X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FwebServices%2FwebServicesPrefs.html;h=0ebeea534691c7901a483f353aca2f73926425a7;hb=98083ecd871a655f658bff39606f683dfe62b9e4;hp=b7a9fb0ded3240f2238e37a8fa76de477751db34;hpb=59d682209891099d46b960509907c79e3fb276fe;p=jalview.git
diff --git a/help/html/webServices/webServicesPrefs.html b/help/html/webServices/webServicesPrefs.html
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@@ -1,85 +1,105 @@
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see
The Web Services Preferences Dialog Box
++ The Web Services Preferences Dialog Box +
-Jalview includes a range of web services clients for data -retrieval and analysis. The Web Services menu found in each -alignment window provides access to some of these services, and is -configured via the web services preference dialog box, -available from the Preferences panel from the Tools→Preferences... -menu from the Jalview Desktop window's menu bar.
--
- Configuring the list of JABAWS servers
The
- main area of the panel shows the list of JABAWS
- servers that Jalview is currently aware of. The list includes a colour coded status:
- green indicates that all services are available for a given server,
- amber signifies that one or more services on the server are not fully
- functional, and red highlights servers that could not be contacted or
- are not functional for some other reason.
-
A server's URL may be added, -edited by double clicking on it, or deleted by selecting it and using -the buttons below. After adding or editing a server's URL, you will be -asked if you wish to test the server. If you wish to do so, then first -ensure you can view the new server's test report, which will be output -on Jalview's standard console output (you can open Jalview's built in -console viewer via the Tools→Java Console menu -option).
-Controlling the layout of the Web Services Menu
-The range of services that Jalview is able to access depends upon your
-requirements, and local computational resources. However, when a large
-number of resources are available, then the entries and sub menus in the
-web services menu can quickly become unwieldly. The
-options in the lower part of the dialog box enable you to control the
-display of each type of analysis service client in the web services
-menu. In addition, indexing options are provided that enable you to
-define the layout of the menus provided for JABAWS services by sorting
-them into submenus according to analysis type and/or host server.
The web services preferences panel was added in Jalview -2.6, and server status indications added in Jalview 2.8.
-Web Services Invalid
-URL warnings
-Jalview may inform you of any problems contacting the web services by
-showing a dialog box like the one below:
-
The web services warnings dialog box was added in -Jalview 2.6.1
++ Jalview includes a range of web services clients for data retrieval + and analysis. The Web Services menu found in each alignment + window provides access to some of these services, and is configured + via the web services preference dialog box, available from + the Preferences panel from the Tools→Preferences... + menu from the Jalview Desktop window's menu bar. +
++
+ Configuring the list of JABAWS servers
The
+ main area of the panel shows the list of JABAWS
+ servers that Jalview is currently aware of. The list includes a
+ colour coded status: green indicates that all services are available
+ for a given server, amber signifies that one or more services on the
+ server are not fully functional, and red highlights servers that
+ could not be contacted or are not functional for some other reason.
+
+ A server's URL may be added, edited by double clicking on it, or + deleted by selecting it and using the buttons below. After adding or + editing a server's URL, you will be asked if you wish to test the + server. If you wish to do so, then first ensure you can view the new + server's test report, which will be output on Jalview's standard + console output (you can open Jalview's built in console viewer via + the Tools→Java Console menu option). +
+
+ Controlling the layout of the Web Services Menu
+ The range of services that Jalview is able to access depends upon
+ your requirements, and local computational resources. However, when
+ a large number of resources are available, then the entries and sub
+ menus in the web services menu can quickly become
+ unwieldly. The options in the lower part of the dialog box enable
+ you to control the display of each type of analysis service client
+ in the web services menu. In addition, indexing options are provided
+ that enable you to define the layout of the menus provided for
+ JABAWS services by sorting them into submenus according to analysis
+ type and/or host server.
+
+ The web services preferences panel was added in Jalview + 2.6, and server status indications added in Jalview 2.8. +
+
+ Web Services Invalid URL
+ warnings
Jalview may inform you of any problems
+ contacting the web services by showing a dialog box like the one
+ below:
+
+ The web services warnings dialog box was added in Jalview + 2.6.1 +