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<h3>
Michael R. Crusoe pushed to branch master
at <a href="https://salsa.debian.org/med-team/salmon">Debian Med / salmon</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/salmon/-/commit/1790a8d00bc60014d52f4ae9844778ea0367e010">1790a8d0</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-02-28T17:04:25+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/salmon/-/commit/ac6af4dba73ed24ff8a510dc148c04d81693fd33">ac6af4db</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-02-28T17:04:26+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.1.0+ds1</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/salmon/-/commit/583fa14527ff240a8e4f8fe8101e95d142e9eda0">583fa145</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-02-28T17:04:28+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/1.1.0+ds1'
Update to upstream version '1.1.0+ds1'
with Debian dir e6ab141cd48a21d2d2845b979ad3095402918b61</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/salmon/-/commit/d2550c753546837f149de4526a8e4a3ed3ae10b3">d2550c75</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-02-28T17:04:29+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Standards-Version: 4.5.0
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/salmon/-/commit/9ef9d1ded4692205e6606e2ab2a50c333c50c9c8">9ef9d1de</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-02-28T17:04:32+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Secure URI in copyright format
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/salmon/-/commit/11a153f9fcf6c438e6311407b02a5c439bfd324c">11a153f9</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-02-28T17:14:20+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: DEB_BUILD_OPTIONS allow override_dh_auto_test
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/salmon/-/commit/e05a6dd361fc129d9592cfbd8d8eae22e3064356">e05a6dd3</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-02-28T17:14:21+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove duplicate line from changelog.</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/salmon/-/commit/a19cff413e335031af3cb2f6a06b9732f8d63e0e">a19cff41</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-02-28T17:14:24+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Set upstream metadata fields: Bug-Database, Bug-Submit.</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/salmon/-/commit/eda7afaf9f27541adc8c815d1591f97f4267e9dd">eda7afaf</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-02-28T17:23:53+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">update citation metadata
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/salmon/-/commit/e69fb15685e38eec3682b9470837d84ce5208718">e69fb156</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-03-01T11:52:54+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">fix test
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/salmon/-/commit/c16438d6adeb9aa0089a826bdab5d0d4ea26d71e">c16438d6</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-03-01T15:49:45+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="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
</a>
</li>
<li class="file-stats">
<a href="#141aa6159adb6f6c9bd9eaaab8525e06bfa097b8">
cmake/SimpleTest.cmake
</a>
</li>
<li class="file-stats">
<a href="#34ffb03041dc818ba71da0518ec52a0134f543f8">
current_version.txt
</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="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
<li class="file-stats">
<a href="#f5606a935d95a2f20059a7ac1136f47b2edadbf6">
debian/upstream/metadata
</a>
</li>
<li class="file-stats">
<a href="#5a1b92f4d2201f84f3ab9bfe7917ee0a5531e53d">
doc/source/alevin.rst
</a>
</li>
<li class="file-stats">
<a href="#9d4e8ab62832d7b298261aae1fe1123d28783525">
doc/source/conf.py
</a>
</li>
<li class="file-stats">
<a href="#87a3a9314333c591d8bda7edee40ff4857d72464">
doc/steps_to_prepare_release.md
</a>
</li>
<li class="file-stats">
<a href="#8ffde13df31f212345642ccfa4755f3bd99e7e61">
docker/Dockerfile
</a>
</li>
<li class="file-stats">
<a href="#3cbc10c17d78796adbdc9a8a8b8702f83a02d41f">
docker/build_test.sh
</a>
</li>
<li class="file-stats">
<a href="#bde78d1844ec01264c5d4743a583c958c681b010">
include/AlevinHash.hpp
</a>
</li>
<li class="file-stats">
<a href="#2bc7c7c64784b968b1404d3f09805fe683f980b1">
include/AlevinOpts.hpp
</a>
</li>
<li class="file-stats">
<a href="#1fe0f4d55f3b84573f46c3b205cdf1546c6f1595">
include/AlevinUtils.hpp
</a>
</li>
<li class="file-stats">
<a href="#2e23205aa6b7180cee9b484cea2bddaefafb2251">
include/BarcodeModel.hpp
</a>
</li>
<li class="file-stats">
<a href="#ba21e28a4a0fb90d1a8bc698ffc1d6360721d2ef">
include/CollapsedCellOptimizer.hpp
</a>
</li>
<li class="file-stats">
<a href="#9ae77fd7e7a3184b0ef7ca225128fc21e47e2238">
include/DedupUMI.hpp
</a>
</li>
<li class="file-stats">
<a href="#b6523e842fc0e8f9ae82ea74712d3b1b704c917d">
<span class="deleted-file">
−
include/Filter.hpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#f05db237f9b821f31941b5ede8a2c432d8736b61">
include/GZipWriter.hpp
</a>
</li>
<li class="file-stats">
<a href="#584b1766692e6054a45025e3ab2a1cc01e4508f1">
include/ReadExperiment.hpp
</a>
</li>
<li class="file-stats">
<a href="#b28e1098f756957ff90d12768200c4e9602817b4">
include/SalmonConfig.hpp
</a>
</li>
<li class="file-stats">
<a href="#44e448f604f7e82906787f365f589a3ea4657ba9">
include/SalmonDefaults.hpp
</a>
</li>
<li class="file-stats">
<a href="#775cca6353faebf70ff10a2f9d1684153c93c4ac">
include/SalmonIndex.hpp
</a>
</li>
<li class="file-stats">
<a href="#169f7f7cc7108d2c0f64e35e7ee01f7912f6dd93">
include/SalmonMappingUtils.hpp
</a>
</li>
<li class="file-stats">
<a href="#2eeada36706cad6f17cb60346f7d2f9f4b479a7b">
include/SalmonOpts.hpp
</a>
</li>
<li class="file-stats">
<a href="#d9225c32d4f01af48593b4d164c0276ef713fb37">
scripts/fetchPufferfish.sh
</a>
</li>
<li class="file-stats">
<a href="#8fdbe631bc12d59b3cea9274359041cf09b11240">
src/Alevin.cpp
</a>
</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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