X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Fmenus%2FalignmentMenu.html;fp=help%2Fhtml%2Fmenus%2FalignmentMenu.html;h=f3ab75dfbbc55786166c79c35ee50254ede337c9;hb=ff425ad8a4419c01b52734dc4054a509961c15c0;hp=00a2ec405971542b021a483760a965ebf40be132;hpb=95d7a34b009144b172d60bbb5827df2fbb43524e;p=jalview.git
diff --git a/help/html/menus/alignmentMenu.html b/help/html/menus/alignmentMenu.html
index 00a2ec4..f3ab75d 100755
--- a/help/html/menus/alignmentMenu.html
+++ b/help/html/menus/alignmentMenu.html
@@ -314,9 +314,7 @@
href="../features/featuresettings.html">Sequence
Feature Settings...
Opens the
Sequence Feature Settings dialog box to control the colour
- and display of sequence features on the alignment, and
- configure and retrieve features from DAS annotation
- servers.
+ and display of sequence features on the alignment.
Sequence ID Tooltip
(application only)
This submenu's options allow the
inclusion or exclusion of non-positional sequence features
@@ -579,28 +577,26 @@
is dynamic, and may contain user-defined web service entries in
addition to any of the following ones:
- - Fetch DB References
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.
-
- - 'Trim Retrieved Sequences' - when checked, Jalview
- will discard any additional sequence data for accessions
- associated with sequences in the alignment.
Note:
- Disabling this could cause out of memory errors when
- working with genomic sequence records !
Added
- in Jalview 2.8.1
-
- - 'Standard Databases' will check sequences against
- the EBI databases plus any active DAS sequence sources
-
Other sub-menus allow you to pick a specific source to query
- - sources are listed alphabetically according to their
- nickname.
-
-
+ Fetch DB References
This
+ submenu contains options for accessing any of the database
+ services that Jalview is aware of (e.g. those provided by
+ EMBL-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.
+
+ - 'Trim Retrieved Sequences' - when checked, Jalview will
+ discard any additional sequence data for accessions associated
+ with sequences in the alignment.
Note:
+ Disabling this could cause out of memory errors when working
+ with genomic sequence records !
Added
+ in Jalview 2.8.1
+
+ - 'Standard Databases' will check sequences against the
+ EBI databases.
+
Other sub-menus allow you to pick a specific source to query -
+ sources are listed alphabetically according to their nickname.
+
+
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