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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/sumatra">Debian Med / sumatra</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/sumatra/-/commit/5daa71dfca68e089bf91782dfa4c043bc6ab2764">5daa71df</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T13:25:39+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">sumalibs now available
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/sumatra/-/commit/c1bf3298f138a1c88cce8d15d5484c4f7a0f9fbd">c1bf3298</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T13:25:58+02:00</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/sumatra/-/commit/510a29383a489792323829ae5ecdcfffc90828eb">510a2938</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T13:25:58+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: debhelper-compat 12
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/sumatra/-/commit/0aa7ce70e3374a1397719f3725465e5941157d19">0aa7ce70</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T13:26:02+02:00</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/sumatra/-/commit/9ca6de9cdc1cf0a8309d21ffa61f0ed71405da41">9ca6de9c</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T13:26:02+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">R-U: Trailing whitespace in debian/changelog
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/sumatra/-/commit/32934429804d5d10747001696f97be297470598c">32934429</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T13:26:02+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">R-U: Trailing whitespace in debian/copyright
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/sumatra/-/commit/1cc7e00e70f30936d47356a988cb98f934d82bd4">1cc7e00e</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T13:26:02+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/sumatra/-/commit/9e623b681e5cc0f58e19bdfd27abaec36f22cef0">9e623b68</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T13:26:02+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/sumatra/-/commit/f6f9a27a91f4fd62fb0704fe6ae932eae97b61e2">f6f9a27a</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T13:26:03+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">debian/copyright: use spaces rather than tabs to start continuation lines.
Fixes: lintian: tab-in-license-text
See-also: https://lintian.debian.org/tags/tab-in-license-text.html
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/sumatra/-/commit/1001095889a67b8c5d16319f403ff91d5bef0aa1">10010958</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T13:26:17+02:00</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/sumatra/-/commit/a3d0a3890ad2252ce180f5dda32f7332f30e7e7f">a3d0a389</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T14:08:04+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Cleanup watch file
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/sumatra/-/commit/fe5059358c6edd2cbc032e46ad1f2c8f5feb8394">fe505935</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T14:08:44+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">DEP3
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/sumatra/-/commit/42ef27806c8bb7ea04cb64779a13162089868cf1">42ef2780</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T14:09:40+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to unstable
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/sumatra/-/commit/71edddbf0175461a92c6d1286b3c46d7ed60a104">71edddbf</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-04-09T14:09:58+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Ending newline
</pre>
</li>
</ul>
<h4>10 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
<span class="deleted-file">
−
debian/compat
</span>
</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="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
<li class="file-stats">
<a href="#ce4f44bfd443c025056787f93f93fb437f69693a">
<span class="new-file">
+
debian/patches/use_debian_packaged_sumalibs.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</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="#f5606a935d95a2f20059a7ac1136f47b2edadbf6">
debian/upstream/metadata
</a>
</li>
<li class="file-stats">
<a href="#68ef9f98c01c7eecd4c605cc26048a06f3304b79">
debian/watch
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/sumatra/-/compare/5e690fd5d5a6ac2cc830ee6d2045353a491020a0...71edddbf0175461a92c6d1286b3c46d7ed60a104#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
<hr>
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1
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<td class="diff-line-num new_line old" data-linenumber="1" 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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<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">
<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">sumatra (1.0.34-1) <span class="idiff left right">UNRELEASED</span>; urgency=medium</span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="1" 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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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">sumatra (1.0.34-1) <span class="idiff left right">unstable</span>; urgency=medium</span>
</pre>
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2
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<td class="diff-line-num new_line" data-linenumber="2" 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="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="3" 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">
3
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<td class="diff-line-num new_line" data-linenumber="3" 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">
3
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"> * New upstream version</span>
</pre>
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<td class="diff-line-num old_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">
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<td class="diff-line-num 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">
4
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> * debhelper 12</span>
</pre>
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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">
5
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<td class="diff-line-num 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">
5
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"> * Standards-Version: 4.3.0</span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="6" 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">
6
