3 <title>Desktop Menus</title>
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7 <p><strong>Desktop Menus</strong></p>
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9 <li><em> <strong>File</strong></em>
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11 <li><strong>Input Alignment from</strong><em> (See more on <a
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12 href="../io/index.html">file formats</a>) </em>
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14 <li><strong>File (Control O)</strong><br>
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15 <em>open file(s) on your local file system</em></li>
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16 <li><strong>URL</strong><br>
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17 <em>open a file from a website. The URL MUST start with http://</em></li>
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18 <li><strong>Textbox</strong><br>
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19 <em>copy and paste an alignment into a text window</em></li>
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22 <li><strong>Fetch Sequence<br>
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23 </strong><em>Shows a dialog window in which you can select known ids from
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24 Uniprot, EMBL, EMBLCDS or PDB database using Web Services provided by
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25 the European Bioinformatics Institute.</em></li>
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26 <li><strong>Save Project</strong><br>
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27 <em>Saves all currently open alignment windows with their current
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28 view settings and any associated trees, as a <a
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29 href="../features/jalarchive.html">Jalview Archive</a> (which has a
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30 .jar extension).</em></li>
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31 <li><strong>Load Project</strong><br>
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32 <em>Loads Jalview archives <strong>only</strong>.</em></li>
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33 <li><strong>Quit</strong><br>
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34 <em>Close Jalview. <br>
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35 <strong>Note - any annotation you have made on alignments will be lost
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36 unless you Save your work before quitting.</strong></em><br>
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40 <li><strong>Tools </strong>
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42 <li><strong><a href="../features/preferences.html">Preferences<br>
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43 </a></strong><em>Change the default visual settings for opening new alignment
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44 windows.</em><strong><br>
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48 <li><strong>Help </strong>
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50 <li><strong>About<br>
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51 </strong><em>Displays the version and creation date of the application, as
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52 well as acknowledgements and a citation reference. </em></li>
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53 <li><strong>Documentation<br>
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54 </strong><em>Displays help files as a browseable, searchable set of pages
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55 with a table of contents. </em><strong><br>
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59 <li><strong>Window</strong><br>
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60 <em>Each time a new window is added to the Jalview Desktop a
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61 corresponding menu item will be added to the "Window" menu
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62 that will bring the window to the top of the pile when it is selected.
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64 <li><strong>Close All</strong><br>
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65 Close all alignment and analysis windows.<br><strong>Note: This will erase all alignments from memory, and cannot be undone!</strong></li>
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66 <li><strong>Raise Associated Windows</strong><br>
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67 Bring all windows associated with the current alignment to the top of the pile.
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69 <li><strong>Minimise Associated Windows</strong><br>
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70 Hide all windows related to the current alignment behind icons on the Jalview Desktop.
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