From: Jim Procter Date: Fri, 25 Apr 2014 13:20:42 +0000 (+0100) Subject: JAL-1177 allow jalview alignments to be saved that have no alignment views, to suppor... X-Git-Tag: Jalview_2_9~195^2~5 X-Git-Url: http://source.jalview.org/gitweb/?p=jalview.git;a=commitdiff_plain;h=985f0371b8ea6b3dbb4e1b77d67bba7f7f180b28 JAL-1177 allow jalview alignments to be saved that have no alignment views, to support storage of parent datasets --- diff --git a/schemas/jalview.xsd b/schemas/jalview.xsd index 5631def..eb10ae1 100755 --- a/schemas/jalview.xsd +++ b/schemas/jalview.xsd @@ -27,7 +27,7 @@ - + - + . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/Alcodon.java b/src/jalview/schemabinding/version2/Alcodon.java index 923a17a..f5654e9 100644 --- a/src/jalview/schemabinding/version2/Alcodon.java +++ b/src/jalview/schemabinding/version2/Alcodon.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/AlcodonFrame.java b/src/jalview/schemabinding/version2/AlcodonFrame.java index 9e1850d..d3fde76 100644 --- a/src/jalview/schemabinding/version2/AlcodonFrame.java +++ b/src/jalview/schemabinding/version2/AlcodonFrame.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/Annotation.java b/src/jalview/schemabinding/version2/Annotation.java index 475aef1..98c202e 100644 --- a/src/jalview/schemabinding/version2/Annotation.java +++ b/src/jalview/schemabinding/version2/Annotation.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/AnnotationColours.java b/src/jalview/schemabinding/version2/AnnotationColours.java index a8a10c6..e20bbc4 100644 --- a/src/jalview/schemabinding/version2/AnnotationColours.java +++ b/src/jalview/schemabinding/version2/AnnotationColours.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,14 +13,21 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ package jalview.schemabinding.version2; - //---------------------------------/ - //- Imported classes and packages -/ +//---------------------------------/ +//- Imported classes and packages -/ //---------------------------------/ import org.exolab.castor.xml.Marshaller; @@ -31,461 +38,478 @@ import org.exolab.castor.xml.Unmarshaller; * * @version $Revision$ $Date$ */ -public class AnnotationColours implements java.io.Serializable { - - - //--------------------------/ - //- Class/Member Variables -/ - //--------------------------/ - - /** - * Field _aboveThreshold. - */ - private int _aboveThreshold; - - /** - * keeps track of state for field: _aboveThreshold - */ - private boolean _has_aboveThreshold; - - /** - * Field _annotation. - */ - private java.lang.String _annotation; - - /** - * Field _minColour. - */ - private int _minColour; - - /** - * keeps track of state for field: _minColour - */ - private boolean _has_minColour; - - /** - * Field _maxColour. - */ - private int _maxColour; - - /** - * keeps track of state for field: _maxColour - */ - private boolean _has_maxColour; - - /** - * Field _colourScheme. - */ - private java.lang.String _colourScheme; - - /** - * Field _threshold. - */ - private float _threshold; - - /** - * keeps track of state for field: _threshold - */ - private boolean _has_threshold; - - /** - * Field _perSequence. - */ - private boolean _perSequence; - - /** - * keeps track of state for field: _perSequence - */ - private boolean _has_perSequence; - - /** - * Field _predefinedColours. - */ - private boolean _predefinedColours; - - /** - * keeps track of state for field: _predefinedColours - */ - private boolean _has_predefinedColours; - - - //----------------/ - //- Constructors -/ - //----------------/ - - public AnnotationColours() { - super(); - } - - - //-----------/ - //- Methods -/ - //-----------/ - - /** - */ - public void deleteAboveThreshold( - ) { - this._has_aboveThreshold= false; - } - - /** - */ - public void deleteMaxColour( - ) { - this._has_maxColour= false; - } - - /** - */ - public void deleteMinColour( - ) { - this._has_minColour= false; - } - - /** - */ - public void deletePerSequence( - ) { - this._has_perSequence= false; - } - - /** - */ - public void deletePredefinedColours( - ) { - this._has_predefinedColours= false; - } - - /** - */ - public void deleteThreshold( - ) { - this._has_threshold= false; - } - - /** - * Returns the value of field 'aboveThreshold'. - * - * @return the value of field 'AboveThreshold'. - */ - public int getAboveThreshold( - ) { - return this._aboveThreshold; - } - - /** - * Returns the value of field 'annotation'. - * - * @return the value of field 'Annotation'. - */ - public java.lang.String getAnnotation( - ) { - return this._annotation; - } - - /** - * Returns the value of field 'colourScheme'. - * - * @return the value of field 'ColourScheme'. - */ - public java.lang.String getColourScheme( - ) { - return this._colourScheme; - } - - /** - * Returns the value of field 'maxColour'. - * - * @return the value of field 'MaxColour'. - */ - public int getMaxColour( - ) { - return this._maxColour; - } - - /** - * Returns the value of field 'minColour'. - * - * @return the value of field 'MinColour'. - */ - public int getMinColour( - ) { - return this._minColour; - } - - /** - * Returns the value of field 'perSequence'. - * - * @return the value of field 'PerSequence'. - */ - public boolean getPerSequence( - ) { - return this._perSequence; - } - - /** - * Returns the value of field 'predefinedColours'. - * - * @return the value of field 'PredefinedColours'. - */ - public boolean getPredefinedColours( - ) { - return this._predefinedColours; - } - - /** - * Returns the value of field 'threshold'. - * - * @return the value of field 'Threshold'. - */ - public float getThreshold( - ) { - return this._threshold; - } - - /** - * Method hasAboveThreshold. - * - * @return true if at least one AboveThreshold has been added - */ - public boolean hasAboveThreshold( - ) { - return this._has_aboveThreshold; - } - - /** - * Method hasMaxColour. - * - * @return true if at least one MaxColour has been added - */ - public boolean hasMaxColour( - ) { - return this._has_maxColour; - } - - /** - * Method hasMinColour. - * - * @return true if at least one MinColour has been added - */ - public boolean hasMinColour( - ) { - return this._has_minColour; - } - - /** - * Method hasPerSequence. - * - * @return true if at least one PerSequence has been added - */ - public boolean hasPerSequence( - ) { - return this._has_perSequence; - } - - /** - * Method hasPredefinedColours. - * - * @return true if at least one PredefinedColours has been added - */ - public boolean hasPredefinedColours( - ) { - return this._has_predefinedColours; - } - - /** - * Method hasThreshold. - * - * @return true if at least one Threshold has been added - */ - public boolean hasThreshold( - ) { - return this._has_threshold; - } - - /** - * Returns the value of field 'perSequence'. - * - * @return the value of field 'PerSequence'. - */ - public boolean isPerSequence( - ) { - return this._perSequence; - } - - /** - * Returns the value of field 'predefinedColours'. - * - * @return the value of field 'PredefinedColours'. - */ - public boolean isPredefinedColours( - ) { - return this._predefinedColours; - } - - /** - * 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 'aboveThreshold'. - * - * @param aboveThreshold the value of field 'aboveThreshold'. - */ - public void setAboveThreshold( - final int aboveThreshold) { - this._aboveThreshold = aboveThreshold; - this._has_aboveThreshold = true; - } - - /** - * Sets the value of field 'annotation'. - * - * @param annotation the value of field 'annotation'. - */ - public void setAnnotation( - final java.lang.String annotation) { - this._annotation = annotation; - } - - /** - * Sets the value of field 'colourScheme'. - * - * @param colourScheme the value of field 'colourScheme'. - */ - public void setColourScheme( - final java.lang.String colourScheme) { - this._colourScheme = colourScheme; - } - - /** - * Sets the value of field 'maxColour'. - * - * @param maxColour the value of field 'maxColour'. - */ - public void setMaxColour( - final int maxColour) { - this._maxColour = maxColour; - this._has_maxColour = true; - } - - /** - * Sets the value of field 'minColour'. - * - * @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 'perSequence'. - * - * @param perSequence the value of field 'perSequence'. - */ - public void setPerSequence( - final boolean perSequence) { - this._perSequence = perSequence; - this._has_perSequence = true; - } - - /** - * Sets the value of field 'predefinedColours'. - * - * @param predefinedColours the value of field - * 'predefinedColours'. - */ - public void setPredefinedColours( - final boolean predefinedColours) { - this._predefinedColours = predefinedColours; - this._has_predefinedColours = true; - } - - /** - * Sets the value of field 'threshold'. - * - * @param threshold the value of field 'threshold'. - */ - public void setThreshold( - final float threshold) { - this._threshold = threshold; - this._has_threshold = true; - } - - /** - * 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.AnnotationColours - */ - public static jalview.schemabinding.version2.AnnotationColours unmarshal( - final java.io.Reader reader) - throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException { - return (jalview.schemabinding.version2.AnnotationColours) Unmarshaller.unmarshal(jalview.schemabinding.version2.AnnotationColours.