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"> TODO: https://salsa.debian.org/med-team/sumalibs</span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="7" 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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<td class="diff-line-num new_line old" data-linenumber="6" 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="LC7" class="line" lang="plaintext"></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="8" 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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<td class="diff-line-num new_line old" data-linenumber="6" 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="LC8" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Tue, 09 Jul 2019 15:45:27 +0200</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="9" 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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<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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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * Standards-Version: 4.5.0 (routine-update)</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="9" 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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<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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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> * debhelper-compat 12 (routine-update)</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="9" 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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<td class="diff-line-num new new_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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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> * Secure URI in copyright format (routine-update)</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="9" 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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<td class="diff-line-num new new_line" data-linenumber="9" 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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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> * Remove trailing whitespace in debian/changelog (routine-update)</span>
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<td class="diff-line-num new old_line" data-linenumber="9" 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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<td class="diff-line-num new new_line" data-linenumber="10" 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="LC10" class="line" lang="plaintext"> * Remove trailing whitespace in debian/copyright (routine-update)</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="9" 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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<td class="diff-line-num new new_line" data-linenumber="11" 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="LC11" class="line" lang="plaintext"> * Add salsa-ci file (routine-update)</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> * Rules-Requires-Root: no (routine-update)</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext"> * debian/copyright: use spaces rather than tabs to start continuation</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> lines.</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext"> * Set upstream metadata fields: Bug-Database, Bug-Submit.</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext"> * Cleanup watch file</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Thu, 09 Apr 2020 14:08:52 +0200</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">sumatra (1.0.31-2) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="41" 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>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -41,6 +51,6 @@ sumatra (1.0.10-1) unstable; urgency=medium</td>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="plaintext">sumatra (1.0.01-0ubuntu1) trusty; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC44" class="line" lang="plaintext"> * Initial release for QIIME 1.9<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="plaintext"> * Initial release for QIIME 1.9</span>
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<pre style="margin: 0;"> <span id="LC55" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC56" class="line" lang="plaintext"> -- Tim Booth <tbooth@ceh.ac.uk> Fri, 13 Feb 2015 16:24:17 +0000</span></pre>
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<a href="https://salsa.debian.org/med-team/sumatra/-/compare/5e690fd5d5a6ac2cc830ee6d2045353a491020a0...71edddbf0175461a92c6d1286b3c46d7ed60a104#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4"><strong>debian/compat</strong>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">12</span></pre>
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<a href="https://salsa.debian.org/med-team/sumatra/-/compare/5e690fd5d5a6ac2cc830ee6d2045353a491020a0...71edddbf0175461a92c6d1286b3c46d7ed60a104#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -4,11 +4,14 @@ Uploaders: Tim Booth <tbooth@ceh.ac.uk>,</td>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext">Build-Depends: debhelper (>= 12~)</span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext">Standards-Version: 4.3.0</span>
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7
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 12),</span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> libsuma-dev,</span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> zlib1g-dev</span>
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10
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">Standards-Version: 4.5.0</span>
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9
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/sumatra</span>
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10
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<td class="diff-line-num new_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">
12
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/sumatra.git</span>
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11
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13
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">Homepage: http://metabarcoding.org/sumatra</span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext">Rules-Requires-Root: no</span>
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12
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15
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"></span>
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13
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">Package: sumatra</span>
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14
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">Architecture: any</span>
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<li id="adb7f75f79e3bb85eb62912a2904c5d24af878fb">
<a href="https://salsa.debian.org/med-team/sumatra/-/compare/5e690fd5d5a6ac2cc830ee6d2045353a491020a0...71edddbf0175461a92c6d1286b3c46d7ed60a104#adb7f75f79e3bb85eb62912a2904c5d24af878fb"><strong>debian/copyright</strong></a>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/</span>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">Format: http<span class="idiff left right">s</span>://www.debian.org/doc/packaging-manuals/copyright-format/1.0/</span>
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2
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Upstream-Contact: Céline Mercier <celine.mercier@metabarcoding.org></span>
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3
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Source: https://github.com/mesocentrefc/sumatra</span>
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4
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4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"></span>
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5
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5
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Files: *</span>
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6
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6
