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<h3>
Nilesh Patra pushed to branch master
at <a href="https://salsa.debian.org/med-team/python-nanomath">Debian Med / python-nanomath</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-nanomath/-/commit/e250d60a12dcb4f6edc301298e20467f607116f1">e250d60a</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2020-12-22T23:25:33+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: New upstream version
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-nanomath/-/commit/55a3a27328ad97ea6148b62712340ffe13c219fb">55a3a273</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2020-12-22T23:25:34+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.2.0+ds</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-nanomath/-/commit/6b135f1a508bdb83d58e85ff9c8dd5ca2d898197">6b135f1a</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2020-12-22T23:25:35+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/1.2.0+ds'
Update to upstream version '1.2.0+ds'
with Debian dir 1dfa460bef55d7d7579dd6238d51f16d79e1831c</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-nanomath/-/commit/0f9035cd0173f140ef280bfef3891c389e6762e4">0f9035cd</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2020-12-22T23:25:35+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Standards-Version: 4.5.1
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-nanomath/-/commit/27af99f16ce5b9208bd2b4bc9b73728d3249abdf">27af99f1</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2020-12-22T23:28:53+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add myself to uploaders
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-nanomath/-/commit/fa4789ce3687c523e8a26b141579d6412a4465b3">fa4789ce</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2020-12-22T23:29:22+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update changelog
</pre>
</li>
</ul>
<h4>8 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#7d26833a43d8865f6d9679068f6f9ee7d6e13dcf">
PKG-INFO
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<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
</a>
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<li class="file-stats">
<a href="#561b88e19de321ca62c7590bbb350765fb110905">
README.rst
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<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
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<li class="file-stats">
<a href="#c721ed908bd00486c8fdcff084a92306d03e39eb">
nanomath.egg-info/PKG-INFO
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<li class="file-stats">
<a href="#bd8fd9949a7d37dd1ed7e503c3f6e15c777068ab">
nanomath/nanomath.py
</a>
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<li class="file-stats">
<a href="#d53a95c2a92a11bea71b033634233d5fa3e77146">
nanomath/version.py
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="7d26833a43d8865f6d9679068f6f9ee7d6e13dcf">
<a href="https://salsa.debian.org/med-team/python-nanomath/-/compare/27759b47ac2df4df43f7f0a053e222dab2ea6162...fa4789ce3687c523e8a26b141579d6412a4465b3#7d26833a43d8865f6d9679068f6f9ee7d6e13dcf"><strong>PKG-INFO</strong></a>
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<td class="diff-line-num new_line" data-linenumber="1" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Metadata-Version: 1.2</span>
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<td class="diff-line-num old_line" data-linenumber="2" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="2" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Name: nanomath</span>
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<td class="diff-line-num old old_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="diff-line-num new_line old" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">Version: 1.<span class="idiff left right">0.1</span></span>
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<td class="diff-line-num new old_line" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Version: 1.<span class="idiff left right">2.0</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Summary: A few simple math function for other Oxford Nanopore processing scripts</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="5" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="5" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Home-page: https://github.com/wdecoster/nanomath</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="6" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="6" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Author: Wouter De Coster</span>
</pre>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -11,6 +11,7 @@ Description: # nanomath</td>
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<td class="diff-line-num old_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> </span>
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<td class="diff-line-num old_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"> [](https://twitter.com/wouter_decoster)</span>
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<td class="diff-line-num old_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> [](https://anaconda.org/bioconda/nanomath)</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> [](https://tracker.debian.org/pkg/python-nanomath)</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"> [](https://travis-ci.org/wdecoster/nanomath)</span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"> [](https://landscape.io/github/wdecoster/nanomath/master)</span>
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<td class="diff-line-num new_line" data-linenumber="17" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"> </span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="33" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="34" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -33,7 +34,7 @@ Description: # nanomath</td>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="plaintext"> conda install -c bioconda nanomath</span>
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<td class="diff-line-num new_line" data-linenumber="35" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="plaintext"> ```</span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="plaintext"> </span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="plaintext"> ## STATUS</span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="plaintext"> ## STATUS<span class="idiff left right"> </span></span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="plaintext"> [](https://travis-ci.org/wdecoster/nanomath)</span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="plaintext"> </span>
