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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/wgs-assembler">Debian Med / wgs-assembler</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/wgs-assembler/commit/493f3425a55b4625554f4620a02ac25634adde30">493f3425</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-30T11:54:37Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">debhelper 11
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/wgs-assembler/commit/664ad987bb03e9978a81b5d86a01048cae2023be">664ad987</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-30T11:54:39Z</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/wgs-assembler/commit/4648054b409350fc9cb2d4439070c18b524abbef">4648054b</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-30T11:54:40Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.2.1
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/wgs-assembler/commit/6575058103ea6e5e10ebb4e125e31f3d91cd5ace">65750581</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-30T11:54:40Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Secure URI in copyright format
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/wgs-assembler/commit/63db41df550c3fec9a1f8146a083d6555b922297">63db41df</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-30T11:54:40Z</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/wgs-assembler/commit/d5016e73ec1b5f9fe72708716557cca698c6cb3f">d5016e73</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-30T11:54:40Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove trailing whitespace in debian/rules
</pre>
</li>
</ul>
<h4>5 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="#adb7f75f79e3bb85eb62912a2904c5d24af878fb">
debian/copyright
</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/wgs-assembler/compare/4f2403e7e1a9880e0773824cb74aa6ffdaef4f66...d5016e73ec1b5f9fe72708716557cca698c6cb3f#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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1
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<td class="diff-line-num new_line" data-linenumber="1" 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="LC1" class="line" lang="plaintext">wgs-assembler (8.3rc2+ds1-1) UNRELEASED; urgency=low</span>
</pre>
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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>
</pre>
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<td class="diff-line-num new new_line" 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"> [ Afif Elghraoui ]</span>
</pre>
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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"> * Initial release (Closes: #395843)</span>
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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">
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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="LC5" class="line" lang="plaintext"></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="5" 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 noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> [ Andreas Tille ]</span>
</pre>
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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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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> * debhelper 11</span>
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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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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> * Point Vcs fields to salsa.debian.org</span>
</pre>
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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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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> * Standards-Version: 4.2.1</span>
</pre>
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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"> * Secure URI in copyright format</span>
</pre>
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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">
11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> * Drop useless get-orig-source target</span>
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<td class="diff-line-num new new_line" data-linenumber="12" 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="LC12" class="line" lang="plaintext"> * Remove trailing whitespace in debian/rules</span>
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<td class="diff-line-num new new_line" data-linenumber="13" 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">
13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext"></span>
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<td class="diff-line-num 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">
14
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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"> -- Afif Elghraoui <afif@ghraoui.name> Fri, 07 Aug 2015 22:11:27 -0700</span></pre>
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<li id="78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
<a href="https://salsa.debian.org/med-team/wgs-assembler/compare/4f2403e7e1a9880e0773824cb74aa6ffdaef4f66...d5016e73ec1b5f9fe72708716557cca698c6cb3f#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"><span class="idiff left right">9</span></span></pre>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext"><span class="idiff left right">11</span></span></pre>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/wgs-assembler/compare/4f2403e7e1a9880e0773824cb74aa6ffdaef4f66...d5016e73ec1b5f9fe72708716557cca698c6cb3f#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</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">Source: wgs-assembler</span>
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org></span>
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<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">
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Uploaders: Afif Elghraoui <afif@ghraoui.name>,</span>
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4
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="plaintext"><span class="idiff left right"> </span> William Spooner <whs@eaglegenomics.com>,</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"><span class="idiff left right"> </span> William Spooner <whs@eaglegenomics.com>,</span>
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5
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"> Andreas Tille <tille@debian.org>,</span>
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6
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"> Thorsten Alteholz <debian@alteholz.de></span>
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">Section: science</span>
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8
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">Priority: optional</span>
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9
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext">Build-Depends: debhelper (>= <span class="idiff left right">9</span>),</span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">Build-Depends: debhelper (>= <span class="idiff left right">11~</span>),</span>
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10