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Copyright: 2013-2015 Tiayyba Riaz</span>
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7
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<td class="diff-line-num new_line" data-linenumber="7" 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">
7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> Celine Mercier</span>
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8
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext"><span class="idiff left right"> </span> Eric Coissac</span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"><span class="idiff left right"> </span> Eric Coissac</span>
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9
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9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">License: CeCILL-2</span>
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10
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"></span>
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">Files: debian/*</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="141" 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="141" 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">@@ -141,7 +141,7 @@ License: CeCILL-2</td>
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141
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<pre style="margin: 0;"> <span id="LC141" class="line" lang="plaintext"> The purpose of the Agreement is the grant by the Licensor to the</span>
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<pre style="margin: 0;"> <span id="LC142" class="line" lang="plaintext"> Licensee of a non-exclusive, transferable and worldwide license for the</span>
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<pre style="margin: 0;"> <span id="LC143" class="line" lang="plaintext"> Software as set forth in Article 5 hereinafter for the whole term of the</span>
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<pre style="margin: 0;">-<span id="LC144" class="line" lang="plaintext"> protection granted by the rights over said Software.<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC144" class="line" lang="plaintext"> protection granted by the rights over said Software.</span>
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<pre style="margin: 0;"> <span id="LC145" class="line" lang="plaintext"> .</span>
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<pre style="margin: 0;"> <span id="LC146" class="line" lang="plaintext"> .</span>
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<pre style="margin: 0;"> <span id="LC147" class="line" lang="plaintext"> Article 3 - ACCEPTANCE</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="408" 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>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -408,7 +408,7 @@ License: CeCILL-2</td>
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<pre style="margin: 0;"> <span id="LC408" class="line" lang="plaintext"> .</span>
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<pre style="margin: 0;"> <span id="LC409" class="line" lang="plaintext"> 9.3 The Licensee acknowledges that the Software is supplied "as is" by</span>
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<pre style="margin: 0;"> <span id="LC410" class="line" lang="plaintext"> the Licensor without any other express or tacit warranty, other than</span>
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<pre style="margin: 0;">-<span id="LC411" class="line" lang="plaintext"> that provided for in Article 9.2 and, in particular, without any warranty<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC411" class="line" lang="plaintext"> that provided for in Article 9.2 and, in particular, without any warranty</span>
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<pre style="margin: 0;"> <span id="LC412" class="line" lang="plaintext"> as to its commercial value, its secured, safe, innovative or relevant</span>
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<pre style="margin: 0;"> <span id="LC413" class="line" lang="plaintext"> nature.</span>
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<pre style="margin: 0;"> <span id="LC414" class="line" lang="plaintext"> .</span>
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<a href="https://salsa.debian.org/med-team/sumatra/-/compare/5e690fd5d5a6ac2cc830ee6d2045353a491020a0...71edddbf0175461a92c6d1286b3c46d7ed60a104#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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1
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1
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">hardening.patch</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">use_debian_packaged_sumalibs.patch</span></pre>
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<a href="https://salsa.debian.org/med-team/sumatra/-/compare/5e690fd5d5a6ac2cc830ee6d2045353a491020a0...71edddbf0175461a92c6d1286b3c46d7ed60a104#ce4f44bfd443c025056787f93f93fb437f69693a"><strong>debian/patches/use_debian_packaged_sumalibs.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: Thu, 09 Apr 2020 14:06:08 +0200</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">Description: Build using Debian packaged libsuma</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">@@ -1,4 +1,4 @@</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-PREFIX=/usr/local</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+PREFIX=/usr</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> CFLAGS=-I$(PREFIX)/include</span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"><span class="p">@@ -38,7 +38,6 @@</span> sumatra: $(SUMATRA_OBJ)</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> clean:</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> rm -f $(SUMATRA_OBJ) </span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> rm -f $(EXEC)</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- $(MAKE) -C ./sumalibs clean</span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"> install: all</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"> install -d $(DESTDIR)$(PREFIX)/bin/</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/global.mk</span></span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/global.mk</span></span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"><span class="p">@@ -1,16 +1,16 @@</span></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-LIBSUMAPATH = -L./sumalibs</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+LIBSUMAPATH = </span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-LIBSUMA = ./sumalibs/libsuma.a</span></span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+LIBSUMA = </span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="diff"> CC=gcc</span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="diff"> LDFLAGS:=$(LDFLAGS)</span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="diff"> ifeq ($(CC),gcc)</span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- CFLAGS = -O3 -s -DOMP_SUPPORT -w</span></span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ CFLAGS += -O3 -s -DOMP_SUPPORT -w</span></span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="diff"> else</span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- CFLAGS = -O3 -w</span></span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ CFLAGS += -O3 -w</span></span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="diff"> endif</span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="diff"><span class="p">@@ -26,5 +26,3 @@</span> default: all</span>
