X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp.jhm;h=2e7bec779ebc9c688a51a4b5a7cc7dbe0368d646;hb=refs%2Ftags%2FRelease_2_4_0;hp=1ff788facfb3d3fd4aa208fb4617eaa90646ef2c;hpb=8c5dab7c7f049ac9f65a096bb243895cc49e4cd4;p=jalview.git

diff --git a/help/help.jhm b/help/help.jhm
index 1ff788f..2e7bec7 100755
--- a/help/help.jhm
+++ b/help/help.jhm
@@ -17,12 +17,18 @@
    <mapID target="mafft" url="html/webServices/mafft.html"/>
    <mapID target="jnet" url="html/webServices/jnet.html"/>
    <mapID target="seqfetch" url="html/features/seqfetch.html"/>
+   <mapID target="seqmappings" url="html/features/seqmappings.html"/>
+   <mapID target="cdnafeatures" url="html/features/codingfeatures.html"/>
    <mapID target="seqfeatures" url="html/features/seqfeatures.html"/>
    <mapID target="seqfeatedit" url="html/features/editingFeatures.html"/>
    <mapID target="seqfeatcreat" url="html/features/creatinFeatures.html"/>
    <mapID target="seqfeatures.settings" url="html/features/featuresettings.html"/>
    <mapID target="viewingpdbs" url="html/features/viewingpdbs.html"/>
+   <mapID target="pdbmcviewer" url="html/features/pdbviewer.html"/>
+   <mapID target="pdbjmol" url="html/features/jmol.html"/>
    <mapID target="preferences" url="html/features/preferences.html"/>     
+   <mapID target="commandline" url="html/features/commandline.html"/>
+   <mapID target="clarguments" url="html/features/clarguments.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"/>
@@ -35,6 +41,7 @@
    <mapID target="jalarchive" url="html/features/jalarchive.html"/>
    <mapID target="multipleviews" url="html/features/multipleViews.html"/>
    <mapID target="trees" url="html/calculations/tree.html"/>
+   <mapID target="treeviewer" url="html/calculations/treeviewer.html"/>
    <mapID target="sorting" url="html/calculations/sorting.html"/>
    <mapID target="pca" url="html/calculations/pca.html"/>
    <mapID target="pairwise" url="html/calculations/pairwise.html"/>
@@ -80,7 +87,8 @@
    
    <mapID target="memory" url="html/memory.html" />
    <mapID target="jalviewjnlp" url="html/jalviewjnlp.html" />
-   
+   <mapID target="groovy" url="html/features/groovy.html" />
+   <mapID target="vamsas" url="html/vamsas/index.html"/>
    <mapID target="aminoAcids" url="html/misc/aminoAcids.html" />
    <mapID target="aaProperties" url="html/misc/aaproperties.html" />
    <mapID target="geneticCode" url="html/misc/geneticCode.html" />