X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2FhelpTOC.xml;h=2a068975c1ac5c655d7a8508c4ce4a0e282f9604;hb=08bde8d252a69d4d6a3b2497f759bd5d6f154a3f;hp=59d30e4db4122dd5b287e490eec361c0737eadee;hpb=a06dae8ee7ad7f67cdd380472cbfc19200f6c95f;p=jalview.git

diff --git a/help/helpTOC.xml b/help/helpTOC.xml
index 59d30e4..2a06897 100755
--- a/help/helpTOC.xml
+++ b/help/helpTOC.xml
@@ -14,6 +14,7 @@
   	<tocitem text="Making figures" target="export"/>
 	<tocitem text="Hidden Regions" target="hiddenRegions"/>
 	<tocitem text="Multiple Views" target="multipleviews"/>
+	<tocitem text="Viewing Trees" target="treeviewer" expand="false"/>
 	<tocitem text="Sequence Features" target="seqfeatures" expand="false">
           <tocitem text="Sequence Feature Settings" target="seqfeatures.settings"/>
           <tocitem text="Sequence Features File" target="features.fileformat"/>
@@ -57,7 +58,7 @@
 		<tocitem text="Pairwise Alignments" target="pairwise"/>
 		<tocitem text="Remove Redundancy" target="redundancy"/>
 	</tocitem>
-      	<tocitem text="Alignment Annotations" target ="alannotation" expand="false">
+  	<tocitem text="Alignment Annotations" target ="alannotation" expand="false">
           <tocitem text="Conservation" target="calcs.alconserv"/>
           <tocitem text="Quality" target="calcs.alquality"/>
           <tocitem text="Consensus" target="calcs.consensus"/>
@@ -88,6 +89,7 @@
           </tocitem>
         <tocitem text="Command Line" target="commandline" expand="false">
           <tocitem text="Command Line Arguments" target="clarguments"/>
+	      <tocitem text="Groovy Shell" target="groovy"/>
         </tocitem>
 </tocitem>
 <tocitem text="Useful information" expa nd="true">