X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fschemes%2FColourSchemeI.java;h=6afa3ef133154bede8f8b55ebb96b5e7469e0e1e;hb=baa67039bb8cd4236ac4565a62291c0ba6366c07;hp=9cc74f11704bf10229f31c92e73ae8ec74bd0bf3;hpb=efc31b4a8d5cee63555586804a2b79c06bdb5a14;p=jalview.git

diff --git a/src/jalview/schemes/ColourSchemeI.java b/src/jalview/schemes/ColourSchemeI.java
index 9cc74f1..6afa3ef 100755
--- a/src/jalview/schemes/ColourSchemeI.java
+++ b/src/jalview/schemes/ColourSchemeI.java
@@ -1,6 +1,6 @@
 /*
  * Jalview - A Sequence Alignment Editor and Viewer
- * Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
+ * Copyright (C) 2006 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
  *
  * This program is free software; you can redistribute it and/or
  * modify it under the terms of the GNU General Public License
@@ -18,15 +18,27 @@
  */
 package jalview.schemes;
 
-import java.util.*;
-
 import java.awt.*;
 
 public interface ColourSchemeI
 {
-  public Color findColour(String aa);
+  public Color findColour(char c);
+
+  public Color findColour(char c, int j);
+
+  public void setConsensus(java.util.Hashtable [] h);
+
+  public void setConservation(jalview.analysis.Conservation c);
+
+  public boolean conservationApplied();
+
+  public void setConservationInc(int i);
+
+  public int getConservationInc();
+
+  public int getThreshold();
+
+  public void setThreshold(int ct, boolean ignoreGaps);
 
-  public Color findColour(String s, int j);
 
-  public void setConsensus(Vector v);
 }