayCharacter'
      */
-    public void setDisplayCharacter(java.lang.String displayCharacter) {
+    public void setDisplayCharacter(java.lang.String displayCharacter)
+    {
         this._displayCharacter = displayCharacter;
     }
-     //-- void setDisplayCharacter(java.lang.String)
+
+    //-- void setDisplayCharacter(java.lang.String) 
 
     /**
      * Sets the value of field 'position'.
      *
      * @param position the value of field 'position'.
      */
-    public void setPosition(int position) {
+    public void setPosition(int position)
+    {
         this._position = position;
         this._has_position = true;
     }
-     //-- void setPosition(int)
+
+    //-- void setPosition(int) 
 
     /**
      * Sets the value of field 'secondaryStructure'.
@@ -270,21 +291,25 @@ public class AnnotationElement implements java.io.Serializable {
      * @param secondaryStructure the value of field
      * 'secondaryStructure'.
      */
-    public void setSecondaryStructure(java.lang.String secondaryStructure) {
+    public void setSecondaryStructure(java.lang.String secondaryStructure)
+    {
         this._secondaryStructure = secondaryStructure;
     }
-     //-- void setSecondaryStructure(java.lang.String)
+
+    //-- void setSecondaryStructure(java.lang.String) 
 
     /**
      * Sets the value of field 'value'.
      *
      * @param value the value of field 'value'.
      */
-    public void setValue(float value) {
+    public void setValue(float value)
+    {
         this._value = value;
         this._has_value = true;
     }
-     //-- void setValue(float)
+
+    //-- void setValue(float) 
 
     /**
      * Method unmarshal
@@ -296,19 +321,23 @@ public class AnnotationElement implements java.io.Serializable {
      */
     public static java.lang.Object unmarshal(java.io.Reader reader)
         throws org.exolab.castor.xml.MarshalException, 
-            org.exolab.castor.xml.ValidationException {
+            org.exolab.castor.xml.ValidationException
+    {
         return (jalview.binding.AnnotationElement) Unmarshaller.unmarshal(jalview.binding.AnnotationElement.class,
             reader);
     }
-     //-- java.lang.Object unmarshal(java.io.Reader)
+
+    //-- java.lang.Object unmarshal(java.io.Reader) 
 
     /**
      * Method validate
      *
      */
-    public void validate() throws org.exolab.castor.xml.ValidationException {
+    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()
+
+    //-- void validate() 
 }