{\r
if (value <= redundancy[i])\r
{\r
- SequenceI seq = originalSequences[i];\r
- ap.av.alignment.deleteSequence(seq);\r
- PaintRefresher.Refresh(this,ap.av.getSequenceSetId(),seq,null);\r
- del.addElement(seq);\r
- if (sg != null)\r
- {\r
- sg.deleteSequence(seq, false);\r
- }\r
+ del.addElement(originalSequences[i]);\r
}\r
}\r
\r
SequenceI [] deleted = new SequenceI[del.size()];\r
\r
int width = 0;\r
-\r
- for (int i = 0, j = del.size(); i < j; i++)\r
+ for (int i = 0; i < del.size(); i++)\r
{\r
deleted[i] = (SequenceI)del.elementAt(i);\r
if(deleted[i].getLength()>width)\r
EditCommand cut = new EditCommand("Remove Redundancy",\r
EditCommand.CUT, deleted,0,width,ap.av.alignment);\r
\r
+ for (int i = 0; i < del.size(); i++)\r
+ {\r
+ ap.av.alignment.deleteSequence( deleted[i] );\r
+ PaintRefresher.Refresh(this,\r
+ ap.av.getSequenceSetId(),\r
+ deleted[i], null);\r
+ if (sg != null)\r
+ {\r
+ sg.deleteSequence(deleted[i], false);\r
+ }\r
+ }\r
+\r
historyList.push(cut);\r
\r
ap.av.firePropertyChange("alignment", null, ap.av.getAlignment().getSequences());\r
CommandI command = (CommandI) historyList.pop();\r
command.undoCommand();\r
\r
+ ap.repaint();\r
+\r
if (historyList.size() == 0)\r
{\r
undoButton.setEnabled(false);\r