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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/bagpipe">Debian Med / bagpipe</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/bagpipe/commit/fc66f9af2b92972bbfeff6ef9110e2fb5c795278">fc66f9af</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T07:24:30Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">debhelper 12
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bagpipe/commit/28cad7297344825fb454895e465c7bc47497188e">28cad729</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T07:24:38Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Point Vcs fields to salsa.debian.org
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bagpipe/commit/b11c531e105f236b6e21026ce043ec5d37b3a5b9">b11c531e</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T07:24:38Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.3.0
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bagpipe/commit/21c07f5b43ee5d845841c1e2749fc6fb82552a5c">21c07f5b</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T07:24:39Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Drop useless get-orig-source target
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bagpipe/commit/853931c489d8f18898ef16f857d0f08028c70cf1">853931c4</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T07:24:39Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove trailing whitespace in debian/control
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bagpipe/commit/a7e5bf61550fb688b560adcdfd4bd7a8f192019a">a7e5bf61</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T07:25:26Z</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/bagpipe/commit/7ff5ff5bd3488bfb7e81e0bf960de6328181bce4">7ff5ff5b</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T07:27:33Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove autogenarated changes
</pre>
</li>
</ul>
<h4>4 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
debian/compat
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</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/bagpipe/compare/fb9ed64b21ef41dcdfeb9b26def24627771a28e4...7ff5ff5bd3488bfb7e81e0bf960de6328181bce4#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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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="LC1" class="line" lang="plaintext">bagpipe (2012.02.15-1) UNRELEASED; urgency=low</span>
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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="LC2" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext"> [ Thorsten Alteholz ]</span>
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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="LC3" class="line" lang="plaintext"> * initial version (Closes: #XXXXXX)</span>
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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="LC4" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"> [ Andreas Tille ]</span>
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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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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext"> * Moved packaging from SVN to Git</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">
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext"> -- Thorsten Alteholz <debian@alteholz.de> Tue, 09 Apr 2013 18:00:07 +0200</span></pre>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> -- Thorsten Alteholz <debian@alteholz.de> Mon, 08 Apr 2019 09:24:39 +0200</span></pre>
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<br>
</li>
<li id="78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
<a href="https://salsa.debian.org/med-team/bagpipe/compare/fb9ed64b21ef41dcdfeb9b26def24627771a28e4...7ff5ff5bd3488bfb7e81e0bf960de6328181bce4#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4"><strong>debian/compat</strong></a>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">1<span class="idiff left right">0</span></span></pre>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">1<span class="idiff left right">2</span></span></pre>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/bagpipe/compare/fb9ed64b21ef41dcdfeb9b26def24627771a28e4...7ff5ff5bd3488bfb7e81e0bf960de6328181bce4#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold 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">...</td>
<td class="diff-line-num unfold js-unfold 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">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -3,10 +3,10 @@ Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.</td>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Uploaders: Thorsten Alteholz <debian@alteholz.de></span>
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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">
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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="LC4" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper (>= 1<span class="idiff left right">0</span>)</span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext">Standards-Version: <span class="idiff left right">3.9.8</span></span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext">Vcs-Browser: https://<span class="idiff left right">anonscm.debian.org/cgit/debian-med/bagpipe.git</span></span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext">Vcs-Git: https://<span class="idiff left right">anonscm.debian.org/git/debian-med</span>/bagpipe.git</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper (>= 1<span class="idiff left right">2~</span>)</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">Standards-Version: <span class="idiff left right">4.3.0</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">Vcs-Browser: https://<span class="idiff left right">salsa.debian.org/med-team/bagpipe</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">Vcs-Git: https://<span class="idiff left right">salsa.debian.org/med-team</span>/bagpipe.git</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">Homepage: http://valdarlab.unc.edu/software/bagpipe/_build/html/bagpipe.html</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">Package: bagpipe</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">@@ -16,24 +16,24 @@ Depends: ${shlibs:Depends},</td>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"> ${perl:Depends},</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"> r-other-valdar-bagpipe.backend</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">Description: genomewide LD mapping</span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="plaintext"> Bagpipe is a program for performing genomewide linkage disequilibrium<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="plaintext"> mapping of quantitative trait loci in populations whose genome structure<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="plaintext"> can be accommodated in the HAPPY framework [Mott00]. This includes most<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"> Bagpipe is a program for performing genomewide linkage disequilibrium</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext"> mapping of quantitative trait loci in populations whose genome structure</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="plaintext"> can be accommodated in the HAPPY framework [Mott00]. This includes most</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"> diploid crosses where the founders of the individuals have known genotypes.</span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext"> .</span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="plaintext"> * Bagpipe is a simplified and streamlined version of Bagphenotype that<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="plaintext"> * Bagpipe is a simplified and streamlined version of Bagphenotype that</span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext"> does not currently include resample model averaging (RMA) capabilities.</span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="plaintext"> * Bagpipe can help fit single locus regression models (with or without<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="plaintext"> random effects) to marker intervals whose genetic ancestry is inferred<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="plaintext"> * Bagpipe can help fit single locus regression models (with or without</span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="plaintext"> random effects) to marker intervals whose genetic ancestry is inferred</span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="plaintext"> using the HAPPY software.</span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="plaintext"> * Bagpipe cannot help you decide what is a sensible model to fit.</span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="plaintext"> * Bagpipe does not currently accommodate populations with significant<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="plaintext"> population structure, except through the specification of simple random<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="plaintext"> * Bagpipe does not currently accommodate populations with significant</span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="plaintext"> population structure, except through the specification of simple random</span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="plaintext"> intercepts based on unpatterned covariance matrices.</span>
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<pre style="margin: 0;">-<span id="LC33" class="line" lang="plaintext"> * Bagpipe is named after the Scottish wind instrument "the bagpipes" and<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="plaintext"> after Bagphenotype, which in turn was a PIPEline for BAGging-based<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="plaintext"> multiple QTL analysis of phenoTYPEs. Bagphenotype was in turn based<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="plaintext"> on software written by Richard Mott and William Valdar to analyze<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="plaintext"> * Bagpipe is named after the Scottish wind instrument "the bagpipes" and</span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="plaintext"> after Bagphenotype, which in turn was a PIPEline for BAGging-based</span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="plaintext"> multiple QTL analysis of phenoTYPEs. Bagphenotype was in turn based</span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="plaintext"> on software written by Richard Mott and William Valdar to analyze</span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="plaintext"> heterogeneous stock mice in [Valdar06].</span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="plaintext"> * Bagpipe is experimental software, is provided free of charge subject to<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="plaintext"> * Bagpipe is experimental software, is provided free of charge subject to</span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="plaintext"> copyleft restrictions, and comes with no guarantees whatsoever.</span></pre>
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<a href="https://salsa.debian.org/med-team/bagpipe/compare/fb9ed64b21ef41dcdfeb9b26def24627771a28e4...7ff5ff5bd3488bfb7e81e0bf960de6328181bce4#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">@@ -10,7 +10,4 @@ override_dh_auto_install:</td>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> ls -lR</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"># dh_installchangelogs README</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"></span>
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13
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext">get-orig-source:</span>
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<td class="diff-line-num old old_line" data-linenumber="14" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
14
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="plaintext"> mkdir -p ../tarballs</span>
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<td class="diff-line-num old old_line" data-linenumber="15" 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">
15
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext"> uscan --verbose --force-download --destdir=../tarballs</span>
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<td class="diff-line-num old_line" 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">
16
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13
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"></span></pre>
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