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); - } +public class AnnotationColours implements java.io.Serializable +{ + + // --------------------------/ + // - Class/Member Variables -/ + // --------------------------/ + + /** + * Field _aboveThreshold. + */ + private int _aboveThreshold; + + /** + * keeps track of state for field: _aboveThreshold + */ + private boolean _has_aboveThreshold; + + /** + * Field _annotation. + */ + private java.lang.String _annotation; + + /** + * Field _minColour. + */ + private int _minColour; + + /** + * keeps track of state for field: _minColour + */ + private boolean _has_minColour; + + /** + * Field _maxColour. + */ + private int _maxColour; + + /** + * keeps track of state for field: _maxColour + */ + private boolean _has_maxColour; + + /** + * Field _colourScheme. + */ + private java.lang.String _colourScheme; + + /** + * Field _threshold. + */ + private float _threshold; + + /** + * keeps track of state for field: _threshold + */ + private boolean _has_threshold; + + /** + * Field _perSequence. + */ + private boolean _perSequence; + + /** + * keeps track of state for field: _perSequence + */ + private boolean _has_perSequence; + + /** + * Field _predefinedColours. + */ + private boolean _predefinedColours; + + /** + * keeps track of state for field: _predefinedColours + */ + private boolean _has_predefinedColours; + + // ----------------/ + // - Constructors -/ + // ----------------/ + + public AnnotationColours() + { + super(); + } + + // -----------/ + // - Methods -/ + // -----------/ + + /** + */ + public void deleteAboveThreshold() + { + this._has_aboveThreshold = false; + } + + /** + */ + public void deleteMaxColour() + { + this._has_maxColour = false; + } + + /** + */ + public void deleteMinColour() + { + this._has_minColour = false; + } + + /** + */ + public void deletePerSequence() + { + this._has_perSequence = false; + } + + /** + */ + public void deletePredefinedColours() + { + this._has_predefinedColours = false; + } + + /** + */ + public void deleteThreshold() + { + this._has_threshold = false; + } + + /** + * Returns the value of field 'aboveThreshold'. + * + * @return the value of field 'AboveThreshold'. + */ + public int getAboveThreshold() + { + return this._aboveThreshold; + } + + /** + * Returns the value of field 'annotation'. + * + * @return the value of field 'Annotation'. + */ + public java.lang.String getAnnotation() + { + return this._annotation; + } + + /** + * Returns the value of field 'colourScheme'. + * + * @return the value of field 'ColourScheme'. + */ + public java.lang.String getColourScheme() + { + return this._colourScheme; + } + + /** + * Returns the value of field 'maxColour'. + * + * @return the value of field 'MaxColour'. + */ + public int getMaxColour() + { + return this._maxColour; + } + + /** + * Returns the value of field 'minColour'. + * + * @return the value of field 'MinColour'. + */ + public int getMinColour() + { + return this._minColour; + } + + /** + * Returns the value of field 'perSequence'. + * + * @return the value of field 'PerSequence'. + */ + public boolean getPerSequence() + { + return this._perSequence; + } + + /** + * Returns the value of field 'predefinedColours'. + * + * @return the value of field 'PredefinedColours'. + */ + public boolean getPredefinedColours() + { + return this._predefinedColours; + } + + /** + * Returns the value of field 'threshold'. + * + * @return the value of field 'Threshold'. + */ + public float getThreshold() + { + return this._threshold; + } + + /** + * Method hasAboveThreshold. + * + * @return true if at least one AboveThreshold has been added + */ + public boolean hasAboveThreshold() + { + return this._has_aboveThreshold; + } + + /** + * Method hasMaxColour. + * + * @return true if at least one MaxColour has been added + */ + public boolean hasMaxColour() + { + return this._has_maxColour; + } + + /** + * Method hasMinColour. + * + * @return true if at least one MinColour has been added + */ + public boolean hasMinColour() + { + return this._has_minColour; + } + + /** + * Method hasPerSequence. + * + * @return true if at least one PerSequence has been added + */ + public boolean hasPerSequence() + { + return this._has_perSequence; + } + + /** + * Method hasPredefinedColours. + * + * @return true if at least one PredefinedColours has been added + */ + public boolean hasPredefinedColours() + { + return this._has_predefinedColours; + } + + /** + * Method hasThreshold. + * + * @return true if at least one Threshold has been added + */ + public boolean hasThreshold() + { + return this._has_threshold; + } + + /** + * Returns the value of field 'perSequence'. + * + * @return the value of field 'PerSequence'. + */ + public boolean isPerSequence() + { + return this._perSequence; + } + + /** + * Returns the value of field 'predefinedColours'. + * + * @return the value of field 'PredefinedColours'. + */ + public boolean isPredefinedColours() + { + return this._predefinedColours; + } + + /** + * 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 'aboveThreshold'. + * + * @param aboveThreshold + * the value of field 'aboveThreshold'. + */ + public void setAboveThreshold(final int aboveThreshold) + { + this._aboveThreshold = aboveThreshold; + this._has_aboveThreshold = true; + } + + /** + * Sets the value of field 'annotation'. + * + * @param annotation + * the value of field 'annotation'. + */ + public void setAnnotation(final java.lang.String annotation) + { + this._annotation = annotation; + } + + /** + * Sets the value of field 'colourScheme'. + * + * @param colourScheme + * the value of field 'colourScheme'. + */ + public void setColourScheme(final java.lang.String colourScheme) + { + this._colourScheme = colourScheme; + } + + /** + * Sets the value of field 'maxColour'. + * + * @param maxColour + * the value of field 'maxColour'. + */ + public void setMaxColour(final int maxColour) + { + this._maxColour = maxColour; + this._has_maxColour = true; + } + + /** + * Sets the value of field 'minColour'. + * + * @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 'perSequence'. + * + * @param perSequence + * the value of field 'perSequence'. + */ + public void setPerSequence(final boolean perSequence) + { + this._perSequence = perSequence; + this._has_perSequence = true; + } + + /** + * Sets the value of field 'predefinedColours'. + * + * @param predefinedColours + * the value of field 'predefinedColours'. + */ + public void setPredefinedColours(final boolean predefinedColours) + { + this._predefinedColours = predefinedColours; + this._has_predefinedColours = true; + } + + /** + * Sets the value of field 'threshold'. + * + * @param threshold + * the value of field 'threshold'. + */ + public void setThreshold(final float threshold) + { + this._threshold = threshold; + this._has_threshold = true; + } + + /** + * 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.AnnotationColours + */ + public static jalview.schemabinding.version2.AnnotationColours unmarshal( + final java.io.Reader reader) + throws org.exolab.castor.xml.MarshalException, + org.exolab.castor.xml.ValidationException + { + return (jalview.schemabinding.version2.AnnotationColours) Unmarshaller + .unmarshal( + jalview.schemabinding.version2.AnnotationColours.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); + } } diff --git a/src/jalview/schemabinding/version2/AnnotationElement.java b/src/jalview/schemabinding/version2/AnnotationElement.java index f86908c..a558e86 100644 --- a/src/jalview/schemabinding/version2/AnnotationElement.java +++ b/src/jalview/schemabinding/version2/AnnotationElement.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/CalcIdParam.java b/src/jalview/schemabinding/version2/CalcIdParam.java index b758899..aab1434 100644 --- a/src/jalview/schemabinding/version2/CalcIdParam.java +++ b/src/jalview/schemabinding/version2/CalcIdParam.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/Colour.java b/src/jalview/schemabinding/version2/Colour.java index d4d0f60..70409b6 100644 --- a/src/jalview/schemabinding/version2/Colour.java +++ b/src/jalview/schemabinding/version2/Colour.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/DBRef.java b/src/jalview/schemabinding/version2/DBRef.java index f9d0ce5..de43ff4 100644 --- a/src/jalview/schemabinding/version2/DBRef.java +++ b/src/jalview/schemabinding/version2/DBRef.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/Feature.java b/src/jalview/schemabinding/version2/Feature.java index 612c9b1..d7deeff 100644 --- a/src/jalview/schemabinding/version2/Feature.java +++ b/src/jalview/schemabinding/version2/Feature.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/FeatureSettings.java b/src/jalview/schemabinding/version2/FeatureSettings.java index ed60cfa..30afdb4 100644 --- a/src/jalview/schemabinding/version2/FeatureSettings.java +++ b/src/jalview/schemabinding/version2/FeatureSettings.