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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/gubbins">Debian Med / gubbins</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/gubbins/commit/793541856d1d61d0081967f5de1d2a750f8c2c56">79354185</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-26T12:28:51Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 2.3.4</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/gubbins/commit/d67e2d8081c8ecc8fa33219aa4ed8f225dbf3408">d67e2d80</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-26T12:28:54Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/2.3.4'

Update to upstream version '2.3.4'
with Debian dir d091ea0e0dd7cc8050bcb8fb79fb392e37634672</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/gubbins/commit/383b88ae0720446bc5727062d1644727d1246cf0">383b88ae</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-26T12:28:54Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/gubbins/commit/418043d451b0c8a9bbec1a5459f57f76cb08ee3a">418043d4</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-26T12:28:54Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">debhelper 11
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/gubbins/commit/b3782f5869e36a4bfd73fcf2d7a445717b417ecc">b3782f58</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-26T12:28:59Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Point Vcs fields to salsa.debian.org
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/gubbins/commit/fc3dc63acab8b2e34d37f28d2a3efd734df90e43">fc3dc63a</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-26T12:28:59Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.2.1
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/gubbins/commit/8fe65992580468c948ab650e5e54eec6e441f53b">8fe65992</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-26T12:48:32Z</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/gubbins/commit/9d00f2dde860262dc8ab9e9a88737bd782f5404c">9d00f2dd</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-26T12:53:23Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Respect DEB_BUILD_OPTIONS in override_dh_auto_test
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/gubbins/commit/52de5289b02e3e22afe3ce351775165cf9f751c2">52de5289</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-26T14:47:55Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Do not parse d/changelog
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/gubbins/commit/419e0f15cc0b406bf0583245a7a763d417556936">419e0f15</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-26T14:48:35Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove unneeded Testsuite: autopkgtest
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/gubbins/commit/1f47e102ee50aaed2b299c03db38245f148771e6">1f47e102</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-26T14:50:55Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to unstable
</pre>
</li>
</ul>
<h4>30 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#24139dae656713ba861751fb2c2ac38839349a7a">
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+
.gitattributes
</span>
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<li class="file-stats">
<a href="#dea01dd89a3b602828e630677fde5d77c06441c8">
.travis.yml
</a>
</li>
<li class="file-stats">
<a href="#1c497fbb3a46b78edf04cc2a2fa33f67e3ffbe2a">
CHANGELOG
</a>
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<li class="file-stats">
<a href="#6651ddff6eb82c840ced7c1dddee15c6e1913dd4">
Dockerfile
</a>
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<li class="file-stats">
<a href="#acb1f594d797fb10fdb0aea6afb871238bbe1515">
GubbinsManual_latest.docx
</a>
</li>
<li class="file-stats">
<a href="#b2270542d41297db1ee0d12698e609ea3ec25ce7">
INSTALL.md
</a>
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<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
</a>
</li>
<li class="file-stats">
<a href="#b33892fbddeffc3368077b4904ad0b3d562a7312">
VERSION
</a>
</li>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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</li>
<li class="file-stats">
<a href="#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
debian/compat
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<li class="file-stats">
<a href="#686c326dd4dda8d4e5503f1f859604be34ecc722">
<span class="deleted-file">

debian/patches/add_missing_lib_for_check.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#46177b436c3a0564addad969b1ab888c6d6618a5">
debian/patches/disable_test.patch
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
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<li class="file-stats">
<a href="#3d35e3247e704d4e74897d7a3245ccac846b770a">
<span class="new-file">
+
example_data/PMEN1/PMEN1.branch_base_reconstruction.embl
</span>
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<a href="#13fba0710e25540245e0591ec21201d16cc6a9f4">
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example_data/PMEN1/PMEN1.filtered_polymorphic_sites.fasta
</span>
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<a href="#0da7659dea4e148fc353d12febbfabdb30007232">
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example_data/PMEN1/PMEN1.filtered_polymorphic_sites.phylip
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<a href="#c772ecd6681d2df61a7a95beefca68a7e27575c7">
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example_data/PMEN1/PMEN1.final_tree.tre
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<a href="#ebf6188e59deed9af6a07d44261a9ba6d63b49fe">
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example_data/PMEN1/PMEN1.per_branch_statistics.csv
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<a href="#b5eb744105f46a414d549a364d4804f15fb21b32">
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example_data/PMEN1/PMEN1.recombination_predictions.embl
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<a href="#345546cdf8e74513d5747de76ea63125d21168c7">
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+
example_data/PMEN1/PMEN1.recombination_predictions.gff
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<a href="#23896c96653badb4cf77f79c3dfd778a1e22755e">
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example_data/PMEN1/PMEN1.summary_of_snp_distribution.vcf
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<li class="file-stats">
<a href="#2c5ca9d9e1d8c40b66ed0d78a291a9ef83e64760">
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example_data/PMEN1/README.md
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<a href="#03de0cb2afd4ba9995834ce6b7ef1b8f828fa971">
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example_data/ST239/README.md
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example_data/ST239/ST239.branch_base_reconstruction.embl
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example_data/ST239/ST239.filtered_polymorphic_sites.fasta
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example_data/ST239/ST239.filtered_polymorphic_sites.phylip
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example_data/ST239/ST239.final_tree.tre
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</ul>
<h5>The diff was not included because it is too large.</h5>

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