X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fbinding%2FViewport.java;h=911061b3e38bcddd0d54dfb57d8bd9501f458fee;hb=ec8b46fcbc994a7c3c0bb6e07235cdb564c3991d;hp=99dbd1b18739f3c4fdc48e329970abed9f0033f4;hpb=99c58ee0ae2a848f982552e53feaf6d5cb9925e5;p=jalview.git

diff --git a/src/jalview/binding/Viewport.java b/src/jalview/binding/Viewport.java
index 99dbd1b..911061b 100755
--- a/src/jalview/binding/Viewport.java
+++ b/src/jalview/binding/Viewport.java
@@ -1,30 +1,10 @@
 /*
-* 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
-*/
-
-/*
- * This class was automatically generated with
+ * This class was automatically generated with 
  * <a href="http://www.castor.org">Castor 0.9.6</a>, using an XML
  * Schema.
  * $Id$
  */
 
-
 package jalview.binding;
 
   //---------------------------------/
@@ -43,7 +23,7 @@ import org.xml.sax.ContentHandler;
 
 /**
  * Class Viewport.
- *
+ * 
  * @version $Revision$ $Date$
  */
 public class Viewport implements java.io.Serializable {
@@ -314,778 +294,778 @@ public class Viewport implements java.io.Serializable {
 
     /**
      * Method deleteConsThreshold
-     *
+     * 
      */
     public void deleteConsThreshold()
     {
         this._has_consThreshold= false;
-    } //-- void deleteConsThreshold()
+    } //-- void deleteConsThreshold() 
 
     /**
      * Method deleteConservationSelected
-     *
+     * 
      */
     public void deleteConservationSelected()
     {
         this._has_conservationSelected= false;
-    } //-- void deleteConservationSelected()
+    } //-- void deleteConservationSelected() 
 
     /**
      * Method deleteFontSize
-     *
+     * 
      */
     public void deleteFontSize()
     {
         this._has_fontSize= false;
-    } //-- void deleteFontSize()
+    } //-- void deleteFontSize() 
 
     /**
      * Method deleteFontStyle
-     *
+     * 
      */
     public void deleteFontStyle()
     {
         this._has_fontStyle= false;
-    } //-- void deleteFontStyle()
+    } //-- void deleteFontStyle() 
 
     /**
      * Method deleteHeight
-     *
+     * 
      */
     public void deleteHeight()
     {
         this._has_height= false;
-    } //-- void deleteHeight()
+    } //-- void deleteHeight() 
 
     /**
      * Method deletePidSelected
-     *
+     * 
      */
     public void deletePidSelected()
     {
         this._has_pidSelected= false;
-    } //-- void deletePidSelected()
+    } //-- void deletePidSelected() 
 
     /**
      * Method deletePidThreshold
-     *
+     * 
      */
     public void deletePidThreshold()
     {
         this._has_pidThreshold= false;
-    } //-- void deletePidThreshold()
+    } //-- void deletePidThreshold() 
 
     /**
      * Method deleteRenderGaps
-     *
+     * 
      */
     public void deleteRenderGaps()
     {
         this._has_renderGaps= false;
-    } //-- void deleteRenderGaps()
+    } //-- void deleteRenderGaps() 
 
     /**
      * Method deleteShowAnnotation
-     *
+     * 
      */
     public void deleteShowAnnotation()
     {
         this._has_showAnnotation= false;
-    } //-- void deleteShowAnnotation()
+    } //-- void deleteShowAnnotation() 
 
     /**
      * Method deleteShowBoxes
-     *
+     * 
      */
     public void deleteShowBoxes()
     {
         this._has_showBoxes= false;
-    } //-- void deleteShowBoxes()
+    } //-- void deleteShowBoxes() 
 
     /**
      * Method deleteShowColourText
-     *
+     * 
      */
     public void deleteShowColourText()
     {
         this._has_showColourText= false;
-    } //-- void deleteShowColourText()
+    } //-- void deleteShowColourText() 
 
     /**
      * Method deleteShowConservation
-     *
+     * 
      */
     public void deleteShowConservation()
     {
         this._has_showConservation= false;
-    } //-- void deleteShowConservation()
+    } //-- void deleteShowConservation() 
 
