X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fschemabinding%2Fversion2%2FSetting.java;h=bf942b93a51ee41e0234da6dc5382a3bc861528f;hb=ab43013b7e357b84b4abade0dba949668dfb2a0e;hp=668ef9d655b3ff1b6e5891b9a7737a8271e31f7b;hpb=48df59aa393e03aa7269b2df662ac1b8d58cbb25;p=jalview.git

diff --git a/src/jalview/schemabinding/version2/Setting.java b/src/jalview/schemabinding/version2/Setting.java
old mode 100755
new mode 100644
index 668ef9d..bf942b9
--- a/src/jalview/schemabinding/version2/Setting.java
+++ b/src/jalview/schemabinding/version2/Setting.java
@@ -1,253 +1,702 @@
-/*
- * This class was automatically generated with 
- * <a href="http://www.castor.org">Castor 0.9.6</a>, using an XML
- * Schema.
- * $Id$
- */
-
-package jalview.schemabinding.version2;
-
-  //---------------------------------/
- //- Imported classes and packages -/
-//---------------------------------/
-
-import java.io.IOException;
-import java.io.Reader;
-import java.io.Serializable;
-import java.io.Writer;
-import org.exolab.castor.xml.MarshalException;
-import org.exolab.castor.xml.Marshaller;
-import org.exolab.castor.xml.Unmarshaller;
-import org.exolab.castor.xml.ValidationException;
-import org.xml.sax.ContentHandler;
-
-/**
- * Class Setting.
- * 
- * @version $Revision$ $Date$
- */
-public class Setting implements java.io.Serializable {
-
-
-      //--------------------------/
-     //- Class/Member Variables -/
-    //--------------------------/
-
-    /**
-     * Field _type
-     */
-    private java.lang.String _type;
-
-    /**
-     * Field _colour
-     */
-    private int _colour;
-
-    /**
-     * keeps track of state for field: _colour
-     */
-    private boolean _has_colour;
-
-    /**
-     * Field _display
-     */
-    private boolean _display;
-
-    /**
-     * keeps track of state for field: _display
-     */
-    private boolean _has_display;
-
-
-      //----------------/
-     //- Constructors -/
-    //----------------/
-
-    public Setting() {
-        super();
-    } //-- jalview.schemabinding.version2.Setting()
-
-
-      //-----------/
-     //- Methods -/
-    //-----------/
-
-    /**
-     * Method deleteColour
-     * 
-     */
-    public void deleteColour()
-    {
-        this._has_colour= false;
-    } //-- void deleteColour() 
-
-    /**
-     * Method deleteDisplay
-     * 
-     */
-    public void deleteDisplay()
-    {
-        this._has_display= false;
-    } //-- void deleteDisplay() 
-
-    /**
-     * Returns the value of field 'colour'.
-     * 
-     * @return int
-     * @return the value of field 'colour'.
-     */
-    public int getColour()
-    {
-        return this._colour;
-    } //-- int getColour() 
-
-    /**
-     * Returns the value of field 'display'.
-     * 
-     * @return boolean
-     * @return the value of field 'display'.
-     */
-    public boolean getDisplay()
-    {
-        return this._display;
-    } //-- boolean getDisplay() 
-
-    /**
-     * Returns the value of field 'type'.
-     * 
-     * @return String
-     * @return the value of field 'type'.
-     */
-    public java.lang.String getType()
-    {
-        return this._type;
-    } //-- java.lang.String getType() 
-
-    /**
-     * Method hasColour
-     * 
-     * 
-     * 
-     * @return boolean
-     */
-    public boolean hasColour()
-    {
-        return this._has_colour;
-    } //-- boolean hasColour() 
-
-    /**
-     * Method hasDisplay
-     * 
-     * 
-     * 
-     * @return boolean
-     */
-    public boolean hasDisplay()
-    {
-        return this._has_display;
-    } //-- boolean hasDisplay() 
-
-    /**
-     * Method isValid
-     * 
-     * 
-     * 
-     * @return boolean
-     */
-    public boolean isValid()
-    {
-        try {
-            validate();
-        }
-        catch (org.exolab.castor.xml.ValidationException vex) {
-            return false;
-        }
-        return true;
-    } //-- 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) 
-
-    /**
-     * 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) 
-
-    /**
-     * Sets the value of field 'colour'.
-     * 
-     * @param colour the value of field 'colour'.
