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<h3>
Étienne Mollier pushed to branch master
at <a href="https://salsa.debian.org/med-team/libstatgen">Debian Med / libstatgen</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/libstatgen/-/commit/8ea0ee9a56acd7ec59102eb638194eccd9875e4c">8ea0ee9a</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-12-02T22:18:45+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">SONAME bump from libstatgen0 to libstatgen1
Closes: #996409
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/libstatgen/-/commit/d3e4e7163c2c0764853eed9241d0b155f2afcb7e">d3e4e716</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-12-02T22:46:38+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/copyright: update years
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/libstatgen/-/commit/ff4f9f643c182afb790ccfe92773be87a83a3545">ff4f9f64</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-12-02T22:56:14+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add spelling.patch: fix typos caught by lintian
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/libstatgen/-/commit/ec0c6b9a1fda50c55c5108e8ae7add250831fd04">ec0c6b9a</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-12-02T23:05:28+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">ready to upload to experimental
</pre>
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<h4>7 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<li class="file-stats">
<a href="#adb7f75f79e3bb85eb62912a2904c5d24af878fb">
debian/copyright
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<li class="file-stats">
<a href="#cd51dc9331c8ebd1a9d99126cbddda0b05a1f720">
debian/libstatgen0.symbols
→
debian/libstatgen1.symbols
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<li class="file-stats">
<a href="#45ae034d1d71b2d961abb7c91cf3d2f1a02a59c6">
<span class="new-file">
+
debian/patches/spelling.patch
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<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/libstatgen/-/compare/362e0a5866e6311cd32c4975dbe671e4e0746b61...ec0c6b9a1fda50c55c5108e8ae7add250831fd04#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">libstatgen (1.0.15-3~0exp0) experimental; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></span>
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<td class="new_line diff-line-num new" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> * Team upload.</span>
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<td class="new_line diff-line-num new" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> * SONAME bump from libstatgen0 to libstatgen1 (Closes: #996409)</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> * d/copyright: update years</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * Add spelling.patch: fix typos caught by lintian</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"></span>
</pre>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> -- Étienne Mollier <emollier@debian.org> Thu, 02 Dec 2021 23:04:37 +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">libstatgen (1.0.15-2) 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"> * Team upload.</span>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/libstatgen/-/compare/362e0a5866e6311cd32c4975dbe671e4e0746b61...ec0c6b9a1fda50c55c5108e8ae7add250831fd04#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold 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">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="14" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -14,7 +14,7 @@ Vcs-Git: https://salsa.debian.org/med-team/libstatgen.git</td>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">Homepage: https://genome.sph.umich.edu/wiki/C++_Library:_libStatGen</span>
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<td class="old_line diff-line-num" 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="LC15" class="line" lang="plaintext">Rules-Requires-Root: no</span>
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<td class="old_line diff-line-num" data-linenumber="16" 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="LC16" class="line" lang="plaintext"></span>
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<td class="old_line diff-line-num old" data-linenumber="17" 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="LC17" class="line" lang="plaintext">Package: libstatgen<span class="idiff left right">0</span></span>
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<td class="old_line diff-line-num new" data-linenumber="18" 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="LC17" class="line" lang="plaintext">Package: libstatgen<span class="idiff left right">1</span></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">Architecture: any-amd64</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">Multi-Arch: same</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">Section: libs</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">@@ -36,7 +36,7 @@ Package: libstatgen-dev</td>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="plaintext">Architecture: any-amd64</span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="plaintext">Multi-Arch: same</span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="plaintext">Section: libdevel</span>
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<pre style="margin: 0;">-<span id="LC39" class="line" lang="plaintext">Depends: libstatgen<span class="idiff left right">0</span> (= ${binary:Version}),</span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="plaintext">Depends: libstatgen<span class="idiff left right">1</span> (= ${binary:Version}),</span>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="plaintext"> ${misc:Depends}</span>
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="plaintext">Suggests: libstatgen-doc</span>
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<pre style="margin: 0;"> <span id="LC42" class="line" lang="plaintext">Description: development files for the libStatGen</span>
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<li id="adb7f75f79e3bb85eb62912a2904c5d24af878fb">
<a href="https://salsa.debian.org/med-team/libstatgen/-/compare/362e0a5866e6311cd32c4975dbe671e4e0746b61...ec0c6b9a1fda50c55c5108e8ae7add250831fd04#adb7f75f79e3bb85eb62912a2904c5d24af878fb"><strong>debian/copyright</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">@@ -12,7 +12,7 @@ Files: bam/*</td>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"> general/*</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> glf/*</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext"> vcf/*</span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext">Copyright: 2010-201<span class="idiff left right">3</span> Regents of the University of Michigan, Hyun Min Kang, Matthew Flickenger, Matthew Snyder and Goncalo Abecasis</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext">Copyright: 2010-201<span class="idiff left right">5</span> Regents of the University of Michigan, Hyun Min Kang, Matthew Flickenger, Matthew Snyder and Goncalo Abecasis</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">License: GPL-3+</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">Files: general/Random.cpp</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">@@ -44,7 +44,7 @@ License: Expat</td>