     /**
      * Method deleteShowFullId
-     *
+     * 
      */
     public void deleteShowFullId()
     {
         this._has_showFullId= false;
-    } //-- void deleteShowFullId()
+    } //-- void deleteShowFullId() 
 
     /**
      * Method deleteShowIdentity
-     *
+     * 
      */
     public void deleteShowIdentity()
     {
         this._has_showIdentity= false;
-    } //-- void deleteShowIdentity()
+    } //-- void deleteShowIdentity() 
 
     /**
      * Method deleteShowQuality
-     *
+     * 
      */
     public void deleteShowQuality()
     {
         this._has_showQuality= false;
-    } //-- void deleteShowQuality()
+    } //-- void deleteShowQuality() 
 
     /**
      * Method deleteShowSequenceFeatures
-     *
+     * 
      */
     public void deleteShowSequenceFeatures()
     {
         this._has_showSequenceFeatures= false;
-    } //-- void deleteShowSequenceFeatures()
+    } //-- void deleteShowSequenceFeatures() 
 
     /**
      * Method deleteShowText
-     *
+     * 
      */
     public void deleteShowText()
     {
         this._has_showText= false;
-    } //-- void deleteShowText()
+    } //-- void deleteShowText() 
 
     /**
      * Method deleteStartRes
-     *
+     * 
      */
     public void deleteStartRes()
     {
         this._has_startRes= false;
-    } //-- void deleteStartRes()
+    } //-- void deleteStartRes() 
 
     /**
      * Method deleteStartSeq
-     *
+     * 
      */
     public void deleteStartSeq()
     {
         this._has_startSeq= false;
-    } //-- void deleteStartSeq()
+    } //-- void deleteStartSeq() 
 
     /**
      * Method deleteWidth
-     *
+     * 
      */
     public void deleteWidth()
     {
         this._has_width= false;
-    } //-- void deleteWidth()
+    } //-- void deleteWidth() 
 
     /**
      * Method deleteWrapAlignment
-     *
+     * 
      */
     public void deleteWrapAlignment()
     {
         this._has_wrapAlignment= false;
-    } //-- void deleteWrapAlignment()
+    } //-- void deleteWrapAlignment() 
 
     /**
      * Method deleteXpos
-     *
+     * 
      */
     public void deleteXpos()
     {
         this._has_xpos= false;
-    } //-- void deleteXpos()
+    } //-- void deleteXpos() 
 
     /**
      * Method deleteYpos
-     *
+     * 
      */
     public void deleteYpos()
     {
         this._has_ypos= false;
-    } //-- void deleteYpos()
+    } //-- void deleteYpos() 
 
     /**
      * Returns the value of field 'bgColour'.
-     *
+     * 
      * @return String
      * @return the value of field 'bgColour'.
      */
     public java.lang.String getBgColour()
     {
         return this._bgColour;
-    } //-- java.lang.String getBgColour()
+    } //-- java.lang.String getBgColour() 
 
     /**
      * Returns the value of field 'consThreshold'.
-     *
+     * 
      * @return int
      * @return the value of field 'consThreshold'.
      */
     public int getConsThreshold()
     {
         return this._consThreshold;
-    } //-- int getConsThreshold()
+    } //-- int getConsThreshold() 
 
     /**
      * Returns the value of field 'conservationSelected'.
-     *
+     * 
      * @return boolean
      * @return the value of field 'conservationSelected'.
      */
     public boolean getConservationSelected()
     {
         return this._conservationSelected;
-    } //-- boolean getConservationSelected()
+    } //-- boolean getConservationSelected() 
 
     /**
      * Returns the value of field 'fontName'.
-     *
+     * 
      * @return String
      * @return the value of field 'fontName'.
      */
     public java.lang.String getFontName()
     {
         return this._fontName;
-    } //-- java.lang.String getFontName()
+    } //-- java.lang.String getFontName() 
 
     /**
      * Returns the value of field 'fontSize'.
-     *
+     * 
      * @return int
      * @return the value of field 'fontSize'.
      */
     public int getFontSize()
     {
         return this._fontSize;
-    } //-- int getFontSize()
+    } //-- int getFontSize() 
 
