JAL-3035 more dedasification

[jalview.git] / src / jalview / schemabinding / version2 / Viewport.java

diff --git a/src/jalview/schemabinding/version2/Viewport.java b/src/jalview/schemabinding/version2/Viewport.java
index 03bd2a9..159f7ae 100644 (file)
--- a/src/jalview/schemabinding/version2/Viewport.java
+++ b/src/jalview/schemabinding/version2/Viewport.java
@@ -1,23 +1,10 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
- * 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.
+ * 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;
 
 //---------------------------------/
@@ -345,6 +332,16 @@ public class Viewport implements java.io.Serializable
   private boolean _has_fontStyle;
 
   /**
+   * Field _scaleProteinAsCdna.
+   */
+  private boolean _scaleProteinAsCdna = true;
+
+  /**
+   * keeps track of state for field: _scaleProteinAsCdna
+   */
+  private boolean _has_scaleProteinAsCdna;
+
+  /**
    * Field _viewName.
    */
   private java.lang.String _viewName;
@@ -402,6 +399,12 @@ public class Viewport implements java.io.Serializable
   private java.lang.String _id;
 
   /**
+   * The viewport id of this viewport's (cdna/protein) coding complement, if any
+   * 
+   */
+  private java.lang.String _complementId;
+
+  /**
    * Field _width.
    */
   private int _width;
@@ -636,6 +639,13 @@ public class Viewport implements java.io.Serializable
 
   /**
      */
+  public void deleteScaleProteinAsCdna()
+  {
+    this._has_scaleProteinAsCdna = false;
+  }
+
+  /**
+     */
   public void deleteShowAnnotation()
   {
     this._has_showAnnotation = false;
@@ -891,6 +901,19 @@ public class Viewport implements java.io.Serializable
   }
 
   /**
+   * Returns the value of field 'complementId'. The field 'complementId' has the
+   * following description: The viewport id of this viewport's (cdna/protein)
+   * coding complement, if any
+   * 
+   * 
+   * @return the value of field 'ComplementId'.
+   */
+  public java.lang.String getComplementId()
+  {
+    return this._complementId;
+  }
+
+  /**
    * Returns the value of field 'consThreshold'.
    * 
    * @return the value of field 'ConsThreshold'.
@@ -1104,6 +1127,16 @@ public class Viewport implements java.io.Serializable
   }
 
   /**
+   * Returns the value of field 'scaleProteinAsCdna'.
+   * 
+   * @return the value of field 'ScaleProteinAsCdna'.
+   */
+  public boolean getScaleProteinAsCdna()
+  {
+    return this._scaleProteinAsCdna;
+  }
+
+  /**
    * Returns the value of field 'sequenceSetId'.
    * 
    * @return the value of field 'SequenceSetId'.
@@ -1504,6 +1537,16 @@ public class Viewport implements java.io.Serializable
   }
 
   /**
+   * Method hasScaleProteinAsCdna.
+   * 
+   * @return true if at least one ScaleProteinAsCdna has been adde
+   */
+  public boolean hasScaleProteinAsCdna()
+  {
+    return this._has_scaleProteinAsCdna;
+  }
+
+  /**
    * Method hasShowAnnotation.
    * 
    * @return true if at least one ShowAnnotation has been added
@@ -1824,6 +1867,16 @@ public class Viewport implements java.io.Serializable
   }
 
   /**
+   * Returns the value of field 'scaleProteinAsCdna'.
+   * 
+   * @return the value of field 'ScaleProteinAsCdna'.
+   */
+  public boolean isScaleProteinAsCdna()
+  {
+    return this._scaleProteinAsCdna;
+  }
+
+  /**
    * Returns the value of field 'showAnnotation'.
    * 
    * @return the value of field 'ShowAnnotation'.
@@ -2159,6 +2212,20 @@ public class Viewport implements java.io.Serializable
   }
 
   /**
+   * Sets the value of field 'complementId'. The field 'complementId' has the
+   * following description: The viewport id of this viewport's (cdna/protein)
+   * coding complement, if any
+   * 
+   * 
+   * @param complementId
+   *          the value of field 'complementId'.
+   */
+  public void setComplementId(final java.lang.String complementId)
+  {
+    this._complementId = complementId;
+  }
+
+  /**
    * Sets the value of field 'consThreshold'.
    * 
    * @param consThreshold
@@ -2392,6 +2459,18 @@ public class Viewport implements java.io.Serializable
   }
 
   /**
+   * Sets the value of field 'scaleProteinAsCdna'.
+   * 
+   * @param scaleProteinAsCdna
+   *          the value of field 'scaleProteinAsCdna'.
+   */
+  public void setScaleProteinAsCdna(final boolean scaleProteinAsCdna)
+  {
+    this._scaleProteinAsCdna = scaleProteinAsCdna;
+    this._has_scaleProteinAsCdna = true;
+  }
+
+  /**
    * Sets the value of field 'sequenceSetId'.
    * 
    * @param sequenceSetId