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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/augur">Debian Med / augur</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/augur/-/commit/654e4f48eaede16ee633d0aa9523c6e0c0e16872">654e4f48</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-03-25T07:57:09+01:00</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/augur/-/commit/9b5824bfeb9deaaf04c914edbe5e0b338a2eb7ba">9b5824bf</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-03-25T07:57:12+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, Repository-Browse.
Fixes: lintian: upstream-metadata-file-is-missing
See-also: https://lintian.debian.org/tags/upstream-metadata-file-is-missing.html
</pre>
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<strong><a href="https://salsa.debian.org/med-team/augur/-/commit/63c84d926d115a28a316d9ccc33c70df35919317">63c84d92</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-03-25T08:03:44+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix formatting of manpage
</pre>
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<li>
<strong><a href="https://salsa.debian.org/med-team/augur/-/commit/5872d2fdffc6472f32b727017e98dbc8fb50c7d8">5872d2fd</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-03-25T08:04:48+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to unstable
</pre>
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<h4>4 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#f8234ce765e214b0332b4c9b8ad3744a5aa6f9e9">
debian/augur.1
</a>
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<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="#f5606a935d95a2f20059a7ac1136f47b2edadbf6">
<span class="new-file">
+
debian/upstream/metadata
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<h4>Changes:</h4>
<li id="f8234ce765e214b0332b4c9b8ad3744a5aa6f9e9">
<a href="https://salsa.debian.org/med-team/augur/-/compare/4e706aef8f86a02e851e639cd4e5b8fe86c6ada9...5872d2fdffc6472f32b727017e98dbc8fb50c7d8#f8234ce765e214b0332b4c9b8ad3744a5aa6f9e9"><strong>debian/augur.1</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="4" 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">@@ -4,14 +4,12 @@</td>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">augur \- pipeline components for real-time virus analysis</span>
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<td class="diff-line-num 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">
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">.SH SYNOPSIS</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">.B augur</span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext">[\-h] {parse,<span class="idiff left right">filter,mask,align,tree,refine,ancestral,translate,reconstruct\-sequences,clades,traits,sequence\-traits,lbi,distance,titers,frequencies,export,validate,version,</span>import}</span>
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<td class="diff-line-num new old_line" data-linenumber="8" 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">[\-h] {parse,<span class="idiff left right"> filter, mask, align, tree, refine, ancestral, translate, reconstruct\-sequences, clades, traits, sequence\-traits, lbi, distance, titers, frequencies, export, validate, version, </span>import}</span>
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<td class="diff-line-num old_line" data-linenumber="8" 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="LC8" class="line" lang="plaintext">\&...</span>
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<td class="diff-line-num old_line" data-linenumber="9" 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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<td class="diff-line-num new_line" data-linenumber="9" 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="LC9" class="line" lang="plaintext">.SH DESCRIPTION</span>
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<td class="diff-line-num old_line" data-linenumber="10" 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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<td class="diff-line-num new_line" data-linenumber="10" 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="LC10" class="line" lang="plaintext">Augur: A bioinformatics toolkit for phylogenetic analysis.</span>
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<td class="diff-line-num old_line" data-linenumber="11" 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="LC11" class="line" lang="plaintext">.SH OPTIONS</span>
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<td class="diff-line-num old_line" data-linenumber="12" 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="LC12" class="line" lang="plaintext">.SS "positional arguments:"</span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext">.IP</span>
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<td class="diff-line-num old old_line" data-linenumber="14" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="plaintext">{parse,filter,mask,align,tree,refine,ancestral,translate,reconstruct\-sequences,clades,traits,sequence\-traits,lbi,distance,titers,frequencies,export,validate,version,import}</span>
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<td class="diff-line-num old_line" data-linenumber="15" 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">.TP</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">parse</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">Parse delimited fields from FASTA sequence names into</span>
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<a href="https://salsa.debian.org/med-team/augur/-/compare/4e706aef8f86a02e851e639cd4e5b8fe86c6ada9...5872d2fdffc6472f32b727017e98dbc8fb50c7d8#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">augur (6.4.2-2) unstable; 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"> * Rules-Requires-Root: no (routine-update)</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> * Set upstream metadata fields: Bug-Database, Bug-Submit, Repository,</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> Repository-Browse.</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * Fix formatting of manpage</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Wed, 25 Mar 2020 08:03:51 +0100</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">augur (6.4.2-1) unstable; urgency=medium</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"> * Initial release (Closes: #954777)</span>
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<a href="https://salsa.debian.org/med-team/augur/-/compare/4e706aef8f86a02e851e639cd4e5b8fe86c6ada9...5872d2fdffc6472f32b727017e98dbc8fb50c7d8#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Source: augur</span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Uploaders: Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 12),</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> dh-python,</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> python3-all,</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="17" 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="17" 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">@@ -17,6 +17,7 @@ Standards-Version: 4.5.0</td>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/augur</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/augur.git</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">Homepage: https://github.com/nextstrain/augur</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext">Rules-Requires-Root: no</span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext">Package: augur</span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">Architecture: all</span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="25" 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">@@ -24,7 +25,7 @@ Depends: ${python3:Depends},</td>
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24
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25
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext"> ${misc:Depends},</span>
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<td class="diff-line-num old_line" data-linenumber="25" 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">
25
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<td class="diff-line-num new_line" data-linenumber="26" 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">
26
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext"> python3-biopython,</span>
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26
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<td class="diff-line-num new_line" data-linenumber="27" 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">
27
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext"> python3-boto (>= 2.38.0),</span>
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<td class="diff-line-num old old_line" data-linenumber="27" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
27
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="plaintext"> python3-cvxopt<span class="idiff left right"> (>= 1.1.8)</span>,</span>
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28
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="plaintext"> python3-cvxopt,</span>
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<td class="diff-line-num old_line" data-linenumber="28" 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">
28
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29
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="plaintext"> python3-dendropy,</span>
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<td class="diff-line-num old_line" data-linenumber="29" 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">
29
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30
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="plaintext"> python3-jsonschema,</span>
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30
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31
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="plaintext"> python3-matplotlib (>= 1.5.1),</span>
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<a href="https://salsa.debian.org/med-team/augur/-/compare/4e706aef8f86a02e851e639cd4e5b8fe86c6ada9...5872d2fdffc6472f32b727017e98dbc8fb50c7d8#f5606a935d95a2f20059a7ac1136f47b2edadbf6"><strong>debian/upstream/metadata</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">Bug-Database: https://github.com/nextstrain/augur/issues</span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">Bug-Submit: https://github.com/nextstrain/augur/issues/new</span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Repository: https://github.com/nextstrain/augur.git</span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">Repository-Browse: https://github.com/nextstrain/augur</span></pre>
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