X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fschemabinding%2Fversion2%2FSetting.java;h=05367cefd5b23d667565f1d14ad6773f274df63e;hb=797df64fa2a0a30773d0f48f5494d4155e5a8be3;hp=4f85d33d1f59c20c5924d67989e3cfe5e4b971b3;hpb=7bc226b58110fa26d9dbd3f0c78095d06909ffc3;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 4f85d33..05367ce
--- a/src/jalview/schemabinding/version2/Setting.java
+++ b/src/jalview/schemabinding/version2/Setting.java
@@ -1,252 +1,683 @@
-/*
- * This class was automatically generated with
- * Castor 0.9.6, using an XML
- * Schema.
- * $Id$
- */
-
-package jalview.schemabinding.version2;
-
-//---------------------------------/
-//- Imported classes and packages -/
-//---------------------------------/
-
-import org.exolab.castor.xml.*;
-
-/**
- * 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 2.7)
+ * 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 .
+ *******************************************************************************/
+/*
+ * This class was automatically generated with
+ * Castor 1.1, 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 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);
+ }
+
+}