JAL-1503 gui changes (score models, flanking regions, trim retrieved sequences)

[jalview.git] / help / html / menus / wsmenu.html

diff --git a/help/html/menus/wsmenu.html b/help/html/menus/wsmenu.html
index f3a4102..0e050b1 100755 (executable)
--- a/help/html/menus/wsmenu.html
+++ b/help/html/menus/wsmenu.html
@@ -23,18 +23,29 @@
                <p><strong>Web Service Menu</strong><br /> <em>This menu
                                is dynamic, and may contain user-defined web service entries in
                                addition to any of the following ones:</em>
-                       <ul>
-                               <li><strong>Fetch DB References</strong><br> <em>This
-                                               will use any of the database services that Jalview is aware of
-                                               (e.g. DAS sequence servers and the WSDBFetch service provided by
-                                               the EBI) to verify the sequence and retrieve all database cross
-                                               references and PDB ids associated with all or just the selected
-                                               sequences in the alignment. <br />'Standard Databases' will check
-                                               sequences against the EBI databases plus any active DAS sequence
-                                               sources, or you can verify against a specific source from one of
-                                               the sub-menus.</em><br></li>
-                       </ul>
-                       <p>Selecting items from the following submenus will start a
+                       
+       <ul>
+               <li><strong>Fetch DB References</strong><br> <em>This
+                               submenu contains options for accessing any of the database services
+                               that Jalview is aware of (e.g. DAS sequence servers and the
+                               WSDBFetch service provided by the EBI) to verify sequence start/end
+                               positions and retrieve all database cross references and PDB ids
+                               associated with all or just the selected sequences in the alignment.
+                               <ul>
+                                       <li>'Retrieve full Sequence' - when checked, Jalview will
+                                               retrieve the full sequence for any accessions associated with
+                                               sequences in the alignment. <br> <strong>Note: This
+                                                       could cause out of memory errors when working with genomic
+                                                       sequence records !</strong><br> <strong>Added in Jalview 2.8.1</strong>
+                   </li>
+                                       <li>'Standard Databases' will check sequences against the EBI
+                                               databases plus any active DAS sequence sources<</li>
+                               </ul> Other submenus allow you to pick a specific source to query -
+                               sources are listed alphabetically according to their nickname.
+               </em>
+       </li>
+       </ul>
+       <p>Selecting items from the following submenus will start a
                                remote service on compute facilities at the University of Dundee, or
                                elsewhere. You need a continuous network connection in order to use
                                these services through Jalview.