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<a href="Bio-module.html">Package Bio</a> ::
<a href="Bio.config-module.html">Package config</a> ::
Module FormatRegistry
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<!-- ==================== MODULE DESCRIPTION ==================== -->
<h1 class="epydoc">Module FormatRegistry</h1><p class="nomargin-top"><span class="codelink"><a href="Bio.config.FormatRegistry-pysrc.html">source code</a></span></p>
<p>Implements a Registry to store Martel-type format expressions.</p>
<p>Classes: FormatRegistry Holds Biopython formats in a dictionary-like
interface. FormatObject Describes a Biopython file format.
FormatGroup Describes a group of Biopython file formats.</p>
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<a href="Bio.config.FormatRegistry.FormatRegistry-class.html" class="summary-name">FormatRegistry</a><br />
This implements a dictionary-like interface to Biopython file
formats.
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<a href="Bio.config.FormatRegistry.FormatObject-class.html" class="summary-name">FormatObject</a><br />
This object stores Biopython file formats and provides methods to
work on them.
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<a href="Bio.config.FormatRegistry.FormatGroup-class.html" class="summary-name">FormatGroup</a><br />
This object holds a group of FormatObjects.
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<td><span class="summary-sig"><a name="_parses_file"></a><span class="summary-sig-name">_parses_file</span>(<span class="summary-sig-arg">expression</span>,
<span class="summary-sig-arg">infile</span>,
<span class="summary-sig-arg">debug_level</span>)</span></td>
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<span class="codelink"><a href="Bio.config.FormatRegistry-pysrc.html#_parses_file">source code</a></span>
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<td><span class="summary-sig"><a name="_parses_string"></a><span class="summary-sig-name">_parses_string</span>(<span class="summary-sig-arg">expression</span>,
<span class="summary-sig-arg">s</span>,
<span class="summary-sig-arg">debug_level</span>)</span></td>
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<span class="summary-type"> </span>
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<td><span class="summary-sig"><a name="_normalize_expression"></a><span class="summary-sig-name">_normalize_expression</span>(<span class="summary-sig-arg">expression_or_path</span>)</span></td>
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<td><span class="summary-sig"><a name="_load_expression"></a><span class="summary-sig-name">_load_expression</span>(<span class="summary-sig-arg">path</span>)</span></td>
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<span class="codelink"><a href="Bio.config.FormatRegistry-pysrc.html#_load_expression">source code</a></span>
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<td><span class="summary-sig"><a name="_load_object"></a><span class="summary-sig-name">_load_object</span>(<span class="summary-sig-arg">path</span>)</span></td>
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<span class="summary-type"> </span>
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<td><span class="summary-sig"><a name="_load_first_existing"></a><span class="summary-sig-name">_load_first_existing</span>(<span class="summary-sig-arg">basemodulename</span>,
<span class="summary-sig-arg">possible_formats</span>)</span></td>
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<a href="Bio.config.FormatRegistry-module.html#formats" class="summary-name">formats</a> = <code title="formats, exporting 'blast', 'blastn', 'blastp', 'blastx', 'embl', 'emb\
l/65', 'empty', 'fasta', 'genbank', 'genbank-records', 'genbank-releas\
e', 'ipi', 'ncbi-blastn', 'ncbi-blastp', 'ncbi-blastx', 'ncbi-tblastn'\
, 'ncbi-tblastx', 'search', 'sequence', 'swissprot', 'swissprot/38', '\
swissprot/40', 'tblastn', 'tblastx', 'wu-blastn', 'wu-blastp', 'wu-bla\
stx'">formats, exporting 'blast', 'blastn', 'blastp', 'bla<code class="variable-ellipsis">...</code></code>
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<td align="left"><span class="table-header">Variables Details</span></td>
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<h3 class="epydoc">formats</h3>
<dl class="fields">
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<dt>Value:</dt>
<dd><table><tr><td><pre class="variable">
formats, exporting 'blast', 'blastn', 'blastp', 'blastx', 'embl', 'emb<span class="variable-linewrap"><img src="crarr.png" alt="\" /></span>
l/65', 'empty', 'fasta', 'genbank', 'genbank-records', 'genbank-releas<span class="variable-linewrap"><img src="crarr.png" alt="\" /></span>
e', 'ipi', 'ncbi-blastn', 'ncbi-blastp', 'ncbi-blastx', 'ncbi-tblastn'<span class="variable-linewrap"><img src="crarr.png" alt="\" /></span>
, 'ncbi-tblastx', 'search', 'sequence', 'swissprot', 'swissprot/38', '<span class="variable-linewrap"><img src="crarr.png" alt="\" /></span>
swissprot/40', 'tblastn', 'tblastx', 'wu-blastn', 'wu-blastp', 'wu-bla<span class="variable-linewrap"><img src="crarr.png" alt="\" /></span>
stx'
</pre></td></tr></table>
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