     /**
      * Returns the value of field 'fontStyle'.
-     *
+     * 
      * @return int
      * @return the value of field 'fontStyle'.
      */
     public int getFontStyle()
     {
         return this._fontStyle;
-    } //-- int getFontStyle()
+    } //-- int getFontStyle() 
 
     /**
      * Returns the value of field 'height'.
-     *
+     * 
      * @return int
      * @return the value of field 'height'.
      */
     public int getHeight()
     {
         return this._height;
-    } //-- int getHeight()
+    } //-- int getHeight() 
 
     /**
      * Returns the value of field 'pidSelected'.
-     *
+     * 
      * @return boolean
      * @return the value of field 'pidSelected'.
      */
     public boolean getPidSelected()
     {
         return this._pidSelected;
-    } //-- boolean getPidSelected()
+    } //-- boolean getPidSelected() 
 
     /**
      * Returns the value of field 'pidThreshold'.
-     *
+     * 
      * @return int
      * @return the value of field 'pidThreshold'.
      */
     public int getPidThreshold()
     {
         return this._pidThreshold;
-    } //-- int getPidThreshold()
+    } //-- int getPidThreshold() 
 
     /**
      * Returns the value of field 'renderGaps'.
-     *
+     * 
      * @return boolean
      * @return the value of field 'renderGaps'.
      */
     public boolean getRenderGaps()
     {
         return this._renderGaps;
-    } //-- boolean getRenderGaps()
+    } //-- boolean getRenderGaps() 
 
     /**
      * Returns the value of field 'showAnnotation'.
-     *
+     * 
      * @return boolean
      * @return the value of field 'showAnnotation'.
      */
     public boolean getShowAnnotation()
     {
         return this._showAnnotation;
-    } //-- boolean getShowAnnotation()
+    } //-- boolean getShowAnnotation() 
 
     /**
      * Returns the value of field 'showBoxes'.
-     *
+     * 
      * @return boolean
      * @return the value of field 'showBoxes'.
      */
     public boolean getShowBoxes()
     {
         return this._showBoxes;
-    } //-- boolean getShowBoxes()
+    } //-- boolean getShowBoxes() 
 
     /**
      * Returns the value of field 'showColourText'.
-     *
+     * 
      * @return boolean
      * @return the value of field 'showColourText'.
      */
     public boolean getShowColourText()
     {
         return this._showColourText;
-    } //-- boolean getShowColourText()
+    } //-- boolean getShowColourText() 
 
     /**
      * Returns the value of field 'showConservation'.
-     *
+     * 
      * @return boolean
      * @return the value of field 'showConservation'.
      */
     public boolean getShowConservation()
     {
         return this._showConservation;
-    } //-- boolean getShowConservation()
+    } //-- boolean getShowConservation() 
 
     /**
      * Returns the value of field 'showFullId'.
-     *
+     * 
      * @return boolean
      * @return the value of field 'showFullId'.
      */
     public boolean getShowFullId()
     {
         return this._showFullId;
-    } //-- boolean getShowFullId()
+    } //-- boolean getShowFullId() 
 
     /**
      * Returns the value of field 'showIdentity'.
-     *
+     * 
      * @return boolean
      * @return the value of field 'showIdentity'.
      */
     public boolean getShowIdentity()
     {
         return this._showIdentity;
-    } //-- boolean getShowIdentity()
+    } //-- boolean getShowIdentity() 
 
     /**
      * Returns the value of field 'showQuality'.
-     *
+     * 
      * @return boolean
      * @return the value of field 'showQuality'.
      */
     public boolean getShowQuality()
     {
         return this._showQuality;
-    } //-- boolean getShowQuality()
+    } //-- boolean getShowQuality() 
 
     /**
      * Returns the value of field 'showSequenceFeatures'.
-     *
+     * 
      * @return boolean
      * @return the value of field 'showSequenceFeatures'.
      */
     public boolean getShowSequenceFeatures()
     {
         return this._showSequenceFeatures;
-    } //-- boolean getShowSequenceFeatures()
+    } //-- boolean getShowSequenceFeatures() 
 
     /**
      * Returns the value of field 'showText'.
-     *
+     * 
      * @return boolean
      * @return the value of field 'showText'.
      */
     public boolean getShowText()
     {
         return this._showText;
-    } //-- boolean getShowText()
+    } //-- boolean getShowText() 
 
