X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fschemabinding%2Fversion2%2FAlcodMap.java;h=e16eef680f0a015a8564a335cef091bb163f5296;hb=ab43013b7e357b84b4abade0dba949668dfb2a0e;hp=f43acd624a4fd9cde7c4ead03efec0d599909f96;hpb=a95b88b05400d7e841f9523d4c4228c678307654;p=jalview.git

diff --git a/src/jalview/schemabinding/version2/AlcodMap.java b/src/jalview/schemabinding/version2/AlcodMap.java
index f43acd6..e16eef6 100644
--- a/src/jalview/schemabinding/version2/AlcodMap.java
+++ b/src/jalview/schemabinding/version2/AlcodMap.java
@@ -1,184 +1,205 @@
-/*
- * 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 AlcodMap.
- * 
- * @version $Revision$ $Date$
- */
-public class AlcodMap implements java.io.Serializable {
-
-
-      //--------------------------/
-     //- Class/Member Variables -/
-    //--------------------------/
-
-    /**
-     * internal jalview id for the dnasq for this mapping.
-     *  
-     */
-    private java.lang.String _dnasq;
-
-    /**
-     * a Mapping entry and an associated protein sequence
-     *  
-     */
-    private jalview.schemabinding.version2.Mapping _mapping;
-
-
-      //----------------/
-     //- Constructors -/
-    //----------------/
-
-    public AlcodMap() {
-        super();
-    }
-
-
-      //-----------/
-     //- Methods -/
-    //-----------/
-
-    /**
-     * Returns the value of field 'dnasq'. The field 'dnasq' has
-     * the following description: internal jalview id for the dnasq
-     * for this mapping.
-     *  
-     * 
-     * @return the value of field 'Dnasq'.
-     */
-    public java.lang.String getDnasq(
-    ) {
-        return this._dnasq;
-    }
-
-    /**
-     * Returns the value of field 'mapping'. The field 'mapping'
-     * has the following description: a Mapping entry and an
-     * associated protein sequence
-     *  
-     * 
-     * @return the value of field 'Mapping'.
-     */
-    public jalview.schemabinding.version2.Mapping getMapping(
-    ) {
-        return this._mapping;
-    }
-
-    /**
-     * 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 'dnasq'. The field 'dnasq' has the
-     * following description: internal jalview id for the dnasq for
-     * this mapping.
-     *  
-     * 
-     * @param dnasq the value of field 'dnasq'.
-     */
-    public void setDnasq(
-            final java.lang.String dnasq) {
-        this._dnasq = dnasq;
-    }
-
-    /**
-     * Sets the value of field 'mapping'. The field 'mapping' has
-     * the following description: a Mapping entry and an associated
-     * protein sequence
-     *  
-     * 
-     * @param mapping the value of field 'mapping'.
-     */
-    public void setMapping(
-            final jalview.schemabinding.version2.Mapping mapping) {
-        this._mapping = mapping;
-    }
-
-    /**
-     * 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.AlcodMap
-     */
-    public static jalview.schemabinding.version2.AlcodMap unmarshal(
-            final java.io.Reader reader)
-    throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException {
-        return (jalview.schemabinding.version2.AlcodMap) Unmarshaller.unmarshal(jalview.schemabinding.version2.AlcodMap.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);
-    }
-
-}
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2b1)
+ * Copyright (C) 2014 The Jalview Authors
+ * 
+ * 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/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
+package jalview.schemabinding.version2;
+
+//---------------------------------/
+//- Imported classes and packages -/
+//---------------------------------/
+
+import org.exolab.castor.xml.Marshaller;
+import org.exolab.castor.xml.Unmarshaller;
+
+/**
+ * Class AlcodMap.
+ * 
+ * @version $Revision$ $Date$
+ */
+public class AlcodMap implements java.io.Serializable
+{
+
+  // --------------------------/
+  // - Class/Member Variables -/
+  // --------------------------/
+
+  /**
+   * internal jalview id for the dnasq for this mapping.
+   * 
+   */
+  private java.lang.String _dnasq;
+
+  /**
+   * a Mapping entry and an associated protein sequence
+   * 
+   */
+  private jalview.schemabinding.version2.Mapping _mapping;
+
+  // ----------------/
+  // - Constructors -/
+  // ----------------/
+
+  public AlcodMap()
+  {
+    super();
+  }
+
+  // -----------/
+  // - Methods -/
+  // -----------/
+
+  /**
+   * Returns the value of field 'dnasq'. The field 'dnasq' has the following
+   * description: internal jalview id for the dnasq for this mapping.
+   * 
+   * 
+   * @return the value of field 'Dnasq'.
+   */
+  public java.lang.String getDnasq()
+  {
+    return this._dnasq;
+  }
+
+  /**
+   * Returns the value of field 'mapping'. The field 'mapping' has the following
+   * description: a Mapping entry and an associated protein sequence
+   * 
+   * 
+   * @return the value of field 'Mapping'.
+   */
+  public jalview.schemabinding.version2.Mapping getMapping()
+  {
+    return this._mapping;
+  }
+
+  /**
+   * 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 'dnasq'. The field 'dnasq' has the following
+   * description: internal jalview id for the dnasq for this mapping.
+   * 
+   * 
+   * @param dnasq
+   *          the value of field 'dnasq'.
+   */
+  public void setDnasq(final java.lang.String dnasq)
+  {
+    this._dnasq = dnasq;
+  }
+
+  /**
+   * Sets the value of field 'mapping'. The field 'mapping' has the following
+   * description: a Mapping entry and an associated protein sequence
+   * 
+   * 
+   * @param mapping
+   *          the value of field 'mapping'.
+   */
+  public void setMapping(
+          final jalview.schemabinding.version2.Mapping mapping)
+  {
+    this._mapping = mapping;
+  }
+
+  /**
+   * 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.AlcodMap
+   */
+  public static jalview.schemabinding.version2.AlcodMap unmarshal(
+          final java.io.Reader reader)
+          throws org.exolab.castor.xml.MarshalException,
+          org.exolab.castor.xml.ValidationException
+  {
+    return (jalview.schemabinding.version2.AlcodMap) Unmarshaller
+            .unmarshal(jalview.schemabinding.version2.AlcodMap.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);
+  }
+
+}