X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=inline;f=src%2Fjalview%2Fschemes%2FBlosum62ColourScheme.java;h=9d092599860175227545083e840dbf595350b41a;hb=2476d30e443b80cddbc953dd5285968a964eb42a;hp=fb6a392786ad3d0f4f84f3d384b2965538706792;hpb=a8f483d04205bb8273ee311c12968b7e86d205fa;p=jalview.git
diff --git a/src/jalview/schemes/Blosum62ColourScheme.java b/src/jalview/schemes/Blosum62ColourScheme.java
index fb6a392..9d09259 100755
--- a/src/jalview/schemes/Blosum62ColourScheme.java
+++ b/src/jalview/schemes/Blosum62ColourScheme.java
@@ -1,32 +1,33 @@
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
* This file is part of Jalview.
*
* Jalview is free software: you can redistribute it and/or
* modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
*
* Jalview is distributed in the hope that it will be useful, but
* WITHOUT ANY WARRANTY; without even the implied warranty
* of MERCHANTABILITY or FITNESS FOR A PARTICULAR
* PURPOSE. See the GNU General Public License for more details.
*
- * You should have received a copy of the GNU General Public License along with Jalview. If not, see .
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see .
* The Jalview Authors are detailed in the 'AUTHORS' file.
*/
package jalview.schemes;
import jalview.analysis.AAFrequency;
-
-import java.awt.Color;
-import java.util.Map;
-
import jalview.datamodel.AnnotatedCollectionI;
import jalview.datamodel.SequenceCollectionI;
import jalview.datamodel.SequenceI;
+import java.awt.Color;
+import java.util.Map;
+
public class Blosum62ColourScheme extends ResidueColourScheme
{
public Blosum62ColourScheme()
@@ -57,6 +58,7 @@ public class Blosum62ColourScheme extends ResidueColourScheme
if (max.indexOf(res) > -1)
{
+ // TODO use a constant here?
currentColour = new Color(154, 154, 255);
}
else
@@ -72,6 +74,7 @@ public class Blosum62ColourScheme extends ResidueColourScheme
if (c > 0)
{
+ // TODO use a constant here?
currentColour = new Color(204, 204, 255);
}
else
@@ -92,10 +95,11 @@ public class Blosum62ColourScheme extends ResidueColourScheme
return currentColour;
}
+
@Override
public ColourSchemeI applyTo(AnnotatedCollectionI sg,
Map hiddenRepSequences)
- {
+ {
ColourSchemeI newcs = super.applyTo(sg, hiddenRepSequences);
return newcs;
}