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<h3>
Steffen Möller pushed to branch upstream
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/6d1de7876abe66b9c405a04d2d83aa2ac9197621">6d1de787</a></strong>
<div>
<span>by Steffen Moeller</span>
<i>at 2021-05-07T20:29:57+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.2.8</pre>
</li>
</ul>
<h4>30 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#d30b04166486087de34ff05cf278d3dd2ddd2360">
HISTORY.md
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</li>
<li class="file-stats">
<a href="#79b82ce9b64a924266619555502f890dd80c83b9">
LICENSE.txt
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</li>
<li class="file-stats">
<a href="#e058999dc6b36492007fce47afb7a70ca8b25e3d">
bcbio/chipseq/atac.py
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<li class="file-stats">
<a href="#4eabad8cbe351e3e3d7466ee25d9d970b164368a">
bcbio/chipseq/macs2.py
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</li>
<li class="file-stats">
<a href="#fbfb96675c481efdacfedf0214b473e7d623d79c">
bcbio/chipseq/peaks.py
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</li>
<li class="file-stats">
<a href="#df11eaca928825aa93db95fe7b7adf1aa7c3e786">
bcbio/ngsalign/bismark.py
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<li class="file-stats">
<a href="#037a5da84cee54d04c6672861c844615a844912f">
bcbio/ngsalign/bwa.py
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<li class="file-stats">
<a href="#37887cb2aa9aaaab061447bcf9b787795063503d">
bcbio/pipeline/qcsummary.py
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<li class="file-stats">
<a href="#28669a7ddccdf8ac47c577727840379bba16c871">
bcbio/pipeline/rnaseq.py
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<li class="file-stats">
<a href="#6a5842dd9e3c5daac8e6d62a34e4d60ab86b78bf">
bcbio/pipeline/run_info.py
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<li class="file-stats">
<a href="#ee79aa4e99c67cc3ca6e40e1b3636192b40a8aa8">
bcbio/qc/contamination.py
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<li class="file-stats">
<a href="#0b928052acb70b506a8457627983f038aaf8fd4d">
bcbio/qc/multiqc.py
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<li class="file-stats">
<a href="#60c9503c16c39a2c9a9b5d0272611f52d6fea731">
bcbio/qc/qualimap.py
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<li class="file-stats">
<a href="#5bc7769f3f38355000e265e7cd0f29abe33c412c">
bcbio/rnaseq/gtf.py
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<li class="file-stats">
<a href="#2cdd8023262242abfabb1ee24e7fd1e1cbb2562a">
bcbio/structural/purecn.py
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<li class="file-stats">
<a href="#c3e56a51408184fc035daaf4f846c54934c20fe7">
bcbio/structural/regions.py
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<li class="file-stats">
<a href="#90fdf65b29bf332737c250aa77824588bd37952b">
bcbio/structural/titancna.py
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<li class="file-stats">
<a href="#953a5484c194dec73486a5e85ad272cd898cbf31">
bcbio/upload/__init__.py
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<li class="file-stats">
<a href="#4d8eb696f9cb2d722697111ebcb7af7007cdea24">
bcbio/variation/gatkjoint.py
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<li class="file-stats">
<a href="#0aac44520e89cf1dd2c0a15e26a524ac8201a66c">
bcbio/variation/mutect2.py
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<li class="file-stats">
<a href="#a8ea980aa844a5d022a8617b49310146648c4a6b">
bcbio/wgbsseq/align.py
</a>
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<li class="file-stats">
<a href="#ff8672df4cbdd15bb85fe5804a4401a9b2c3291f">
bcbio/wgbsseq/deduplication.py
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</li>
<li class="file-stats">
<a href="#4ef146dd980b3640d44ccd3e59d70cd087ed2965">
bcbio/wgbsseq/kits.py
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</li>
<li class="file-stats">
<a href="#84a10c4d9f805225522d608cd391ea1209204be9">
bcbio/workflow/template.py
</a>
</li>
<li class="file-stats">
<a href="#2c491dd8dbe9a42ed8ddef9bb3076f6e48b12178">
config/examples/cancer-dream-syn3.yaml
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</li>
<li class="file-stats">
<a href="#a42d197f611079c11fb12590237d2ee7e5145322">
<span class="new-file">
+
config/templates/purecn_pon.yaml
</span>
</a>
</li>
<li class="file-stats">
<a href="#30105e1ae3fffbccc09aa90af34eb50f424dc95a">
config/templates/somatic-duplex-umi.yaml
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</li>
<li class="file-stats">
<a href="#254a2da7a740675e537439eb88e32083b9ea4771">
docs/conf.py
</a>
</li>
<li class="file-stats">
<a href="#7d6058ebe26fd2bb304fb5e473f153c887cec352">
docs/contents/atac.md
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</li>
<li class="file-stats">
<a href="#bdf38ae3ab7bd1f92e2f243dced70622f0686bf8">
docs/contents/citations.md
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</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
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