Merge branch 'develop' into bug/JAL-2255_seq-fetcher-broken-on-linux

[jalview.git] / help / helpTOC.xml

diff --git a/help/helpTOC.xml b/help/helpTOC.xml
index bf1710c..482ccdf 100755 (executable)
--- a/help/helpTOC.xml
+++ b/help/helpTOC.xml
@@ -23,9 +23,6 @@
 <!-- DO NOT WRAP THESE LINES - help2Website relies on each item being on one line! -->
        <tocitem text="Jalview Documentation" target="home" expand="true">
                        <tocitem text="What's new" target="new" expand="true">
-                               <tocitem text="Retrieval from ENSEMBL" target="ensemblfetch" />
-                               <tocitem text="UniProt Free Text Search" target="uniprotfetcher" />
-                               <tocitem text="SIFTS for mapping PDB structures to UniProt" target="siftsmapping" />
                                <tocitem text="Latest Release Notes" target="release"/>
                </tocitem>
                
@@ -73,7 +70,7 @@
                        <tocitem text="Sequence Alignment" target="msaservice"  expand="false">
                                <tocitem text="Multiple Alignment Subjobs" target="msaservice" />
                        </tocitem>
-                       <tocitem text="Secondary Structure Prediction" target="jnet" />
+                       <tocitem text="Secondary Structure Prediction" target="jpred" />
                        <tocitem text="RNAalifold RNA Secondary Structure Prediction" target="rnaalifold" />
                        <tocitem text="Protein Disorder Prediction" target="disorder" />
                        <tocitem text="Alignment Conservation Analysis" target="aacon" />
@@ -134,6 +131,9 @@
                        <tocitem text="Chimera Viewer" target="chimera" />                      
                </tocitem>
                <tocitem text="Viewing RNA structures" target="varna" expand="false"/>
+               <tocitem text="Opening URLs from Jalview" target="urllinks" expand="true">
+                   <tocitem text="Configuring URL Links" target="urllinkspref" />
+               </tocitem>
                <tocitem text="VAMSAS Data Exchange" target="vamsas">
                        <!-- what can Jalview share with other apps -->
                        <!-- what other apps exist -->