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/Features.java b/src/jalview/schemabinding/version2/Features.java index 3a889b2..cfcd531 100644 --- a/src/jalview/schemabinding/version2/Features.java +++ b/src/jalview/schemabinding/version2/Features.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/Group.java b/src/jalview/schemabinding/version2/Group.java index 43e71d0..f71c873 100644 --- a/src/jalview/schemabinding/version2/Group.java +++ b/src/jalview/schemabinding/version2/Group.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/HiddenColumns.java b/src/jalview/schemabinding/version2/HiddenColumns.java index df4ff32..01ec035 100644 --- a/src/jalview/schemabinding/version2/HiddenColumns.java +++ b/src/jalview/schemabinding/version2/HiddenColumns.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/JGroup.java b/src/jalview/schemabinding/version2/JGroup.java index 8b80750..56e43b7 100644 --- a/src/jalview/schemabinding/version2/JGroup.java +++ b/src/jalview/schemabinding/version2/JGroup.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/JSeq.java b/src/jalview/schemabinding/version2/JSeq.java index 9c902a6..070ef7f 100644 --- a/src/jalview/schemabinding/version2/JSeq.java +++ b/src/jalview/schemabinding/version2/JSeq.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/JalviewModel.java b/src/jalview/schemabinding/version2/JalviewModel.java index 770cb2c..5ffff2a 100644 --- a/src/jalview/schemabinding/version2/JalviewModel.java +++ b/src/jalview/schemabinding/version2/JalviewModel.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/JalviewModelSequence.java b/src/jalview/schemabinding/version2/JalviewModelSequence.java index a2d8a36..1e3095c 100644 --- a/src/jalview/schemabinding/version2/JalviewModelSequence.java +++ b/src/jalview/schemabinding/version2/JalviewModelSequence.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/JalviewUserColours.java b/src/jalview/schemabinding/version2/JalviewUserColours.java index abeff9e..2719ecd 100644 --- a/src/jalview/schemabinding/version2/JalviewUserColours.java +++ b/src/jalview/schemabinding/version2/JalviewUserColours.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/MapListFrom.java b/src/jalview/schemabinding/version2/MapListFrom.java index f112e44..2eeb726 100644 --- a/src/jalview/schemabinding/version2/MapListFrom.java +++ b/src/jalview/schemabinding/version2/MapListFrom.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/MapListTo.java b/src/jalview/schemabinding/version2/MapListTo.java index 558e3ef..55c54a5 100644 --- a/src/jalview/schemabinding/version2/MapListTo.java +++ b/src/jalview/schemabinding/version2/MapListTo.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/MapListType.java b/src/jalview/schemabinding/version2/MapListType.java index 53b1ae3..d94d197 100644 --- a/src/jalview/schemabinding/version2/MapListType.java +++ b/src/jalview/schemabinding/version2/MapListType.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/Mapping.java b/src/jalview/schemabinding/version2/Mapping.java index 9d54b40..69b7413 100644 --- a/src/jalview/schemabinding/version2/Mapping.java +++ b/src/jalview/schemabinding/version2/Mapping.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/MappingChoice.java b/src/jalview/schemabinding/version2/MappingChoice.java index ca35463..b0f49d0 100644 --- a/src/jalview/schemabinding/version2/MappingChoice.java +++ b/src/jalview/schemabinding/version2/MappingChoice.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/OtherData.java b/src/jalview/schemabinding/version2/OtherData.java index 22e35a2..7908828 100644 --- a/src/jalview/schemabinding/version2/OtherData.java +++ b/src/jalview/schemabinding/version2/OtherData.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/Pdbentry.java b/src/jalview/schemabinding/version2/Pdbentry.java index cbe3778..a2584c2 100644 --- a/src/jalview/schemabinding/version2/Pdbentry.java +++ b/src/jalview/schemabinding/version2/Pdbentry.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/PdbentryItem.java b/src/jalview/schemabinding/version2/PdbentryItem.java index 18dc89b..357c939 100644 --- a/src/jalview/schemabinding/version2/PdbentryItem.java +++ b/src/jalview/schemabinding/version2/PdbentryItem.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; /** diff --git a/src/jalview/schemabinding/version2/Pdbids.java b/src/jalview/schemabinding/version2/Pdbids.java index a5a3971..8c34216 100644 --- a/src/jalview/schemabinding/version2/Pdbids.java +++ b/src/jalview/schemabinding/version2/Pdbids.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/Property.java b/src/jalview/schemabinding/version2/Property.java index eb30727..e91bd35 100644 --- a/src/jalview/schemabinding/version2/Property.java +++ b/src/jalview/schemabinding/version2/Property.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/Sequence.java b/src/jalview/schemabinding/version2/Sequence.java index 00b9039..501c44e 100644 --- a/src/jalview/schemabinding/version2/Sequence.java +++ b/src/jalview/schemabinding/version2/Sequence.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/SequenceSet.java b/src/jalview/schemabinding/version2/SequenceSet.java index 2990ce6..e399ed4 100644 --- a/src/jalview/schemabinding/version2/SequenceSet.java +++ b/src/jalview/schemabinding/version2/SequenceSet.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/SequenceSetProperties.java b/src/jalview/schemabinding/version2/SequenceSetProperties.java index 8ec6a73..b46fb1d 100644 --- a/src/jalview/schemabinding/version2/SequenceSetProperties.java +++ b/src/jalview/schemabinding/version2/SequenceSetProperties.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/SequenceType.java b/src/jalview/schemabinding/version2/SequenceType.java index 9ecebc3..1a6dc08 100644 --- a/src/jalview/schemabinding/version2/SequenceType.java +++ b/src/jalview/schemabinding/version2/SequenceType.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/Setting.java b/src/jalview/schemabinding/version2/Setting.java index 3baa13b..9de7b21 100644 --- a/src/jalview/schemabinding/version2/Setting.java +++ b/src/jalview/schemabinding/version2/Setting.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/StructureState.java b/src/jalview/schemabinding/version2/StructureState.java index 96a1726..428b3db 100644 --- a/src/jalview/schemabinding/version2/StructureState.java +++ b/src/jalview/schemabinding/version2/StructureState.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/ThresholdLine.java b/src/jalview/schemabinding/version2/ThresholdLine.java index a8542c6..2e90527 100644 --- a/src/jalview/schemabinding/version2/ThresholdLine.java +++ b/src/jalview/schemabinding/version2/ThresholdLine.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/Tree.java b/src/jalview/schemabinding/version2/Tree.java index f9d7c13..a2a13cb 100644 --- a/src/jalview/schemabinding/version2/Tree.java +++ b/src/jalview/schemabinding/version2/Tree.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/UserColourScheme.java b/src/jalview/schemabinding/version2/UserColourScheme.java index 41ed009..da78647 100644 --- a/src/jalview/schemabinding/version2/UserColourScheme.java +++ b/src/jalview/schemabinding/version2/UserColourScheme.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/UserColours.java b/src/jalview/schemabinding/version2/UserColours.java index e7d39ed..4c75230 100644 --- a/src/jalview/schemabinding/version2/UserColours.java +++ b/src/jalview/schemabinding/version2/UserColours.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/VAMSAS.java b/src/jalview/schemabinding/version2/VAMSAS.java index 10081da..2d3e829 100644 --- a/src/jalview/schemabinding/version2/VAMSAS.java +++ b/src/jalview/schemabinding/version2/VAMSAS.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/VamsasModel.java b/src/jalview/schemabinding/version2/VamsasModel.java index 3f3e3c4..7ea0a45 100644 --- a/src/jalview/schemabinding/version2/VamsasModel.java +++ b/src/jalview/schemabinding/version2/VamsasModel.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/Viewport.java b/src/jalview/schemabinding/version2/Viewport.java index e08c1bc..a3e20c6 100644 --- a/src/jalview/schemabinding/version2/Viewport.java +++ b/src/jalview/schemabinding/version2/Viewport.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/WebServiceParameterSet.java b/src/jalview/schemabinding/version2/WebServiceParameterSet.java index 03e0d1a..b645f0b 100644 --- a/src/jalview/schemabinding/version2/WebServiceParameterSet.java +++ b/src/jalview/schemabinding/version2/WebServiceParameterSet.