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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/mothur">Debian Med / mothur</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/mothur/-/commit/0009cb3a663fa73320a145ce68a440c087483186">0009cb3a</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-09T16:15:00+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/mothur/-/commit/e06b364354ca7444fd49abebf8e938c962727e43">e06b3643</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-09T16:15:04+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/mothur/-/commit/7e76d3ee53a7181bfdc04c0032f4f1230c56537e">7e76d3ee</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-09T16:15:14+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Set upstream metadata fields: Bug-Database, Bug-Submit.
Fixes: lintian: upstream-metadata-missing-bug-tracking
See-also: https://lintian.debian.org/tags/upstream-metadata-missing-bug-tracking.html
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/mothur/-/commit/16423c888a017ceb4a5f47db08056041e7ab7b02">16423c88</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-09T16:15:14+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove obsolete fields Contact, Name from debian/upstream/metadata (already present in machine-readable debian/copyright).</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/mothur/-/commit/54c077bdb5909ff33920df24a3aa307c8663fd44">54c077bd</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-09T16:24:49+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix include
</pre>
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<h4>6 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<li class="file-stats">
<a href="#29a278f4dc70b0ebc3d910bd830a8fab4258f7a7">
<span class="new-file">
+
debian/patches/0002-Fix-include.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="#b1dbf22e88351ec0d5d1d1a7f53295504b480e61">
<span class="new-file">
+
debian/salsa-ci.yml
</span>
</a>
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<li class="file-stats">
<a href="#f5606a935d95a2f20059a7ac1136f47b2edadbf6">
debian/upstream/metadata
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</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/mothur/-/compare/6cdbe2d06ea8596bb3a7e5e098bc8f6a756e4a9b...54c077bdb5909ff33920df24a3aa307c8663fd44#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">mothur (1.44.1-2) UNRELEASED; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></span>
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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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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> * debhelper-compat 13 (routine-update)</span>
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<td class="diff-line-num new new_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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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> * Add salsa-ci file (routine-update)</span>
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<td class="diff-line-num new new_line" data-linenumber="5" 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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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> * Set upstream metadata fields: Bug-Database, Bug-Submit.</span>
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<td class="diff-line-num new new_line" data-linenumber="6" 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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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * Remove obsolete fields Contact, Name from debian/upstream/metadata (already</span>
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<td class="diff-line-num new new_line" data-linenumber="7" 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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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> present in machine-readable debian/copyright).</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> * Fix include</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"> -- Andreas Tille <tille@debian.org> Tue, 09 Jun 2020 16:15:00 +0200</span>
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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">mothur (1.44.1-1) unstable; urgency=medium</span>
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<td class="diff-line-num new_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"></span>
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<td class="diff-line-num new_line" data-linenumber="14" 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="LC14" class="line" lang="plaintext"> * Update d/watch to cover releases such as "v.1.44.1"</span>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/mothur/-/compare/6cdbe2d06ea8596bb3a7e5e098bc8f6a756e4a9b...54c077bdb5909ff33920df24a3aa307c8663fd44#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold 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">...</td>
<td class="diff-line-num unfold js-unfold 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">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -5,7 +5,7 @@ Uploaders: Steffen Moeller <moeller@debian.org>,</td>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"> Tomasz Buchert <tomasz@debian.org></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;">-<span id="LC8" 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="LC8" 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="LC9" class="line" lang="plaintext"> gfortran,</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> libboost-iostreams-dev,</span>
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> libreadline-dev,</span>
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<li id="29a278f4dc70b0ebc3d910bd830a8fab4258f7a7">
<a href="https://salsa.debian.org/med-team/mothur/-/compare/6cdbe2d06ea8596bb3a7e5e098bc8f6a756e4a9b...54c077bdb5909ff33920df24a3aa307c8663fd44#29a278f4dc70b0ebc3d910bd830a8fab4258f7a7"><strong>debian/patches/0002-Fix-include.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="p">Author: Andreas Tille <tille@debian.org></span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="p">Last-Update: Tue, 09 Jun 2020 16:15:15 +0200</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">Description: Fix include</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff">--- a/Makefile</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/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="p">@@ -107,7 +107,7 @@</span> endif</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> subdirs := $(sort $(dir $(filter-out $(skipUchime), $(wildcard source/*/))))</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"> subDirIncludes = $(patsubst %, -I %, $(subdirs))</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> subDirLinking = $(patsubst %, -L%, $(subdirs))</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- CXXFLAGS += -I. $(subDirIncludes)</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ CXXFLAGS += -Isource $(subDirIncludes)</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> LDFLAGS += $(subDirLinking)</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> </span></pre>
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<a href="https://salsa.debian.org/med-team/mothur/-/compare/6cdbe2d06ea8596bb3a7e5e098bc8f6a756e4a9b...54c077bdb5909ff33920df24a3aa307c8663fd44#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">0001-Add-hardening-flags.patch</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">0002-Fix-include.patch</span></pre>
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<a href="https://salsa.debian.org/med-team/mothur/-/compare/6cdbe2d06ea8596bb3a7e5e098bc8f6a756e4a9b...54c077bdb5909ff33920df24a3aa307c8663fd44#b1dbf22e88351ec0d5d1d1a7f53295504b480e61"><strong>debian/salsa-ci.yml</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="yaml"><span class="nn" style="color: #555;">---</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="yaml"><span class="na" style="color: #008080;">include</span><span class="pi">:</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="yaml"> <span class="pi">-</span> <span class="s" style="color: #d14;">https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/salsa-ci.yml</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="yaml"> <span class="pi">-</span> <span class="s" style="color: #d14;">https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/pipeline-jobs.yml</span></span></pre>
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<li id="f5606a935d95a2f20059a7ac1136f47b2edadbf6">
<a href="https://salsa.debian.org/med-team/mothur/-/compare/6cdbe2d06ea8596bb3a7e5e098bc8f6a756e4a9b...54c077bdb5909ff33920df24a3aa307c8663fd44#f5606a935d95a2f20059a7ac1136f47b2edadbf6"><strong>debian/upstream/metadata</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext"><span class="idiff left right">Contact: Patrick D. Schloss <pschloss@umich.edu></span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext"><span class="idiff left right">Name: Mothur</span></span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext"><span class="idiff left right">Bug-Database: https://github.com/mothur/mothur/issues</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"><span class="idiff left right">Bug-Submit: https://github.com/mothur/mothur/issues/new</span></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Reference:</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> Author: ></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"> Patrick D Schloss and Sarah L Westcott and Thomas Ryabin and Justine R</span>
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