From: James Procter <j.procter@dundee.ac.uk>
Date: Mon, 25 Sep 2023 16:54:44 +0000 (+0100)
Subject: JAL-3858 javadoc and slightly revised green linear shading - still not a perfect... 
X-Git-Tag: Release_2_11_3_0~6^2~26
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=d622d93ba5a3e596a4ea29bc1ba75bf2acacfdf0;p=jalview.git

JAL-3858 javadoc and slightly revised green linear shading - still not a perfect match to EBI AlphaFold
---

diff --git a/src/jalview/renderer/ContactMapRenderer.java b/src/jalview/renderer/ContactMapRenderer.java
index 0471145..bec0f1e 100644
--- a/src/jalview/renderer/ContactMapRenderer.java
+++ b/src/jalview/renderer/ContactMapRenderer.java
@@ -49,6 +49,15 @@ public abstract class ContactMapRenderer implements AnnotationRowRendererI
      */
     Color selMinColor, selMaxColor;
 
+    /**
+     * 
+     * @param no_data - colour when no data available
+     * @param hidden - colour if this row is hidden
+     * @param maxColor - colour for maximum value of contact
+     * @param minColor - colour for minimum value of contact
+     * @param selMinColor - min colour if the contact has been selected
+     * @param selMaxColor - max colour if contact is selected
+     */
     public Shading(Color no_data, Color hidden, Color maxColor,
             Color minColor, Color selMinColor, Color selMaxColor)
     {
@@ -79,8 +88,8 @@ public abstract class ContactMapRenderer implements AnnotationRowRendererI
       {
         return new Shading(Color.pink, Color.red,
 
-                new Color(246, 252, 243), new Color(0, 60, 26),
-                new Color(26, 0, 60), new Color(243, 246, 252));
+                new Color(247, 252, 245), new Color(0, 68, 28),
+                new Color(28, 0, 68), new Color(245,247,252));
       }
     };
   }