X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp.jhm;h=210933b7b28e48b1bdb68090fe77ce356446f8ca;hb=6343ef96ba495c10379c367c9348c9b7d336b82c;hp=2dff0de026784a8a19fda8222cd88504538a22e9;hpb=cb8ec179c020265666678572815ab056a024da22;p=jalview.git

diff --git a/help/help.jhm b/help/help.jhm
index 2dff0de..210933b 100755
--- a/help/help.jhm
+++ b/help/help.jhm
@@ -8,20 +8,25 @@
    <mapID target="alannotation" url="html/features/annotation.html"/>
    <mapID target="keys" url="html/keys.html"/>
    <mapID target="cursor" url="html/features/cursorMode.html"/>
-   
+   <mapID target="search" url="html/features/search.html"/>   
    <mapID target="webservice" url="html/webServices/index.html"/>
    <mapID target="clustal" url="html/webServices/clustalw.html"/>
    <mapID target="muscle" url="html/webServices/muscle.html"/>
    <mapID target="jnet" url="html/webServices/jnet.html"/>
    <mapID target="seqfetch" url="html/features/seqfetch.html"/>
    <mapID target="seqfeatures" url="html/features/seqfeatures.html"/>
+   <mapID target="seqfeatures.settings" url="html/features/featuresettings.html"/>
    <mapID target="pdbviewer" url="html/features/pdbviewer.html"/>
    <mapID target="viewingpdbs" url="html/features/viewingpdbs.html"/>
    <mapID target="preferences" url="html/features/preferences.html"/>     
-  <mapID target="io" url="html/io/index.html"/>
+   <mapID target="io" url="html/io/index.html"/>
+   <mapID target="io.modellerpir" url="html/io/modellerpir.html"/>
    <mapID target="export" url="html/io/export.html"/>
    <mapID target="alformats" url="html/io/fileformats.html"/>
+   <mapID target="annotations.fileformat" url="html/features/annotationsFormat.html"/>
+   <mapID target="features.fileformat" url="html/features/featuresFormat.html"/>   
    <mapID target="edit" url="html/editing/index.html"/>
+   <mapID target="edit.selareas" url="html/editing/selectionAreas.html"/>
    <mapID target="jalarchive" url="html/features/jalarchive.html"/>
    <mapID target="trees" url="html/calculations/tree.html"/>
    <mapID target="sorting" url="html/calculations/sorting.html"/>
@@ -45,9 +50,10 @@
    <mapID target="colours.abovepid" url="html/colourSchemes/abovePID.html"/>
    <mapID target="colours.conservation" url="html/colourSchemes/conservation.html"/>
    <mapID target="colours.annotation" url="html/colourSchemes/annotationColouring.html"/>
-
+   
    <mapID target="calcs.alquality" url="html/calculations/quality.html"/>   
    <mapID target="calcs.alconserv" url="html/calculations/conservation.html"/>
+   <mapID target="calcs.consensus" url="html/calculations/consensus.html"/>
    
    <mapID target="menus" url="html/menus/index.html"/>
    <mapID target="desktopMenu" url="html/menus/desktopMenu.html"/>