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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/blends-team/med">Debian Blends Team / med</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/blends-team/med/-/commit/3c727fb80a0f23eb2da034ffe6f15a828509ea00">3c727fb8</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-05-15T22:29:41+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Another status update of Dependencies in Debian
</pre>
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<h4>1 changed file:</h4>
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<li class="file-stats">
<a href="#6d072c2122e74d0aa0bfeb56f2e3fd56014c34b6">
covid-19_doc/bio_covid-19_dependencies_result
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<h4>Changes:</h4>
<li id="6d072c2122e74d0aa0bfeb56f2e3fd56014c34b6">
<a href="https://salsa.debian.org/blends-team/med/-/commit/3c727fb80a0f23eb2da034ffe6f15a828509ea00#6d072c2122e74d0aa0bfeb56f2e3fd56014c34b6"><strong>covid-19_doc/bio_covid-19_dependencies_result</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="mosel"><span class="n" style="color: #333;">Last</span><span class="p">-</span><span class="n" style="color: #333;">Update</span><span class="p">:</span> <span class="n" style="color: #333;"><span class="idiff left">Thu</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="m" style="color: #099;"><span class="idiff">14</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">May</span></span><span class="idiff"> </span><span class="m" style="color: #099;"><span class="idiff">2020</span></span><span class="idiff"> </span><span class="m" style="color: #099;"><span class="idiff">08</span></span><span class="p"><span class="idiff">:</span></span><span class="m" style="color: #099;"><span class="idiff">38</span></span><span class="p"><span class="idiff">:</span></span><span class="m" style="color: #099;"><span class="idiff right">41</span></span> <span class="p">+</span><span class="m" style="color: #099;">0200</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1" 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">
1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="mosel"><span class="n" style="color: #333;">Last</span><span class="p">-</span><span class="n" style="color: #333;">Update</span><span class="p">:</span> <span class="n" style="color: #333;"><span class="idiff left">Fri</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="m" style="color: #099;"><span class="idiff">15</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">May</span></span><span class="idiff"> </span><span class="m" style="color: #099;"><span class="idiff">2020</span></span><span class="idiff"> </span><span class="m" style="color: #099;"><span class="idiff">22</span></span><span class="p"><span class="idiff">:</span></span><span class="m" style="color: #099;"><span class="idiff">24</span></span><span class="p"><span class="idiff">:</span></span><span class="m" style="color: #099;"><span class="idiff right">02</span></span> <span class="p">+</span><span class="m" style="color: #099;">0200</span></span>
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2
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<td class="diff-line-num new_line" data-linenumber="2" 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">
2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="mosel"></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="mosel"> <span class="k" style="font-weight: 600;">package</span> <span class="p">|</span> <span class="n" style="color: #333;">architectures</span> <span class="p">|</span> <span class="n" style="color: #333;">section</span> <span class="p">|</span> <span class="n" style="color: #333;">releases</span> <span class="p">|</span> <span class="n" style="color: #333;">conda</span> <span class="p">|</span> <span class="n" style="color: #333;">bio</span><span class="p">.</span><span class="n" style="color: #333;">tools</span> </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">
4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="mosel"><span class="p">-----------------------------+---------------------+----------+---------------------------------------------+--------------------------+--------------</span></span>
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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>
<td class="diff-line-num unfold js-unfold new_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>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -19,11 +19,11 @@ Last-Update: Thu, 14 May 2020 08:38:41 +0200</td>
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19
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<td class="diff-line-num new_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="mosel"> <span class="n" style="color: #333;">drop</span><span class="p">-</span><span class="n" style="color: #333;">seq</span><span class="p">-</span><span class="n" style="color: #333;">tools</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> </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">
20
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<td class="diff-line-num new_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">
20
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="mosel"> <span class="n" style="color: #333;">fastp</span> <span class="p">|</span> <span class="n" style="color: #333;">amd64</span><span class="p">,</span><span class="n" style="color: #333;">arm64</span><span class="p">,</span><span class="n" style="color: #333;">ppc64el</span> <span class="p">|</span> <span class="n" style="color: #333;">main</span> <span class="p">|</span> <span class="n" style="color: #333;">buster</span><span class="p">,</span><span class="n" style="color: #333;">bullseye</span><span class="p">,</span><span class="n" style="color: #333;">sid</span> <span class="p">|</span> <span class="n" style="color: #333;">fastp</span> <span class="p">|</span> </span>
