X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2FhelpTOC.xml;h=7ba4ee506827438d03b68c60cd84cbccaf29c4cb;hb=7cf8d0f6898e8b367aac3e11e6212ed677785eaf;hp=62df81fb211515c094c7d0ca7b928acba7d2b51f;hpb=1aa769198666becd30648eed7f9037e9d0502ce9;p=jalview.git

diff --git a/help/helpTOC.xml b/help/helpTOC.xml
index 62df81f..7ba4ee5 100755
--- a/help/helpTOC.xml
+++ b/help/helpTOC.xml
@@ -24,10 +24,7 @@
 	<tocitem text="Jalview Documentation" target="home" expand="true">
 			<tocitem text="What's new" target="new" expand="true">
 				<tocitem text="Latest Release Notes" target="release"/>
-				<tocitem text="Groovy Features Counter example" target="groovy.featurescounter"/>
-				<tocitem text="Omit hidden regions in Overview" target="overview"/>
-				<tocitem text="identifers.org for URL Links" target="linksprefs" />
-				<tocitem text="New features in Split Frame View" target="splitframe.mirrorfonts" />
+        
 		</tocitem>
 		
 		<tocitem text="Editing Alignments" target="edit" />
@@ -108,8 +105,10 @@
 		
 		<tocitem text="Calculations" expand="false">
 			<tocitem text="Sorting alignments" target="sorting" />
-			<tocitem text="Calculating trees" target="trees" />
-			<tocitem text="Principal Component Analysis" target="pca" />
+			<tocitem text="Trees and PCA" target="calcs.dialog" expand="false">
+  			  <tocitem text="Calculating trees" target="trees" />
+  			  <tocitem text="Principal Component Analysis" target="pca" />
+  			</tocitem>
 			<tocitem text="Tree/PCA Input Data" target="recoverInputdata" />
 			<tocitem text="Pairwise Alignments" target="pairwise" />
 			<tocitem text="Remove Redundancy" target="redundancy" />