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/AlcodMapDescriptor.java b/src/jalview/schemabinding/version2/descriptors/AlcodMapDescriptor.java index d6289da..7adf1d0 100644 --- a/src/jalview/schemabinding/version2/descriptors/AlcodMapDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/AlcodMapDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/AlcodonDescriptor.java b/src/jalview/schemabinding/version2/descriptors/AlcodonDescriptor.java index b4ab798..47d6e01 100644 --- a/src/jalview/schemabinding/version2/descriptors/AlcodonDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/AlcodonDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/AlcodonFrameDescriptor.java b/src/jalview/schemabinding/version2/descriptors/AlcodonFrameDescriptor.java index 5b2c0d2..1cebb2a 100644 --- a/src/jalview/schemabinding/version2/descriptors/AlcodonFrameDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/AlcodonFrameDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/AnnotationColoursDescriptor.java b/src/jalview/schemabinding/version2/descriptors/AnnotationColoursDescriptor.java index 627ecde..954e3e5 100644 --- a/src/jalview/schemabinding/version2/descriptors/AnnotationColoursDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/AnnotationColoursDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,14 +13,21 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ package jalview.schemabinding.version2.descriptors; - //---------------------------------/ - //- Imported classes and packages -/ +//---------------------------------/ +//- Imported classes and packages -/ //---------------------------------/ import jalview.schemabinding.version2.AnnotationColours; @@ -30,468 +37,556 @@ import jalview.schemabinding.version2.AnnotationColours; * * @version $Revision$ $Date$ */ -public class AnnotationColoursDescriptor extends org.exolab.castor.xml.util.XMLClassDescriptorImpl { - - - //--------------------------/ - //- Class/Member Variables -/ - //--------------------------/ - - /** - * Field _elementDefinition. - */ - private boolean _elementDefinition; - - /** - * Field _nsPrefix. - */ - private java.lang.String _nsPrefix; - - /** - * Field _nsURI. - */ - private java.lang.String _nsURI; - - /** - * Field _xmlName. - */ - private java.lang.String _xmlName; - - - //----------------/ - //- Constructors -/ - //----------------/ - - public AnnotationColoursDescriptor() { - super(); - _nsURI = "www.jalview.org"; - _xmlName = "AnnotationColours"; - _elementDefinition = true; - org.exolab.castor.xml.util.XMLFieldDescriptorImpl desc = null; - org.exolab.castor.mapping.FieldHandler handler = null; - org.exolab.castor.xml.FieldValidator fieldValidator = null; - //-- initialize attribute descriptors - - //-- _aboveThreshold - desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Integer.TYPE, "_aboveThreshold", "aboveThreshold", org.exolab.castor.xml.NodeType.Attribute); - handler = new org.exolab.castor.xml.XMLFieldHandler() { - public java.lang.Object getValue( java.lang.Object object ) - throws IllegalStateException - { - AnnotationColours target = (AnnotationColours) object; - if (!target.hasAboveThreshold()) { return null; } - return new java.lang.Integer(target.getAboveThreshold()); - } - public void setValue( java.lang.Object object, java.lang.Object value) - throws IllegalStateException, IllegalArgumentException - { - try { - AnnotationColours target = (AnnotationColours) object; - // if null, use delete method for optional primitives - if (value == null) { - target.deleteAboveThreshold(); - return; - } - target.setAboveThreshold( ((java.lang.Integer) value).intValue()); - } catch (java.lang.Exception ex) { - throw new IllegalStateException(ex.toString()); - } - } - public java.lang.Object newInstance(java.lang.Object parent) { - return null; - } - }; - desc.setHandler(handler); - desc.setMultivalued(false); - addFieldDescriptor(desc); - - //-- validation code for: _aboveThreshold - fieldValidator = new org.exolab.castor.xml.FieldValidator(); - { //-- local scope - org.exolab.castor.xml.validators.IntValidator typeValidator; - typeValidator = new org.exolab.castor.xml.validators.IntValidator(); - fieldValidator.setValidator(typeValidator); - typeValidator.setMinInclusive(-2147483648); - typeValidator.setMaxInclusive(2147483647); - } - desc.setValidator(fieldValidator); - //-- _annotation - desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_annotation", "annotation", org.exolab.castor.xml.NodeType.Attribute); - desc.setImmutable(true); - handler = new org.exolab.castor.xml.XMLFieldHandler() { - public java.lang.Object getValue( java.lang.Object object ) - throws IllegalStateException - { - AnnotationColours target = (AnnotationColours) object; - return target.getAnnotation(); - } - public void setValue( java.lang.Object object, java.lang.Object value) - throws IllegalStateException, IllegalArgumentException - { - try { - AnnotationColours target = (AnnotationColours) object; - target.setAnnotation( (java.lang.String) value); - } catch (java.lang.Exception ex) { - throw new IllegalStateException(ex.toString()); - } - } - public java.lang.Object newInstance(java.lang.Object parent) { - return null; - } - }; - desc.setHandler(handler); - desc.setMultivalued(false); - addFieldDescriptor(desc); - - //-- validation code for: _annotation - fieldValidator = new org.exolab.castor.xml.FieldValidator(); - { //-- local scope - org.exolab.castor.xml.validators.StringValidator typeValidator; - typeValidator = new org.exolab.castor.xml.validators.StringValidator(); - fieldValidator.setValidator(typeValidator); - typeValidator.setWhiteSpace("preserve"); +public class AnnotationColoursDescriptor extends + org.exolab.castor.xml.util.XMLClassDescriptorImpl +{ + + // --------------------------/ + // - Class/Member Variables -/ + // --------------------------/ + + /** + * Field _elementDefinition. + */ + private boolean _elementDefinition; + + /** + * Field _nsPrefix. + */ + private java.lang.String _nsPrefix; + + /** + * Field _nsURI. + */ + private java.lang.String _nsURI; + + /** + * Field _xmlName. + */ + private java.lang.String _xmlName; + + // ----------------/ + // - Constructors -/ + // ----------------/ + + public AnnotationColoursDescriptor() + { + super(); + _nsURI = "www.jalview.org"; + _xmlName = "AnnotationColours"; + _elementDefinition = true; + org.exolab.castor.xml.util.XMLFieldDescriptorImpl desc = null; + org.exolab.castor.mapping.FieldHandler handler = null; + org.exolab.castor.xml.FieldValidator fieldValidator = null; + // -- initialize attribute descriptors + + // -- _aboveThreshold + desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl( + java.lang.Integer.TYPE, "_aboveThreshold", "aboveThreshold", + org.exolab.castor.xml.NodeType.Attribute); + handler = new org.exolab.castor.xml.XMLFieldHandler() + { + public java.lang.Object getValue(java.lang.Object object) + throws IllegalStateException + { + AnnotationColours target = (AnnotationColours) object; + if (!target.hasAboveThreshold()) + { + return null; } - desc.setValidator(fieldValidator); - //-- _minColour - desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Integer.TYPE, "_minColour", "minColour", org.exolab.castor.xml.NodeType.Attribute); - handler = new org.exolab.castor.xml.XMLFieldHandler() { - public java.lang.Object getValue( java.lang.Object object ) - throws IllegalStateException - { - AnnotationColours target = (AnnotationColours) object; - if (!target.hasMinColour()) { return null; } - return new java.lang.Integer(target.getMinColour()); - } - public void setValue( java.lang.Object object, java.lang.Object value) - throws IllegalStateException, IllegalArgumentException - { - try { - AnnotationColours target = (AnnotationColours) object; - // if null, use delete method for optional primitives - if (value == null) { - target.deleteMinColour(); - return; - } - target.setMinColour( ((java.lang.Integer) value).intValue()); - } catch (java.lang.Exception ex) { - throw new IllegalStateException(ex.toString()); - } - } - public java.lang.Object newInstance(java.lang.Object parent) { - return null; - } - }; - desc.setHandler(handler); - desc.setMultivalued(false); - addFieldDescriptor(desc); - - //-- validation code for: _minColour - fieldValidator = new org.exolab.castor.xml.FieldValidator(); - { //-- local scope - org.exolab.castor.xml.validators.IntValidator typeValidator; - typeValidator = new org.exolab.castor.xml.validators.IntValidator(); - fieldValidator.setValidator(typeValidator); - typeValidator.setMinInclusive(-2147483648); - typeValidator.setMaxInclusive(2147483647); + return new java.lang.Integer(target.getAboveThreshold()); + } + + public void setValue(java.lang.Object object, java.lang.Object value) + throws IllegalStateException, IllegalArgumentException + { + try + { + AnnotationColours target = (AnnotationColours) object; + // if null, use delete method for optional primitives + if (value == null) + { + target.deleteAboveThreshold(); + return; + } + target.setAboveThreshold(((java.lang.Integer) value).intValue()); + } catch (java.lang.Exception ex) + { + throw new IllegalStateException(ex.toString()); } - desc.setValidator(fieldValidator); - //-- _maxColour - desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Integer.TYPE, "_maxColour", "maxColour", org.exolab.castor.xml.NodeType.Attribute); - handler = new org.exolab.castor.xml.XMLFieldHandler() { - public java.lang.Object getValue( java.lang.Object object ) - throws IllegalStateException - { - AnnotationColours target = (AnnotationColours) object; - if (!target.hasMaxColour()) { return null; } - return new java.lang.Integer(target.getMaxColour()); - } - public void setValue( java.lang.Object