2.2.1 changes

diff --git a/help/help.jhm b/help/help.jhm
index 176569b..1ff788f 100755 (executable)
--- a/help/help.jhm
+++ b/help/help.jhm
@@ -34,7 +34,6 @@
    <mapID target="edit" url="html/editing/index.html"/>
    <mapID target="jalarchive" url="html/features/jalarchive.html"/>
    <mapID target="multipleviews" url="html/features/multipleViews.html"/>
-   <mapID target="reloadsave" url="html/features/reloadSave.html"/>
    <mapID target="trees" url="html/calculations/tree.html"/>
    <mapID target="sorting" url="html/calculations/sorting.html"/>
    <mapID target="pca" url="html/calculations/pca.html"/>

diff --git a/help/helpTOC.xml b/help/helpTOC.xml
index c0c7f2c..fc52348 100755 (executable)
--- 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"/>
@@ -18,6 +11,7 @@
        <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"/>
@@ -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"/>