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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="mosel"> <span class="n" style="color: #333;">fastqc</span> <span class="p">|</span> <span class="n" style="color: #333;">all</span> <span class="p">|</span> <span class="n" style="color: #333;">main</span> <span class="p">|</span> <span class="n" style="color: #333;">buster</span><span class="p">,</span><span class="n" style="color: #333;">bullseye</span><span class="p">,</span><span class="n" style="color: #333;">sid</span> <span class="p">|</span> <span class="n" style="color: #333;">fastqc</span> <span class="p">|</span> <span class="n" style="color: #333;">FastQC</span></span>
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<td class="diff-line-num old old_line" data-linenumber="22" 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="LC22" class="line" lang="mosel"> <span class="n" style="color: #333;">filtlong</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <span class="n" style="color: #333;"><span class="idiff left">https</span></span><span class="p"><span class="idiff">://</span></span><span class="n" style="color: #333;"><span class="idiff">salsa</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">debian</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">org</span></span><span class="p"><span class="idiff">/</span></span><span class="n" style="color: #333;"><span class="idiff">med</span></span><span class="p"><span class="idiff">-</span></span><span class="n" style="color: #333;"><span class="idiff">team</span></span><span class="p"><span class="idiff">/</span></span><span class="n" style="color: #333;"><span class="idiff right">filtlong</span></span> <span class="p">|</span> <span class="p">|</span> </span>
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<td class="diff-line-num new new_line" data-linenumber="22" 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="LC22" class="line" lang="mosel"> <span class="n" style="color: #333;">filtlong</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <span class="n" style="color: #333;"><span class="idiff left">new</span></span><span class="idiff right"> </span> <span class="p">|</span> <span class="p">|</span> </span>
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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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<pre style="margin: 0;"> <span id="LC23" class="line" lang="mosel"> <span class="n" style="color: #333;">freebayes</span> <span class="p">|</span> <span class="n" style="color: #333;">amd64</span><span class="p">,</span><span class="n" style="color: #333;">arm64</span><span class="p">,</span><span class="n" style="color: #333;">ppc64el</span> <span class="p">|</span> <span class="n" style="color: #333;">main</span> <span class="p">|</span> <span class="n" style="color: #333;">buster</span><span class="p">,</span><span class="n" style="color: #333;">bullseye</span><span class="p">,</span><span class="n" style="color: #333;">sid</span> <span class="p">|</span> <span class="n" style="color: #333;">freebayes</span> <span class="p">|</span> <span class="n" style="color: #333;">freebayes</span></span>
</pre>
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<td class="diff-line-num new_line" data-linenumber="24" 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="LC24" class="line" lang="mosel"> <span class="n" style="color: #333;">gatk</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <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;">gatk</span> <span class="p">|</span> <span class="p">|</span> </span>
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<td class="diff-line-num new_line" data-linenumber="25" 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="LC25" class="line" lang="mosel"> <span class="n" style="color: #333;">graphmap2</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <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;">graphmap2</span> <span class="p">|</span> <span class="p">|</span> </span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="mosel"> <span class="n" style="color: #333;">ivar</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <span class="idiff left right"> </span> <span class="p">|</span> <span class="p">|</span> </span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="mosel"> <span class="n" style="color: #333;">ivar</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <span class="n" style="color: #333;"><span class="idiff left right">new</span></span> <span class="p">|</span> <span class="p">|</span> </span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="mosel"> <span class="n" style="color: #333;">kallisto</span> <span class="p">|</span> <span class="n" style="color: #333;">amd64</span><span class="p">,</span><span class="n" style="color: #333;">arm64</span><span class="p">,</span><span class="n" style="color: #333;">ppc64el</span> <span class="p">|</span> <span class="n" style="color: #333;">main</span> <span class="p">|</span> <span class="n" style="color: #333;">bullseye</span><span class="p">,</span><span class="n" style="color: #333;">sid</span> <span class="p">|</span> <span class="n" style="color: #333;">kallisto</span> <span class="p">|</span> <span class="n" style="color: #333;">kallisto</span></span>
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28
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="mosel"> <span class="n" style="color: #333;">kraken2</span> <span class="p">|</span> <span class="n" style="color: #333;">amd64</span><span class="p">,</span><span class="n" style="color: #333;">arm64</span><span class="p">,</span><span class="n" style="color: #333;">ppc64el</span> <span class="p">|</span> <span class="n" style="color: #333;">main</span> <span class="p">|</span> <span class="n" style="color: #333;">bullseye</span><span class="p">,</span><span class="n" style="color: #333;">sid</span> <span class="p">|</span> <span class="n" style="color: #333;">kraken2</span> <span class="p">|</span> <span class="n" style="color: #333;">kraken</span></span>
