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<h2 id="headtitle">JABAWS MANUAL</h2>\r
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<p><span class="code">Connecting to service ProbconsWS on http://localhost:8080/ws ... OK<br />\r
Testing alignment with default parameters:FAILED<br />\r
Service ProbconsWS IS NOT FUNCTIONAL</span>If the web server did not respond the message looks like following: <span class="code">Connecting to service TcoffeeWS on http://localhost:8080/ws ... FAILED</span></p>\r
-<h3><a name="diffcontexts" id="diffcontexts"/></a></a>Running many JABAWS instances on the same server</h3>\r
+<h3><a name="diffcontexts" id="diffcontexts"/>Running many JABAWS instances on the same server</h3>\r
<p> JABAWS is supplied as a Web Application aRchive which can be dealt with as any other web applications. So it is perfectly possible to run two JABAWS instances from the same server. Just make two different contexts on your application server and unpack JABAWS in both of them. For example if your server name is http://www.align.ac.uk, and the context names are public and private. Than one group of users could be given a URL http://www.align.ac.uk/public and another http://www.align.ac.uk/private. These contexts will be served by two independent JABAWS instances, and could be configured differently. If you keep local engine enabled, make sure you reduce the number of threads local engine is allowed to use to avoid overloading the server. Alternatively two completely separate web application server instances (e.g. Apache-Tomcat) could be used. This will give you a better resilience and more flexibility in memory settings. </p>\r
<h3><a name="nocluster" id="nocluster"></a>JABAWS on a single server</h3>\r
<p>You can run JABAWS on a single server. Obviously the capacity will be limited, but may be sufficient for a small lab. Installed on a single server, JABAWS executes tasks in parallel, so the more cores the server has the more requests it will be able to handle. </p>\r
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