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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/ugene">Debian Med / ugene</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/ugene/commit/6ac9bd7ae167f93551b641ddb5ae9ffce923cbe5">6ac9bd7a</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-01-31T12:52:25Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix build issue by adding missing headers
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/ugene/commit/09eda3078d548fa757152e5fdac3725105f3c4e6">09eda307</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-01-31T12:54:12Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Skip dh_dwz
</pre>
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<h4>5 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
</li>
<li class="file-stats">
<a href="#e2eca18997cd338e3a76c884e9103d8708694ae9">
<span class="new-file">
+
debian/patches/add_missing_header.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/ugene/compare/3f868ce36dfc0f67461765453cd04526e218a956...09eda3078d548fa757152e5fdac3725105f3c4e6#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<td class="diff-line-num unfold js-unfold 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">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -7,8 +7,8 @@ ugene (1.31.1+dfsg-1) UNRELEASED; urgency=medium</td>
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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">
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"></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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<td class="diff-line-num new_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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> [ Andreas Tille ]</span>
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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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> * New upstream version</span>
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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"> Closes: #868885, #887305</span>
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<td class="diff-line-num new_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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> * Standards-Version: 4.3.0</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"> * Upstream switched to cmake</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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"> * Cleanup d/watch</span>
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<td class="diff-line-num old_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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> * More Files-Excluded</span>
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<td class="diff-line-num old_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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext"> * debhelper 12</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 @@ ugene (1.31.1+dfsg-1) UNRELEASED; urgency=medium</td>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Sun, 03 Dec 2017 19:10:03 +0100</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext"></span>
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<td class="diff-line-num old_line" data-linenumber="19" 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="LC19" class="line" lang="plaintext">ugene (1.25.0+dfsg-1) unstable; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext"></span>
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<td class="diff-line-num old_line" data-linenumber="20" 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="21" 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="LC21" class="line" lang="plaintext"> * New upstream version</span>
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<td class="diff-line-num old_line" data-linenumber="21" 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="22" 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="LC22" class="line" lang="plaintext"> Closes: #846557</span>
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<td class="diff-line-num old_line" data-linenumber="22" 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="23" 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 noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext"> * debhelper 10</span>
</pre>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/ugene/compare/3f868ce36dfc0f67461765453cd04526e218a956...09eda3078d548fa757152e5fdac3725105f3c4e6#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="19" 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">@@ -19,8 +19,7 @@ Build-Depends: qtbase5-dev,</td>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"> debhelper (>= 12~),</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext"> libxtst-dev,</span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"> libsqlite3-dev,</span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="plaintext"> libprocps-dev,</span>
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23
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="plaintext"> cmake</span>
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22
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="plaintext"> libprocps-dev</span>
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24
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">Build-Conflicts: libqt4-dev,</span>
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25
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24
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext"> qt4-qmake</span>
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26
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25
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext">Standards-Version: 4.3.0</span>
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<li id="e2eca18997cd338e3a76c884e9103d8708694ae9">
<a href="https://salsa.debian.org/med-team/ugene/compare/3f868ce36dfc0f67461765453cd04526e218a956...09eda3078d548fa757152e5fdac3725105f3c4e6#e2eca18997cd338e3a76c884e9103d8708694ae9"><strong>debian/patches/add_missing_header.patch</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff">Author: Andreas Tille <tille@debian.org></span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff">Last-Update: Sun, 03 Dec 2017 19:10:03 +0100</span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff">Description: Fix build issue by adding missing headers</span>
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4
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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"><span class="gd" style="color: #000; background-color: #fdd;">--- a/src/plugins/external_tool_support/src/trimmomatic/steps/SlidingWindowStep.cpp</span></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/src/plugins/external_tool_support/src/trimmomatic/steps/SlidingWindowStep.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -20,6 +20,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> */</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> #include <U2Core/U2SafePoints.h></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+#include <QIntValidator></span></span>
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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"> #include "trimmomatic/util/LineEditHighlighter.h"</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> #include "SlidingWindowStep.h"</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/src/plugins/external_tool_support/src/trimmomatic/util/LengthSettingsWidget.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/src/plugins/external_tool_support/src/trimmomatic/util/LengthSettingsWidget.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -20,6 +20,7 @@</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"> </span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"> #include <U2Core/U2SafePoints.h></span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+#include <QIntValidator></span></span>
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22
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"> #include "LengthSettingsWidget.h"</span>
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24
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"> #include "LineEditHighlighter.h"</span></pre>
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<a href="https://salsa.debian.org/med-team/ugene/compare/3f868ce36dfc0f67461765453cd04526e218a956...09eda3078d548fa757152e5fdac3725105f3c4e6#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">use_debian_sqlite.patch</span>
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">hardening.patch</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">debian_packaged_libs.patch</span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">add_missing_header.patch</span></pre>
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<a href="https://salsa.debian.org/med-team/ugene/compare/3f868ce36dfc0f67461765453cd04526e218a956...09eda3078d548fa757152e5fdac3725105f3c4e6#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="19" 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">@@ -19,7 +19,7 @@ export DEB_BUILD_MAINT_OPTIONS = hardening=+all</td>
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19
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"># dh_strip --dbg-package=ugene-dbg</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext"></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"> dh $@</span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="plaintext"> dh $@<span class="idiff left right"> --buildsystem=qmake</span></span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext"></span>
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24
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext">override_dh_auto_configure:</span>
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25
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext"> # exclude non-free plugins</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="49" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -49,3 +49,9 @@ override_dh_fixperms-indep:</td>
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49
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="plaintext">override_dh_shlibdeps:</span>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="plaintext"> dh_shlibdeps -l$(CURDIR)/debian/$(pkg)/usr/lib/$(pkg)/</span>
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="plaintext">override_dh_dwz:</span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="plaintext"> echo "Do not run dh_dwz since it just results in:"</span>
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<td class="diff-line-num new old_line" data-linenumber="52" 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="55" 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="LC55" class="line" lang="plaintext"> echo " dwz: debian/ugene/usr/lib/ugene/libU2View.so.1.0.0: Couldn't find DIE referenced by DW_OP_GNU_parameter_ref"</span>
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<td class="diff-line-num new old_line" data-linenumber="52" 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="LC56" class="line" lang="plaintext"> echo " dwz: debian/ugene/usr/lib/ugene/plugins/libexternal_tool_support.so.1.0.0: Couldn't find DIE referenced by DW_OP_GNU_parameter_ref"</span>
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="plaintext"> echo " dh_dwz: dwz -q -mdebian/ugene/usr/lib/debug/.dwz/x86_64-linux-gnu/ugene.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/ugene.debug ..."</span></pre>
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