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<!doctype html>
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<title>read5.Reader API documentation</title>
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<script>window.addEventListener('DOMContentLoaded', () => hljs.initHighlighting())</script>
</head>
<body>
<main>
<article id="content">
<header>
<h1 class="title">Module <code>read5.Reader</code></h1>
</header>
<section id="section-intro">
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">#!/usr/bin/env python
# author: Jannes Spangenberg
# e-mail: jannes.spangenberg@uni-jena.de
# github: https://github.com/JannesSP
# website: https://jannessp.github.io
from read5.Exceptions import UnknownFileFormatException
from read5.Fast5Reader import Fast5Reader
from read5.Pod5Reader import Pod5Reader
from read5.Slow5Reader import Slow5Reader
def read(filepath : str):
'''
Autodetect file format using extension.
Raises UnknownFormatException if format is unknown.
Returns
-------
FileReader
FileReader object of the detected file format
'''
if filepath.lower().endswith('.fast5'):
return Fast5Reader(filepath)
elif filepath.lower().endswith('.slow5') or filepath.lower().endswith('.blow5'):
return Slow5Reader(filepath=filepath)
elif filepath.lower().endswith('.pod5'):
return Pod5Reader(filepath)
else:
raise UnknownFileFormatException(f'Unknown file format: {filepath.split(".")[-1]}')</code></pre>
</details>
</section>
<section>
</section>
<section>
</section>
<section>
<h2 class="section-title" id="header-functions">Functions</h2>
<dl>
<dt id="read5.Reader.read"><code class="name flex">
<span>def <span class="ident">read</span></span>(<span>filepath: str)</span>
</code></dt>
<dd>
<div class="desc"><p>Autodetect file format using extension.
Raises UnknownFormatException if format is unknown.</p>
<h2 id="returns">Returns</h2>
<dl>
<dt><code>FileReader</code></dt>
<dd>FileReader object of the detected file format</dd>
</dl></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def read(filepath : str):
'''
Autodetect file format using extension.
Raises UnknownFormatException if format is unknown.
Returns
-------
FileReader
FileReader object of the detected file format
'''
if filepath.lower().endswith('.fast5'):
return Fast5Reader(filepath)
elif filepath.lower().endswith('.slow5') or filepath.lower().endswith('.blow5'):
return Slow5Reader(filepath=filepath)
elif filepath.lower().endswith('.pod5'):
return Pod5Reader(filepath)
else:
raise UnknownFileFormatException(f'Unknown file format: {filepath.split(".")[-1]}')</code></pre>
</details>
</dd>
</dl>
</section>
<section>
</section>
</article>
<nav id="sidebar">
<h1>Index</h1>
<div class="toc">
<ul></ul>
</div>
<ul id="index">
<li><h3>Super-module</h3>
<ul>
<li><code><a title="read5" href="index.html">read5</a></code></li>
</ul>
</li>
<li><h3><a href="#header-functions">Functions</a></h3>
<ul class="">
<li><code><a title="read5.Reader.read" href="#read5.Reader.read">read</a></code></li>
</ul>
</li>
</ul>
</nav>
</main>
<footer id="footer">
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