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<h3>
Michael R. Crusoe pushed to branch master
at <a href="https://salsa.debian.org/med-team/pufferfish">Debian Med / pufferfish</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/pufferfish/-/commit/a765ae2cbed41b00d423693728b9297f600fee4d">a765ae2c</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-07-08T17:44:41+02:00</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/pufferfish/-/commit/18d91ee0a20dcfa8adb5da967214ba79b13409cd">18d91ee0</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-07-08T17:44:44+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.3.0</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pufferfish/-/commit/0ea2d163fda30485ea0901462406d461309ac964">0ea2d163</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-07-08T17:44:53+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/1.3.0'
Update to upstream version '1.3.0'
with Debian dir df71c7791f5aec2246102681f919c610f9b7e39b</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pufferfish/-/commit/dd27b36f092627b26489f31cc3debbd00663b7ca">dd27b36f</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-07-08T17:44:54+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: debhelper-compat 13
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pufferfish/-/commit/a694b56fee0dfdd2d617afaa6b84db35fa648acf">a694b56f</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-07-08T17:51:45+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">refresh patch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pufferfish/-/commit/146e660b3b288742324b42c380d75c5f275db89c">146e660b</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-07-08T17:52:13+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Remove trailing whitespace in debian/copyright
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pufferfish/-/commit/ffdcb756e27b1c94bcb4f873328b922b1c283e87">ffdcb756</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-07-08T17:52:15+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Add salsa-ci file
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pufferfish/-/commit/c4027f5f6ab952308c65c09a93be55cc65cf33fa">c4027f5f</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-07-08T17:52:18+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Rules-Requires-Root: no
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pufferfish/-/commit/9c37c8675543f9dbfbbc30b9290188d52e505e01">9c37c867</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-07-08T18:10:07+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">cleanup changelog
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pufferfish/-/commit/753ce11c3e7938fc674733ff6c09e790d6ab22f2">753ce11c</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2021-01-19T08:03:12+01:00</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/pufferfish/-/commit/574e179dc42a22c34907e665502e4bcb494ba689">574e179d</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2021-01-19T08:03:16+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.4.0</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pufferfish/-/commit/e86892b80cef9f6f6076cbc60843365856b91b4c">e86892b8</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2021-01-19T08:03:29+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/1.4.0'
Update to upstream version '1.4.0'
with Debian dir da654e1aba2daf1eaa93e658b2fd904a25379388</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pufferfish/-/commit/6bb5fbe6aefdebf152c99c05168619254221d0c3">6bb5fbe6</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2021-01-19T08:03:30+01:00</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/pufferfish/-/commit/1d810646560f46eac0b53801eb923cd2d3ac38c6">1d810646</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2021-01-19T08:07:45+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">set package name in autopkgtest script
