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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/7e68a1c2b85360ecaab4e1abd57faf298fbcb64b">7e68a1c2</a></strong>
<div>
<span>by Steffen Möller</span>
<i>at 2019-04-11T10:55:17Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.1.4</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bcbio/commit/d7b53059f326dc800095abc65b7ad8728058ae75">d7b53059</a></strong>
<div>
<span>by Steffen Möller</span>
<i>at 2019-04-11T10:56:14Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/1.1.4'
Update to upstream version '1.1.4'
with Debian dir 3a7e136e3d6bf67998442cc491be453fc411f09f</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bcbio/commit/189397abcc6f67c2df35292c483d3b263e53c77a">189397ab</a></strong>
<div>
<span>by Steffen Möller</span>
<i>at 2019-04-14T14:41:16Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Uploaded .14 new upstream version
Work on tests needs to be completed.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/bcbio/commit/94e816873954e01492d7ed42a4bb6554f9f9a36d">94e81687</a></strong>
<div>
<span>by Steffen Möller</span>
<i>at 2019-04-14T14:42:11Z</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="#a5cc2925ca8258af241be7e5b0381edf30266302">
.gitignore
</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="#e2a5482df2cfb77e36bb48de8be98a8a2778fe28">
bcbio/bam/callable.py
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</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="#fb17eef4888c4f7198909ebc1616eb92a3fed380">
bcbio/chipseq/__init__.py
</a>
</li>
<li class="file-stats">
<a href="#4eabad8cbe351e3e3d7466ee25d9d970b164368a">
bcbio/chipseq/macs2.py
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</li>
<li class="file-stats">
<a href="#2d356a30008ed932f27e4ace4ff645a2231fa5de">
bcbio/cwl/create.py
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</li>
<li class="file-stats">
<a href="#f6af6837df6254f77d2faec43d98066631097b5e">
bcbio/cwl/defs.py
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</li>
<li class="file-stats">
<a href="#1b659f58ae5c6fb1faeab633dcdd75182ee896da">
bcbio/cwl/hpc.py
</a>
</li>
<li class="file-stats">
<a href="#3fe38e0e6f6bb2fb451c38b6cd908de9ba5992b2">
bcbio/cwl/tool.py
</a>
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<li class="file-stats">
<a href="#86f5e930c36509ffef1d2e158fda6d89e6b19e5f">
bcbio/cwl/workflow.py
</a>
</li>
<li class="file-stats">
<a href="#24b10c4075c91fa8a08a9bf38d2e3451b81a5fb7">
bcbio/distributed/runfn.py
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<li class="file-stats">
<a href="#21de3916271e785a8f3265ee5ad39597e376e1fe">
bcbio/hla/optitype.py
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<li class="file-stats">
<a href="#cb1999524a51a97bd40da890cd301d883550f995">
bcbio/install.py
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</li>
<li class="file-stats">
<a href="#5eae78d8d65ceec04aed346c7bfecf92d6f8df0c">
bcbio/ngsalign/postalign.py
</a>
</li>
<li class="file-stats">
<a href="#fb1771124cfd58b2bad95a99b8cf42f0adde9eee">
bcbio/pipeline/alignment.py
</a>
</li>
<li class="file-stats">
<a href="#6ddf01621fd401f9c87acea171fc110bf3c7885c">
bcbio/pipeline/config_utils.py
</a>
</li>
<li class="file-stats">
<a href="#3bc78861325eafbcc6318a5fe975950a26142070">
bcbio/pipeline/datadict.py
</a>
</li>
<li class="file-stats">
<a href="#4e00cae7dfe5de6a3132be3dd463a7dfa5c8f15b">
bcbio/pipeline/genome.py
</a>
</li>
<li class="file-stats">
<a href="#37887cb2aa9aaaab061447bcf9b787795063503d">
bcbio/pipeline/qcsummary.py
</a>
</li>
<li class="file-stats">
<a href="#28669a7ddccdf8ac47c577727840379bba16c871">
bcbio/pipeline/rnaseq.py
</a>
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<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="#9feb731232091d8e82e7295891a5a9601bd1db38">
bcbio/provenance/do.py
</a>
</li>
<li class="file-stats">
<a href="#9e1db37d57ea57b0838bc2ccd6bf3efc9a2741d3">
bcbio/provenance/system.py
</a>
</li>
<li class="file-stats">
<a href="#0b928052acb70b506a8457627983f038aaf8fd4d">
bcbio/qc/multiqc.py
</a>
</li>
<li class="file-stats">
<a href="#60c9503c16c39a2c9a9b5d0272611f52d6fea731">
bcbio/qc/qualimap.py
</a>
</li>
<li class="file-stats">
<a href="#502b944957c2fd2ecfd36202eedbe9cf048674c0">
bcbio/qc/variant.py
</a>
</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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