-     */
-    public void setColour(int colour)
-    {
-        this._colour = colour;
-        this._has_colour = true;
-    } //-- void setColour(int) 
-
-    /**
-     * Sets the value of field 'display'.
-     * 
-     * @param display the value of field 'display'.
-     */
-    public void setDisplay(boolean display)
-    {
-        this._display = display;
-        this._has_display = true;
-    } //-- void setDisplay(boolean) 
-
-    /**
-     * Sets the value of field 'type'.
-     * 
-     * @param type the value of field 'type'.
-     */
-    public void setType(java.lang.String type)
-    {
-        this._type = type;
-    } //-- void setType(java.lang.String) 
-
-    /**
-     * Method unmarshal
-     * 
-     * 
-     * 
-     * @param reader
-     * @return Object
-     */
-    public static java.lang.Object unmarshal(java.io.Reader reader)
-        throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException
-    {
-        return (jalview.schemabinding.version2.Setting) Unmarshaller.unmarshal(jalview.schemabinding.version2.Setting.class, 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() 
-
-}
+/*
+ * 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 Setting.
+ * 
+ * @version $Revision$ $Date$
+ */
+public class Setting implements java.io.Serializable
+{
+
+  // --------------------------/
+  // - Class/Member Variables -/
+  // --------------------------/
+
+  /**
+   * Field _type.
+   */
+  private java.lang.String _type;
+
+  /**
+   * Field _colour.
+   */
+  private int _colour;
+
+  /**
+   * keeps track of state for field: _colour
+   */
+  private boolean _has_colour;
+
+  /**
+   * Field _display.
+   */
+  private boolean _display;
+
+  /**
+   * keeps track of state for field: _display
+   */
+  private boolean _has_display;
+
+  /**
+   * Field _order.
+   */
+  private float _order;
+
+  /**
+   * keeps track of state for field: _order
+   */
+  private boolean _has_order;
+
+  /**
+   * Optional minimum colour for graduated feature colour
+   * 
+   */
+  private int _mincolour;
+
+  /**
+   * keeps track of state for field: _mincolour
+   */
+  private boolean _has_mincolour;
+
+  /**
+   * threshold value for graduated feature colour
+   * 
+   */
+  private float _threshold;
+
+  /**
+   * keeps track of state for field: _threshold
+   */
+  private boolean _has_threshold;
+
+  /**
+   * threshold type for graduated feature colour
+   * 
+   */
+  private int _threshstate;
+
+  /**
+   * keeps track of state for field: _threshstate
+   */
+  private boolean _has_threshstate;
+
+  /**
+   * Field _max.
+   */
+  private float _max;
+
+  /**
+   * keeps track of state for field: _max
+   */
+  private boolean _has_max;
+
+  /**
+   * Field _min.
+   */
+  private float _min;
+
+  /**
+   * keeps track of state for field: _min
+   */
+  private boolean _has_min;
+
+  /**
+   * Field _colourByLabel.
+   */
+  private boolean _colourByLabel;
+
+  /**
+   * keeps track of state for field: _colourByLabel
+   */
+  private boolean _has_colourByLabel;
+
+  /**
+   * Field _autoScale.
+   */
+  private boolean _autoScale;
+
+  /**
+   * keeps track of state for field: _autoScale
+   */
+  private boolean _has_autoScale;
+
+  // ----------------/
+  // - Constructors -/
+  // ----------------/
+
+  public Setting()
+  {
+    super();
+  }
+
+  // -----------/
+  // - Methods -/
+  // -----------/
+
+  /**
+     */
+  public void deleteAutoScale()
+  {
+    this._has_autoScale = false;
+  }
+
+  /**
+     */
+  public void deleteColour()
+  {
+    this._has_colour = false;
+  }
+
+  /**
+     */
+  public void deleteColourByLabel()
+  {
+    this._has_colourByLabel = false;
+  }
+
+  /**
+     */
+  public void deleteDisplay()
+  {
+    this._has_display = false;
+  }
+
+  /**
+     */
+  public void deleteMax()
+  {
+    this._has_max = false;
+  }
+
+  /**
+     */
+  public void deleteMin()
+  {
+    this._has_min = false;
+  }
+
+  /**
+     */
+  public void deleteMincolour()
+  {
+    this._has_mincolour = false;
+  }
+
+  /**
+     */
+  public void deleteOrder()
+  {
+    this._has_order = false;
+  }
+
+  /**
+     */
+  public void deleteThreshold()
+  {
+    this._has_threshold = false;
+  }
+
+  /**
+     */
+  public void deleteThreshstate()
+  {
+    this._has_threshstate = false;
+  }
+
+  /**
+   * Returns the value of field 'autoScale'.