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="plaintext">Comment: Based on samtools version 981 (retrieved 7/26/11).</span>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="plaintext">Files: debian/*</span>
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<pre style="margin: 0;">-<span id="LC47" class="line" lang="plaintext">Copyright: 2018 Dylan Aïssi <bob.dybian@gmail.com></span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="plaintext">Copyright: 2018<span class="idiff left right">-2021</span> Dylan Aïssi <bob.dybian@gmail.com></span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="plaintext">License: GPL-3+</span>
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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">License: GPL-3+</span>
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<a href="https://salsa.debian.org/med-team/libstatgen/-/compare/362e0a5866e6311cd32c4975dbe671e4e0746b61...ec0c6b9a1fda50c55c5108e8ae7add250831fd04#cd51dc9331c8ebd1a9d99126cbddda0b05a1f720"><strong>debian/libstatgen0.symbols</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">libStatGen.so.<span class="idiff left">0</span> libstatgen<span class="idiff right">0</span> #MINVER#</span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext">* Build-Depends-Package: libstatgen<span class="idiff left right">0</span></span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">libStatGen.so.<span class="idiff left">1</span> libstatgen<span class="idiff right">1</span> #MINVER#</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">* Build-Depends-Package: libstatgen<span class="idiff left right">1</span></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"> InputPromptWidth@Base 1.0.14</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> (c++)"MemoryInfo(double)@Base" 1.0.14</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"> (c++)"QuickSort2(void*, void*, unsigned long, unsigned long, int (*)(void const*, void const*))@Base" 1.0.14</span>
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<a href="https://salsa.debian.org/med-team/libstatgen/-/compare/362e0a5866e6311cd32c4975dbe671e4e0746b61...ec0c6b9a1fda50c55c5108e8ae7add250831fd04#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Fix_compilation_flags.patch</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">spelling.patch</span></pre>
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<a href="https://salsa.debian.org/med-team/libstatgen/-/compare/362e0a5866e6311cd32c4975dbe671e4e0746b61...ec0c6b9a1fda50c55c5108e8ae7add250831fd04#45ae034d1d71b2d961abb7c91cf3d2f1a02a59c6"><strong>debian/patches/spelling.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="p">Description: fix typos caught by lintian</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="p">Author: Étienne Mollier <emollier@debian.org></span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">Forwarded: no</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"><span class="p">Last-Update: 2021-12-02</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"><span class="p">---</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"><span class="p">This patch header follows DEP-3: http://dep.debian.net/deps/dep3/</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- libstatgen.orig/general/PedigreeDescription.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ libstatgen/general/PedigreeDescription.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"><span class="p">@@ -242,7 +242,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> printf("Map file column labels\n"</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> " -- COLUMN 1, Expecting MARKER_ID, Read %s\n"</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> " -- COLUMN 2, Expecting MARKER_NAME, Read %s\n"</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- " -- COLUMN 3, Expection BASE_PAIR_POSITION, Read %s\n\n",</span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ " -- COLUMN 3, Expecting BASE_PAIR_POSITION, Read %s\n\n",</span></span>
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15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> (const char *)(tokens[0]), (const char *)(tokens[1]),</span>
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16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> (const char *)(tokens[2]));</span>
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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"> </span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- libstatgen.orig/general/PedigreeLoader.cpp</span></span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ libstatgen/general/PedigreeLoader.cpp</span></span>
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20
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"><span class="p">@@ -146,7 +146,7 @@</span></span>
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21
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> default :</span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"> new_status = atoi(affection);</span>
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23
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"> if (new_status < 0 || new_status > 2)</span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- error("Incorrect formating for affection status "</span></span>
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25
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ error("Incorrect formatting for affection status "</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"> "Col %d, Affection %s\n"</span>
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27
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"> "Family: %s Individual: %s Status: %s",</span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="diff"> col, (const char *) affectionNames[a],</span></pre>
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<a href="https://salsa.debian.org/med-team/libstatgen/-/compare/362e0a5866e6311cd32c4975dbe671e4e0746b61...ec0c6b9a1fda50c55c5108e8ae7add250831fd04#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</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">@@ -5,7 +5,7 @@ export DEB_BUILD_MAINT_OPTIONS = hardening=+all</td>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"></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"># Define SONAME for shared library</span>
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7
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">LIBNAME=libStatGen</span>
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8
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext">SONUMBER=<span class="idiff left right">0</span></span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">SONUMBER=<span class="idiff left right">1</span></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">LIBSHARED=${LIBNAME}.so.${SONUMBER}</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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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">%:</span>
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