Case shifter

diff --git a/src/jalview/appletgui/APopupMenu.java b/src/jalview/appletgui/APopupMenu.java
index b85c7d2..1d5eace 100755 (executable)
--- a/src/jalview/appletgui/APopupMenu.java
+++ b/src/jalview/appletgui/APopupMenu.java
@@ -53,6 +53,11 @@ public class APopupMenu
   CheckboxMenuItem showBoxes = new CheckboxMenuItem();\r
   CheckboxMenuItem showText = new CheckboxMenuItem();\r
   CheckboxMenuItem showColourText = new CheckboxMenuItem();\r
+  Menu editMenu = new Menu("Edit");\r
+  MenuItem copy = new MenuItem("Copy (Jalview Only)");\r
+  MenuItem cut = new MenuItem("Cut (Jalview Only)");\r
+  MenuItem toUpper = new MenuItem("To Upper Case");\r
+  MenuItem toLower = new MenuItem("To Lower Case");\r
 \r
   public APopupMenu(AlignmentPanel apanel, final Sequence seq, Vector links)\r
   {\r
@@ -145,38 +150,70 @@ public class APopupMenu
 \r
   public void actionPerformed(ActionEvent evt)\r
   {\r
-    if(evt.getSource()==clustalColour)\r
+    Object source = evt.getSource();\r
+    if(source==clustalColour)\r
       clustalColour_actionPerformed();\r
-    else if(evt.getSource()==zappoColour)\r
+    else if(source==zappoColour)\r
       zappoColour_actionPerformed();\r
-    else if(evt.getSource()==taylorColour)\r
+    else if(source==taylorColour)\r
       taylorColour_actionPerformed();\r
-    else if(evt.getSource()==hydrophobicityColour)\r
+    else if(source==hydrophobicityColour)\r
       hydrophobicityColour_actionPerformed();\r
-    else if(evt.getSource()==helixColour)\r
+    else if(source==helixColour)\r
       helixColour_actionPerformed();\r
-    else if(evt.getSource()==strandColour)\r
+    else if(source==strandColour)\r
       strandColour_actionPerformed();\r
-    else if(evt.getSource()==clustalColour)\r
+    else if(source==clustalColour)\r
       turnColour_actionPerformed();\r
-    else if(evt.getSource()==buriedColour)\r
+    else if(source==buriedColour)\r
       buriedColour_actionPerformed();\r
-    else if(evt.getSource()==nucleotideMenuItem)\r
+    else if(source==nucleotideMenuItem)\r
       nucleotideMenuItem_actionPerformed();\r
 \r
-    else if(evt.getSource()==userDefinedColour)\r
+    else if(source==userDefinedColour)\r
           userDefinedColour_actionPerformed();\r
-        else if(evt.getSource()==PIDColour)\r
+        else if(source==PIDColour)\r
        PIDColour_actionPerformed();\r
-     else if(evt.getSource()==BLOSUM62Colour)\r
+     else if(source==BLOSUM62Colour)\r
       BLOSUM62Colour_actionPerformed();\r
-    else if(evt.getSource()==noColourmenuItem)\r
+    else if(source==noColourmenuItem)\r
       noColourmenuItem_actionPerformed();\r
-    else if(evt.getSource()==conservationMenuItem)\r
+    else if(source==conservationMenuItem)\r
         conservationMenuItem_itemStateChanged();\r
-      else if(evt.getSource()==unGroupMenuItem)\r
+      else if(source==unGroupMenuItem)\r
       unGroupMenuItem_actionPerformed();\r
 \r
+    else if(source==copy)\r
+      ap.alignFrame.copy_actionPerformed();\r
+    else if(source==cut)\r
+      ap.alignFrame.cut_actionPerformed();\r
+    else if(source==toUpper)\r
+    {\r
+      SequenceGroup sg = ap.av.getSelectionGroup();\r
+      if (sg != null)\r
+      {\r
+        for (int g = 0; g < sg.getSize(); g++)\r
+        {\r
+          sg.getSequenceAt(g).changeCase(true, sg.getStartRes(),\r
+                                         sg.getEndRes() + 1);\r
+        }\r
+        ap.seqPanel.seqCanvas.repaint();\r
+      }\r
+    }\r
+    else if(source==toLower)\r
+    {\r
+      SequenceGroup sg = ap.av.getSelectionGroup();\r
+      if (sg != null)\r
+      {\r
+        for (int g = 0; g < sg.getSize(); g++)\r
+        {\r
+          sg.getSequenceAt(g).changeCase(false, sg.getStartRes(),\r
+                                         sg.getEndRes() + 1);\r
+        }\r
+        ap.seqPanel.seqCanvas.repaint();\r
+      }\r
+    }\r
+\r
   }\r
 \r
   void addPDB(Sequence seq)\r
@@ -265,6 +302,16 @@ public class APopupMenu
     BLOSUM62Colour.addActionListener(this);\r
     conservationMenuItem.setLabel("Conservation");\r
 \r
+    add(editMenu);\r
+    editMenu.add(copy);\r
+    copy.addActionListener(this);\r
+    editMenu.add(cut);\r
+    cut.addActionListener(this);\r
+    editMenu.add(toUpper);\r
+    toUpper.addActionListener(this);\r
+    editMenu.add(toLower);\r
+    toLower.addActionListener(this);\r
+\r
   }\r
 \r
   void refresh()\r