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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/b50e6f19c716aa9563e93645a3c2cd48194c2820">b50e6f19</a></strong>
<div>
<span>by Steffen Möller</span>
<i>at 2019-10-19T12:01:29Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.1.7</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bcbio/commit/dd4280b1fcd16341abf7a4806b9f29820a0648ff">dd4280b1</a></strong>
<div>
<span>by Steffen Möller</span>
<i>at 2019-10-19T12:02:04Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/1.1.7'
Update to upstream version '1.1.7'
with Debian dir 687a566dcf2fc239ec1c51afd05eb2b1f6d5e08e</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bcbio/commit/1bfdb9f4fc73b24f67644ed0c6b73884554edec8">1bfdb9f4</a></strong>
<div>
<span>by Steffen Möller</span>
<i>at 2019-10-19T12:04:23Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Prepare for new upstream release.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bcbio/commit/37c2bb77d12e684efaff6d00a5ad2af597ea5a74">37c2bb77</a></strong>
<div>
<span>by Steffen Möller</span>
<i>at 2019-10-19T12:10:48Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Directing bcbio to contrib
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bcbio/commit/fa26f1975965ae230a8c0d5861aca90a8754382a">fa26f197</a></strong>
<div>
<span>by Steffen Möller</span>
<i>at 2019-10-19T12:13:27Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Avoid lintian errors because of missing -x flags
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bcbio/commit/5ff0ae1bda71d145b9bf35a93075fc37a901d839">5ff0ae1b</a></strong>
<div>
<span>by Steffen Möller</span>
<i>at 2019-10-19T12:20:26Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Added ref to conda
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bcbio/commit/c8f9eac5127fe3bdaa65fb13c779509c9756d863">c8f9eac5</a></strong>
<div>
<span>by Steffen Möller</span>
<i>at 2019-10-19T12:20:58Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Merge branch 'master' of salsa.debian.org:med-team/bcbio
</pre>
</li>
</ul>
<h4>30 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#0834ae016f8fea5cff771880c0be1d55299732ff">
<span class="new-file">
+
CODE_OF_CONDUCT.md
</span>
</a>
</li>
<li class="file-stats">
<a href="#d30b04166486087de34ff05cf278d3dd2ddd2360">
HISTORY.md
</a>
</li>
<li class="file-stats">
<a href="#059a93c69080af2f6054c5324203b7af73cc5b83">
bcbio/bam/__init__.py
</a>
</li>
<li class="file-stats">
<a href="#1739ba9205b7ef6c4fd30455b222cb9c371e9501">
bcbio/bam/coverage.py
</a>
</li>
<li class="file-stats">
<a href="#182fba4769123c455cd02418f79d193a381ad1c4">
bcbio/bam/fastq.py
</a>
</li>
<li class="file-stats">
<a href="#e518229f249f53b16d0dd891314f18afa565e3cb">
bcbio/broad/__init__.py
</a>
</li>
<li class="file-stats">
<a href="#92799c57074000fce647627900cf88b09d79a6f8">
<span class="new-file">
+
bcbio/chipseq/antibodies.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#4eabad8cbe351e3e3d7466ee25d9d970b164368a">
bcbio/chipseq/macs2.py
</a>
</li>
<li class="file-stats">
<a href="#911a1520d19a460146d2a13f06313e889177f30d">
bcbio/distributed/ipythontasks.py
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</li>
<li class="file-stats">
<a href="#09d9e862a036e6807e58c2decc710d701ffc3ece">
bcbio/distributed/multitasks.py
</a>
</li>
<li class="file-stats">
<a href="#24b10c4075c91fa8a08a9bf38d2e3451b81a5fb7">
bcbio/distributed/runfn.py
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</li>
<li class="file-stats">
<a href="#cd08dceb71bc9bd7ab94728fc3f310e15324b176">
bcbio/heterogeneity/bubbletree.py
</a>
</li>
<li class="file-stats">
<a href="#21de3916271e785a8f3265ee5ad39597e376e1fe">
bcbio/hla/optitype.py
</a>
</li>
<li class="file-stats">
<a href="#1ef80d5e67c000a5c2448e6dc3b7c172e118b794">
bcbio/illumina/flowcell.py
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</li>
<li class="file-stats">
<a href="#183c8f99ac39f0fb348d40a8735debf81dc423ec">
bcbio/illumina/machine.py
</a>
</li>
<li class="file-stats">
<a href="#cb1999524a51a97bd40da890cd301d883550f995">
bcbio/install.py
</a>
</li>
<li class="file-stats">
<a href="#df11eaca928825aa93db95fe7b7adf1aa7c3e786">
<span class="new-file">
+
bcbio/ngsalign/bismark.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#254ae608a9d2a6b7d76baaf83360ad98bc498fef">
<span class="new-file">
+
bcbio/ngsalign/bsmap.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#5eae78d8d65ceec04aed346c7bfecf92d6f8df0c">
bcbio/ngsalign/postalign.py
</a>
</li>
<li class="file-stats">
<a href="#bbb7842f2be9690f4ae67a1de2c07f322d6e261e">
bcbio/ngsalign/star.py
</a>
</li>
<li class="file-stats">
<a href="#fb1771124cfd58b2bad95a99b8cf42f0adde9eee">
bcbio/pipeline/alignment.py
</a>
</li>
<li class="file-stats">
<a href="#3bc78861325eafbcc6318a5fe975950a26142070">
bcbio/pipeline/datadict.py
</a>
</li>
<li class="file-stats">
<a href="#6b0954b64bb7025f3d13cbef18622daa684dbe1a">
bcbio/pipeline/main.py
</a>
</li>
<li class="file-stats">
<a href="#28669a7ddccdf8ac47c577727840379bba16c871">
bcbio/pipeline/rnaseq.py
</a>
</li>
<li class="file-stats">
<a href="#6a5842dd9e3c5daac8e6d62a34e4d60ab86b78bf">
bcbio/pipeline/run_info.py
</a>
</li>
<li class="file-stats">
<a href="#fac91f905233560f253b7063f3b6889aeca3af62">
bcbio/pipeline/sample.py
</a>
</li>
<li class="file-stats">
<a href="#bac37f8d6cefe5fea359e390c31a86b6b2bb084b">
bcbio/pipeline/sra.py
</a>
</li>
<li class="file-stats">
<a href="#4529c40caf2a26a49dd0e781055543aaecdd79fc">
bcbio/provenance/programs.py
</a>
</li>
<li class="file-stats">
<a href="#85752808bf0e2ee0b5afb9ae974697f897d9dbfa">
bcbio/provenance/versioncheck.py
</a>
</li>
<li class="file-stats">
<a href="#bfbe53ab819ad89e524434a4a58e068b24fbc04e">
bcbio/qc/chipseq.py
</a>
</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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