+   * 
+   * @return the value of field 'AutoScale'.
+   */
+  public boolean getAutoScale()
+  {
+    return this._autoScale;
+  }
+
+  /**
+   * Returns the value of field 'colour'.
+   * 
+   * @return the value of field 'Colour'.
+   */
+  public int getColour()
+  {
+    return this._colour;
+  }
+
+  /**
+   * Returns the value of field 'colourByLabel'.
+   * 
+   * @return the value of field 'ColourByLabel'.
+   */
+  public boolean getColourByLabel()
+  {
+    return this._colourByLabel;
+  }
+
+  /**
+   * Returns the value of field 'display'.
+   * 
+   * @return the value of field 'Display'.
+   */
+  public boolean getDisplay()
+  {
+    return this._display;
+  }
+
+  /**
+   * Returns the value of field 'max'.
+   * 
+   * @return the value of field 'Max'.
+   */
+  public float getMax()
+  {
+    return this._max;
+  }
+
+  /**
+   * Returns the value of field 'min'.
+   * 
+   * @return the value of field 'Min'.
+   */
+  public float getMin()
+  {
+    return this._min;
+  }
+
+  /**
+   * Returns the value of field 'mincolour'. The field 'mincolour' has the
+   * following description: Optional minimum colour for graduated feature colour
+   * 
+   * 
+   * @return the value of field 'Mincolour'.
+   */
+  public int getMincolour()
+  {
+    return this._mincolour;
+  }
+
+  /**
+   * Returns the value of field 'order'.
+   * 
+   * @return the value of field 'Order'.
+   */
+  public float getOrder()
+  {
+    return this._order;
+  }
+
+  /**
+   * Returns the value of field 'threshold'. The field 'threshold' has the
+   * following description: threshold value for graduated feature colour
+   * 
+   * 
+   * @return the value of field 'Threshold'.
+   */
+  public float getThreshold()
+  {
+    return this._threshold;
+  }
+
+  /**
+   * Returns the value of field 'threshstate'. The field 'threshstate' has the
+   * following description: threshold type for graduated feature colour
+   * 
+   * 
+   * @return the value of field 'Threshstate'.
+   */
+  public int getThreshstate()
+  {
+    return this._threshstate;
+  }
+
+  /**
+   * Returns the value of field 'type'.
+   * 
+   * @return the value of field 'Type'.
+   */
+  public java.lang.String getType()
+  {
+    return this._type;
+  }
+
+  /**
+   * Method hasAutoScale.
+   * 
+   * @return true if at least one AutoScale has been added
+   */
+  public boolean hasAutoScale()
+  {
+    return this._has_autoScale;
+  }
+
+  /**
+   * Method hasColour.
+   * 
+   * @return true if at least one Colour has been added
+   */
+  public boolean hasColour()
+  {
+    return this._has_colour;
+  }
+
+  /**
+   * Method hasColourByLabel.
+   * 
+   * @return true if at least one ColourByLabel has been added
+   */
+  public boolean hasColourByLabel()
+  {
+    return this._has_colourByLabel;
+  }
+
+  /**
+   * Method hasDisplay.
+   * 
+   * @return true if at least one Display has been added
+   */
+  public boolean hasDisplay()
+  {
+    return this._has_display;
+  }
+
+  /**
+   * Method hasMax.
+   * 
+   * @return true if at least one Max has been added
+   */
+  public boolean hasMax()
+  {
+    return this._has_max;
+  }
+
+  /**
+   * Method hasMin.
+   * 
+   * @return true if at least one Min has been added
+   */
+  public boolean hasMin()
+  {
+    return this._has_min;
+  }
+
+  /**
+   * Method hasMincolour.
+   * 
+   * @return true if at least one Mincolour has been added
+   */
+  public boolean hasMincolour()
+  {
+    return this._has_mincolour;
+  }
+
+  /**
+   * Method hasOrder.
+   * 
+   * @return true if at least one Order has been added
+   */
+  public boolean hasOrder()
+  {
+    return this._has_order;
+  }
+
+  /**
+   * Method hasThreshold.