     /**
      * Returns the value of field 'startRes'.
-     *
+     * 
      * @return int
      * @return the value of field 'startRes'.
      */
     public int getStartRes()
     {
         return this._startRes;
-    } //-- int getStartRes()
+    } //-- int getStartRes() 
 
     /**
      * Returns the value of field 'startSeq'.
-     *
+     * 
      * @return int
      * @return the value of field 'startSeq'.
      */
     public int getStartSeq()
     {
         return this._startSeq;
-    } //-- int getStartSeq()
+    } //-- int getStartSeq() 
 
     /**
      * Returns the value of field 'title'.
-     *
+     * 
      * @return String
      * @return the value of field 'title'.
      */
     public java.lang.String getTitle()
     {
         return this._title;
-    } //-- java.lang.String getTitle()
+    } //-- java.lang.String getTitle() 
 
     /**
      * Returns the value of field 'width'.
-     *
+     * 
      * @return int
      * @return the value of field 'width'.
      */
     public int getWidth()
     {
         return this._width;
-    } //-- int getWidth()
+    } //-- int getWidth() 
 
     /**
      * Returns the value of field 'wrapAlignment'.
-     *
+     * 
      * @return boolean
      * @return the value of field 'wrapAlignment'.
      */
     public boolean getWrapAlignment()
     {
         return this._wrapAlignment;
-    } //-- boolean getWrapAlignment()
+    } //-- boolean getWrapAlignment() 
 
     /**
      * Returns the value of field 'xpos'.
-     *
+     * 
      * @return int
      * @return the value of field 'xpos'.
      */
     public int getXpos()
     {
         return this._xpos;
-    } //-- int getXpos()
+    } //-- int getXpos() 
 
     /**
      * Returns the value of field 'ypos'.
-     *
+     * 
      * @return int
      * @return the value of field 'ypos'.
      */
     public int getYpos()
     {
         return this._ypos;
-    } //-- int getYpos()
+    } //-- int getYpos() 
 
     /**
      * Method hasConsThreshold
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasConsThreshold()
     {
         return this._has_consThreshold;
-    } //-- boolean hasConsThreshold()
+    } //-- boolean hasConsThreshold() 
 
     /**
      * Method hasConservationSelected
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasConservationSelected()
     {
         return this._has_conservationSelected;
-    } //-- boolean hasConservationSelected()
+    } //-- boolean hasConservationSelected() 
 
     /**
      * Method hasFontSize
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasFontSize()
     {
         return this._has_fontSize;
-    } //-- boolean hasFontSize()
+    } //-- boolean hasFontSize() 
 
     /**
      * Method hasFontStyle
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasFontStyle()
     {
         return this._has_fontStyle;
-    } //-- boolean hasFontStyle()
+    } //-- boolean hasFontStyle() 
 
     /**
      * Method hasHeight
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasHeight()
     {
         return this._has_height;
-    } //-- boolean hasHeight()
+    } //-- boolean hasHeight() 
 
     /**
      * Method hasPidSelected
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasPidSelected()
     {
         return this._has_pidSelected;
-    } //-- boolean hasPidSelected()
+    } //-- boolean hasPidSelected() 
 
     /**
      * Method hasPidThreshold
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasPidThreshold()
     {
         return this._has_pidThreshold;
-    } //-- boolean hasPidThreshold()
+    } //-- boolean hasPidThreshold() 
 
     /**
      * Method hasRenderGaps
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasRenderGaps()
     {
         return this._has_renderGaps;
-    } //-- boolean hasRenderGaps()
+    } //-- boolean hasRenderGaps() 
 
     /**
      * Method hasShowAnnotation
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasShowAnnotation()
     {
         return this._has_showAnnotation;
-    } //-- boolean hasShowAnnotation()
+    } //-- boolean hasShowAnnotation() 
 
     /**
      * Method hasShowBoxes
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasShowBoxes()
     {
         return this._has_showBoxes;
-    } //-- boolean hasShowBoxes()
+    } //-- boolean hasShowBoxes() 
 
     /**
      * Method hasShowColourText
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasShowColourText()
     {
         return this._has_showColourText;
-    } //-- boolean hasShowColourText()
+    } //-- boolean hasShowColourText() 
 