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<a href="https://salsa.debian.org/med-team/python-nanomath/-/compare/27759b47ac2df4df43f7f0a053e222dab2ea6162...fa4789ce3687c523e8a26b141579d6412a4465b3#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d"><strong>README.md</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -3,6 +3,7 @@ This module provides a few simple math and statistics functions for other script</td>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="markdown"><span class="p">[</span><span class="nv" style="color: #008080;">![Twitter URL</span><span class="p">](</span><span class="sx" style="color: #d14;">https://img.shields.io/twitter/url/https/twitter.com/wouter_decoster.svg?style=social&label=Follow%20%40wouter_decoster</span><span class="p">)</span>](https://twitter.com/wouter_decoster)</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="markdown"><span class="p">[</span><span class="nv" style="color: #008080;">![install with conda</span><span class="p">](</span><span class="sx" style="color: #d14;">https://anaconda.org/bioconda/nanomath/badges/installer/conda.svg</span><span class="p">)</span>](https://anaconda.org/bioconda/nanomath)</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="markdown"><span class="p">[</span><span class="nv" style="color: #008080;">![install with Debian</span><span class="p">](</span><span class="sx" style="color: #d14;">https://www.debian.org/logos/button-mini.png</span><span class="p">)</span>](https://tracker.debian.org/pkg/python-nanomath)</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="markdown"><span class="p">[</span><span class="nv" style="color: #008080;">![Build Status</span><span class="p">](</span><span class="sx" style="color: #d14;">https://travis-ci.org/wdecoster/nanomath.svg?branch=master</span><span class="p">)</span>](https://travis-ci.org/wdecoster/nanomath)</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="markdown"><span class="p">[</span><span class="nv" style="color: #008080;">![Code Health</span><span class="p">](</span><span class="sx" style="color: #d14;">https://landscape.io/github/wdecoster/nanomath/master/landscape.svg?style=flat</span><span class="p">)</span>](https://landscape.io/github/wdecoster/nanomath/master)</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="markdown"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -25,7 +26,7 @@ or</td>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="markdown">conda install -c bioconda nanomath</span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="markdown"><span class="p">```</span></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">## STATUS</span></span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">## STATUS<span class="idiff left right"> </span></span></span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="markdown"><span class="p">[</span><span class="nv" style="color: #008080;">![Build Status</span><span class="p">](</span><span class="sx" style="color: #d14;">https://travis-ci.org/wdecoster/nanomath.svg?branch=master</span><span class="p">)</span>](https://travis-ci.org/wdecoster/nanomath)</span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="markdown"></span>
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<a href="https://salsa.debian.org/med-team/python-nanomath/-/compare/27759b47ac2df4df43f7f0a053e222dab2ea6162...fa4789ce3687c523e8a26b141579d6412a4465b3#561b88e19de321ca62c7590bbb350765fb110905"><strong>README.rst</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -4,7 +4,8 @@ nanomath</td>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">This module provides a few simple math and statistics functions for</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">other scripts processing Oxford Nanopore sequencing data</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext">|Twitter URL| |install with conda| |Build Status| |Code Health|</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">|Twitter URL| |install with conda| |install with Debian| |Build Status|</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">|Code Health|</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">FUNCTIONS</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">---------</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -54,6 +55,8 @@ If you use this tool, please consider citing our</td>
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<pre style="margin: 0;"> <span id="LC55" class="line" lang="plaintext"> :target: https://twitter.com/wouter_decoster</span>
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<pre style="margin: 0;"> <span id="LC56" class="line" lang="plaintext">.. |install with conda| image:: https://anaconda.org/bioconda/nanomath/badges/installer/conda.svg</span>
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<pre style="margin: 0;"> <span id="LC57" class="line" lang="plaintext"> :target: https://anaconda.org/bioconda/nanomath</span>
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="plaintext">.. |install with Debian| image:: https://www.debian.org/logos/button-mini.png</span>
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="plaintext"> :target: https://tracker.debian.org/pkg/python-nanomath</span>
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<pre style="margin: 0;"> <span id="LC60" class="line" lang="plaintext">.. |Build Status| image:: https://travis-ci.org/wdecoster/nanomath.svg?branch=master</span>
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<pre style="margin: 0;"> <span id="LC61" class="line" lang="plaintext"> :target: https://travis-ci.org/wdecoster/nanomath</span>
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<pre style="margin: 0;"> <span id="LC62" class="line" lang="plaintext">.. |Code Health| image:: https://landscape.io/github/wdecoster/nanomath/master/landscape.svg?style=flat</span>
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<a href="https://salsa.debian.org/med-team/python-nanomath/-/compare/27759b47ac2df4df43f7f0a053e222dab2ea6162...fa4789ce3687c523e8a26b141579d6412a4465b3#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">python-nanomath (1.2.0+ds-1) unstable; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> * New upstream version</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> * Standards-Version: 4.5.1 (routine-update)</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> * Add myself to uploaders</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> -- Nilesh Patra <npatra974@gmail.com> Tue, 22 Dec 2020 23:25:53 +0530</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">python-nanomath (1.0.1+ds-3) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> * Team upload</span>
