JAL-3210 Improvements to eclipse detection. New src tree and SwingJS updated from...

[jalview.git] / src / jalview / api / AlignViewportI.java

diff --git a/src/jalview/api/AlignViewportI.java b/src/jalview/api/AlignViewportI.java
index dcd3258..cec61f4 100644 (file)
--- a/src/jalview/api/AlignViewportI.java
+++ b/src/jalview/api/AlignViewportI.java
@@ -200,6 +200,12 @@ public interface AlignViewportI extends ViewStyleI
    * sub-groups, which may have their own colour schemes). A null value is used
    * for no residue colour (white).
    * 
+   * BH Note: It is critical that any call to
+   * AlignViewportI.setGlobalColourScheme is followed closely, if not
+   * immediately, by a call to AlignPanel.repaint(true, true) so that the
+   * overview is updated. When that happens, the sequence overview color caches
+   * are cleared.
+   * 
    * @param cs
    */
   void setGlobalColourScheme(ColourSchemeI cs);