X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2FhelpTOC.xml;h=bf1710c3bef0cb8a5d63fe721b9005223a7eaf91;hb=f80f1dd5762b7c035ca2502f35f059e9f5fe5a49;hp=f5b28f77f7ace3c114e707c794f4f146cbcb5b9f;hpb=370ecee394d9a148a868c9185242e6381b5deb6c;p=jalview.git

diff --git a/help/helpTOC.xml b/help/helpTOC.xml
index f5b28f7..bf1710c 100755
--- a/help/helpTOC.xml
+++ b/help/helpTOC.xml
@@ -23,11 +23,9 @@
 <!-- DO NOT WRAP THESE LINES - help2Website relies on each item being on one line! -->
 	<tocitem text="Jalview Documentation" target="home" expand="true">
 			<tocitem text="What's new" target="new" expand="true">
-				<tocitem text="Split Frame View" target="splitframe" />
-				<tocitem text="PDB Sequence Fetcher" target="pdbfetcher" />
-				<tocitem text="PDB Structure Chooser" target="pdbchooser" />
-				<tocitem text="Chimera Viewer" target="chimera" />
-				<tocitem text="Select Columns by Annotation" target="selectcolbyannot" />
+				<tocitem text="Retrieval from ENSEMBL" target="ensemblfetch" />
+				<tocitem text="UniProt Free Text Search" target="uniprotfetcher" />
+				<tocitem text="SIFTS for mapping PDB structures to UniProt" target="siftsmapping" />
 				<tocitem text="Latest Release Notes" target="release"/>
 		</tocitem>
 		
@@ -107,7 +105,7 @@
 			<tocitem text="By RNA Helices" target="colours.rnahelices" />
 		</tocitem>
 		
-		<tocitem text="Calculations" target="calculations" expand="false">
+		<tocitem text="Calculations" expand="false">
 			<tocitem text="Sorting alignments" target="sorting" />
 			<tocitem text="Calculating trees" target="trees" />
 			<tocitem text="Principal Component Analysis" target="pca" />
@@ -158,9 +156,11 @@
 		</tocitem>
 		<tocitem text="Preferences" target="preferences" />
 		<tocitem text="Memory Settings" target="memory" expand="false"/>
+		<tocitem text="Scripting with Groovy" target="groovy">
+			<tocitem text="Groovy Feature Counter example" target="groovy.featurecounter"/>
+		</tocitem>
 		<tocitem text="Command Line" target="commandline" expand="false">
 			<tocitem text="Command Line Arguments" target="clarguments" />
-			<tocitem text="Groovy Shell" target="groovy" />
 		</tocitem>
 		<tocitem text="Privacy" target="privacy" />
 	</tocitem>