X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fbinding%2FFeature.java;h=34d5d7f50f6532e1563f683767debb0d94369720;hb=797df64fa2a0a30773d0f48f5494d4155e5a8be3;hp=cd0c9bd95a00e6f6959467b29c851cf9ab964f46;hpb=153dd62dc91da13ae732600e6ea55ddbe15eab39;p=jalview.git

diff --git a/src/jalview/binding/Feature.java b/src/jalview/binding/Feature.java
old mode 100755
new mode 100644
index cd0c9bd..34d5d7f
--- a/src/jalview/binding/Feature.java
+++ b/src/jalview/binding/Feature.java
@@ -1,24 +1,31 @@
-/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
- * 
+/*******************************************************************************
+ * 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.binding;
 
-//---------------------------------/
-//- Imported classes and packages -/
+  //---------------------------------/
+ //- Imported classes and packages -/
 //---------------------------------/
 
 import org.exolab.castor.xml.Marshaller;
@@ -29,286 +36,272 @@ import org.exolab.castor.xml.Unmarshaller;
  * 
  * @version $Revision$ $Date$
  */
-public class Feature implements java.io.Serializable
-{
-
-  // --------------------------/
-  // - Class/Member Variables -/
-  // --------------------------/
-
-  /**
-   * Field _begin.
-   */
-  private int _begin;
-
-  /**
-   * keeps track of state for field: _begin
-   */
-  private boolean _has_begin;
-
-  /**
-   * Field _end.
-   */
-  private int _end;
-
-  /**
-   * keeps track of state for field: _end
-   */
-  private boolean _has_end;
-
-  /**
-   * Field _type.
-   */
-  private java.lang.String _type;
-
-  /**
-   * Field _description.
-   */
-  private java.lang.String _description;
-
-  /**
-   * Field _status.
-   */
-  private java.lang.String _status;
-
-  // ----------------/
-  // - Constructors -/
-  // ----------------/
-
-  public Feature()
-  {
-    super();
-  }
-
-  // -----------/
-  // - Methods -/
-  // -----------/
-
-  /**
+public class Feature implements java.io.Serializable {
+
+
+      //--------------------------/
+     //- Class/Member Variables -/
+    //--------------------------/
+
+    /**
+     * Field _begin.
+     */
+    private int _begin;
+
+    /**
+     * keeps track of state for field: _begin
+     */
+    private boolean _has_begin;
+
+    /**
+     * Field _end.
+     */
+    private int _end;
+
+    /**
+     * keeps track of state for field: _end
+     */
+    private boolean _has_end;
+
+    /**
+     * Field _type.
+     */
+    private java.lang.String _type;
+
+    /**
+     * Field _description.
      */
-  public void deleteBegin()
-  {
-    this._has_begin = false;
-  }
+    private java.lang.String _description;
+
+    /**
+     * Field _status.
+     */
+    private java.lang.String _status;
+
+
+      //----------------/
+     //- Constructors -/
+    //----------------/
+
+    public Feature() {
+        super();
+    }
+
+
+      //-----------/
+     //- Methods -/
+    //-----------/
+
+    /**
+     */
+    public void deleteBegin(
+    ) {
+        this._has_begin= false;
+    }
+
+    /**
+     */
+    public void deleteEnd(
+    ) {
+        this._has_end= false;
+    }
+
+    /**
+     * Returns the value of field 'begin'.
+     * 
+     * @return the value of field 'Begin'.
+     */
+    public int getBegin(
+    ) {
+        return this._begin;
+    }
+
+    /**
+     * Returns the value of field 'description'.
+     * 
+     * @return the value of field 'Description'.
+     */
+    public java.lang.String getDescription(
+    ) {
+        return this._description;
+    }
+
+    /**
+     * Returns the value of field 'end'.
+     * 
+     * @return the value of field 'End'.
+     */
+    public int getEnd(
+    ) {
+        return this._end;
+    }
+
+    /**
+     * Returns the value of field 'status'.
+     * 
+     * @return the value of field 'Status'.
+     */
+    public java.lang.String getStatus(
+    ) {
+        return this._status;
+    }
+
+    /**
+     * Returns the value of field 'type'.
+     * 
+     * @return the value of field 'Type'.
+     */
+    public java.lang.String getType(
+    ) {
+        return this._type;
+    }
+
+    /**
+     * Method hasBegin.
+     * 
+     * @return true if at least one Begin has been added
+     */
+    public boolean hasBegin(
+    ) {
+        return this._has_begin;
+    }
+
+    /**
+     * Method hasEnd.
+     * 
+     * @return true if at least one End has been added
+     */
+    public boolean hasEnd(
+    ) {
+        return this._has_end;
+    }
+
+    /**
+     * 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 'begin'.
+     * 
+     * @param begin the value of field 'begin'.
+     */
+    public void setBegin(
+            final int begin) {
+        this._begin = begin;
+        this._has_begin = true;
+    }
+
+    /**
+     * Sets the value of field 'description'.
+     * 
+     * @param description the value of field 'description'.
+     */
+    public void setDescription(
+            final java.lang.String description) {
+        this._description = description;
+    }
+
+    /**
+     * Sets the value of field 'end'.
+     * 
+     * @param end the value of field 'end'.
+     */
+    public void setEnd(
+            final int end) {
+        this._end = end;
+        this._has_end = true;
+    }
+
+    /**
+     * Sets the value of field 'status'.
+     * 
+     * @param status the value of field 'status'.
+     */
+    public void setStatus(
+            final java.lang.String status) {
+        this._status = status;
+    }
+
+    /**
+     * Sets the value of field 'type'.
+     * 
+     * @param type the value of field 'type'.
+     */
+    public void setType(
+            final java.lang.String type) {
+        this._type = type;
+    }
+
+    /**
+     * 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.binding.Feature
+     */
+    public static jalview.binding.Feature unmarshal(
+            final java.io.Reader reader)
+    throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException {
+        return (jalview.binding.Feature) Unmarshaller.unmarshal(jalview.binding.Feature.class, reader);
+    }
 
