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<h3>
Shayan Doust pushed to branch master
at <a href="https://salsa.debian.org/med-team/bcalm">Debian Med / bcalm</a>
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<h4>
Commits:
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<strong><a href="https://salsa.debian.org/med-team/bcalm/commit/480104cfeb35828b02cf1a6786dea857d1544cf3">480104cf</a></strong>
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<span>by Shayan Doust</span>
<i>at 2019-10-01T15:01:29Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Do some key checks as pbuilder hook seemingly messes autopkgtest
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<h4>1 changed file:</h4>
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<a href="#1ab3d5c5e1c1967751dc66bebc2bbca1b3e881b7">
debian/missing-sources/compare_fasta.py
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<h4>Changes:</h4>
<li id="1ab3d5c5e1c1967751dc66bebc2bbca1b3e881b7">
<a href="https://salsa.debian.org/med-team/bcalm/commit/480104cfeb35828b02cf1a6786dea857d1544cf3#1ab3d5c5e1c1967751dc66bebc2bbca1b3e881b7"><strong>debian/missing-sources/compare_fasta.py</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">@@ -7,8 +7,9 @@ fasta2 = sys.argv[2]</td>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="python"><span class="n" style="color: #333;">revcomp</span> <span class="o" style="font-weight: 600;">=</span> <span class="k" style="font-weight: 600;">lambda</span> <span class="n" style="color: #333;">x</span><span class="p">:</span> <span class="s" style="color: #d14;">''</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">join</span><span class="p">([{</span><span class="s" style="color: #d14;">'A'</span><span class="p">:</span><span class="s" style="color: #d14;">'T'</span><span class="p">,</span><span class="s" style="color: #d14;">'C'</span><span class="p">:</span><span class="s" style="color: #d14;">'G'</span><span class="p">,</span><span class="s" style="color: #d14;">'G'</span><span class="p">:</span><span class="s" style="color: #d14;">'C'</span><span class="p">,</span><span class="s" style="color: #d14;">'T'</span><span class="p">:</span><span class="s" style="color: #d14;">'A'</span><span class="p">}[</span><span class="n" style="color: #333;">B</span><span class="p">]</span> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">B</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">x</span><span class="p">][::</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">])</span></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">normalize</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="python"> <span class="n" style="color: #333;">rev</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">revcomp</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="p">)</span></span>
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<td class="diff-line-num old old_line" data-linenumber="11" 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="LC11" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">min</span><span class="p">(</span><span class="n" style="color: #333;">rev</span><span class="p">,</span><span class="n" style="color: #333;">seq</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">'A'</span> <span class="ow" style="font-weight: 600;">or</span> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">'C'</span> <span class="ow" style="font-weight: 600;">or</span> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">'G'</span> <span class="ow" style="font-weight: 600;">or</span> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">'T'</span><span class="p">:</span></span>
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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">
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="python"> <span class="n" style="color: #333;">rev</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">revcomp</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">min</span><span class="p">(</span><span class="n" style="color: #333;">rev</span><span class="p">,</span><span class="n" style="color: #333;">seq</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">read_seqs</span><span class="p">(</span><span class="n" style="color: #333;">fasta</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="python"> <span class="n" style="color: #333;">seqs</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">set</span><span class="p">()</span></span>
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