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<a href="https://salsa.debian.org/med-team/python-nanomath/-/compare/27759b47ac2df4df43f7f0a053e222dab2ea6162...fa4789ce3687c523e8a26b141579d6412a4465b3#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -2,14 +2,14 @@ Source: python-nanomath</td>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext">Uploaders: Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">Uploaders: Andreas Tille <tille@debian.org><span class="idiff left right">, Nilesh Patra <npatra974@gmail.com></span></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 13),</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> dh-python,</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> python3,</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> python3-setuptools,</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> python3-deprecated,</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> python3-numpy <!nocheck>,</span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext">Standards-Version: 4.5.<span class="idiff left right">0</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">Standards-Version: 4.5.<span class="idiff left right">1</span></span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/python-nanomath</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/python-nanomath.git</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">Homepage: https://github.com/wdecoster/nanomath</span>
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<a href="https://salsa.debian.org/med-team/python-nanomath/-/compare/27759b47ac2df4df43f7f0a053e222dab2ea6162...fa4789ce3687c523e8a26b141579d6412a4465b3#c721ed908bd00486c8fdcff084a92306d03e39eb"><strong>nanomath.egg-info/PKG-INFO</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Metadata-Version: 1.2</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Name: nanomath</span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">Version: 1.<span class="idiff left right">0.1</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Version: 1.<span class="idiff left right">2.0</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Summary: A few simple math function for other Oxford Nanopore processing scripts</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Home-page: https://github.com/wdecoster/nanomath</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Author: Wouter De Coster</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -11,6 +11,7 @@ Description: # nanomath</td>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> </span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"> [](https://twitter.com/wouter_decoster)</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> [](https://anaconda.org/bioconda/nanomath)</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> [](https://tracker.debian.org/pkg/python-nanomath)</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"> [](https://travis-ci.org/wdecoster/nanomath)</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"> [](https://landscape.io/github/wdecoster/nanomath/master)</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"> </span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -33,7 +34,7 @@ Description: # nanomath</td>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="plaintext"> conda install -c bioconda nanomath</span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="plaintext"> ```</span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="plaintext"> </span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="plaintext"> ## STATUS</span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="plaintext"> ## STATUS<span class="idiff left right"> </span></span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="plaintext"> [](https://travis-ci.org/wdecoster/nanomath)</span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="plaintext"> </span>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="plaintext"> </span>
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<li id="bd8fd9949a7d37dd1ed7e503c3f6e15c777068ab">
<a href="https://salsa.debian.org/med-team/python-nanomath/-/compare/27759b47ac2df4df43f7f0a053e222dab2ea6162...fa4789ce3687c523e8a26b141579d6412a4465b3#bd8fd9949a7d37dd1ed7e503c3f6e15c777068ab"><strong>nanomath/nanomath.py</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -32,8 +32,10 @@ class Stats(object):</td>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_with_readIDs</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"readIDs"</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">df</span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="s" style="color: #d14;">"aligned_lengths"</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">df</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">number_of_bases_aligned</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">df</span><span class="p">[</span><span class="s" style="color: #d14;">"aligned_lengths"</span><span class="p">])</span></span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">fraction_bases_aligned</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">number_of_bases_aligned</span> <span class="o" style="font-weight: 600;">/</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">number_of_bases</span></span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">median_read_length</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">median</span><span class="p">(</span><span class="n" style="color: #333;">df</span><span class="p">[</span><span class="s" style="color: #d14;">"lengths"</span><span class="p">])</span></span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">mean_read_length</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">mean</span><span class="p">(</span><span class="n" style="color: #333;">df</span><span class="p">[</span><span class="s" style="color: #d14;">"lengths"</span><span class="p">])</span></span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">read_length_stdev</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">std</span><span class="p">(</span><span class="n" style="color: #333;">df</span><span class="p">[</span><span class="s" style="color: #d14;">"lengths"</span><span class="p">])</span></span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">n50</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">get_N50</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">sort</span><span class="p">(</span><span class="n" style="color: #333;">df</span><span class="p">[</span><span class="s" style="color: #d14;">"lengths"</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="s" style="color: #d14;">"percentIdentity"</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">df</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">average_identity</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">mean</span><span class="p">(</span><span class="n" style="color: #333;">df</span><span class="p">[</span><span class="s" style="color: #d14;">"percentIdentity"</span><span class="p">])</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -122,7 +124,6 @@ def remove_length_outliers(df, columnname):</td>
