X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp%2FhelpTOC.xml;h=d7ff3d43837fc5cbbf94dc1ce8a9debdb9dbfdf9;hb=4882f6845b3a82307f68ccc376d36a2f4c884720;hp=11e61beea46acca89d6136ec7829654ca7fd87bc;hpb=717b6f682f69435671f905bf6ebdaa4c996ab507;p=jalview.git

diff --git a/help/help/helpTOC.xml b/help/help/helpTOC.xml
index 11e61be..d7ff3d4 100755
--- a/help/help/helpTOC.xml
+++ b/help/help/helpTOC.xml
@@ -169,16 +169,17 @@
 			<tocitem text="Groovy Features Counter example" target="groovy.featurescounter"/>
 		</tocitem>
 		<tocitem text="Command Line" target="commandline" expand="false">
-			<tocitem text="Command Line Arguments: summary" target="clarguments" />
-			<tocitem text="Command Line Arguments: introduction" target="clarguments-intro" />
-			<tocitem text="Command Line Arguments: basic usage" target="clarguments-basic" />
-			<tocitem text="Command Line Arguments: advanced usage" target="clarguments-advanced" />
-			<tocitem text="Command Line Arguments: argfiles" target="clarguments-argfiles" />
+			<tocitem text="Command Line: introduction and reference" target="clarguments" />
+			<tocitem text="Command Line: basic usage" target="clarguments-basic" />
+			<tocitem text="Command Line: advanced usage" target="clarguments-advanced" />
+			<tocitem text="Command Line: argument files" target="clarguments-argfiles" />
+			<tocitem text="Command Line: reference" target="clarguments-reference" />
+			<tocitem text="Command Line: old command line arguments" target="clarguments-old" />
 		</tocitem>
 		<tocitem text="Memory Settings" target="memory" expand="false"/>
 		<tocitem text="Jalview Launch Files" target="jvlfiles" expand="false"/>
+		<tocitem text="Privacy" target="privacy" />
     </tocitem>
-	<tocitem text="Privacy" target="privacy" />
 	<tocitem text="Useful information" expand="true">
 		<tocitem text="Amino Acid Table" target="aminoAcids" />
 		<tocitem text="Amino Acid Properties" target="aaProperties" />