     /**
      * Method hasShowConservation
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasShowConservation()
     {
         return this._has_showConservation;
-    } //-- boolean hasShowConservation()
+    } //-- boolean hasShowConservation() 
 
     /**
      * Method hasShowFullId
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasShowFullId()
     {
         return this._has_showFullId;
-    } //-- boolean hasShowFullId()
+    } //-- boolean hasShowFullId() 
 
     /**
      * Method hasShowIdentity
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasShowIdentity()
     {
         return this._has_showIdentity;
-    } //-- boolean hasShowIdentity()
+    } //-- boolean hasShowIdentity() 
 
     /**
      * Method hasShowQuality
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasShowQuality()
     {
         return this._has_showQuality;
-    } //-- boolean hasShowQuality()
+    } //-- boolean hasShowQuality() 
 
     /**
      * Method hasShowSequenceFeatures
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasShowSequenceFeatures()
     {
         return this._has_showSequenceFeatures;
-    } //-- boolean hasShowSequenceFeatures()
+    } //-- boolean hasShowSequenceFeatures() 
 
     /**
      * Method hasShowText
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasShowText()
     {
         return this._has_showText;
-    } //-- boolean hasShowText()
+    } //-- boolean hasShowText() 
 
     /**
      * Method hasStartRes
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasStartRes()
     {
         return this._has_startRes;
-    } //-- boolean hasStartRes()
+    } //-- boolean hasStartRes() 
 
     /**
      * Method hasStartSeq
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasStartSeq()
     {
         return this._has_startSeq;
-    } //-- boolean hasStartSeq()
+    } //-- boolean hasStartSeq() 
 
     /**
      * Method hasWidth
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasWidth()
     {
         return this._has_width;
-    } //-- boolean hasWidth()
+    } //-- boolean hasWidth() 
 
     /**
      * Method hasWrapAlignment
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasWrapAlignment()
     {
         return this._has_wrapAlignment;
-    } //-- boolean hasWrapAlignment()
+    } //-- boolean hasWrapAlignment() 
 
     /**
      * Method hasXpos
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasXpos()
     {
         return this._has_xpos;
-    } //-- boolean hasXpos()
+    } //-- boolean hasXpos() 
 
     /**
      * Method hasYpos
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean hasYpos()
     {
         return this._has_ypos;
-    } //-- boolean hasYpos()
+    } //-- boolean hasYpos() 
 
     /**
      * Method isValid
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean isValid()
@@ -1097,60 +1077,60 @@ public class Viewport implements java.io.Serializable {
             return false;
         }
         return true;
-    } //-- boolean isValid()
+    } //-- 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)
+    } //-- 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)
+    } //-- void marshal(org.xml.sax.ContentHandler) 
 
     /**
      * Sets the value of field 'bgColour'.
-     *
+     * 
      * @param bgColour the value of field 'bgColour'.
      */
     public void setBgColour(java.lang.String bgColour)
     {
         this._bgColour = bgColour;
-    } //-- void setBgColour(java.lang.String)
+    } //-- void setBgColour(java.lang.String) 
 
     /**
      * Sets the value of field 'consThreshold'.
-     *
+     * 
      * @param consThreshold the value of field 'consThreshold'.
      */
     public void setConsThreshold(int consThreshold)
     {
         this._consThreshold = consThreshold;
         this._has_consThreshold = true;
-    } //-- void setConsThreshold(int)
+    } //-- void setConsThreshold(int) 
 
     /**
      * Sets the value of field 'conservationSelected'.
-     *
+     * 
      * @param conservationSelected the value of field
      * 'conservationSelected'.
      */
@@ -1158,164 +1138,164 @@ public class Viewport implements java.io.Serializable {
     {
         this._conservationSelected = conservationSelected;
         this._has_conservationSelected = true;
-    } //-- void setConservationSelected(boolean)
+    } //-- void setConservationSelected(boolean) 
 
     /**
      * Sets the value of field 'fontName'.
-     *
+     * 
      * @param fontName the value of field 'fontName'.
      */
     public void setFontName(java.lang.String fontName)
     {
         this._fontName = fontName;
-    } //-- void setFontName(java.lang.String)
+    } //-- void setFontName(java.lang.String) 
 