-  /**
+    /**
+     * 
+     * 
+     * @throws org.exolab.castor.xml.ValidationException if this
+     * object is an invalid instance according to the schema
      */
-  public void deleteEnd()
-  {
-    this._has_end = false;
-  }
-
-  /**
-   * Returns the value of field 'begin'.
-   * 
-   * @return the value of field 'Begin'.
-   */
-  public int getBegin()
-  {
-    return this._begin;
-  }
-
-  /**
-   * Returns the value of field 'description'.
-   * 
-   * @return the value of field 'Description'.
-   */
-  public java.lang.String getDescription()
-  {
-    return this._description;
-  }
-
-  /**
-   * Returns the value of field 'end'.
-   * 
-   * @return the value of field 'End'.
-   */
-  public int getEnd()
-  {
-    return this._end;
-  }
-
-  /**
-   * Returns the value of field 'status'.
-   * 
-   * @return the value of field 'Status'.
-   */
-  public java.lang.String getStatus()
-  {
-    return this._status;
-  }
-
-  /**
-   * Returns the value of field 'type'.
-   * 
-   * @return the value of field 'Type'.
-   */
-  public java.lang.String getType()
-  {
-    return this._type;
-  }
-
-  /**
-   * Method hasBegin.
-   * 
-   * @return true if at least one Begin has been added
-   */
-  public boolean hasBegin()
-  {
-    return this._has_begin;
-  }
-
-  /**
-   * Method hasEnd.
-   * 
-   * @return true if at least one End has been added
-   */
-  public boolean hasEnd()
-  {
-    return this._has_end;
-  }
-
-  /**
-   * 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;
+    public void validate(
+    )
+    throws org.exolab.castor.xml.ValidationException {
+        org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();
+        validator.validate(this);
     }
-    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 'begin'.
-   * 
-   * @param begin
-   *          the value of field 'begin'.
-   */
-  public void setBegin(final int begin)
-  {
-    this._begin = begin;
-    this._has_begin = true;
-  }
-
-  /**
-   * Sets the value of field 'description'.
-   * 
-   * @param description
-   *          the value of field 'description'.
-   */
-  public void setDescription(final java.lang.String description)
-  {
-    this._description = description;
-  }
-
-  /**
-   * Sets the value of field 'end'.
-   * 
-   * @param end
-   *          the value of field 'end'.
-   */
-  public void setEnd(final int end)
-  {
-    this._end = end;
-    this._has_end = true;
-  }
-
-  /**
-   * Sets the value of field 'status'.
-   * 
-   * @param status
-   *          the value of field 'status'.
-   */
-  public void setStatus(final java.lang.String status)
-  {
-    this._status = status;
-  }
-
-  /**
-   * Sets the value of field 'type'.
-   * 
-   * @param type
-   *          the value of field 'type'.
-   */
-  public void setType(final java.lang.String type)
-  {
-    this._type = type;
-  }
-
-  /**
-   * 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.binding.Feature
-   */
-  public static jalview.binding.Feature unmarshal(
-          final java.io.Reader reader)
-          throws org.exolab.castor.xml.MarshalException,
-          org.exolab.castor.xml.ValidationException
-  {
-    return (jalview.binding.Feature) Unmarshaller.unmarshal(
-            jalview.binding.Feature.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);
-  }
 
 }