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<pre style="margin: 0;"> <span id="LC124" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">df</span><span class="p">[</span><span class="n" style="color: #333;">df</span><span class="p">[</span><span class="n" style="color: #333;">columnname</span><span class="p">]</span> <span class="o" style="font-weight: 600;"><</span> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">median</span><span class="p">(</span><span class="n" style="color: #333;">df</span><span class="p">[</span><span class="n" style="color: #333;">columnname</span><span class="p">])</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">3</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">std</span><span class="p">(</span><span class="n" style="color: #333;">df</span><span class="p">[</span><span class="n" style="color: #333;">columnname</span><span class="p">]))]</span></span>
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<pre style="margin: 0;"> <span id="LC125" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC126" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC125" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">deprecated</span></span>
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<pre style="margin: 0;"> <span id="LC127" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">errs_tab</span><span class="p">(</span><span class="n" style="color: #333;">n</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC128" class="line" lang="python"> <span class="s" style="color: #d14;">"""Generate list of error rates for qualities less than equal than n."""</span></span>
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<pre style="margin: 0;"> <span id="LC129" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="p">[</span><span class="mi" style="color: #099;">10</span><span class="o" style="font-weight: 600;">**</span><span class="p">(</span><span class="n" style="color: #333;">q</span> <span class="o" style="font-weight: 600;">/</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">10</span><span class="p">)</span> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">q</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">n</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">)]</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="198" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="199" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -198,8 +199,10 @@ def write_stats_legacy(stats, names, output, datadfs):</td>
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<pre style="margin: 0;"> <span id="LC199" class="line" lang="python"> <span class="s" style="color: #d14;">"Number of reads"</span><span class="p">:</span> <span class="s" style="color: #d14;">"number_of_reads"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC200" class="line" lang="python"> <span class="s" style="color: #d14;">"Total bases"</span><span class="p">:</span> <span class="s" style="color: #d14;">"number_of_bases"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC201" class="line" lang="python"> <span class="s" style="color: #d14;">"Total bases aligned"</span><span class="p">:</span> <span class="s" style="color: #d14;">"number_of_bases_aligned"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC202" class="line" lang="python"> <span class="s" style="color: #d14;">"Fraction of bases aligned"</span><span class="p">:</span> <span class="s" style="color: #d14;">"fraction_bases_aligned"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC203" class="line" lang="python"> <span class="s" style="color: #d14;">"Median read length"</span><span class="p">:</span> <span class="s" style="color: #d14;">"median_read_length"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC204" class="line" lang="python"> <span class="s" style="color: #d14;">"Mean read length"</span><span class="p">:</span> <span class="s" style="color: #d14;">"mean_read_length"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC205" class="line" lang="python"> <span class="s" style="color: #d14;">"STDEV read length"</span><span class="p">:</span> <span class="s" style="color: #d14;">"read_length_stdev"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC206" class="line" lang="python"> <span class="s" style="color: #d14;">"Read length N50"</span><span class="p">:</span> <span class="s" style="color: #d14;">"n50"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC207" class="line" lang="python"> <span class="s" style="color: #d14;">"Average percent identity"</span><span class="p">:</span> <span class="s" style="color: #d14;">"average_identity"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC208" class="line" lang="python"> <span class="s" style="color: #d14;">"Median percent identity"</span><span class="p">:</span> <span class="s" style="color: #d14;">"median_identity"</span><span class="p">,</span></span>
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<a href="https://salsa.debian.org/med-team/python-nanomath/-/compare/27759b47ac2df4df43f7f0a053e222dab2ea6162...fa4789ce3687c523e8a26b141579d6412a4465b3#d53a95c2a92a11bea71b033634233d5fa3e77146"><strong>nanomath/version.py</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="python"><span class="n" style="color: #333;">__version__</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"1.<span class="idiff left right">0.1</span>"</span></span></pre>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="python"><span class="n" style="color: #333;">__version__</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"1.<span class="idiff left right">2.0</span>"</span></span></pre>
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