     /**
      * Sets the value of field 'fontSize'.
-     *
+     * 
      * @param fontSize the value of field 'fontSize'.
      */
     public void setFontSize(int fontSize)
     {
         this._fontSize = fontSize;
         this._has_fontSize = true;
-    } //-- void setFontSize(int)
+    } //-- void setFontSize(int) 
 
     /**
      * Sets the value of field 'fontStyle'.
-     *
+     * 
      * @param fontStyle the value of field 'fontStyle'.
      */
     public void setFontStyle(int fontStyle)
     {
         this._fontStyle = fontStyle;
         this._has_fontStyle = true;
-    } //-- void setFontStyle(int)
+    } //-- void setFontStyle(int) 
 
     /**
      * Sets the value of field 'height'.
-     *
+     * 
      * @param height the value of field 'height'.
      */
     public void setHeight(int height)
     {
         this._height = height;
         this._has_height = true;
-    } //-- void setHeight(int)
+    } //-- void setHeight(int) 
 
     /**
      * Sets the value of field 'pidSelected'.
-     *
+     * 
      * @param pidSelected the value of field 'pidSelected'.
      */
     public void setPidSelected(boolean pidSelected)
     {
         this._pidSelected = pidSelected;
         this._has_pidSelected = true;
-    } //-- void setPidSelected(boolean)
+    } //-- void setPidSelected(boolean) 
 
     /**
      * Sets the value of field 'pidThreshold'.
-     *
+     * 
      * @param pidThreshold the value of field 'pidThreshold'.
      */
     public void setPidThreshold(int pidThreshold)
     {
         this._pidThreshold = pidThreshold;
         this._has_pidThreshold = true;
-    } //-- void setPidThreshold(int)
+    } //-- void setPidThreshold(int) 
 
     /**
      * Sets the value of field 'renderGaps'.
-     *
+     * 
      * @param renderGaps the value of field 'renderGaps'.
      */
     public void setRenderGaps(boolean renderGaps)
     {
         this._renderGaps = renderGaps;
         this._has_renderGaps = true;
-    } //-- void setRenderGaps(boolean)
+    } //-- void setRenderGaps(boolean) 
 
     /**
      * Sets the value of field 'showAnnotation'.
-     *
+     * 
      * @param showAnnotation the value of field 'showAnnotation'.
      */
     public void setShowAnnotation(boolean showAnnotation)
     {
         this._showAnnotation = showAnnotation;
         this._has_showAnnotation = true;
-    } //-- void setShowAnnotation(boolean)
+    } //-- void setShowAnnotation(boolean) 
 
     /**
      * Sets the value of field 'showBoxes'.
-     *
+     * 
      * @param showBoxes the value of field 'showBoxes'.
      */
     public void setShowBoxes(boolean showBoxes)
     {
         this._showBoxes = showBoxes;
         this._has_showBoxes = true;
-    } //-- void setShowBoxes(boolean)
+    } //-- void setShowBoxes(boolean) 
 
     /**
      * Sets the value of field 'showColourText'.
-     *
+     * 
      * @param showColourText the value of field 'showColourText'.
      */
     public void setShowColourText(boolean showColourText)
     {
         this._showColourText = showColourText;
         this._has_showColourText = true;
-    } //-- void setShowColourText(boolean)
+    } //-- void setShowColourText(boolean) 
 
     /**
      * Sets the value of field 'showConservation'.
-     *
+     * 
      * @param showConservation the value of field 'showConservation'
      */
     public void setShowConservation(boolean showConservation)
     {
         this._showConservation = showConservation;
         this._has_showConservation = true;
-    } //-- void setShowConservation(boolean)
+    } //-- void setShowConservation(boolean) 
 
     /**
      * Sets the value of field 'showFullId'.
-     *
+     * 
      * @param showFullId the value of field 'showFullId'.
      */
     public void setShowFullId(boolean showFullId)
     {
         this._showFullId = showFullId;
         this._has_showFullId = true;
-    } //-- void setShowFullId(boolean)
+    } //-- void setShowFullId(boolean) 
 
