X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Ffeatures%2FhiddenRegions.html;h=bde6a8dac13b62798330c81041df19a25ebc1b2b;hb=4fe43371b9524afd658c97c8767cf7e6dc84459e;hp=3f7b59970a12b98ac1cde5201504ac55c90e7813;hpb=bb5c8d98be1c4965b1a43b97f05b07e9ceb10343;p=jalview.git

diff --git a/help/html/features/hiddenRegions.html b/help/html/features/hiddenRegions.html
index 3f7b599..bde6a8d 100644
--- a/help/html/features/hiddenRegions.html
+++ b/help/html/features/hiddenRegions.html
@@ -23,13 +23,22 @@ performed on the visible group representative will be propogated to all
 the sequences in that group. <br>
 The hidden representative sequences will not be used in any calculations
 or web service alignments (<em>nb. this may change in the future</em>).
-<br>
-<blockquote><em><strong>Warning:</strong>hidden
-representative sequence groups are only partly implemented in the
-jalview 2.2 release. When a hidden representative group is created in
-one alignment view, it will be propagated to all other views. Similarly,
-revealing the represented sequences in one view will reveal them in all
-other views. This will be resolved in a future Jalview release. </em></blockquote>
+<p><strong><em>Hidden Sequence Representatives and
+Multiple Views</em></strong><br>
+<em>A word of warning: hidden representative sequence groups are
+only partly implemented in the jalview 2.2 release, and the following
+issues will be resolved in the future.</em><br>
+Currently, represented hidden groups are only made correctly if there is
+just one alignment view. When multiple views on an alignment exist, then
+the represented group will be displayed correctly in the view in which
+it was made, but in other views, both representative and hidden
+sequences will be visible, but will behave as if they are grouped. <br>
+Hidden representatives are propagated correctly to a new view if they
+exist in the current view. However, if the represented sequences are
+revealed in any one view, then in all other views they will simply be
+marked as hidden, and their association with the representative sequence
+will be lost.<br>
+</blockquote>
 </p>
 <p><strong><em>Hiding Columns</em></strong><br>
 To hide selected columns in an alignment, use the <strong>&quot;View