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<h3>
Michael R. Crusoe pushed to branch master
at <a href="https://salsa.debian.org/med-team/toil">Debian Med / toil</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/toil/-/commit/0d627fb325074e629d55bbb12399e5b5149e6c77">0d627fb3</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-05-07T15:00:22+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: New upstream version
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/toil/-/commit/cb23badacb308e05ce30cd483c99a9835b75a4e5">cb23bada</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-05-07T15:00:23+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 4.1.0</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/toil/-/commit/bae1000a61569a80b983c75aa4f41544e577b8ef">bae1000a</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-05-07T15:00:31+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/4.1.0'
Update to upstream version '4.1.0'
with Debian dir 1b021a2b3f85aba6b2dd134e3642d1b6de014f4b</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/toil/-/commit/6bf3f0f1f76fd062ad029c961dded88300972d4f">6bf3f0f1</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-05-07T15:12:21+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Refreshed the patches
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/toil/-/commit/7e1ec381bfad6302277b2970964943316c89a83d">7e1ec381</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-05-07T15:16:17+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">python3-idna is recommended for kubernetes users
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/toil/-/commit/98613b6a1e9984fe3691149962b1cdf65b073b24">98613b6a</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-05-07T15:19:16+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">TODO: python3-enlighten
</pre>
</li>
</ul>
<h4>30 changed files:</h4>
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<li class="file-stats">
<a href="#587d266bb27a4dc3022bbed44dfa19849df3044c">
.gitlab-ci.yml
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<li class="file-stats">
<a href="#836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c">
Makefile
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<li class="file-stats">
<a href="#561b88e19de321ca62c7590bbb350765fb110905">
README.rst
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<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<li class="file-stats">
<a href="#e94fbb8719c4a68a67df894f2683205bb9914852">
debian/patches/no_galaxy_lib
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<li class="file-stats">
<a href="#162e41e7c3dcfdb5813c4718e3f8503d4861a8ba">
debian/patches/remove-pathlib2-dep
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<li class="file-stats">
<a href="#bbcb48e2be151813ceeaaec7eadcaf824b49c1c6">
debian/patches/setting_version.patch
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<li class="file-stats">
<a href="#c1fb0e9c942747a583cd8adc2707dd0cb1d97505">
debian/patches/soften-mesos-deps
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<li class="file-stats">
<a href="#cb805f74cef9b2dafa0758f976c0bcadda0b7dde">
debian/patches/version.patch
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<li class="file-stats">
<a href="#734cb112ea615891b9ef15d07ae7bc1dee10abc3">
docker/Dockerfile.py
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<li class="file-stats">
<a href="#f99c72d2aacbf31ded1872c66de3f988dced0301">
docs/appendices/environment_vars.rst
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<li class="file-stats">
<a href="#32be2c2e3690a70b96e3263f2bb4aa0ce226602a">
docs/running/cliOptions.rst
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<li class="file-stats">
<a href="#8e2edce0d507e1297474f25c00cae94258db38d8">
setup.py
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<li class="file-stats">
<a href="#42e82db8dfc40fc9f2df468cc92584cb0441719f">
src/toil/__init__.py
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<li class="file-stats">
<a href="#12a0e441211656f4b4856e8c4e6257e858fa6d17">
src/toil/batchSystems/__init__.py
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<li class="file-stats">
<a href="#59062b9d0a92eb7800de569b9a6c8818efe8a415">
src/toil/batchSystems/abstractBatchSystem.py
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<li class="file-stats">
<a href="#e80ba9107fbe8c247c4a06d919de60d903b13b57">
src/toil/batchSystems/abstractGridEngineBatchSystem.py
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<li class="file-stats">
<a href="#8665892a623b484a6317e6aef58200c3f489951b">
src/toil/batchSystems/gridengine.py
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<li class="file-stats">
<a href="#9859689e8bd3ddc443a4adadad9053893501bd72">
src/toil/batchSystems/kubernetes.py
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<li class="file-stats">
<a href="#184892bb0e21972b1bc724ffc0b62a4c3616a44c">
src/toil/batchSystems/lsf.py
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<li class="file-stats">
<a href="#51c103b23323037f067bfea96a5cd293cbd8bfab">
src/toil/batchSystems/mesos/batchSystem.py
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<li class="file-stats">
<a href="#99c24d1b30534d665746feee900c46f6e8459b39">
src/toil/batchSystems/options.py
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<li class="file-stats">
<a href="#40d7e534600c41f2ac23866cd2edfb31bccd3afe">
src/toil/batchSystems/singleMachine.py
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<li class="file-stats">
<a href="#a6f3af15c881ae20fc1a43acbbeb46501aac42d1">
src/toil/batchSystems/slurm.py
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<li class="file-stats">
<a href="#613fd687d50c98ed88dd86e84d2d6b01865013f3">
src/toil/batchSystems/torque.py
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<li class="file-stats">
<a href="#e4fd847d42e121b772337a96bada018b0e6ad45c">
src/toil/common.py
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<li class="file-stats">
<a href="#0dbd18a5ef7b094b4ad2f95d5aa87ee2ed51212f">
src/toil/cwl/cwltoil.py
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<li class="file-stats">
<a href="#a13607e119e7ea420a0824a7cdbd58157a4965f0">
src/toil/jobStores/aws/jobStore.py
</a>
</li>
<li class="file-stats">
<a href="#f8698b8c91b4525c2e8a2cc4fe1f8b489291216f">
src/toil/jobStores/fileJobStore.py
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</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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