     /**
      * Sets the value of field 'showIdentity'.
-     *
+     * 
      * @param showIdentity the value of field 'showIdentity'.
      */
     public void setShowIdentity(boolean showIdentity)
     {
         this._showIdentity = showIdentity;
         this._has_showIdentity = true;
-    } //-- void setShowIdentity(boolean)
+    } //-- void setShowIdentity(boolean) 
 
     /**
      * Sets the value of field 'showQuality'.
-     *
+     * 
      * @param showQuality the value of field 'showQuality'.
      */
     public void setShowQuality(boolean showQuality)
     {
         this._showQuality = showQuality;
         this._has_showQuality = true;
-    } //-- void setShowQuality(boolean)
+    } //-- void setShowQuality(boolean) 
 
     /**
      * Sets the value of field 'showSequenceFeatures'.
-     *
+     * 
      * @param showSequenceFeatures the value of field
      * 'showSequenceFeatures'.
      */
@@ -1323,100 +1303,100 @@ public class Viewport implements java.io.Serializable {
     {
         this._showSequenceFeatures = showSequenceFeatures;
         this._has_showSequenceFeatures = true;
-    } //-- void setShowSequenceFeatures(boolean)
+    } //-- void setShowSequenceFeatures(boolean) 
 
     /**
      * Sets the value of field 'showText'.
-     *
+     * 
      * @param showText the value of field 'showText'.
      */
     public void setShowText(boolean showText)
     {
         this._showText = showText;
         this._has_showText = true;
-    } //-- void setShowText(boolean)
+    } //-- void setShowText(boolean) 
 
     /**
      * Sets the value of field 'startRes'.
-     *
+     * 
      * @param startRes the value of field 'startRes'.
      */
     public void setStartRes(int startRes)
     {
         this._startRes = startRes;
         this._has_startRes = true;
-    } //-- void setStartRes(int)
+    } //-- void setStartRes(int) 
 
     /**
      * Sets the value of field 'startSeq'.
-     *
+     * 
      * @param startSeq the value of field 'startSeq'.
      */
     public void setStartSeq(int startSeq)
     {
         this._startSeq = startSeq;
         this._has_startSeq = true;
-    } //-- void setStartSeq(int)
+    } //-- void setStartSeq(int) 
 
     /**
      * Sets the value of field 'title'.
-     *
+     * 
      * @param title the value of field 'title'.
      */
     public void setTitle(java.lang.String title)
     {
         this._title = title;
-    } //-- void setTitle(java.lang.String)
+    } //-- void setTitle(java.lang.String) 
 
     /**
      * Sets the value of field 'width'.
-     *
+     * 
      * @param width the value of field 'width'.
      */
     public void setWidth(int width)
     {
         this._width = width;
         this._has_width = true;
-    } //-- void setWidth(int)
+    } //-- void setWidth(int) 
 
     /**
      * Sets the value of field 'wrapAlignment'.
-     *
+     * 
      * @param wrapAlignment the value of field 'wrapAlignment'.
      */
     public void setWrapAlignment(boolean wrapAlignment)
     {
         this._wrapAlignment = wrapAlignment;
         this._has_wrapAlignment = true;
-    } //-- void setWrapAlignment(boolean)
+    } //-- void setWrapAlignment(boolean) 
 
     /**
      * Sets the value of field 'xpos'.
-     *
+     * 
      * @param xpos the value of field 'xpos'.
      */
     public void setXpos(int xpos)
     {
         this._xpos = xpos;
         this._has_xpos = true;
-    } //-- void setXpos(int)
+    } //-- void setXpos(int) 
 
     /**
      * Sets the value of field 'ypos'.
-     *
+     * 
      * @param ypos the value of field 'ypos'.
      */
     public void setYpos(int ypos)
     {
         this._ypos = ypos;
         this._has_ypos = true;
-    } //-- void setYpos(int)
+    } //-- void setYpos(int) 
 
     /**
      * Method unmarshal
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @param reader
      * @return Object
      */
@@ -1424,17 +1404,17 @@ public class Viewport implements java.io.Serializable {
         throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException
     {
         return (jalview.binding.Viewport) Unmarshaller.unmarshal(jalview.binding.Viewport.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
     {
         org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();
         validator.validate(this);
-    } //-- void validate()
+    } //-- void validate() 
 
 }