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29
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="mosel"> <span class="n" style="color: #333;">libhts</span><span class="p">-</span><span class="n" style="color: #333;">dev</span> <span class="p">|</span> <span class="n" style="color: #333;">amd64</span><span class="p">,</span><span class="n" style="color: #333;">arm64</span><span class="p">,</span><span class="n" style="color: #333;">ppc64el</span> <span class="p">|</span> <span class="n" style="color: #333;">main</span> <span class="p">|</span> <span class="n" style="color: #333;">buster</span><span class="p">,</span><span class="n" style="color: #333;">bullseye</span><span class="p">,</span><span class="n" style="color: #333;">sid</span> <span class="p">|</span> <span class="n" style="color: #333;">htslib</span> <span class="p">|</span> </span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="40" 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="40" 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">@@ -40,7 +40,7 @@ Last-Update: Thu, 14 May 2020 08:38:41 +0200</td>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="mosel"> <span class="n" style="color: #333;">ncbi</span><span class="p">-</span><span class="n" style="color: #333;">blast</span><span class="p">+</span> <span class="p">|</span> <span class="n" style="color: #333;">amd64</span><span class="p">,</span><span class="n" style="color: #333;">arm64</span><span class="p">,</span><span class="n" style="color: #333;">ppc64el</span> <span class="p">|</span> <span class="n" style="color: #333;">main</span> <span class="p">|</span> <span class="n" style="color: #333;">buster</span><span class="p">,</span><span class="n" style="color: #333;">bullseye</span><span class="p">,</span><span class="n" style="color: #333;">sid</span> <span class="p">|</span> <span class="n" style="color: #333;">blast</span> <span class="p">|</span> <span class="n" style="color: #333;">blast</span></span>
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41
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="mosel"> <span class="n" style="color: #333;">nextflow</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <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;">nextflow</span> <span class="p">|</span> <span class="p">|</span> </span>
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<pre style="margin: 0;"> <span id="LC42" class="line" lang="mosel"> <span class="n" style="color: #333;">nf</span><span class="p">-</span><span class="n" style="color: #333;">core</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> </span>
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<td class="diff-line-num new_line old" data-linenumber="43" 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="LC43" class="line" lang="mosel"> <span class="n" style="color: #333;">parallel</span><span class="p">-</span><span class="n" style="color: #333;">fastq</span><span class="p">-</span><span class="n" style="color: #333;">dump</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <span class="idiff left right"> </span> <span class="p">|</span> <span class="p">|</span> </span>
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43
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="mosel"> <span class="n" style="color: #333;">parallel</span><span class="p">-</span><span class="n" style="color: #333;">fastq</span><span class="p">-</span><span class="n" style="color: #333;">dump</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <span class="n" style="color: #333;"><span class="idiff left right">new</span></span> <span class="p">|</span> <span class="p">|</span> </span>
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44
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="mosel"> <span class="n" style="color: #333;">picard</span><span class="p">-</span><span class="n" style="color: #333;">tools</span> <span class="p">|</span> <span class="n" style="color: #333;">amd64</span> <span class="p">|</span> <span class="n" style="color: #333;">main</span> <span class="p">|</span> <span class="n" style="color: #333;">buster</span><span class="p">,</span><span class="n" style="color: #333;">bullseye</span><span class="p">,</span><span class="n" style="color: #333;">sid</span> <span class="p">|</span> <span class="n" style="color: #333;">picard</span> <span class="p">|</span> <span class="n" style="color: #333;">Picard_tools</span></span>
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45
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<td class="diff-line-num new_line" data-linenumber="45" 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">
45
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="mosel"> <span class="n" style="color: #333;">porechop</span> <span class="p">|</span> <span class="n" style="color: #333;">amd64</span><span class="p">,</span><span class="n" style="color: #333;">arm64</span><span class="p">,</span><span class="n" style="color: #333;">ppc64el</span> <span class="p">|</span> <span class="n" style="color: #333;">main</span> <span class="p">|</span> <span class="n" style="color: #333;">buster</span><span class="p">,</span><span class="n" style="color: #333;">bullseye</span><span class="p">,</span><span class="n" style="color: #333;">sid</span> <span class="p">|</span> <span class="p">|</span> </span>
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46
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<td class="diff-line-num new_line" data-linenumber="46" 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">
46
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="mosel"> <span class="n" style="color: #333;">presto</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> <span class="p">|</span> </span>
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