+   * 
+   * @return true if at least one Threshold has been added
+   */
+  public boolean hasThreshold()
+  {
+    return this._has_threshold;
+  }
+
+  /**
+   * Method hasThreshstate.
+   * 
+   * @return true if at least one Threshstate has been added
+   */
+  public boolean hasThreshstate()
+  {
+    return this._has_threshstate;
+  }
+
+  /**
+   * Returns the value of field 'autoScale'.
+   * 
+   * @return the value of field 'AutoScale'.
+   */
+  public boolean isAutoScale()
+  {
+    return this._autoScale;
+  }
+
+  /**
+   * Returns the value of field 'colourByLabel'.
+   * 
+   * @return the value of field 'ColourByLabel'.
+   */
+  public boolean isColourByLabel()
+  {
+    return this._colourByLabel;
+  }
+
+  /**
+   * Returns the value of field 'display'.
+   * 
+   * @return the value of field 'Display'.
+   */
+  public boolean isDisplay()
+  {
+    return this._display;
+  }
+
+  /**
+   * 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 'autoScale'.
+   * 
+   * @param autoScale
+   *          the value of field 'autoScale'.
+   */
+  public void setAutoScale(final boolean autoScale)
+  {
+    this._autoScale = autoScale;
+    this._has_autoScale = true;
+  }
+
+  /**
+   * Sets the value of field 'colour'.
+   * 
+   * @param colour
+   *          the value of field 'colour'.
+   */
+  public void setColour(final int colour)
+  {
+    this._colour = colour;
+    this._has_colour = true;
+  }
+
+  /**
+   * Sets the value of field 'colourByLabel'.
+   * 
+   * @param colourByLabel
+   *          the value of field 'colourByLabel'.
+   */
+  public void setColourByLabel(final boolean colourByLabel)
+  {
+    this._colourByLabel = colourByLabel;
+    this._has_colourByLabel = true;
+  }
+
+  /**
+   * Sets the value of field 'display'.
+   * 
+   * @param display
+   *          the value of field 'display'.
+   */
+  public void setDisplay(final boolean display)
+  {
+    this._display = display;
+    this._has_display = true;
+  }
+
+  /**
+   * Sets the value of field 'max'.
+   * 
+   * @param max
+   *          the value of field 'max'.
+   */
+  public void setMax(final float max)
+  {
+    this._max = max;
+    this._has_max = true;
+  }
+
+  /**
+   * Sets the value of field 'min'.
+   * 
+   * @param min
+   *          the value of field 'min'.
+   */
+  public void setMin(final float min)
+  {
+    this._min = min;
+    this._has_min = true;
+  }
+
+  /**
+   * Sets the value of field 'mincolour'. The field 'mincolour' has the
+   * following description: Optional minimum colour for graduated feature colour
+   * 
+   * 
+   * @param mincolour
+   *          the value of field 'mincolour'.
+   */
+  public void setMincolour(final int mincolour)
+  {
+    this._mincolour = mincolour;
+    this._has_mincolour = true;
+  }
+
+  /**
+   * Sets the value of field 'order'.
+   * 
+   * @param order
+   *          the value of field 'order'.
+   */
+  public void setOrder(final float order)
+  {
+    this._order = order;
+    this._has_order = true;
+  }
+
+  /**
+   * Sets the value of field 'threshold'. The field 'threshold' has the
+   * following description: threshold value for graduated feature colour
+   * 
+   * 
+   * @param threshold
+   *          the value of field 'threshold'.
+   */
+  public void setThreshold(final float threshold)
+  {
+    this._threshold = threshold;
+    this._has_threshold = true;
+  }
+
+  /**
+   * Sets the value of field 'threshstate'. The field 'threshstate' has the
+   * following description: threshold type for graduated feature colour
+   * 
+   * 
+   * @param threshstate
+   *          the value of field 'threshstate'.
+   */
+  public void setThreshstate(final int threshstate)
+  {
+    this._threshstate = threshstate;
+    this._has_threshstate = true;
+  }
+
+  /**
+   * 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.schemabinding.version2.Settin
+   */
+  public static jalview.schemabinding.version2.Setting unmarshal(
+          final java.io.Reader reader)
+          throws org.exolab.castor.xml.MarshalException,
+          org.exolab.castor.xml.ValidationException
+  {
+    return (jalview.schemabinding.version2.Setting) Unmarshaller.unmarshal(
+            jalview.schemabinding.version2.Setting.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);
+  }
+
+}