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[jalview.git] / src / jalview / gui / PopupMenu.java

diff --git a/src/jalview/gui/PopupMenu.java b/src/jalview/gui/PopupMenu.java
index 69e83f5..356e5d5 100755 (executable)
--- a/src/jalview/gui/PopupMenu.java
+++ b/src/jalview/gui/PopupMenu.java
@@ -688,7 +688,7 @@ public class PopupMenu extends JPopupMenu
         if (ap.overviewPanel != null)\r
           ap.overviewPanel.updateOverviewImage();\r
 \r
-        ap.seqPanel.repaint();\r
+        PaintRefresher.Refresh(this, ap.av.getSequenceSetId());\r
     }\r
 \r
     /**\r
@@ -1126,25 +1126,32 @@ public class PopupMenu extends JPopupMenu
       SequenceGroup sg = ap.av.getSelectionGroup();\r
       if(sg==null || sg.getSize(false)<1)\r
       {\r
-        ap.av.hideSequence(sequence);\r
+        ap.av.hideSequence(new SequenceI[]{sequence});\r
         return;\r
       }\r
 \r
+      int gsize = sg.getSize(false);\r
+      SequenceI [] hseqs;\r
+\r
+      hseqs = new SequenceI[ representGroup ? gsize-1 : gsize ];\r
+\r
         int index = 0;\r
-        while(index < sg.getSize(false))\r
+        while(index < gsize)\r
         {\r
           if(representGroup && sg.getSequenceAt(index)!=sequence)\r
           {\r
             sequence.addHiddenSequence(sg.getSequenceAt(index));\r
-            ap.av.hideSequence(sg.getSequenceAt(index));\r
+            hseqs[index] = sg.getSequenceAt(index);\r
           }\r
           else if(!representGroup)\r
           {\r
-            ap.av.hideSequence(sg.getSequenceAt(index));\r
+            hseqs[index] = sg.getSequenceAt(index);\r
           }\r
           index ++;\r
         }\r
 \r
+        ap.av.hideSequence(hseqs);\r
+\r
         ap.av.setSelectionGroup(null);\r
     }\r
 \r
@@ -1210,7 +1217,7 @@ public class PopupMenu extends JPopupMenu
         }\r
         while (end < sg.getEndRes());\r
       }\r
-      ap.repaint();\r
+      PaintRefresher.Refresh(this, ap.av.getSequenceSetId());\r
     }\r
   }\r
 \r