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<h3>
Steffen Möller pushed to branch master
at <a href="https://salsa.debian.org/med-team/bcbio">Debian Med / bcbio</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/bcbio/-/commit/421360cf768587c07f83178afc52a01d5b96e89d">421360cf</a></strong>
<div>
<span>by Steffen Möller</span>
<i>at 2020-03-26T02:02:44+00:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update TODO - dnapi was accepted</pre>
</li>
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<h4>1 changed file:</h4>
<ul>
<li class="file-stats">
<a href="#d9d67e646e83973f5e1d6cd63fe8c9dffb33ebba">
debian/TODO
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="d9d67e646e83973f5e1d6cd63fe8c9dffb33ebba">
<a href="https://salsa.debian.org/med-team/bcbio/-/commit/421360cf768587c07f83178afc52a01d5b96e89d#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">@@ -44,11 +44,11 @@ convinced that this is no longer required.</td>
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="mosel"><span class="s1" style="color: #d14;">        pyyaml https://pyyaml.org/wiki/PyYAML</span></span>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="mosel"><span class="s1" style="color: #d14;">        seqcluster # not yet in new</span></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="mosel"><span class="s1" style="color: #d14;"> To be packaged</span></span>
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<pre style="margin: 0;">-<span id="LC47" class="line" lang="mosel"><span class="s1" style="color: #d14;"> dnapi https://github.com/jnktsj/DNApi</span></span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="mosel"><span class="s1" style="color: #d14;">        fadapa https://github.com/fadapa/fadapa</span></span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="mosel"><span class="s1" style="color: #d14;">        pycrypto</span></span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="mosel"><span class="s1" style="color: #d14;"> Available in Debian but not added as a dependency (yet)</span></span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="mosel"><span class="s1" style="color: #d14;">        boto</span></span>
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="mosel"><span class="s1" style="color: #d14;">         dnapi https://github.com/jnktsj/DNApi</span></span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="mosel"><span class="s1" style="color: #d14;">        htslib   # not called directly?</span></span>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="mosel"><span class="s1" style="color: #d14;">        #pip # ridiculous</span></span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="mosel"><span class="s1" style="color: #d14;">        openssl >=1.1.1c,<1.1.2a</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">@@ -98,11 +98,6 @@ package libjs-scribl (rejected)</td>
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="mosel"><span class="s1" style="color: #d14;">    A surprisingly neat JavaScript library to show genomic features</span></span>
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<pre style="margin: 0;"> <span id="LC99" class="line" lang="mosel"><span class="s1" style="color: #d14;">       Needed for DFSG-compliance of seqcluster</span></span>
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<pre style="margin: 0;"> <span id="LC100" class="line" lang="mosel"></span>
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<pre style="margin: 0;">-<span id="LC101" class="line" lang="mosel"><span class="s1" style="color: #d14;">Package dnapi with python3-dnapilib</span></span>
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<pre style="margin: 0;">-<span id="LC102" class="line" lang="mosel"><span class="s1" style="color: #d14;">  https://github.com/jnktsj/DNApi</span></span>
</pre>
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<pre style="margin: 0;">-<span id="LC103" class="line" lang="mosel"><span class="s1" style="color: #d14;">     Likely a "recommends" only:</span></span>
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<td class="diff-line-num old old_line" data-linenumber="104" 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">
104
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<td class="diff-line-num new_line old" data-linenumber="101" 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="LC104" class="line" lang="mosel"><span class="s1" style="color: #d14;">     bcbio/srna/sample.py:    from dnapilib.apred import iterative_adapter_prediction</span></span>
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<td class="diff-line-num old old_line" data-linenumber="105" 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">
105
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<td class="diff-line-num new_line old" data-linenumber="101" 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="LC105" class="line" lang="mosel"></span>
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<td class="diff-line-num old_line" data-linenumber="106" 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">
106
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<td class="diff-line-num new_line" data-linenumber="101" 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">
101
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<pre style="margin: 0;"> <span id="LC101" class="line" lang="mosel"><span class="s1" style="color: #d14;">Package MultiQC (in crash space) (rejected from new)</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="107" 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">
107
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102
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<pre style="margin: 0;"> <span id="LC102" class="line" lang="mosel"><span class="s1" style="color: #d14;">   https://salsa.debian.org/med-team/multiqc</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="108" 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">
108
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<pre style="margin: 0;"> <span id="LC103" class="line" lang="mosel"><span class="s1" style="color: #d14;">     Addressed https://github.com/ewels/MultiQC/issues/800 by substuting</span></span>
</pre>
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