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Issue #3004 has been updated by Peter Cock.
<ul>
<li><strong>Description</strong> updated (<a title="View differences" href="https://redmine.open-bio.org/journals/diff/15343?detail_id=1614">diff</a>)</li>
<li><strong>Status</strong> changed from <i>New</i> to <i>Resolved</i></li>
<li><strong>% Done</strong> changed from <i>0</i> to <i>100</i></li>
</ul>
<p>Agreed, relatively new module Bio.SearchIO handles BLAT-PSL files, so I think this has been resolved. e.g.</p>
<p>from Bio import SearchIO<br />query = SearchIO.read('test.psl','blat-psl')</p>
<p>Hopefully that works for Vince's use case - further enhancements welcomed.</p>
<p>Marking issue as resolved, thank you all.</p>
<hr />
<h1><a href="https://redmine.open-bio.org/issues/3004#change-15343">Bug #3004: PSL alignment format parsing</a></h1>
<ul><li>Author: Vince Forgetta</li>
<li>Status: Resolved</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>Hi Bio-pythonistas,</p>
<p>I am interested in contributing code to biopython. I have developed a class to represent PSL output from the BLAT alignment program. I would like to contribute it to the AlignIO module. I have read through and agree to the guidelines stipulated on <a class="external" href="http://biopython.org/wiki/Contributing">http://biopython.org/wiki/Contributing</a>. I have never written unit tests before, but I am willing to learn.</p>
<p>Thanks.</p>
<p>Vince</p>
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