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> libbz2-dev,</span>
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> zlib1g-dev,</span>
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12
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"> libbam-dev,</span>
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13
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext"><span class="idiff left right"> </span> libmeryl-dev</span>
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14
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="plaintext">Standards-Version: <span class="idiff left right">3.9.6</span></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">Vcs-Browser: http<span class="idiff left right">://anonscm.debian.org/cgit/debian-med/wgs-assembler.git</span></span>
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<td class="diff-line-num old old_line" data-linenumber="16" 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">
16
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="plaintext">Vcs-Git: <span class="idiff left right">git://anonscm.debian.org/debian-med</span>/wgs-assembler.git</span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext"><span class="idiff left right"> </span> libmeryl-dev</span>
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<td class="diff-line-num new new_line" data-linenumber="14" 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">
14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext">Standards-Version: <span class="idiff left right">4.2.1</span></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext">Vcs-Browser: http<span class="idiff left right">s://salsa.debian.org/med-team/wgs-assembler</span></span>
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<td class="diff-line-num new new_line" data-linenumber="16" 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">
16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">Vcs-Git: <span class="idiff left right">https://salsa.debian.org/med-team</span>/wgs-assembler.git</span>
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17
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">Homepage: http://wgs-assembler.sourceforge.net</span>
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<td class="diff-line-num old_line" data-linenumber="18" 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">
18
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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">
19
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">Package: wgs-assembler</span>
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20
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">Architecture: any</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">
21
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext">Depends: ${shlibs:Depends},</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">
22
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"> ${misc:Depends},</span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="plaintext"><span class="idiff left right"> </span> meryl,</span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="plaintext"><span class="idiff left right"> </span> meryl,</span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext"> tcsh</span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext">Description: Whole-Genome DNA sequence assembler</span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext"> Celera Assembler is scientific software for DNA research. It can</span>
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<a href="https://salsa.debian.org/med-team/wgs-assembler/compare/4f2403e7e1a9880e0773824cb74aa6ffdaef4f66...d5016e73ec1b5f9fe72708716557cca698c6cb3f#adb7f75f79e3bb85eb62912a2904c5d24af878fb"><strong>debian/copyright</strong></a>
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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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<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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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Upstream-Name: WGS-Assembler</span>
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Upstream-Contact: Brian Walenz</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Source: http://sourceforge.net/projects/wgs-assembler/files/wgs-assembler/</span>
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<a href="https://salsa.debian.org/med-team/wgs-assembler/compare/4f2403e7e1a9880e0773824cb74aa6ffdaef4f66...d5016e73ec1b5f9fe72708716557cca698c6cb3f#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">@@ -8,7 +8,7 @@ DPKG_EXPORT_BUILDFLAGS = 1</td>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="make"><span class="err" style="color: #a61717; background-color: #e3d2d2;">include</span> <span class="err" style="color: #a61717; background-color: #e3d2d2;">/usr/share/dpkg/default.mk</span></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="make"><span class="nl">%</span><span class="o" style="font-weight: 600;">:</span></span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="make"> dh <span class="nv" style="color: teal;">$@</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="make"> dh <span class="nv" style="color: teal;">$@</span></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="make"><span class="nl">override_dh_auto_build</span><span class="o" style="font-weight: 600;">:</span></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="make"> <span class="nv" style="color: teal;">INC_SEARCH_PATH</span><span class="o" style="font-weight: 600;">=</span><span class="s2" style="color: #d14;">"/usr/include /usr/include/kmer"</span> <span class="se" style="color: #d14;">\</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -31,7 +31,4 @@ override_dh_fixperms:</td>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="make"> <span class="nb" style="color: #0086b3;">chmod</span> <span class="nt" style="color: navy;">-x</span> debian/<span class="nv" style="color: teal;">$(DEB_SOURCE)</span>/usr/lib/<span class="nv" style="color: teal;">$(DEB_SOURCE)</span>/TIGR/<span class="k" style="font-weight: 600;">*</span></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="make"> <span class="nb" style="color: #0086b3;">chmod</span> <span class="nt" style="color: navy;">-x</span> debian/<span class="nv" style="color: teal;">$(DEB_SOURCE)</span>/usr/lib/<span class="nv" style="color: teal;">$(DEB_SOURCE)</span>/caqc_help.ini</span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="make"></span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="make"><span class="nl">get-orig-source</span><span class="o" style="font-weight: 600;">:</span></span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="make"> <span class="nb" style="color: #0086b3;">mkdir</span> <span class="nt" style="color: navy;">-p</span> ../tarballs</span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="make"> uscan <span class="nt" style="color: navy;">--verbose</span> <span class="nt" style="color: navy;">--force-download</span> <span class="nt" style="color: navy;">--repack</span> <span class="nt" style="color: navy;">--compression</span> bz2 <span class="nt" style="color: navy;">--destdir</span><span class="o" style="font-weight: 600;">=</span>../tarballs</span>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="make"></span></pre>
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