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Formatted source
[jalview.git]
/
src
/
jalview
/
binding
/
Sequence.java
diff --git
a/src/jalview/binding/Sequence.java
b/src/jalview/binding/Sequence.java
index
290354e
..
628e209
100755
(executable)
--- a/
src/jalview/binding/Sequence.java
+++ b/
src/jalview/binding/Sequence.java
@@
-4,7
+4,6
@@
* Schema.
\r
* $Id$
\r
*/
\r
* Schema.
\r
* $Id$
\r
*/
\r
-
\r
/*
\r
* Jalview - A Sequence Alignment Editor and Viewer
\r
* Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
\r
/*
\r
* Jalview - A Sequence Alignment Editor and Viewer
\r
* Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
\r
@@
-23,63
+22,49
@@
* along with this program; if not, write to the Free Software
\r
* Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
\r
*/
\r
* along with this program; if not, write to the Free Software
\r
* Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
\r
*/
\r
-
\r
package jalview.binding;
\r
\r
package jalview.binding;
\r
\r
- //---------------------------------/
\r
- //- Imported classes and packages -/
\r
-//---------------------------------/
\r
-
\r
-import java.io.IOException;
\r
-import java.io.Reader;
\r
-import java.io.Serializable;
\r
-import java.io.Writer;
\r
import org.exolab.castor.xml.MarshalException;
\r
import org.exolab.castor.xml.Marshaller;
\r
import org.exolab.castor.xml.Unmarshaller;
\r
import org.exolab.castor.xml.ValidationException;
\r
import org.exolab.castor.xml.MarshalException;
\r
import org.exolab.castor.xml.Marshaller;
\r
import org.exolab.castor.xml.Unmarshaller;
\r
import org.exolab.castor.xml.ValidationException;
\r
+
\r
import org.xml.sax.ContentHandler;
\r
\r
import org.xml.sax.ContentHandler;
\r
\r
+//---------------------------------/
\r
+//- Imported classes and packages -/
\r
+//---------------------------------/
\r
+import java.io.IOException;
\r
+import java.io.Reader;
\r
+import java.io.Serializable;
\r
+import java.io.Writer;
\r
+
\r
+
\r
/**
\r
* Class Sequence.
\r
*
\r
* @version $Revision$ $Date$
\r
*/
\r
/**
\r
* Class Sequence.
\r
*
\r
* @version $Revision$ $Date$
\r
*/
\r
-public class Sequence extends SequenceType
\r
-implements java.io.Serializable
\r
-{
\r
-
\r
-
\r
- //----------------/
\r
- //- Constructors -/
\r
+public class Sequence extends SequenceType implements java.io.Serializable {
\r
+ //----------------/
\r
+ //- Constructors -/
\r
//----------------/
\r
//----------------/
\r
-
\r
public Sequence() {
\r
super();
\r
public Sequence() {
\r
super();
\r
- } //-- jalview.binding.Sequence()
\r
+ }
\r
+ //-- jalview.binding.Sequence()
\r
+ //-----------/
\r
\r
\r
-
\r
- //-----------/
\r
- //- Methods -/
\r
- //-----------/
\r
-
\r
- /**
\r
- * Method isValid
\r
- *
\r
- *
\r
- *
\r
- * @return boolean
\r
- */
\r
- public boolean isValid()
\r
- {
\r
+ public boolean isValid() {
\r
try {
\r
validate();
\r
try {
\r
validate();
\r
- }
\r
- catch (org.exolab.castor.xml.ValidationException vex) {
\r
+ } catch (org.exolab.castor.xml.ValidationException vex) {
\r
return false;
\r
}
\r
return false;
\r
}
\r
+
\r
return true;
\r
return true;
\r
- } //-- boolean isValid()
\r
+ }
\r
+ //-- boolean isValid()
\r
\r
/**
\r
* Method marshal
\r
\r
/**
\r
* Method marshal
\r
@@
-89,11
+74,11
@@
implements java.io.Serializable
* @param out
\r
*/
\r
public void marshal(java.io.Writer out)
\r
* @param out
\r
*/
\r
public void marshal(java.io.Writer out)
\r
- throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException
\r
- {
\r
-
\r
+ throws org.exolab.castor.xml.MarshalException,
\r
+ org.exolab.castor.xml.ValidationException {
\r
Marshaller.marshal(this, out);
\r
Marshaller.marshal(this, out);
\r
- } //-- void marshal(java.io.Writer)
\r
+ }
\r
+ //-- void marshal(java.io.Writer)
\r
\r
/**
\r
* Method marshal
\r
\r
/**
\r
* Method marshal
\r
@@
-103,11
+88,11
@@
implements java.io.Serializable
* @param handler
\r
*/
\r
public void marshal(org.xml.sax.ContentHandler handler)
\r
* @param handler
\r
*/
\r
public void marshal(org.xml.sax.ContentHandler handler)
\r
- throws java.io.IOException, org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException
\r
- {
\r
-
\r
+ throws java.io.IOException, org.exolab.castor.xml.MarshalException,
\r
+ org.exolab.castor.xml.ValidationException {
\r
Marshaller.marshal(this, handler);
\r
Marshaller.marshal(this, handler);
\r
- } //-- void marshal(org.xml.sax.ContentHandler)
\r
+ }
\r
+ //-- void marshal(org.xml.sax.ContentHandler)
\r
\r
/**
\r
* Method unmarshal
\r
\r
/**
\r
* Method unmarshal
\r
@@
-118,20
+103,20
@@
implements java.io.Serializable
* @return Object
\r
*/
\r
public static java.lang.Object unmarshal(java.io.Reader reader)
\r
* @return Object
\r
*/
\r
public static java.lang.Object unmarshal(java.io.Reader reader)
\r
- throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException
\r
- {
\r
- return (jalview.binding.Sequence) Unmarshaller.unmarshal(jalview.binding.Sequence.class, reader);
\r
- } //-- java.lang.Object unmarshal(java.io.Reader)
\r
+ throws org.exolab.castor.xml.MarshalException,
\r
+ org.exolab.castor.xml.ValidationException {
\r
+ return (jalview.binding.Sequence) Unmarshaller.unmarshal(jalview.binding.Sequence.class,
\r
+ reader);
\r
+ }
\r
+ //-- java.lang.Object unmarshal(java.io.Reader)
\r
\r
/**
\r
* Method validate
\r
*
\r
*/
\r
\r
/**
\r
* Method validate
\r
*
\r
*/
\r
- public void validate()
\r
- throws org.exolab.castor.xml.ValidationException
\r
- {
\r
+ public void validate() throws org.exolab.castor.xml.ValidationException {
\r
org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();
\r
validator.validate(this);
\r
org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();
\r
validator.validate(this);
\r
- } //-- void validate()
\r
-
\r
+ }
\r
+ //-- void validate()
\r
}
\r
}
\r