Make sure fontmetrics exists for headless state

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

diff --git a/src/jalview/gui/SeqPanel.java b/src/jalview/gui/SeqPanel.java
index 62d95ea..8146be0 100755 (executable)
--- a/src/jalview/gui/SeqPanel.java
+++ b/src/jalview/gui/SeqPanel.java
@@ -585,98 +585,8 @@ public class SeqPanel extends JPanel
         ap.alignFrame.updateEditMenuBar();\r
       }\r
 \r
-      av.updateConservation();\r
-      av.updateConsensus();\r
+      av.firePropertyChange("alignment", null,av.getAlignment().getSequences());\r
 \r
-      //Does the edit affect any groups?\r
-      //////////////////////////////\r
-      Vector groupsToUpdate = new Vector();\r
-      SequenceGroup sg = av.getSelectionGroup();\r
-\r
-      int s, g, gSize = av.alignment.getGroups().size();\r
-      if (sg != null)\r
-      {\r
-        groupsToUpdate.addElement(av.getSelectionGroup());\r
-        int sSize = sg.getSize();\r
-        for (s = 0; s < sSize; s++)\r
-        {\r
-          SequenceI seq = sg.getSequenceAt(s);\r
-\r
-          for (g = 0; g < gSize; g++)\r
-          {\r
-            SequenceGroup sg2 = (SequenceGroup) av.alignment.getGroups().\r
-                elementAt(\r
-                    g);\r
-            if (sg2.sequences.contains(seq))\r
-            {\r
-              if (!groupsToUpdate.contains(sg2))\r
-                groupsToUpdate.addElement(sg2);\r
-              continue;\r
-            }\r
-          }\r
-        }\r
-      }\r
-      else\r
-      {\r
-        SequenceI seq = av.alignment.getSequenceAt(startseq);\r
-        for (g = 0; g < gSize; g++)\r
-        {\r
-          SequenceGroup sg2 = (SequenceGroup) av.alignment.getGroups().elementAt(\r
-              g);\r
-          if (sg2.sequences.contains(seq))\r
-          {\r
-            if (!groupsToUpdate.contains(sg2))\r
-              groupsToUpdate.addElement(sg2);\r
-            continue;\r
-          }\r
-        }\r
-      }\r
-\r
-      gSize = groupsToUpdate.size();\r
-      for (g = 0; g < gSize; g++)\r
-      {\r
-        ( (SequenceGroup) groupsToUpdate.elementAt(g)).recalcConservation();\r
-      }\r
-      ////End of updating groups\r
-      //////////////////////////////////////////\r
-\r
-        // Y O Y CLUSTALX\r
-        ColourSchemeI cs = av.getGlobalColourScheme();\r
-        if(cs!=null)\r
-        {\r
-          if (cs.conservationApplied())\r
-          {\r
-            Conservation c = new Conservation("All",\r
-                                              ResidueProperties.propHash, 3,\r
-                                              av.alignment.getSequences(),\r
-                                              0, av.alignment.getWidth() - 1);\r
-            c.calculate();\r
-            c.verdict(false, av.ConsPercGaps);\r
-\r
-            if (cs instanceof ClustalxColourScheme)\r
-            {\r
-              ((ClustalxColourScheme)cs).\r
-                  resetClustalX(av.alignment.getSequences(),\r
-                                av.alignment.getWidth());\r
-\r
-              cs.setConservation(c);\r
-              av.setGlobalColourScheme(cs);\r
-            }\r
-            else\r
-            {\r
-              cs.setConservation(c);\r
-              av.setGlobalColourScheme(cs);\r
-            }\r
-\r
-          }\r
-\r
-          if (cs instanceof ClustalxColourScheme)\r
-          {\r
-            ( (ClustalxColourScheme) cs).resetClustalX(av.alignment.getSequences(),\r
-                                                       av.alignment.getWidth());\r
-            av.setGlobalColourScheme(cs);\r
-          }\r
-        }\r
     }\r
 \r
     /**\r