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+<!--
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
+ * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
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+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+-->
+<html>
+<head>
+<title>The JABAWS system</title>
+</head>
+<body>
+<p><strong>The</strong> <strong><em>JA</em></strong>va <strong><em>B</em></strong>ioinformatics
+<strong><em>A</em></strong>nalysis <strong><em>W</em></strong>eb <strong><em>S</em></strong>ervices
+<strong>system</strong> (<strong>JABAWS</strong>)<br>
+Jalview includes a client for interacting with programmatic (SOAP) web
+services for the <a href="http://www.compbio.dundee.ac.uk/jabaws">JABAWS</a>
+service model, developed at the University of Dundee by Peter Troshin
+and Geoff Barton. This is an open source system that provides a
+framework for wrapping command line bioinformatics analysis programs
+that enables them to be executed locally or on a cluster using data and
+analysis parameters provided by a program linked with JABAWS directly or
+accessing it remotely <em>via</em> its web services interface.</p>
+<p>The list of JABAWS servers known to the Jalview desktop is shown
+in the <a href="webServicesPrefs.html">Web Services Preferences
+Panel</a>, and detailed information about a particular service is available
+from the help text and web pages accessible from its <a
+ href="webServicesParams.html">job parameters dialog box</a>.</p>
+<p><strong>Obtaining JABAWS</strong><br>
+One of the aims of JABAWS is to enable you to easily perform
+computationally intensive bioinformatics analysis tasks using your own
+computational facilities. It can be installed on a workstation to
+provide stand-alone execution of analysis programs, or as a job
+submission engine - enabling larger numbers of jobs to be handled. If
+you would like to download and install JABAWS for your own use, please
+go to <a href="http://www.compbio.dundee.ac.uk/jabaws">http://www.compbio.dundee.ac.uk/jabaws</a>
+for more information.</p>
+<p><strong>Configuring your own JABAWS services for use by
+Jalview</strong><br>
+Once you have downloaded and installed JABAWS, and verified it is
+working, all that is needed is to add your new JABAWS server's URL to
+the list in the <a href="webServicesPrefs.html">Web Services
+Preferences Panel</a>. After adding your service and saving your preferences
+or hitting the 'refresh web services' button, you should be able to
+submit jobs to the server via the alignment window's web services menu.
+Your JABAWS servers list is stored in your Jalview preferences, so you
+will only have to configure Jalview once for each new server.</p>
+<p><em>Support for accessing JABAWS servers was introduced in
+Jalview 2.6.</em></p>
+</body>
+</html>
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