[MOBY-guts] biomoby commit

[Paul Gordon]

gordonp
Thu Feb  8 11:59:58 EST 2007
Update of /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util
In directory dev.open-bio.org:/tmp/cvs-serv27169/main/ca/ucalgary/seahawk/util

Modified Files:
	DynamicJPopupMenu.java MobyUtils.java 
	NamespaceContextImpl.java PrintableJEditorPane.java 
	Sequence.java 
Log Message:
Documentation updates
moby-live/Java/src/main/ca/ucalgary/seahawk/util DynamicJPopupMenu.java,1.1,1.2 MobyUtils.java,1.4,1.5 NamespaceContextImpl.java,1.1,1.2 PrintableJEditorPane.java,1.1,1.2 Sequence.java,1.1,1.2
===================================================================
RCS file: /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/DynamicJPopupMenu.java,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/DynamicJPopupMenu.java	2006/10/25 02:33:22	1.1
+++ /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/DynamicJPopupMenu.java	2007/02/08 16:59:58	1.2
@@ -1,5 +1,8 @@
 package ca.ucalgary.seahawk.util;
 
+import java.awt.Component;
+import javax.swing.*;
+
 /**
  * This class was created to overcome the basic issue that JPopupMenus do not like to be resized
  * once they have been set visible.  To do this, you must make it invisible, add/delete items, and 
@@ -11,11 +14,6 @@
  * @author Paul Gordon gordonp at ucalgary.ca
  */
 
-
-import java.awt.Component;
-import javax.swing.*;
-
-
 public class DynamicJPopupMenu extends JPopupMenu{
     private Object semaphore; 
 

===================================================================
RCS file: /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/MobyUtils.java,v
retrieving revision 1.4
retrieving revision 1.5
diff -u -r1.4 -r1.5
--- /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/MobyUtils.java	2006/10/27 20:11:01	1.4
+++ /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/MobyUtils.java	2007/02/08 16:59:58	1.5
@@ -10,6 +10,11 @@
 import java.util.Vector;
 import javax.swing.JLabel;
 
+/**
+ * Contains utility methods for Moby Object creation from unstructured data, and for
+ * creating the Seahawk GUI.
+ */
+
 public class MobyUtils{
     public static final int MAX_OBJ_NAME_LEN = 18;
 

===================================================================
RCS file: /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/NamespaceContextImpl.java,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/NamespaceContextImpl.java	2006/10/25 02:33:22	1.1
+++ /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/NamespaceContextImpl.java	2007/02/08 16:59:58	1.2
@@ -1,7 +1,3 @@
-/**
- * This class is used to provide namespace context for XPath espression evaluation
- * in the Seahawk data mapping rules file.
- */
 
 package ca.ucalgary.seahawk.util;
 
@@ -13,6 +9,10 @@
 import java.util.Iterator;
 import java.util.Map;
 
+/**
+ * This class is used to provide namespace context for XPath espression evaluation
+ * in the Seahawk data mapping rules file.
+ */
 public class NamespaceContextImpl implements NamespaceContext, PrefixResolver{
     private Map prefixes;
     private Map nsURIs;

===================================================================
RCS file: /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/PrintableJEditorPane.java,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/PrintableJEditorPane.java	2006/10/25 02:33:23	1.1
+++ /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/PrintableJEditorPane.java	2007/02/08 16:59:58	1.2
@@ -1,8 +1,3 @@
-/**
- * A class used to make the rendered contents of a JEditorPane printable in Java.
- *
- * @author Paul Gordon (gordonp at ucalgary.ca)
- */
 package ca.ucalgary.seahawk.util;
 
 import java.awt.Dimension;
@@ -14,6 +9,11 @@
 import javax.swing.JEditorPane;
 import javax.swing.RepaintManager;
 
+/**
+ * A class used to make the rendered contents of a JEditorPane printable in Java.
+ *
+ * @author Paul Gordon (gordonp at ucalgary.ca)
+ */
 public class PrintableJEditorPane extends JEditorPane implements Printable{
 
     public int print (Graphics g, PageFormat pf, int pageIndex) throws PrinterException{

===================================================================
RCS file: /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/Sequence.java,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/Sequence.java	2006/10/25 02:33:23	1.1
+++ /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/util/Sequence.java	2007/02/08 16:59:58	1.2
@@ -1,9 +1,9 @@
+package ca.ucalgary.seahawk.util;
+
 /**
- * Utility methods to report properties of DNA and protein sequence
+ * Utility methods to report properties of DNA and protein sequence.
  */
 
-package ca.ucalgary.seahawk.util;
-
 public class Sequence{
 
     /**