X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2FhelpTOC.xml;h=fc523480f7449d6db24a5467fc6a47705ddea4b1;hb=c61d65e607b781cc8d372bc78a0febcadc5c1884;hp=5252a302d01ae0c96e0581482a5c464547011403;hpb=96b6991703b70a1bbb0491f9946d397c9fcf5a38;p=jalview.git

diff --git a/help/helpTOC.xml b/help/helpTOC.xml
index 5252a30..fc52348 100755
--- a/help/helpTOC.xml
+++ b/help/helpTOC.xml
@@ -2,14 +2,7 @@
 <!DOCTYPE toc PUBLIC "-//Sun Microsystems Inc.//DTD JavaHelp TOC Version 1.0//EN" "http://java.sun.com/products/javahelp/toc_1_0.dtd">
 <toc version="1.0">
 <tocitem text="Jalview Documentation" target="home" expand="true" >
-	<tocitem text="What's new" target="new" expand="true">
-	  <tocitem text="Multiple Views" target="multipleviews"/>
-	  <tocitem text="New keystrokes and Menus" target="newkeys"/>
-	  <tocitem text="Reload and Save" target="reloadsave"/>
-	  <tocitem text="Creating Sequence Features" target="seqfeatcreat"/>
-	  <tocitem text="Amending or Deleting Sequence Features" target="seqfeatedit"/>
-      <tocitem text="Background Dependent Text Colour" target="backdeptextcol"/>
-          </tocitem>
+	<tocitem text="What's new" target="new" expand="true"/>
         <tocitem text="Release History" target="release"/>
         <tocitem text="Editing Alignments" target ="edit"/>	
         <tocitem text="Cursor Mode" target="cursor"/>
@@ -18,10 +11,11 @@
   	<tocitem text="Making figures" target="export"/>
 	<tocitem text="Hidden Regions" target="hiddenRegions"/>
 	<tocitem text="Viewing PDB Files" target="viewingpdbs"/>
+	<tocitem text="Multiple Views" target="multipleviews"/>
 	<tocitem text="Sequence Features" target="seqfeatures" expand="false">
           <tocitem text="Sequence Feature Settings" target="seqfeatures.settings"/>
           <tocitem text="Sequence Features File" target="features.fileformat"/>
-          <tocitem text="User Defined Sequence Features" target="search"/>
+          <tocitem text="User Defined Sequence Features" target="seqfeatcreat"/>
 		  <tocitem text="Editing Sequence Features" target="seqfeatedit"/>
           <tocitem text="DAS Feature Retrieval" target="das.viewing"/>
 	  <tocitem text="DAS Feature Settings" target="das.settings"/>
@@ -36,6 +30,7 @@
           <tocitem text="Secondary Structure Prediction" target="jnet"/>
 	</tocitem>
 	<tocitem text="Colour Schemes" target="colours" expand="false">
+		<tocitem text="Background Dependent Text Colour" target="backdeptextcol"/>
 		<tocitem text="ClustalX" target="colours.clustal"/>
 		<tocitem text="Zappo" target="colours.zappo"/>
 		<tocitem text="Taylor" target="colours.taylor"/>