object, java.lang.Object value) - throws IllegalStateException, IllegalArgumentException - { - try { - AnnotationColours target = (AnnotationColours) object; - // if null, use delete method for optional primitives - if (value == null) { - target.deleteMaxColour(); - return; - } - target.setMaxColour( ((java.lang.Integer) value).intValue()); - } catch (java.lang.Exception ex) { - throw new IllegalStateException(ex.toString()); - } - } - public java.lang.Object newInstance(java.lang.Object parent) { - return null; - } - }; - desc.setHandler(handler); - desc.setMultivalued(false); - addFieldDescriptor(desc); - - //-- validation code for: _maxColour - fieldValidator = new org.exolab.castor.xml.FieldValidator(); - { //-- local scope - org.exolab.castor.xml.validators.IntValidator typeValidator; - typeValidator = new org.exolab.castor.xml.validators.IntValidator(); - fieldValidator.setValidator(typeValidator); - typeValidator.setMinInclusive(-2147483648); - typeValidator.setMaxInclusive(2147483647); + } + + public java.lang.Object newInstance(java.lang.Object parent) + { + return null; + } + }; + desc.setHandler(handler); + desc.setMultivalued(false); + addFieldDescriptor(desc); + + // -- validation code for: _aboveThreshold + fieldValidator = new org.exolab.castor.xml.FieldValidator(); + { // -- local scope + org.exolab.castor.xml.validators.IntValidator typeValidator; + typeValidator = new org.exolab.castor.xml.validators.IntValidator(); + fieldValidator.setValidator(typeValidator); + typeValidator.setMinInclusive(-2147483648); + typeValidator.setMaxInclusive(2147483647); + } + desc.setValidator(fieldValidator); + // -- _annotation + desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl( + java.lang.String.class, "_annotation", "annotation", + org.exolab.castor.xml.NodeType.Attribute); + desc.setImmutable(true); + handler = new org.exolab.castor.xml.XMLFieldHandler() + { + public java.lang.Object getValue(java.lang.Object object) + throws IllegalStateException + { + AnnotationColours target = (AnnotationColours) object; + return target.getAnnotation(); + } + + public void setValue(java.lang.Object object, java.lang.Object value) + throws IllegalStateException, IllegalArgumentException + { + try + { + AnnotationColours target = (AnnotationColours) object; + target.setAnnotation((java.lang.String) value); + } catch (java.lang.Exception ex) + { + throw new IllegalStateException(ex.toString()); } - desc.setValidator(fieldValidator); - //-- _colourScheme - desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_colourScheme", "colourScheme", org.exolab.castor.xml.NodeType.Attribute); - desc.setImmutable(true); - handler = new org.exolab.castor.xml.XMLFieldHandler() { - public java.lang.Object getValue( java.lang.Object object ) - throws IllegalStateException - { - AnnotationColours target = (AnnotationColours) object; - return target.getColourScheme(); - } - public void setValue( java.lang.Object object, java.lang.Object value) - throws IllegalStateException, IllegalArgumentException - { - try { - AnnotationColours target = (AnnotationColours) object; - target.setColourScheme( (java.lang.String) value); - } catch (java.lang.Exception ex) { - throw new IllegalStateException(ex.toString()); - } - } - public java.lang.Object newInstance(java.lang.Object parent) { - return null; - } - }; - desc.setHandler(handler); - desc.setMultivalued(false); - addFieldDescriptor(desc); - - //-- validation code for: _colourScheme - fieldValidator = new org.exolab.castor.xml.FieldValidator(); - { //-- local scope - org.exolab.castor.xml.validators.StringValidator typeValidator; - typeValidator = new org.exolab.castor.xml.validators.StringValidator(); - fieldValidator.setValidator(typeValidator); - typeValidator.setWhiteSpace("preserve"); + } + + public java.lang.Object newInstance(java.lang.Object parent) + { + return null; + } + }; + desc.setHandler(handler); + desc.setMultivalued(false); + addFieldDescriptor(desc); + + // -- validation code for: _annotation + fieldValidator = new org.exolab.castor.xml.FieldValidator(); + { // -- local scope + org.exolab.castor.xml.validators.StringValidator typeValidator; + typeValidator = new org.exolab.castor.xml.validators.StringValidator(); + fieldValidator.setValidator(typeValidator); + typeValidator.setWhiteSpace("preserve"); + } + desc.setValidator(fieldValidator); + // -- _minColour + desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl( + java.lang.Integer.TYPE, "_minColour", "minColour", + org.exolab.castor.xml.NodeType.Attribute); + handler = new org.exolab.castor.xml.XMLFieldHandler() + { + public java.lang.Object getValue(java.lang.Object object) + throws IllegalStateException + { + AnnotationColours target = (AnnotationColours) object; + if (!target.hasMinColour()) + { + return null; } - desc.setValidator(fieldValidator); - //-- _threshold - desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Float.TYPE, "_threshold", "threshold", org.exolab.castor.xml.NodeType.Attribute); - handler = new org.exolab.castor.xml.XMLFieldHandler() { - public java.lang.Object getValue( java.lang.Object object ) - throws IllegalStateException - { - AnnotationColours target = (AnnotationColours) object; - if (!target.hasThreshold()) { return null; } - return new java.lang.Float(target.getThreshold()); - } - public void setValue( java.lang.Object object, java.lang.Object value) - throws IllegalStateException, IllegalArgumentException - { - try { - AnnotationColours target = (AnnotationColours) object; - // if null, use delete method for optional primitives - if (value == null) { - target.deleteThreshold(); - return; - } - target.setThreshold( ((java.lang.Float) value).floatValue()); - } catch (java.lang.Exception ex) { - throw new IllegalStateException(ex.toString()); - } - } - public java.lang.Object newInstance(java.lang.Object parent) { - return null; - } - }; - desc.setHandler(handler); - desc.setMultivalued(false); - addFieldDescriptor(desc); - - //-- validation code for: _threshold - fieldValidator = new org.exolab.castor.xml.FieldValidator(); - { //-- local scope - org.exolab.castor.xml.validators.FloatValidator typeValidator; - typeValidator = new org.exolab.castor.xml.validators.FloatValidator(); - fieldValidator.setValidator(typeValidator); - typeValidator.setMinInclusive((float) -3.4028235E38); - typeValidator.setMaxInclusive((float) 3.4028235E38); + return new java.lang.Integer(target.getMinColour()); + } + + public void setValue(java.lang.Object object, java.lang.Object value) + throws IllegalStateException, IllegalArgumentException + { + try + { + AnnotationColours target = (AnnotationColours) object; + // if null, use delete method for optional primitives + if (value == null) + { + target.deleteMinColour(); + return; + } + target.setMinColour(((java.lang.Integer) value).intValue()); + } catch (java.lang.Exception ex) + { + throw new IllegalStateException(ex.toString()); } - desc.setValidator(fieldValidator); - //-- _perSequence - desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_perSequence", "perSequence", org.exolab.castor.xml.NodeType.Attribute); - handler = new org.exolab.castor.xml.XMLFieldHandler() { - public java.lang.Object getValue( java.lang.Object object ) - throws IllegalStateException - { - AnnotationColours target = (AnnotationColours) object; - if (!target.hasPerSequence()) { return null; } - return (target.getPerSequence() ? java.lang.Boolean.TRUE : java.lang.Boolean.FALSE); - } - public void setValue( java.lang.Object object, java.lang.Object value) - throws IllegalStateException, IllegalArgumentException - { - try { - AnnotationColours target = (AnnotationColours) object; - // if null, use delete method for optional primitives - if (value == null) { - target.deletePerSequence(); - return; - } - target.setPerSequence( ((java.lang.Boolean) value).booleanValue()); - } catch (java.lang.Exception ex) { - throw new IllegalStateException(ex.toString()); - } - } - public java.lang.Object newInstance(java.lang.Object parent) { - return null; - } - }; - desc.setHandler(handler); - desc.setMultivalued(false); - addFieldDescriptor(desc); - - //-- validation code for: _perSequence - fieldValidator = new org.exolab.castor.xml.FieldValidator(); - { //-- local scope - org.exolab.castor.xml.validators.BooleanValidator typeValidator; - typeValidator = new org.exolab.castor.xml.validators.BooleanValidator(); - fieldValidator.setValidator(typeValidator); + } + + public java.lang.Object newInstance(java.lang.Object parent) + { + return null; + } + }; + desc.setHandler(handler); + desc.setMultivalued(false); + addFieldDescriptor(desc); + + // -- validation code for: _minColour + fieldValidator = new org.exolab.castor.xml.FieldValidator(); + { // -- local scope + org.exolab.castor.xml.validators.IntValidator typeValidator; + typeValidator = new org.exolab.castor.xml.validators.IntValidator(); + fieldValidator.setValidator(typeValidator); + typeValidator.setMinInclusive(-2147483648); + typeValidator.setMaxInclusive(2147483647); + } + desc.setValidator(fieldValidator); + // -- _maxColour + desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl( + java.lang.Integer.TYPE, "_maxColour", "maxColour", + org.exolab.castor.xml.NodeType.Attribute); + handler = new org.exolab.castor.xml.XMLFieldHandler() + { + public java.lang.Object getValue(java.lang.Object object) + throws IllegalStateException + { + AnnotationColours target = (AnnotationColours) object; + if (!target.hasMaxColour()) + { + return null; } - desc.setValidator(fieldValidator); - //-- _predefinedColours - desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_predefinedColours", "predefinedColours", org.exolab.castor.xml.NodeType.Attribute); - handler = new org.exolab.castor.xml.XMLFieldHandler() { - public java.lang.Object getValue( java.lang.Object object ) - throws IllegalStateException - { - AnnotationColours target = (AnnotationColours) object; - if (!target.hasPredefinedColours()) { return null; } - return (target.getPredefinedColours() ? java.lang.Boolean.TRUE : java.lang.Boolean.FALSE); - } - public void setValue( java.lang.Object object, java.lang.Object value) - throws IllegalStateException, IllegalArgumentException - { - try { - AnnotationColours target = (AnnotationColours) object; - // if null, use delete method for optional primitives - if (value == null) { - target.deletePredefinedColours(); - return; - } - target.setPredefinedColours( ((java.lang.Boolean) value).booleanValue()); - } catch (java.lang.Exception ex) { - throw new IllegalStateException(ex.toString()); - } - } - public java.lang.Object newInstance(java.lang.Object parent) { - return null; - } - }; - desc.setHandler(handler); - desc.setMultivalued(false); - addFieldDescriptor(desc); - - //-- validation code for: _predefinedColours - fieldValidator = new org.exolab.castor.xml.FieldValidator(); - { //-- local scope - org.exolab.castor.xml.validators.BooleanValidator typeValidator; - typeValidator = new org.exolab.castor.xml.validators.BooleanValidator(); - fieldValidator.setValidator(typeValidator); + return new java.lang.Integer(target.getMaxColour()); + } + + public void setValue(java.lang.Object object, java.lang.Object value) + throws IllegalStateException, IllegalArgumentException + { + try + { + AnnotationColours target = (AnnotationColours) object; + // if null, use delete method for optional primitives + if (value == null) + { + target.deleteMaxColour(); + return; + } + target.setMaxColour(((java.lang.Integer) value).intValue()); + } catch (java.lang.Exception ex) + { + throw new IllegalStateException(ex.toString()); } - desc.setValidator(fieldValidator); - //-- initialize element descriptors - - } + } + public java.lang.Object newInstance(java.lang.Object parent) + { + return null; + } + }; + desc.setHandler(handler); + desc.setMultivalued(false); + addFieldDescriptor(desc); - //-----------/ - //- Methods -/ - //-----------/ + // -- validation code for: _maxColour + fieldValidator = new org.exolab.castor.xml.FieldValidator(); + { // -- local scope + org.exolab.castor.xml.validators.IntValidator typeValidator; + typeValidator = new org.exolab.castor.xml.validators.IntValidator(); + fieldValidator.setValidator(typeValidator); + typeValidator.setMinInclusive(-2147483648); + typeValidator.setMaxInclusive(2147483647); + } + desc.setValidator(fieldValidator); + // -- _colourScheme + desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl( + java.lang.String.class, "_colourScheme", "colourScheme", + org.exolab.castor.xml.NodeType.Attribute); + desc.setImmutable(true); + handler = new org.exolab.castor.xml.XMLFieldHandler() + { + public java.lang.Object getValue(java.lang.Object object) + throws IllegalStateException + { + AnnotationColours target = (AnnotationColours) object; + return target.getColourScheme(); + } + + public void setValue(java.lang.Object object, java.lang.Object value) + throws IllegalStateException, IllegalArgumentException + { + try + { + AnnotationColours target = (AnnotationColours) object; + target.setColourScheme((java.lang.String) value); + } catch (java.lang.Exception ex) + { + throw new IllegalStateException(ex.toString()); + } + } - /** - * Method getAccessMode. - * - * @return the access mode specified for this class. - */ - public org.exolab.castor.mapping.AccessMode getAccessMode( - ) { + public java.lang.Object newInstance(java.lang.Object parent) + { return null; - } + } + }; + desc.setHandler(handler); + desc.setMultivalued(false); + addFieldDescriptor(desc); - /** - * Method getIdentity. - * - * @return the identity field, null if this class has no - * identity. - */ - public org.exolab.castor.mapping.FieldDescriptor getIdentity( - ) { - return super.getIdentity(); + // -- validation code for: _colourScheme + fieldValidator = new org.exolab.castor.xml.FieldValidator(); + { // -- local scope + org.exolab.castor.xml.validators.StringValidator typeValidator; + typeValidator = new org.exolab.castor.xml.validators.StringValidator(); + fieldValidator.setValidator(typeValidator); + typeValidator.setWhiteSpace("preserve"); } + desc.setValidator(fieldValidator); + // -- _threshold + desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl( + java.lang.Float.TYPE, "_threshold", "threshold", + org.exolab.castor.xml.NodeType.Attribute); + handler = new org.exolab.castor.xml.XMLFieldHandler() + { + public java.lang.Object getValue(java.lang.Object object) + throws IllegalStateException + { + AnnotationColours target = (AnnotationColours) object; + if (!target.hasThreshold()) + { + return null; + } + return new java.lang.Float(target.getThreshold()); + } - /** - * Method getJavaClass. - * - * @return the Java class represented by this descriptor. - */ - public java.lang.Class getJavaClass( - ) { - return jalview.schemabinding.version2.AnnotationColours.class; - } + public void setValue(java.lang.Object object, java.lang.Object value) + throws IllegalStateException, IllegalArgumentException + { + try + { + AnnotationColours target = (AnnotationColours) object; + // if null, use delete method for optional primitives + if (value == null) + { + target.deleteThreshold(); + return; + } + target.setThreshold(((java.lang.Float) value).floatValue()); + } catch (java.lang.Exception ex) + { + throw new IllegalStateException(ex.toString()); + } + } - /** - * Method getNameSpacePrefix. - * - * @return the namespace prefix to use when marshaling as XML. - */ - public java.lang.String getNameSpacePrefix( - ) { - return _nsPrefix; - } + public java.lang.Object newInstance(java.lang.Object parent) + { + return null; + } + }; + desc.setHandler(handler); + desc.setMultivalued(false); + addFieldDescriptor(desc); - /** - * Method getNameSpaceURI. - * - * @return the namespace URI used when marshaling and - * unmarshaling as XML. - */ - public java.lang.String getNameSpaceURI( - ) { - return _nsURI; + // -- validation code for: _threshold + fieldValidator = new org.exolab.castor.xml.FieldValidator(); + { // -- local scope + org.exolab.castor.xml.validators.FloatValidator typeValidator; + typeValidator = new org.exolab.castor.xml.validators.FloatValidator(); + fieldValidator.setValidator(typeValidator); + typeValidator.setMinInclusive((float) -3.4028235E38); + typeValidator.setMaxInclusive((float) 3.4028235E38); } + desc.setValidator(fieldValidator); + // -- _perSequence + desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl( + java.lang.Boolean.TYPE, "_perSequence", "perSequence", + org.exolab.castor.xml.NodeType.Attribute); + handler = new org.exolab.castor.xml.XMLFieldHandler() + { + public java.lang.Object getValue(java.lang.Object object) + throws IllegalStateException + { + AnnotationColours target = (AnnotationColours) object; + if (!target.hasPerSequence()) + { + return null; + } + return (target.getPerSequence() ? java.lang.Boolean.TRUE + : java.lang.Boolean.FALSE); + } - /** - * Method getValidator. - * - * @return a specific validator for the class described by this - * ClassDescriptor. - */ - public org.exolab.castor.xml.TypeValidator getValidator( - ) { - return this; - } + public void setValue(java.lang.Object object, java.lang.Object value) + throws IllegalStateException, IllegalArgumentException + { + try + { + AnnotationColours target = (AnnotationColours) object; + // if null, use delete method for optional primitives + if (value == null) + { + target.deletePerSequence(); + return; + } + target.setPerSequence(((java.lang.Boolean) value).booleanValue()); + } catch (java.lang.Exception ex) + { + throw new IllegalStateException(ex.toString()); + } + } - /** - * Method getXMLName. - * - * @return the XML Name for the Class being described. - */ - public java.lang.String getXMLName( - ) { - return _xmlName; + public java.lang.Object newInstance(java.lang.Object parent) + { + return null; + } + }; + desc.setHandler(handler); + desc.setMultivalued(false); + addFieldDescriptor(desc); + + // -- validation code for: _perSequence + fieldValidator = new org.exolab.castor.xml.FieldValidator(); + { // -- local scope + org.exolab.castor.xml.validators.BooleanValidator typeValidator; + typeValidator = new org.exolab.castor.xml.validators.BooleanValidator(); + fieldValidator.setValidator(typeValidator); } + desc.setValidator(fieldValidator); + // -- _predefinedColours + desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl( + java.lang.Boolean.TYPE, "_predefinedColours", + "predefinedColours", org.exolab.castor.xml.NodeType.Attribute); + handler = new org.exolab.castor.xml.XMLFieldHandler() + { + public java.lang.Object getValue(java.lang.Object object) + throws IllegalStateException + { + AnnotationColours target = (AnnotationColours) object; + if (!target.hasPredefinedColours()) + { + return null; + } + return (target.getPredefinedColours() ? java.lang.Boolean.TRUE + : java.lang.Boolean.FALSE); + } - /** - * Method isElementDefinition. - * - * @return true if XML schema definition of this Class is that - * of a global - * element or element with anonymous type definition. - */ - public boolean isElementDefinition( - ) { - return _elementDefinition; + public void setValue(java.lang.Object object, java.lang.Object value) + throws IllegalStateException, IllegalArgumentException + { + try + { + AnnotationColours target = (AnnotationColours) object; + // if null, use delete method for optional primitives + if (value == null) + { + target.deletePredefinedColours(); + return; + } + target.setPredefinedColours(((java.lang.Boolean) value) + .booleanValue()); + } catch (java.lang.Exception ex) + { + throw new IllegalStateException(ex.toString()); + } + } + + public java.lang.Object newInstance(java.lang.Object parent) + { + return null; + } + }; + desc.setHandler(handler); + desc.setMultivalued(false); + addFieldDescriptor(desc); + + // -- validation code for: _predefinedColours + fieldValidator = new org.exolab.castor.xml.FieldValidator(); + { // -- local scope + org.exolab.castor.xml.validators.BooleanValidator typeValidator; + typeValidator = new org.exolab.castor.xml.validators.BooleanValidator(); + fieldValidator.setValidator(typeValidator); } + desc.setValidator(fieldValidator); + // -- initialize element descriptors + + } + + // -----------/ + // - Methods -/ + // -----------/ + + /** + * Method getAccessMode. + * + * @return the access mode specified for this class. + */ + public org.exolab.castor.mapping.AccessMode getAccessMode() + { + return null; + } + + /** + * Method getIdentity. + * + * @return the identity field, null if this class has no identity. + */ + public org.exolab.castor.mapping.FieldDescriptor getIdentity() + { + return super.getIdentity(); + } + + /** + * Method getJavaClass. + * + * @return the Java class represented by this descriptor. + */ + public java.lang.Class getJavaClass() + { + return jalview.schemabinding.version2.AnnotationColours.class; + } + + /** + * Method getNameSpacePrefix. + * + * @return the namespace prefix to use when marshaling as XML. + */ + public java.lang.String getNameSpacePrefix() + { + return _nsPrefix; + } + + /** + * Method getNameSpaceURI. + * + * @return the namespace URI used when marshaling and unmarshaling as XML. + */ + public java.lang.String getNameSpaceURI() + { + return _nsURI; + } + + /** + * Method getValidator. + * + * @return a specific validator for the class described by this + * ClassDescriptor. + */ + public org.exolab.castor.xml.TypeValidator getValidator() + { + return this; + } + + /** + * Method getXMLName. + * + * @return the XML Name for the Class being described. + */ + public java.lang.String getXMLName() + { + return _xmlName; + } + + /** + * Method isElementDefinition. + * + * @return true if XML schema definition of this Class is that of a global + * element or element with anonymous type definition. + */ + public boolean isElementDefinition() + { + return _elementDefinition; + } } diff --git a/src/jalview/schemabinding/version2/descriptors/AnnotationDescriptor.java b/src/jalview/schemabinding/version2/descriptors/AnnotationDescriptor.java index cdad97f..eac9bc7 100644 --- a/src/jalview/schemabinding/version2/descriptors/AnnotationDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/AnnotationDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/AnnotationElementDescriptor.java b/src/jalview/schemabinding/version2/descriptors/AnnotationElementDescriptor.java index a45b335..24a90b9 100644 --- a/src/jalview/schemabinding/version2/descriptors/AnnotationElementDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/AnnotationElementDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/CalcIdParamDescriptor.java b/src/jalview/schemabinding/version2/descriptors/CalcIdParamDescriptor.java index 4c73612..007175c 100644 --- a/src/jalview/schemabinding/version2/descriptors/CalcIdParamDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/CalcIdParamDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/ColourDescriptor.java b/src/jalview/schemabinding/version2/descriptors/ColourDescriptor.java index 506c081..a8a2cf5 100644 --- a/src/jalview/schemabinding/version2/descriptors/ColourDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/ColourDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/DBRefDescriptor.java b/src/jalview/schemabinding/version2/descriptors/DBRefDescriptor.java index 4ddb77d..514e2d3 100644 --- a/src/jalview/schemabinding/version2/descriptors/DBRefDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/DBRefDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/FeatureDescriptor.java b/src/jalview/schemabinding/version2/descriptors/FeatureDescriptor.java index a7368c0..403e432 100644 --- a/src/jalview/schemabinding/version2/descriptors/FeatureDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/FeatureDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/FeatureSettingsDescriptor.java b/src/jalview/schemabinding/version2/descriptors/FeatureSettingsDescriptor.java index 79303a6..75586b6 100644 --- a/src/jalview/schemabinding/version2/descriptors/FeatureSettingsDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/FeatureSettingsDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/FeaturesDescriptor.java b/src/jalview/schemabinding/version2/descriptors/FeaturesDescriptor.java index 72daa76..498d18d 100644 --- a/src/jalview/schemabinding/version2/descriptors/FeaturesDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/FeaturesDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/GroupDescriptor.java b/src/jalview/schemabinding/version2/descriptors/GroupDescriptor.java index 64a2cd4..0dad270 100644 --- a/src/jalview/schemabinding/version2/descriptors/GroupDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/GroupDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/HiddenColumnsDescriptor.java b/src/jalview/schemabinding/version2/descriptors/HiddenColumnsDescriptor.java index 14af454..ebcec89 100644 --- a/src/jalview/schemabinding/version2/descriptors/HiddenColumnsDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/HiddenColumnsDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/JGroupDescriptor.java b/src/jalview/schemabinding/version2/descriptors/JGroupDescriptor.java index 12b6af6..4082f2c 100644 --- a/src/jalview/schemabinding/version2/descriptors/JGroupDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/JGroupDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/JSeqDescriptor.java b/src/jalview/schemabinding/version2/descriptors/JSeqDescriptor.java index 06cf7ab..8be5479 100644 --- a/src/jalview/schemabinding/version2/descriptors/JSeqDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/JSeqDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/JalviewModelDescriptor.java b/src/jalview/schemabinding/version2/descriptors/JalviewModelDescriptor.java index 63fc0dc..31127fa 100644 --- a/src/jalview/schemabinding/version2/descriptors/JalviewModelDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/JalviewModelDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ @@ -253,13 +261,11 @@ public class JalviewModelDescriptor extends desc.setContainer(true); desc.setClassDescriptor(new jalview.schemabinding.version2.descriptors.JalviewModelSequenceDescriptor()); desc.setNameSpaceURI("www.jalview.org"); - desc.setRequired(true); desc.setMultivalued(false); addFieldDescriptor(desc); // -- validation code for: _jalviewModelSequence fieldValidator = new org.exolab.castor.xml.FieldValidator(); - fieldValidator.setMinOccurs(1); { // -- local scope } desc.setValidator(fieldValidator); diff --git a/src/jalview/schemabinding/version2/descriptors/JalviewModelSequenceDescriptor.java b/src/jalview/schemabinding/version2/descriptors/JalviewModelSequenceDescriptor.java index eb51911..01b416c 100644 --- a/src/jalview/schemabinding/version2/descriptors/JalviewModelSequenceDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/JalviewModelSequenceDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ @@ -122,13 +130,12 @@ public class JalviewModelSequenceDescriptor extends }; desc.setHandler(handler); desc.setNameSpaceURI("www.jalview.org"); - desc.setRequired(true); desc.setMultivalued(true); addFieldDescriptor(desc); // -- validation code for: _JSeqList fieldValidator = new org.exolab.castor.xml.FieldValidator(); - fieldValidator.setMinOccurs(1); + fieldValidator.setMinOccurs(0); { // -- local scope } desc.setValidator(fieldValidator); @@ -233,13 +240,12 @@ public class JalviewModelSequenceDescriptor