From: Jim Procter <jprocter@issues.jalview.org>
Date: Tue, 18 Jun 2019 13:53:48 +0000 (+0100)
Subject: JAL-3111 JAL-3080 documentation
X-Git-Tag: Release_2_11_0~7^2~2^2~6
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=35652a0a58a2cde4dd297174bacddcea9465f153;p=jalview.git

JAL-3111 JAL-3080 documentation
---

diff --git a/help/help/html/calculations/treeviewer.html b/help/help/html/calculations/treeviewer.html
index 8cb2b59..f326f19 100755
--- a/help/help/html/calculations/treeviewer.html
+++ b/help/help/html/calculations/treeviewer.html
@@ -42,16 +42,17 @@
     alignment, such as another tree viewer.
   </p>
   <p>
-    <strong><em><a name="partitioning">Grouping sequences by partitioning</a> the
-        tree at a particular distance</em></strong><br> Clicking anywhere along
-    the extent of the tree (but not on a leaf or internal node) defines
-    a tree 'partition', by cutting every branch of the tree spanning the
-    depth where the mouse-click occurred. Groups are created containing
-    sequences at the leaves of each connected sub tree. These groups are
-    each given a different colour, which are reflected in other windows
-    in the same way as if the sequence IDs were selected, and can be
-    edited in the same way as user defined sequence groups.
-  </p>
+		<strong><em><a name="partitioning">Grouping
+					sequences by partitioning</a> the tree at a particular distance</em></strong><br>
+		Clicking anywhere along the extent of the tree (but not on a leaf or
+		internal node) defines a tree 'partition', by cutting every branch of
+		the tree spanning the depth where the mouse-click occurred. A red line
+		will be shown where the partition was made, and groups are created
+		containing sequences at the leaves of each connected sub tree. These
+		groups are each given a different colour, which are reflected in other
+		windows in the same way as if the sequence IDs were selected, and can
+		be edited in the same way as user defined sequence groups.
+	</p>
   <p>
     Tree partitions are useful for comparing clusters produced by
     different methods and measures. They are also an effective way of
diff --git a/help/help/html/releases.html b/help/help/html/releases.html
index 88b0fd7..94d53cc 100755
--- a/help/help/html/releases.html
+++ b/help/help/html/releases.html
@@ -176,6 +176,8 @@ li:before {
 								<!-- JAL-3181 -->Consistent ordering of links in sequence id
 								popup menu
 							</li>
+							<li>
+							<!-- JAL-3080 -->Red line indicating tree-cut position not shown if no subgroups are created</li>
 						</ul></li>
 					<li><strong>Java 11 Support</strong>
 						<ul>