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="diff"> #</span>
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<pre style="margin: 0;">+<span id="LC46" class="line" lang="diff"> ########</span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-./sumalibs/libsuma.a:</span></span>
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- $(MAKE) -C ./sumalibs</span></span></pre>
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<li id="8756c63497c8dc39f7773438edf53b220c773f67">
<a href="https://salsa.debian.org/med-team/sumatra/-/compare/5e690fd5d5a6ac2cc830ee6d2045353a491020a0...71edddbf0175461a92c6d1286b3c46d7ed60a104#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="9" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -9,12 +9,6 @@ export DEB_BUILD_MAINT_OPTIONS = hardening=+all</td>
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9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="make"><span class="nl">%</span><span class="o" style="font-weight: 600;">:</span></span>
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10
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="make"> dh <span class="nv" style="color: #008080;">$@</span></span>
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11
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="make"></span>
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12
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="make"><span class="nl">override_dh_clean</span><span class="o" style="font-weight: 600;">:</span></span>
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13
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="make"> dh_clean</span>
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14
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="make"> <span class="c" style="color: #998; font-style: italic;">#Upstream is very messy. Scrub out all the .svn stuff</span></span>
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15
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="make"> <span class="c" style="color: #998; font-style: italic;">#and .o files.</span></span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="make"> find sumalibs <span class="nt" style="color: #000080;">-name</span> <span class="s1" style="color: #d14;">'*.[oa]'</span> <span class="nt" style="color: #000080;">-delete</span></span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="make"><span class="nl">override_dh_compress</span><span class="o" style="font-weight: 600;">:</span></span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="make"> dh_compress <span class="nt" style="color: #000080;">--exclude</span><span class="o" style="font-weight: 600;">=</span>.pdf</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="make"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -22,4 +16,4 @@ override_dh_compress:</td>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="make"><span class="c" style="color: #998; font-style: italic;"># source for the manpage - currently the result is not really</span></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="make"><span class="c" style="color: #998; font-style: italic;"># the usual manpage structure</span></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="make"><span class="c" style="color: #998; font-style: italic;">#override_dh_installman:</span></span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="make"><span class="err" style="color: #a61717; background-color: #e3d2d2;">#</span> <span class="err" style="color: #a61717; background-color: #e3d2d2;">go-md2man</span> <span class="nv" style="color: #008080;">-in</span><span class="o" style="font-weight: 600;">=</span>sumatra_user_manual.md <span class="nt" style="color: #000080;">-out</span><span class="o" style="font-weight: 600;">=</span>sumatra.1</span></pre>
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<td class="line_content match" style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">\ No newline at end of file</td>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="make"><span class="c" style="color: #998; font-style: italic;"># go-md2man -in=sumatra_user_manual.md -out=sumatra.1</span></span></pre>
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<a href="https://salsa.debian.org/med-team/sumatra/-/compare/5e690fd5d5a6ac2cc830ee6d2045353a491020a0...71edddbf0175461a92c6d1286b3c46d7ed60a104#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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<a href="https://salsa.debian.org/med-team/sumatra/-/compare/5e690fd5d5a6ac2cc830ee6d2045353a491020a0...71edddbf0175461a92c6d1286b3c46d7ed60a104#f5606a935d95a2f20059a7ac1136f47b2edadbf6"><strong>debian/upstream/metadata</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">Bug-Database: https://github.com/mesocentrefc/sumatra/issues</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">Bug-Submit: https://github.com/mesocentrefc/sumatra/issues/new</span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Registry:</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> - Name: OMICtools</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"> Entry: OMICS_01498</span>
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<a href="https://salsa.debian.org/med-team/sumatra/-/compare/5e690fd5d5a6ac2cc830ee6d2045353a491020a0...71edddbf0175461a92c6d1286b3c46d7ed60a104#68ef9f98c01c7eecd4c605cc26048a06f3304b79"><strong>debian/watch</strong></a>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">version=<span class="idiff left right">3</span></span>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">version=<span class="idiff left right">4</span></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">https://git.metabarcoding.org/obitools/sumatra/wikis/home .*/sumatra/uploads/.*/sumatra_v(\d[\d.-]+)\.(?:tar(?:\.gz|\.bz2)?|tgz)</span></pre>
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4
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext"># sumatra is maintained in a Gitlab repository</span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"># https://wiki.debian.org/debian/watch#Gitlab</span>
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7
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext"># recommends something like this but it does not work</span>
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<td class="diff-line-num old old_line" data-linenumber="8" 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">
8
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext"># opts=filenamemangle=s/.*\.tar\.gz\?ref=v?(\d\S*)/<project>-$1\.tar\.gz/g \</span>
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<td class="diff-line-num old old_line" data-linenumber="9" 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">
9
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext"># https://git.metabarcoding.org/obitools/sumatra/tags .*archive\.tar\.gz\?ref=v?(\d\S*)</span>
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10
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="plaintext"></span>
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<td class="diff-line-num old old_line" data-linenumber="11" 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="LC11" class="line" lang="plaintext"># Tags on Github are not up to date</span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext"># https://github.com/mesocentrefc/sumatra/releases .*/archive/(\d[\d.-]+)\.(?:tar(?:\.gz|\.bz2)?|tgz)</span></pre>
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