extends }; desc.setHandler(handler); desc.setNameSpaceURI("www.jalview.org"); - desc.setRequired(true); desc.setMultivalued(true); addFieldDescriptor(desc); // -- validation code for: _viewportList fieldValidator = new org.exolab.castor.xml.FieldValidator(); - fieldValidator.setMinOccurs(1); + fieldValidator.setMinOccurs(0); { // -- local scope } desc.setValidator(fieldValidator); diff --git a/src/jalview/schemabinding/version2/descriptors/JalviewUserColoursDescriptor.java b/src/jalview/schemabinding/version2/descriptors/JalviewUserColoursDescriptor.java index b0283b2..c70f679 100644 --- a/src/jalview/schemabinding/version2/descriptors/JalviewUserColoursDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/JalviewUserColoursDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/MapListFromDescriptor.java b/src/jalview/schemabinding/version2/descriptors/MapListFromDescriptor.java index 788c8b7..9aa7542 100644 --- a/src/jalview/schemabinding/version2/descriptors/MapListFromDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/MapListFromDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/MapListToDescriptor.java b/src/jalview/schemabinding/version2/descriptors/MapListToDescriptor.java index b75aadb..efdf00f 100644 --- a/src/jalview/schemabinding/version2/descriptors/MapListToDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/MapListToDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/MapListTypeDescriptor.java b/src/jalview/schemabinding/version2/descriptors/MapListTypeDescriptor.java index f83c882..8402449 100644 --- a/src/jalview/schemabinding/version2/descriptors/MapListTypeDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/MapListTypeDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/MappingChoiceDescriptor.java b/src/jalview/schemabinding/version2/descriptors/MappingChoiceDescriptor.java index 5d5999f..1d57dd5 100644 --- a/src/jalview/schemabinding/version2/descriptors/MappingChoiceDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/MappingChoiceDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/MappingDescriptor.java b/src/jalview/schemabinding/version2/descriptors/MappingDescriptor.java index f9e0749..b192ad8 100644 --- a/src/jalview/schemabinding/version2/descriptors/MappingDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/MappingDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/OtherDataDescriptor.java b/src/jalview/schemabinding/version2/descriptors/OtherDataDescriptor.java index 3161f09..69ae032 100644 --- a/src/jalview/schemabinding/version2/descriptors/OtherDataDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/OtherDataDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/PdbentryDescriptor.java b/src/jalview/schemabinding/version2/descriptors/PdbentryDescriptor.java index d45ee1e..001c3e5 100644 --- a/src/jalview/schemabinding/version2/descriptors/PdbentryDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/PdbentryDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/PdbentryItemDescriptor.java b/src/jalview/schemabinding/version2/descriptors/PdbentryItemDescriptor.java index ab5ba35..5748515 100644 --- a/src/jalview/schemabinding/version2/descriptors/PdbentryItemDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/PdbentryItemDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/PdbidsDescriptor.java b/src/jalview/schemabinding/version2/descriptors/PdbidsDescriptor.java index f911036..2b0f360 100644 --- a/src/jalview/schemabinding/version2/descriptors/PdbidsDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/PdbidsDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/PropertyDescriptor.java b/src/jalview/schemabinding/version2/descriptors/PropertyDescriptor.java index a7c33b8..eca975a 100644 --- a/src/jalview/schemabinding/version2/descriptors/PropertyDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/PropertyDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/SequenceDescriptor.java b/src/jalview/schemabinding/version2/descriptors/SequenceDescriptor.java index 801bfa7..478f2cf 100644 --- a/src/jalview/schemabinding/version2/descriptors/SequenceDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/SequenceDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/SequenceSetDescriptor.java b/src/jalview/schemabinding/version2/descriptors/SequenceSetDescriptor.java index adb4a10..09ffdfc 100644 --- a/src/jalview/schemabinding/version2/descriptors/SequenceSetDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/SequenceSetDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/SequenceSetPropertiesDescriptor.java b/src/jalview/schemabinding/version2/descriptors/SequenceSetPropertiesDescriptor.java index 13e8fcd..e7b075d 100644 --- a/src/jalview/schemabinding/version2/descriptors/SequenceSetPropertiesDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/SequenceSetPropertiesDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/SequenceTypeDescriptor.java b/src/jalview/schemabinding/version2/descriptors/SequenceTypeDescriptor.java index c6aa523..904bd47 100644 --- a/src/jalview/schemabinding/version2/descriptors/SequenceTypeDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/SequenceTypeDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/SettingDescriptor.java b/src/jalview/schemabinding/version2/descriptors/SettingDescriptor.java index 43ac0ed..dd318b3 100644 --- a/src/jalview/schemabinding/version2/descriptors/SettingDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/SettingDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/StructureStateDescriptor.java b/src/jalview/schemabinding/version2/descriptors/StructureStateDescriptor.java index 0fa781c..9d82b98 100644 --- a/src/jalview/schemabinding/version2/descriptors/StructureStateDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/StructureStateDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/ThresholdLineDescriptor.java b/src/jalview/schemabinding/version2/descriptors/ThresholdLineDescriptor.java index 8d83922..671b60f 100644 --- a/src/jalview/schemabinding/version2/descriptors/ThresholdLineDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/ThresholdLineDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/TreeDescriptor.java b/src/jalview/schemabinding/version2/descriptors/TreeDescriptor.java index 467b7f0..b24356e 100644 --- a/src/jalview/schemabinding/version2/descriptors/TreeDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/TreeDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/UserColourSchemeDescriptor.java b/src/jalview/schemabinding/version2/descriptors/UserColourSchemeDescriptor.java index 0d39d82..919b3b6 100644 --- a/src/jalview/schemabinding/version2/descriptors/UserColourSchemeDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/UserColourSchemeDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/UserColoursDescriptor.java b/src/jalview/schemabinding/version2/descriptors/UserColoursDescriptor.java index d6404d2..7725ad1 100644 --- a/src/jalview/schemabinding/version2/descriptors/UserColoursDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/UserColoursDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/VAMSASDescriptor.java b/src/jalview/schemabinding/version2/descriptors/VAMSASDescriptor.java index 61b822d..6148798 100644 --- a/src/jalview/schemabinding/version2/descriptors/VAMSASDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/VAMSASDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/VamsasModelDescriptor.java b/src/jalview/schemabinding/version2/descriptors/VamsasModelDescriptor.java index d60b798..d9e97f5 100644 --- a/src/jalview/schemabinding/version2/descriptors/VamsasModelDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/VamsasModelDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/ViewportDescriptor.java b/src/jalview/schemabinding/version2/descriptors/ViewportDescriptor.java index 4f338e2..5485480 100644 --- a/src/jalview/schemabinding/version2/descriptors/ViewportDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/ViewportDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/ diff --git a/src/jalview/schemabinding/version2/descriptors/WebServiceParameterSetDescriptor.java b/src/jalview/schemabinding/version2/descriptors/WebServiceParameterSetDescriptor.java index 695a799..ba75d45 100644 --- a/src/jalview/schemabinding/version2/descriptors/WebServiceParameterSetDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/WebServiceParameterSetDescriptor.java @@ -1,4 +1,4 @@ -/* +/******************************************************************************* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1) * Copyright (C) 2014 The Jalview Authors * @@ -13,9 +13,17 @@ * 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 . + * You should have received a copy of the GNU General Public License along with Jalview. + * If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. + ******************************************************************************/ +/* + * This class was automatically generated with + * Castor 1.1, using an XML + * Schema. + * $Id$ */ + package jalview.schemabinding.version2.descriptors; //---------------------------------/