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<h3 style="margin-top: 20px; margin-bottom: 10px;">
Andreas Tille pushed to branch upstream at <a href="https://salsa.debian.org/med-team/toil">Debian Med / toil</a>
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<h4 style="margin-top: 10px; margin-bottom: 10px;">
Commits:
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<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/toil/-/commit/97bd5a13dee050276d2fd422b405b571b501be22">97bd5a13</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2024-01-23T09:00:24+01:00 </i>
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<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #333238; position: relative; font-family: var(--default-mono-font, "GitLab Mono"),"JetBrains Mono","Menlo","DejaVu Sans Mono","Liberation Mono","Consolas","Ubuntu Mono","Courier New","andale mono","lucida console",monospace; word-break: break-all; word-wrap: break-word; background-color: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>New upstream version 6.0.0</pre>
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30 changed files:
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.github/workflows/codeql-analysis.yml
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<a href="#587d266bb27a4dc3022bbed44dfa19849df3044c">
.gitlab-ci.yml
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<a href="#836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c">
Makefile
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<a href="#ccd878cd594c7f4853c66e53a9d164a65e83fa2e">
attic/README.md
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<a href="#083a75879f75eab7b4cd4116aad6215c5988ac76">
attic/toil-sort-example.py
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common.mk
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contrib/admin/cleanup_aws_resources.py
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contrib/admin/mypy-with-ignore.py
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contrib/slurm-test/slurm_test.sh
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contrib/tes/funnel/kubernetes/setup.yml
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contrib/toil-ci-prebake/Dockerfile
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docker/Dockerfile.py
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docs/Makefile
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docs/appendices/architecture.rst
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docs/appendices/deploy.rst
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docs/appendices/environment_vars.rst
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docs/conf.py
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docs/contributing/contributing.rst
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docs/running/cwl.rst

docs/cwl/running.rst
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docs/gettingStarted/install.rst
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docs/gettingStarted/quickStart.rst
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docs/index.rst
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docs/developingWorkflows/developing.rst

docs/python/developing.rst
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docs/developingWorkflows/toilAPI.rst

docs/python/toilAPI.rst
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docs/developingWorkflows/toilAPIBatchsystem.rst

docs/python/toilAPIBatchsystem.rst
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docs/developingWorkflows/toilAPIExceptions.rst

docs/python/toilAPIExceptions.rst
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<a href="#6c4bc609aaa65af40932d02beaa2ee22ce9d9abd">
docs/developingWorkflows/toilAPIFilestore.rst

docs/python/toilAPIFilestore.rst
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<h5 style="margin-top: 10px; margin-bottom: 10px; font-size: 0.875rem;">
The diff was not included because it is too large.
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