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Issue #3395 has been updated by Travis Wrightsman.
<ul>
<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>
<li><strong>URL</strong> set to <i>https://github.com/biopython/biopython/issues/892</i></li>
</ul>
<p>Migrated to GitHub, see URL.</p>
<hr />
<h1><a href="https://redmine.open-bio.org/issues/3395#change-15311">Bug #3395: Biopython trie implementation can't load large data sets</a></h1>
<ul><li>Author: Michał Nowotka</li>
<li>Status: Closed</li>
<li>Priority: Normal</li>
<li>Assignee: Biopython Dev Mailing List</li>
<li>Category: Main Distribution</li>
<li>Target version: </li>
<li>URL: https://github.com/biopython/biopython/issues/892</li></ul>
<p>Imagine I have Biopython trie:</p>
<p>from Bio import trie<br />import gzip</p>
<p>f = gzip.open('/tmp/trie.dat.gz', 'w')<br />tr = trie.trie()<br />#fill in the trie<br />trie.save(f, trie)</p>
<p>Now /tmp/trie.dat.gz is about 50MB. Let's try to read it:</p>
<p>from Bio import trie<br />import gzip</p>
<p>f = gzip.open('/tmp/trie.dat.gz', 'r')<br />tr = trie.load(f)</p>
<p>Unfortunately I'm getting meaningless error saying:<br />"loading failed for some reason"</p>
<p>Any hints?</p>
<fieldset class="attachments"><legend>Files</legend>
<a href="https://redmine.open-bio.org/attachments/download/1746/trie_debug.patch">trie_debug.patch</a>
(1.63 KB)<br />
<a href="https://redmine.open-bio.org/attachments/download/1750/minimal_data.pkl">minimal_data.pkl</a>
(1.23 MB)<br />
<a href="https://redmine.open-bio.org/attachments/download/1751/minimal_data.pkl">minimal_data.pkl</a>
(1.24 MB)<br />
</fieldset>
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