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<h3>
Nilesh Patra pushed to branch master
at <a href="https://salsa.debian.org/med-team/swarm-cluster">Debian Med / swarm-cluster</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/swarm-cluster/-/commit/11a1f2f212227f1562e1193eba90226e5b24abe5">11a1f2f2</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-06-28T23:35:19+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/control: Add arm64 and ppc64el to architecture list
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/swarm-cluster/-/commit/ffa03ff69b3dec956e75a0f430645dd1a2aa39bc">ffa03ff6</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-06-28T23:35:19+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Bump debhelper-compat version to 13
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/swarm-cluster/-/commit/a526344cf8e5c08107c6c8a6624c316cfa129025">a526344c</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-06-28T23:35:19+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Declare compliance with policy 4.5.1
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/swarm-cluster/-/commit/d263cbabe926239805e9c6296cd3d6bee505613b">d263cbab</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-06-28T23:35:19+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add "Rules-Requires-Root: no"
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/swarm-cluster/-/commit/39b245a92822bdb8971c4162e4a188eadc435b11">39b245a9</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-06-28T23:35:19+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix privacy breach warns
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/swarm-cluster/-/commit/93e3d1faba7916fc84b41e7ba07eb846ab142994">93e3d1fa</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-06-28T23:35:52+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Interim changelog entry
</pre>
</li>
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<h4>4 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
</li>
<li class="file-stats">
<a href="#7fab45fa1cc88bacd79ff99d4820ca45a30667fa">
<span class="new-file">
+
debian/patches/privacy-breach.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/swarm-cluster/-/compare/de30942d7ab60fedff20a735f6ce9e968fe932bb...93e3d1faba7916fc84b41e7ba07eb846ab142994#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">swarm-cluster (3.1.0+dfsg-1) UNRELEASED; 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"> * <span class="idiff left right">d/watch: Fix watch regex</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> * <span class="idiff left right">Team Upload.</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> * New upstream version 3.1.0+dfsg</span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext"> * d/<span class="idiff left right">p/hardening.patch: Refresh</span></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"> * <span class="idiff left">d/p/allow_cxx_override.patch: Refr</span>es<span class="idiff right">h</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> * d/<span class="idiff left right">watch: Fix watch regex</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * <span class="idiff left right">Refresh patch</span>es</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> * Add d/salsa-ci.yml</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"> -- Nilesh Patra <nilesh@debian.org> Mon, 28 Jun 2021 23:10:20 +0530</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> * d/control:</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> - Add arm64 and ppc64el to architecture list</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> - Bump debhelper-compat version to 13</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> - Declare compliance with policy 4.5.1</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> - Add "Rules-Requires-Root: no"</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext"> * d/p/privacy-breach.patch: Fix privacy breach warns</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext"> -- Nilesh Patra <nilesh@debian.org> Mon, 28 Jun 2021 23:29:05 +0530</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">swarm-cluster (3.0.0+dfsg-2) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext"></span>
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<a href="https://salsa.debian.org/med-team/swarm-cluster/-/compare/de30942d7ab60fedff20a735f6ce9e968fe932bb...93e3d1faba7916fc84b41e7ba07eb846ab142994#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">@@ -4,16 +4,17 @@ Uploaders: Tim Booth <tbooth@ceh.ac.uk>,</td>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 1<span class="idiff left right">2</span>),</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 1<span class="idiff left right">3</span>),</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> man-db,</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> markdown</span>
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<pre style="margin: 0;">-<span id="LC10" 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="LC10" 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="LC11" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/swarm-cluster</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/swarm-cluster.git</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">Homepage: https://github.com/torognes/swarm</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext">Rules-Requires-Root: no</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">Package: swarm</span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="plaintext">Architecture: amd64</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext">Architecture: amd64<span class="idiff left right"> arm64 ppc64el</span></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">Depends: ${shlibs:Depends},</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"> ${misc:Depends}</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">Recommends: python3</span>
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<a href="https://salsa.debian.org/med-team/swarm-cluster/-/compare/de30942d7ab60fedff20a735f6ce9e968fe932bb...93e3d1faba7916fc84b41e7ba07eb846ab142994#7fab45fa1cc88bacd79ff99d4820ca45a30667fa"><strong>debian/patches/privacy-breach.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="p">Description: Avoid remote location access to fix privacy breach lintian warn</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="p">Author: Nilesh Patra <nilesh@debian.org></span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">Forwarded: Not-Needed</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"><span class="p">Last-Update: 2021-06-28</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/README.md</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/README.md</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="p">@@ -1,5 +1,3 @@</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-[](https://travis-ci.org/torognes/swarm) [](https://codecov.io/gh/torognes/swarm)</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> # swarm</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> A robust and fast clustering method for amplicon-based studies.</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"><span class="p">@@ -298,9 +296,6 @@</span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> is described in the figure below:</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-</span></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"> ### Count the number of amplicons per cluster ###</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"> You might want to check the size distribution of clusters (number of</span></pre>
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<a href="https://salsa.debian.org/med-team/swarm-cluster/-/compare/de30942d7ab60fedff20a735f6ce9e968fe932bb...93e3d1faba7916fc84b41e7ba07eb846ab142994#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">hardening.patch</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">allow_cxx_override.patch</span>
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"># fix_gcc6.patch</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">privacy-breach.patch</span></pre>
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