X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FAlignViewport.java;fp=src%2Fjalview%2Fgui%2FAlignViewport.java;h=407fa9421502f69d117ce5a02f228e634b07fb25;hb=7c581704d0ce30ffad302f199e0f44f689cd32fb;hp=7a01b274520cd95d72c9b0f51bf84d77555bb332;hpb=a6ca346b004955c9db88f437ecafa24919119443;p=jalview.git

diff --git a/src/jalview/gui/AlignViewport.java b/src/jalview/gui/AlignViewport.java
index 7a01b27..407fa94 100644
--- a/src/jalview/gui/AlignViewport.java
+++ b/src/jalview/gui/AlignViewport.java
@@ -138,8 +138,6 @@ public class AlignViewport extends AlignmentViewport implements
 
   Stack redoList = new Stack();
 
-  Hashtable sequenceColours;
-
   int thresholdTextColour = 0;
 
   Color textColour = Color.black;
@@ -934,35 +932,6 @@ public class AlignViewport extends AlignmentViewport implements
     showHiddenMarkers = show;
   }
 
-  public Color getSequenceColour(SequenceI seq)
-  {
-    if (sequenceColours == null || !sequenceColours.containsKey(seq))
-    {
-      return Color.white;
-    }
-    else
-    {
-      return (Color) sequenceColours.get(seq);
-    }
-  }
-
-  public void setSequenceColour(SequenceI seq, Color col)
-  {
-    if (sequenceColours == null)
-    {
-      sequenceColours = new Hashtable();
-    }
-
-    if (col == null)
-    {
-      sequenceColours.remove(seq);
-    }
-    else
-    {
-      sequenceColours.put(seq, col);
-    }
-  }
-
   /**
    * returns the visible column regions of the alignment
    * 
@@ -1044,23 +1013,6 @@ public class AlignViewport extends AlignmentViewport implements
     centreColumnLabels = centrecolumnlabels;
   }
 
-  public void updateSequenceIdColours()
-  {
-    if (sequenceColours == null)
-    {
-      sequenceColours = new Hashtable();
-    }
-    for (SequenceGroup sg : alignment.getGroups())
-    {
-      if (sg.idColour != null)
-      {
-        for (SequenceI s : sg.getSequences(getHiddenRepSequences()))
-        {
-          sequenceColours.put(s, sg.idColour);
-        }
-      }
-    }
-  }
 
   /**
    * enable or disable the display of Database Cross References in the sequence