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6 <title>Java Bioinformatics Analyses Web Services (JABAWS) manual - getting started</title>
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17 <td style="width:158px;"><a href="http://www.dundee.ac.uk"><img src="images/uod_lt_long.gif" width="158" height="90" alt="University of Dundee" class="logo" title="University of Dundee" longdesc="http://www.dundee.ac.uk"/></a></td>
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18 <td class="bg"><img src="images/jabaws201-2.png" width="263" height="60" alt="JABAWS-2.0.1" title="Java Bioinformatics Analysis Web Services version 2.0.1"/></td>
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19 <td class="bg"><img src="images/banner_right.png" alt="Disorder" width="200" height="80"/></td>
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27 <a href="index.html">Home</a>
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28 <a class="selected" href="quick_start.html">Getting Started</a>
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29 <a href="man_about.html">Manual</a>
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30 <a href="http://www.compbio.dundee.ac.uk/download">Download</a>
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31 <a href="PublicAnnualStat" title="JABAWS server usage statistics">Usage Statistics</a>
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32 <a href="ServiceStatus" title="JABAWS webservices status. Click to test all web services. Please be patient while the services are being checked">Services Status</a>
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33 <a href="contacts.html">Contact Us</a>
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34 <a href="http://www.compbio.dundee.ac.uk" title="University of Dundee, The Barton Group" >Barton Group</a></div>
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39 <h2 id="headtitle">Getting Started</h2>
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40 <h3><a name="whichjaba" id="whichjaba"></a>Choose a JABAWS distribution</h3>
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41 <table id="choicematrix">
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43 <th>I want to use JABAWS for...</th>
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44 <th>Quick Guide</th>
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47 <td>Running Muptiple Sequence Alignments through Jalview on my <strong>own</strong> computer</td>
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48 <td><a href="manual_qs_va.html#qsc">JABAWS Virtual Appliance (VA)</a></td>
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51 <td>Running JABAWS on the <strong>cloud</strong>, for one or many users</td>
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52 <td><a href="manual_qs_amazon.html#qsc">JABAWS on the Amazon cloud </a></td>
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55 <td>Running JABAWS for my group, lab, or organization on the <strong>local</strong> infrastructure </td>
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56 <td><a href="manual_qs_war.html#qsc">JABAWS Web Application aRchive (WAR)</a></td>
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59 <td>Accessing a JABAWS server from my own code</td>
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60 <td><a href="manual_qs_client.html#qsc">JABAWS Java Client</a></td>
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66 <h3>Running JABAWS on your local machine</h3>
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67 <ul><li>Download <a href="http://www.compbio.dundee.ac.uk/download/get?id=jabaws-vm.zip">JABAWS Virtual Appliance</a> (520M) </li>
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70 The Virtual Appliance (VA) package allows you to run a JABAWS server installed on TurnKey Linux as a
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71 virtual machine on your laptop or desktop computer. A <a href="man_servervm.html#whenvm">complete guide
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72 to the JABAWS VA</a> is given in the manual, but for the impatient, a brief instructions are given below:
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74 <p>If you work on Windows, Linux or Unix </p>
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76 <li>download and install <a href="http://www.vmware.com/products/player">VMWare Player</a>.</li>
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77 <li>Unpack the JABAWS virtual appliance and open it with VMware Player.</li>
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79 <p>If you work on Mac do the same using <a href="http://www.vmware.com/products/fusion/overview.html">VMware Fusion</a>, or for free alternative use a WAR JABAWS package. </p>
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80 <div id="testing_jabaws">
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82 <p>To check that your JABAWS virtual appliance is working visit the Services Status page available from the main JABAWS menu. For this enter the JABAWS URL for your new server into a web browser. This is shown once the appliance is booted up. </p>
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83 <p>Alternatively you can use Jalview to complete the testing. </p>
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84 <ol><li>Launch the desktop version of <a href="http://www.jalview.org/download.html">Jalview</a></li>
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85 <li>Open the Jalview desktop's preferences panel (from the Tools->Preferences menu option), select the <span class="hightlight">Webservices</span> panel and press the <span class="hightlight">New Service URL</span> button.</li>
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86 <li>Enter the JABAWS URL for your new server. This is shown once the appliance is booted up.</li>
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89 </div><!-- about end-->
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90 </div><!-- content end-->
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91 <div id="copyright">Last update: 28 June 2013<br/>Sasha Sherstnev, Peter Troshin, Jim Procter and Geoff Barton, The Barton Group, University of Dundee, UK</div>
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