X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fschemabinding%2Fversion2%2FFeature.java;h=2f7f2fae7ec8ebea17fdd96f70135a85bef29323;hb=7bc226b58110fa26d9dbd3f0c78095d06909ffc3;hp=3c738bd212e4db54eb34971ba6bd960d7f011e10;hpb=65df62f4b048a1615d32ea2c3576082ad2b63af8;p=jalview.git diff --git a/src/jalview/schemabinding/version2/Feature.java b/src/jalview/schemabinding/version2/Feature.java index 3c738bd..2f7f2fa 100755 --- a/src/jalview/schemabinding/version2/Feature.java +++ b/src/jalview/schemabinding/version2/Feature.java @@ -1,5 +1,5 @@ /* - * This class was automatically generated with + * This class was automatically generated with * Castor 0.9.6, using an XML * Schema. * $Id$ @@ -7,325 +7,540 @@ package jalview.schemabinding.version2; - //---------------------------------/ - //- Imported classes and packages -/ //---------------------------------/ +//- Imported classes and packages -/ +//---------------------------------/ + +import java.util.*; -import java.io.IOException; -import java.io.Reader; -import java.io.Serializable; -import java.io.Writer; -import org.exolab.castor.xml.MarshalException; -import org.exolab.castor.xml.Marshaller; -import org.exolab.castor.xml.Unmarshaller; -import org.exolab.castor.xml.ValidationException; -import org.xml.sax.ContentHandler; +import org.exolab.castor.xml.*; /** * Class Feature. - * + * * @version $Revision$ $Date$ */ -public class Feature implements java.io.Serializable { - - - //--------------------------/ - //- Class/Member Variables -/ - //--------------------------/ - - /** - * Field _begin - */ - private int _begin; - - /** - * keeps track of state for field: _begin - */ - private boolean _has_begin; - - /** - * Field _end - */ - private int _end; - - /** - * keeps track of state for field: _end - */ - private boolean _has_end; - - /** - * Field _type - */ - private java.lang.String _type; - - /** - * Field _description - */ - private java.lang.String _description; - - /** - * Field _status - */ - private java.lang.String _status; - - /** - * Field _featureGroup - */ - private java.lang.String _featureGroup; - - - //----------------/ - //- Constructors -/ - //----------------/ - - public Feature() { - super(); - } //-- jalview.schemabinding.version2.Feature() - - - //-----------/ - //- Methods -/ - //-----------/ - - /** - * Method deleteBegin - * - */ - public void deleteBegin() - { - this._has_begin= false; - } //-- void deleteBegin() - - /** - * Method deleteEnd - * - */ - public void deleteEnd() - { - this._has_end= false; - } //-- void deleteEnd() - - /** - * Returns the value of field 'begin'. - * - * @return int - * @return the value of field 'begin'. - */ - public int getBegin() - { - return this._begin; - } //-- int getBegin() - - /** - * Returns the value of field 'description'. - * - * @return String - * @return the value of field 'description'. - */ - public java.lang.String getDescription() - { - return this._description; - } //-- java.lang.String getDescription() - - /** - * Returns the value of field 'end'. - * - * @return int - * @return the value of field 'end'. - */ - public int getEnd() - { - return this._end; - } //-- int getEnd() - - /** - * Returns the value of field 'featureGroup'. - * - * @return String - * @return the value of field 'featureGroup'. - */ - public java.lang.String getFeatureGroup() - { - return this._featureGroup; - } //-- java.lang.String getFeatureGroup() - - /** - * Returns the value of field 'status'. - * - * @return String - * @return the value of field 'status'. - */ - public java.lang.String getStatus() - { - return this._status; - } //-- java.lang.String getStatus() - - /** - * Returns the value of field 'type'. - * - * @return String - * @return the value of field 'type'. - */ - public java.lang.String getType() - { - return this._type; - } //-- java.lang.String getType() - - /** - * Method hasBegin - * - * - * - * @return boolean - */ - public boolean hasBegin() - { - return this._has_begin; - } //-- boolean hasBegin() - - /** - * Method hasEnd - * - * - * - * @return boolean - */ - public boolean hasEnd() - { - return this._has_end; - } //-- boolean hasEnd() - - /** - * Method isValid - * - * - * - * @return boolean - */ - public boolean isValid() - { - try { - validate(); - } - catch (org.exolab.castor.xml.ValidationException vex) { - return false; - } - return true; - } //-- boolean isValid() - - /** - * Method marshal - * - * - * - * @param out - */ - public void marshal(java.io.Writer out) - throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException - { - - Marshaller.marshal(this, out); - } //-- void marshal(java.io.Writer) - - /** - * Method marshal - * - * - * - * @param handler - */ - public void marshal(org.xml.sax.ContentHandler handler) - throws java.io.IOException, org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException - { - - Marshaller.marshal(this, handler); - } //-- void marshal(org.xml.sax.ContentHandler) - - /** - * Sets the value of field 'begin'. - * - * @param begin the value of field 'begin'. - */ - public void setBegin(int begin) - { - this._begin = begin; - this._has_begin = true; - } //-- void setBegin(int) - - /** - * Sets the value of field 'description'. - * - * @param description the value of field 'description'. - */ - public void setDescription(java.lang.String description) - { - this._description = description; - } //-- void setDescription(java.lang.String) - - /** - * Sets the value of field 'end'. - * - * @param end the value of field 'end'. - */ - public void setEnd(int end) +public class Feature + implements java.io.Serializable +{ + + //--------------------------/ + //- Class/Member Variables -/ + //--------------------------/ + + /** + * Field _begin + */ + private int _begin; + + /** + * keeps track of state for field: _begin + */ + private boolean _has_begin; + + /** + * Field _end + */ + private int _end; + + /** + * keeps track of state for field: _end + */ + private boolean _has_end; + + /** + * Field _type + */ + private java.lang.String _type; + + /** + * Field _description + */ + private java.lang.String _description; + + /** + * Field _status + */ + private java.lang.String _status; + + /** + * Field _featureGroup + */ + private java.lang.String _featureGroup; + + /** + * Field _score + */ + private float _score; + + /** + * keeps track of state for field: _score + */ + private boolean _has_score; + + /** + * Field _otherDataList + */ + private java.util.Vector _otherDataList; + + //----------------/ + //- Constructors -/ + //----------------/ + + public Feature() + { + super(); + _otherDataList = new Vector(); + } //-- jalview.schemabinding.version2.Feature() + + //-----------/ + //- Methods -/ + //-----------/ + + /** + * Method addOtherData + * + * + * + * @param vOtherData + */ + public void addOtherData(jalview.schemabinding.version2.OtherData vOtherData) + throws java.lang.IndexOutOfBoundsException + { + _otherDataList.addElement(vOtherData); + } //-- void addOtherData(jalview.schemabinding.version2.OtherData) + + /** + * Method addOtherData + * + * + * + * @param index + * @param vOtherData + */ + public void addOtherData(int index, + jalview.schemabinding.version2.OtherData vOtherData) + throws java.lang.IndexOutOfBoundsException + { + _otherDataList.insertElementAt(vOtherData, index); + } //-- void addOtherData(int, jalview.schemabinding.version2.OtherData) + + /** + * Method deleteBegin + * + */ + public void deleteBegin() + { + this._has_begin = false; + } //-- void deleteBegin() + + /** + * Method deleteEnd + * + */ + public void deleteEnd() + { + this._has_end = false; + } //-- void deleteEnd() + + /** + * Method deleteScore + * + */ + public void deleteScore() + { + this._has_score = false; + } //-- void deleteScore() + + /** + * Method enumerateOtherData + * + * + * + * @return Enumeration + */ + public java.util.Enumeration enumerateOtherData() + { + return _otherDataList.elements(); + } //-- java.util.Enumeration enumerateOtherData() + + /** + * Returns the value of field 'begin'. + * + * @return int + * @return the value of field 'begin'. + */ + public int getBegin() + { + return this._begin; + } //-- int getBegin() + + /** + * Returns the value of field 'description'. + * + * @return String + * @return the value of field 'description'. + */ + public java.lang.String getDescription() + { + return this._description; + } //-- java.lang.String getDescription() + + /** + * Returns the value of field 'end'. + * + * @return int + * @return the value of field 'end'. + */ + public int getEnd() + { + return this._end; + } //-- int getEnd() + + /** + * Returns the value of field 'featureGroup'. + * + * @return String + * @return the value of field 'featureGroup'. + */ + public java.lang.String getFeatureGroup() + { + return this._featureGroup; + } //-- java.lang.String getFeatureGroup() + + /** + * Method getOtherData + * + * + * + * @param index + * @return OtherData + */ + public jalview.schemabinding.version2.OtherData getOtherData(int index) + throws java.lang.IndexOutOfBoundsException + { + //-- check bounds for index + if ( (index < 0) || (index > _otherDataList.size())) { - this._end = end; - this._has_end = true; - } //-- void setEnd(int) - - /** - * Sets the value of field 'featureGroup'. - * - * @param featureGroup the value of field 'featureGroup'. - */ - public void setFeatureGroup(java.lang.String featureGroup) + throw new IndexOutOfBoundsException(); + } + + return (jalview.schemabinding.version2.OtherData) _otherDataList.elementAt( + index); + } //-- jalview.schemabinding.version2.OtherData getOtherData(int) + + /** + * Method getOtherData + * + * + * + * @return OtherData + */ + public jalview.schemabinding.version2.OtherData[] getOtherData() + { + int size = _otherDataList.size(); + jalview.schemabinding.version2.OtherData[] mArray = new jalview. + schemabinding.version2.OtherData[size]; + for (int index = 0; index < size; index++) { - this._featureGroup = featureGroup; - } //-- void setFeatureGroup(java.lang.String) - - /** - * Sets the value of field 'status'. - * - * @param status the value of field 'status'. - */ - public void setStatus(java.lang.String status) + mArray[index] = (jalview.schemabinding.version2.OtherData) _otherDataList. + elementAt(index); + } + return mArray; + } //-- jalview.schemabinding.version2.OtherData[] getOtherData() + + /** + * Method getOtherDataCount + * + * + * + * @return int + */ + public int getOtherDataCount() + { + return _otherDataList.size(); + } //-- int getOtherDataCount() + + /** + * Returns the value of field 'score'. + * + * @return float + * @return the value of field 'score'. + */ + public float getScore() + { + return this._score; + } //-- float getScore() + + /** + * Returns the value of field 'status'. + * + * @return String + * @return the value of field 'status'. + */ + public java.lang.String getStatus() + { + return this._status; + } //-- java.lang.String getStatus() + + /** + * Returns the value of field 'type'. + * + * @return String + * @return the value of field 'type'. + */ + public java.lang.String getType() + { + return this._type; + } //-- java.lang.String getType() + + /** + * Method hasBegin + * + * + * + * @return boolean + */ + public boolean hasBegin() + { + return this._has_begin; + } //-- boolean hasBegin() + + /** + * Method hasEnd + * + * + * + * @return boolean + */ + public boolean hasEnd() + { + return this._has_end; + } //-- boolean hasEnd() + + /** + * Method hasScore + * + * + * + * @return boolean + */ + public boolean hasScore() + { + return this._has_score; + } //-- boolean hasScore() + + /** + * Method isValid + * + * + * + * @return boolean + */ + public boolean isValid() + { + try { - this._status = status; - } //-- void setStatus(java.lang.String) - - /** - * Sets the value of field 'type'. - * - * @param type the value of field 'type'. - */ - public void setType(java.lang.String type) + validate(); + } + catch (org.exolab.castor.xml.ValidationException vex) { - this._type = type; - } //-- void setType(java.lang.String) - - /** - * Method unmarshal - * - * - * - * @param reader - * @return Object - */ - public static java.lang.Object unmarshal(java.io.Reader reader) - throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException + return false; + } + return true; + } //-- boolean isValid() + + /** + * Method marshal + * + * + * + * @param out + */ + public void marshal(java.io.Writer out) + throws org.exolab.castor.xml.MarshalException, + org.exolab.castor.xml.ValidationException + { + + Marshaller.marshal(this, out); + } //-- void marshal(java.io.Writer) + + /** + * Method marshal + * + * + * + * @param handler + */ + public void marshal(org.xml.sax.ContentHandler handler) + throws java.io.IOException, org.exolab.castor.xml.MarshalException, + org.exolab.castor.xml.ValidationException + { + + Marshaller.marshal(this, handler); + } //-- void marshal(org.xml.sax.ContentHandler) + + /** + * Method removeAllOtherData + * + */ + public void removeAllOtherData() + { + _otherDataList.removeAllElements(); + } //-- void removeAllOtherData() + + /** + * Method removeOtherData + * + * + * + * @param index + * @return OtherData + */ + public jalview.schemabinding.version2.OtherData removeOtherData(int index) + { + java.lang.Object obj = _otherDataList.elementAt(index); + _otherDataList.removeElementAt(index); + return (jalview.schemabinding.version2.OtherData) obj; + } //-- jalview.schemabinding.version2.OtherData removeOtherData(int) + + /** + * Sets the value of field 'begin'. + * + * @param begin the value of field 'begin'. + */ + public void setBegin(int begin) + { + this._begin = begin; + this._has_begin = true; + } //-- void setBegin(int) + + /** + * Sets the value of field 'description'. + * + * @param description the value of field 'description'. + */ + public void setDescription(java.lang.String description) + { + this._description = description; + } //-- void setDescription(java.lang.String) + + /** + * Sets the value of field 'end'. + * + * @param end the value of field 'end'. + */ + public void setEnd(int end) + { + this._end = end; + this._has_end = true; + } //-- void setEnd(int) + + /** + * Sets the value of field 'featureGroup'. + * + * @param featureGroup the value of field 'featureGroup'. + */ + public void setFeatureGroup(java.lang.String featureGroup) + { + this._featureGroup = featureGroup; + } //-- void setFeatureGroup(java.lang.String) + + /** + * Method setOtherData + * + * + * + * @param index + * @param vOtherData + */ + public void setOtherData(int index, + jalview.schemabinding.version2.OtherData vOtherData) + throws java.lang.IndexOutOfBoundsException + { + //-- check bounds for index + if ( (index < 0) || (index > _otherDataList.size())) { - return (jalview.schemabinding.version2.Feature) Unmarshaller.unmarshal(jalview.schemabinding.version2.Feature.class, reader); - } //-- java.lang.Object unmarshal(java.io.Reader) - - /** - * Method validate - * - */ - public void validate() - throws org.exolab.castor.xml.ValidationException + throw new IndexOutOfBoundsException(); + } + _otherDataList.setElementAt(vOtherData, index); + } //-- void setOtherData(int, jalview.schemabinding.version2.OtherData) + + /** + * Method setOtherData + * + * + * + * @param otherDataArray + */ + public void setOtherData(jalview.schemabinding.version2.OtherData[] + otherDataArray) + { + //-- copy array + _otherDataList.removeAllElements(); + for (int i = 0; i < otherDataArray.length; i++) { - org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator(); - validator.validate(this); - } //-- void validate() + _otherDataList.addElement(otherDataArray[i]); + } + } //-- void setOtherData(jalview.schemabinding.version2.OtherData) + + /** + * Sets the value of field 'score'. + * + * @param score the value of field 'score'. + */ + public void setScore(float score) + { + this._score = score; + this._has_score = true; + } //-- void setScore(float) + + /** + * Sets the value of field 'status'. + * + * @param status the value of field 'status'. + */ + public void setStatus(java.lang.String status) + { + this._status = status; + } //-- void setStatus(java.lang.String) + + /** + * Sets the value of field 'type'. + * + * @param type the value of field 'type'. + */ + public void setType(java.lang.String type) + { + this._type = type; + } //-- void setType(java.lang.String) + + /** + * Method unmarshal + * + * + * + * @param reader + * @return Object + */ + public static java.lang.Object unmarshal(java.io.Reader reader) + throws org.exolab.castor.xml.MarshalException, + org.exolab.castor.xml.ValidationException + { + return (jalview.schemabinding.version2.Feature) Unmarshaller.unmarshal( + jalview.schemabinding.version2.Feature.class, reader); + } //-- java.lang.Object unmarshal(java.io.Reader) + + /** + * Method validate + * + */ + public void validate() + throws org.exolab.castor.xml.ValidationException + { + org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml. + Validator(); + validator.validate(this); + } //-- void validate() }