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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/bcbio">Debian Med / bcbio</a>
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<h4>
Commits:
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<ul>
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<strong><a href="https://salsa.debian.org/med-team/bcbio/commit/f01b74ddb3edc28ff831904d42f135edfe1f03ae">f01b74dd</a></strong>
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<span>by Andreas Tille</span>
<i>at 2019-04-18T09:10:39Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Qalimap packaging is in Git but some code depencency lost
</pre>
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<h4>1 changed file:</h4>
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<a href="#d9d67e646e83973f5e1d6cd63fe8c9dffb33ebba">
debian/TODO
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<h4>Changes:</h4>
<li id="d9d67e646e83973f5e1d6cd63fe8c9dffb33ebba">
<a href="https://salsa.debian.org/med-team/bcbio/commit/f01b74ddb3edc28ff831904d42f135edfe1f03ae#d9d67e646e83973f5e1d6cd63fe8c9dffb33ebba"><strong>debian/TODO</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">@@ -79,7 +79,9 @@ package tophat-recondition</td>
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79
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<pre style="margin: 0;"> <span id="LC79" class="line" lang="mosel"><span class="n" style="color: #333;">https</span><span class="p">://</span><span class="n" style="color: #333;">github</span><span class="p">.</span><span class="n" style="color: #333;">com</span><span class="p">/</span><span class="n" style="color: #333;">cbrueffer</span><span class="p">/</span><span class="n" style="color: #333;">tophat</span><span class="p">-</span><span class="n" style="color: #333;">recondition</span></span>
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<td class="diff-line-num old_line" data-linenumber="80" 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="LC80" class="line" lang="mosel"></span>
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<td class="diff-line-num old_line" data-linenumber="81" 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="LC81" class="line" lang="mosel"><span class="k" style="font-weight: 600;">package</span> <span class="n" style="color: #333;">qualimap</span></span>
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<td class="diff-line-num old old_line" data-linenumber="82" 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">
82
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<pre style="margin: 0;">-<span id="LC82" class="line" lang="mosel"><span class="n" style="color: #333;">http</span><span class="p">://</span><span class="n" style="color: #333;">qualimap</span><span class="p">.</span><span class="n" style="color: #333;">bioinfo</span><span class="p">.</span><span class="n" style="color: #333;">cipf</span><span class="p">.</span><span class="n" style="color: #333;">es</span><span class="p">/</span></span>
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<td class="diff-line-num new new_line" data-linenumber="82" 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">
82
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<pre style="margin: 0;">+<span id="LC82" class="line" lang="mosel"> <span class="n" style="color: #333;">https</span><span class="p">://</span><span class="n" style="color: #333;">salsa</span><span class="p">.</span><span class="n" style="color: #333;">debian</span><span class="p">.</span><span class="n" style="color: #333;">org</span><span class="p">/</span><span class="n" style="color: #333;">med</span><span class="p">-</span><span class="n" style="color: #333;">team</span><span class="p">/</span><span class="n" style="color: #333;">qualimap</span></span>
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<pre style="margin: 0;">+<span id="LC83" class="line" lang="mosel"> <span class="n" style="color: #333;">Unfortunately</span> <span class="n" style="color: #333;">some</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">Java</span> <span class="n" style="color: #333;">code</span> <span class="n" style="color: #333;">that</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">needed</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">predepenceny</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">simply</span> <span class="n" style="color: #333;">lost</span> <span class="n" style="color: #333;">see</span></span>
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84
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<pre style="margin: 0;">+<span id="LC84" class="line" lang="mosel"> <span class="n" style="color: #333;">https</span><span class="p">://</span><span class="n" style="color: #333;">alioth</span><span class="p">-</span><span class="n" style="color: #333;">lists</span><span class="p">.</span><span class="n" style="color: #333;">debian</span><span class="p">.</span><span class="n" style="color: #333;">net</span><span class="p">/</span><span class="n" style="color: #333;">pipermail</span><span class="p">/</span><span class="n" style="color: #333;">debian</span><span class="p">-</span><span class="n" style="color: #333;">med</span><span class="p">-</span><span class="n" style="color: #333;">packaging</span><span class="p">/</span><span class="m" style="color: #099;">2016</span><span class="p">-</span><span class="n" style="color: #333;">January</span><span class="p">/</span><span class="m" style="color: #099;">038322.</span><span class="n" style="color: #333;">html</span></span>
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83
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<td class="diff-line-num new_line" data-linenumber="85" 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="LC85" class="line" lang="mosel"></span>
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84
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<td class="diff-line-num new_line" data-linenumber="86" 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="LC86" class="line" lang="mosel"><span class="k" style="font-weight: 600;">package</span> <span class="n" style="color: #333;">gffread</span></span>
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<pre style="margin: 0;"> <span id="LC87" class="line" lang="mosel"><span class="n" style="color: #333;">https</span><span class="p">://</span><span class="n" style="color: #333;">github</span><span class="p">.</span><span class="n" style="color: #333;">com</span><span class="p">/</span><span class="n" style="color: #333;">gpertea</span><span class="p">/</span><span class="n" style="color: #333;">gffread</span></span></pre>
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