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pufferfish/-/commit/a9d2d3ff72b2683b18f152fcc23312f4fdd5c669">a9d2d3ff</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2021-01-19T08:14:45+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">refresh patches
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pufferfish/-/commit/dd7b8d211152f06dc87002f9b61517e89b9bd683">dd7b8d21</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2021-01-19T08:23:16+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">clean up changelog
</pre>
</li>
</ul>
<h4>30 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9a2aa4db38d3115ed60da621e012c0efc0172aae">
CMakeLists.txt
</a>
</li>
<li class="file-stats">
<a href="#c7f40a54d00d6f8d8d6ed620e9eca2fc44022b21">
cmake/Modules/FindJemalloc.cmake
</a>
</li>
<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="#adb7f75f79e3bb85eb62912a2904c5d24af878fb">
debian/copyright
</a>
</li>
<li class="file-stats">
<a href="#a5d7130a87d819a848732eeb001d32bed52f914f">
debian/patches/use-debian-libs
</a>
</li>
<li class="file-stats">
<a href="#b1dbf22e88351ec0d5d1d1a7f53295504b480e61">
<span class="new-file">
+
debian/salsa-ci.yml
</span>
</a>
</li>
<li class="file-stats">
<a href="#8c77cc51b09ef1f7b294222180bcdb53ebb70e2f">
debian/tests/run-unit-test
</a>
</li>
<li class="file-stats">
<a href="#0cdcd8b6fa9cad7b7edf84337624bd68723d9a99">
external/twopaco/graphdump/compact_vector/compact_vector.hpp
</a>
</li>
<li class="file-stats">
<a href="#c1a540cdfa755e5829e6e18f1f800bdb75d90d52">
external/twopaco/graphdump/graphdumpBinaryWriter.hpp
</a>
</li>
<li class="file-stats">
<a href="#e246b7a1c95906b59ca509ef776a45d2fb355183">
include/BooPHF.hpp
</a>
</li>
<li class="file-stats">
<a href="#de02568c28d56bc84ff0af2e1219cb4a6ccdf129">
<span class="new-file">
+
include/BulkChunk.hpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#c92fe97bfcf70e719e41bcb995080af63080e6ab">
include/CanonicalKmer.hpp
</a>
</li>
<li class="file-stats">
<a href="#bdae7d1bb96a0125504ac0350f4eb4ded0ce8a91">
include/CanonicalKmerIterator.hpp
</a>
</li>
<li class="file-stats">
<a href="#335609a35be34ca99f8e15537a878ae3e11a6051">
include/FastxParserThreadUtils.hpp
</a>
</li>
<li class="file-stats">
<a href="#f46f3adfc4612060db21de5f61d5e5797a5188a6">
include/Kmer.hpp
</a>
</li>
<li class="file-stats">
<a href="#55b80417ada337567eab3c468442b3f6adecfa14">
include/MemChainer.hpp
</a>
</li>
<li class="file-stats">
<a href="#1e611787eca8d4d72a3cb5c9fb2540c530f467cd">
include/MemCollector.hpp
</a>
</li>
<li class="file-stats">
<a href="#b05a13d547dca02a3a175af0ca173edcb6c1cfc8">
include/ProgOpts.hpp
</a>
</li>
<li class="file-stats">
<a href="#c4d7fdcc35daf07fcc1ca0d4aa58e38a4ce4168f">
include/PuffAligner.hpp
</a>
</li>
<li class="file-stats">
<a href="#5645c619e1120d632ee42ac9ef9d4bc62cb1326f">
include/PufferfishBaseIndex.hpp
</a>
</li>
<li class="file-stats">
<a href="#247bc555f1e15bad867296126e723eaf9d1bc46a">
include/PufferfishIndex.hpp
</a>
</li>
<li class="file-stats">
<a href="#d4fd4cb5a221706a163f1b94b73f454b3567c80a">
include/PufferfishLossyIndex.hpp
</a>
</li>
<li class="file-stats">
<a href="#143a87ac426bbe4bc3716f3516042419523b946f">
include/PufferfishSparseIndex.hpp
</a>
</li>
<li class="file-stats">
<a href="#37c0d5d1cae61dd7519dd3e2835b746b079c7ef4">
include/SAMWriter.hpp
</a>
</li>
<li class="file-stats">
<a href="#90d9889548353380c5f27a807e12057452f96e71">
include/Util.hpp
</a>
</li>
<li class="file-stats">
<a href="#dc2ebf040742689fa7ebf2b01bc705f4a087487e">
include/chobo/memory_view.hpp
</a>
</li>
<li class="file-stats">
<a href="#3f17194e2fa0f544f5b7b6926afa01fa8e56ee5c">
include/chobo/static_vector.hpp
</a>
</li>
<li class="file-stats">
<a href="#c84d05e5a512e36c6f9052a1ef78cdafde794749">
include/clipp.h
</a>
</li>
<li class="file-stats">
<a href="#b6de805fdac0781d12cd98030024ff2bc7779ef7">
include/compact_vector/compact_vector.hpp
</a>
</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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