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<h3>
Michael R. Crusoe pushed to branch upstream
at <a href="https://salsa.debian.org/med-team/snakemake">Debian Med / snakemake</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/snakemake/commit/729f363d06a8d8e3617363dbbf65d12b30d7baea">729f363d</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-12-16T11:19:00Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 5.8.2</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/snakemake/commit/a41c77bf4659faea3efefd7aa8ed8e75879b2c7f">a41c77bf</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-01-01T13:05:53Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 5.9.1</pre>
</li>
</ul>
<h4>30 changed files:</h4>
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<li class="file-stats">
<a href="#7f9004ad0df1b6391abc998d9a153f9e763cbdd7">
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+
.github/CODEOWNERS
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<li class="file-stats">
<a href="#c778226b6c4c0fb51cf7942c8ee1f3d9fc1249d0">
.github/workflows/main.yml
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</li>
<li class="file-stats">
<a href="#45267e3a9556cafa9cb7b61dab7a3b6659e73aad">
CHANGELOG.rst
</a>
</li>
<li class="file-stats">
<a href="#aa070a9c9eb13bc0377eb60b4ef071df17152ac7">
docs/executing/caching.rst
</a>
</li>
<li class="file-stats">
<a href="#d0153cac95479af9bfb99b746b633bc8255bb53a">
docs/index.rst
</a>
</li>
<li class="file-stats">
<a href="#945ec74fc1c17902d98bca84b7a1f0dfd755c01b">
docs/snakefiles/deployment.rst
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<li class="file-stats">
<a href="#dfeb7b6e739ba66056c1799c63a5a39c7698b59f">
docs/snakefiles/rules.rst
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</li>
<li class="file-stats">
<a href="#93270ff2eb7f389db8b4ad6035cb96e4e1622227">
docs/tutorial/setup.rst
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<li class="file-stats">
<a href="#cf170f1aad8eab1ea8f50709422e4eae4ebaf604">
docs/tutorial/short.rst
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<li class="file-stats">
<a href="#c2acba86d5ef7b186a3f54c5fcbfeeb889e18738">
misc/vim/syntax/snakemake.vim
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<li class="file-stats">
<a href="#3e5f5b55323fd8fdb574fbe9d3948896a37918b1">
<span class="new-file">
+
motoState.p
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<li class="file-stats">
<a href="#8e2edce0d507e1297474f25c00cae94258db38d8">
setup.py
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<li class="file-stats">
<a href="#d366205d7cd679ff6d4a61f70728e92537101763">
snakemake/__init__.py
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<li class="file-stats">
<a href="#5e16cbeea010f59dbef52f8950f4873c94f39c7e">
snakemake/_version.py
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<li class="file-stats">
<a href="#1f2b5ab7db93d7cfd11a4660dfd26daffc5b38dc">
snakemake/caching/__init__.py
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<li class="file-stats">
<a href="#be949de8c0e74a7737ba3be8743dda889e7d51bf">
snakemake/caching/hash.py
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<li class="file-stats">
<a href="#5752dcb5dceb2252f447b747551b9e646cf1865e">
snakemake/caching/local.py
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<li class="file-stats">
<a href="#b37760e766d43fdddb378b4d0302d4ad6fa1e3c3">
snakemake/caching/remote.py
</a>
</li>
<li class="file-stats">
<a href="#42300b585ee7e51f9c6cfad5a88cf8ed5c4bd8fa">
snakemake/cwl.py
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</li>
<li class="file-stats">
<a href="#9821437dfb3fff8383b6066a2a3c7aa3f6712a32">
snakemake/dag.py
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<li class="file-stats">
<a href="#5e42ab6605b90a29c9af9af94b5c35da8f4cf53d">
<span class="new-file">
+
snakemake/deployment/__init__.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#f15af42c37739d075863d61c80d393b9af0c346c">
snakemake/conda.py
→
snakemake/deployment/conda.py
</a>
</li>
<li class="file-stats">
<a href="#0f9eb0bffc53e805bc744def8e6b18f97406aa34">
<span class="new-file">
+
snakemake/deployment/env_modules.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#a8d87906134f355c097f5aed2ab6a5477ec364e0">
snakemake/singularity.py
→
snakemake/deployment/singularity.py
</a>
</li>
<li class="file-stats">
<a href="#1dba76c2cca537b789f8754f5ddbed5dc36c6dee">
snakemake/executors.py
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</li>
<li class="file-stats">
<a href="#e933119c7503fe1d48ce0b0d37492388705f5808">
snakemake/io.py
</a>
</li>
<li class="file-stats">
<a href="#818384818c4671b8354b6eb98ee2bab61c015a74">
snakemake/jobs.py
</a>
</li>
<li class="file-stats">
<a href="#6c195c1be80e4ad60b55a5a06c27411c43bbc217">
snakemake/logging.py
</a>
</li>
<li class="file-stats">
<a href="#d70c11793454d64a7b2d77ced116226d2f13378e">
snakemake/parser.py
</a>
</li>
<li class="file-stats">
<a href="#3065d4749c6410564a20007bd7748abfda7699f6">
snakemake/report/__init__.py
</a>
</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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<p style="font-size: small; color: #777;">
—
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