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Issue #2815 has been updated by Markus Piotrowski.
<ul>
<li><strong>Description</strong> updated (<a title="View differences" href="https://redmine.open-bio.org/journals/diff/15318?detail_id=1570">diff</a>)</li>
<li><strong>Status</strong> changed from <i>New</i> to <i>Closed</i></li>
<li><strong>% Done</strong> changed from <i>0</i> to <i>100</i></li>
</ul>
<p>Commandline parser for MUSCLE has been merged to Biopython (ver. 1.5.1?)</p>
<hr />
<h1><a href="https://redmine.open-bio.org/issues/2815#change-15318">Bug #2815: Bio.Application command line interfaces</a></h1>
<ul><li>Author: Cymon J.</li>
<li>Status: Closed</li>
<li>Priority: Normal</li>
<li>Assignee: Biopython Dev Mailing List</li>
<li>Category: Main Distribution</li>
<li>Target version: Not Applicable</li>
<li>URL: </li></ul>
<p>Attached is a module to run the MUSCLE alignment programme based on the Bio.Applications interface.</p>
<p>A couple of helper functions are included MuscleAlign and ProfileMuscleAlign. Discussion on the dev-list suggests that helper functions are superfluous. Maybe, but I thought I'd include them anyway. A couple of unittests are included for the helper funcs.</p>
<p>C.</p>
<fieldset class="attachments"><legend>Files</legend>
<a href="https://redmine.open-bio.org/attachments/download/1279/MuscleAlign.py">MuscleAlign.py</a>
(29.1 KB)<br />
<a href="https://redmine.open-bio.org/attachments/download/1280/test_MuscleAlign.py">test_MuscleAlign.py</a>
(3.14 KB)<br />
<a href="https://redmine.open-bio.org/attachments/download/1285/Applications.py">Applications.py</a>
(45.5 KB)<br />
<a href="https://redmine.open-bio.org/attachments/download/1286/Applic.patch">Applic.patch</a>
(1.45 KB)<br />
<a href="https://redmine.open-bio.org/attachments/download/1296/TCoffeeCL.py">TCoffeeCL.py</a>
(1.65 KB)<br />
</fieldset>
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