[med-svn] [Git][med-team/snakemake][master] 8 commits: New upstream version 5.18.1

[Rebecca N. Palmer]

Rebecca N. Palmer pushed to branch master at Debian Med / snakemake


Commits:
b23c932d by Rebecca N. Palmer at 2020-05-30T16:16:45+01:00
New upstream version 5.18.1
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e5f7634a by Rebecca N. Palmer at 2020-05-30T16:17:03+01:00
Update upstream source from tag 'upstream/5.18.1'

Update to upstream version '5.18.1'
with Debian dir 963c8334e09e09130a56419648eb20e144613667
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266bd589 by Rebecca N. Palmer at 2020-05-30T22:17:06+01:00
Refresh patches

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87508ef3 by Rebecca N. Palmer at 2020-05-30T22:18:41+01:00
Docs: work around Sphinx bug 7516.

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a6d2828b by Rebecca N. Palmer at 2020-05-31T10:25:11+01:00
Skip more tests with not-in-Debian dependencies.

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0cce8b56 by Rebecca N. Palmer at 2020-05-31T10:34:44+01:00
Update override path

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e2d3591d by Rebecca N. Palmer at 2020-05-31T10:54:04+01:00
Delete unused patch

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b187c195 by Rebecca N. Palmer at 2020-05-31T11:03:45+01:00
Bump dephelper compat to 13, remove now-builtin rules.

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30 changed files:

- + .github/workflows/docker-publish.yml
- .github/workflows/main.yml
- CHANGELOG.rst
- Dockerfile
- README.md
- debian/changelog
- debian/control
- debian/patches/0009-skip-test-without-google-cloud-sdk.patch
- debian/patches/local_javascript.patch
- debian/patches/python3.patch
- debian/patches/remove_ccbysa_snippets.patch
- − debian/patches/security.patch
- debian/patches/workaround_sphinx_issue.patch
- debian/rules
- debian/snakemake.lintian-overrides
- debian/tests/run-unit-test
- docs/executing/cli.rst
- docs/executing/cluster-cloud.rst → docs/executing/cloud.rst
- + docs/executing/cluster.rst
- + docs/executor_tutorial/google_lifesciences.rst
- + docs/executor_tutorial/tutorial.rst
- + docs/executor_tutorial/workflow/quals.svg
- + docs/executor_tutorial/workflow/results-google-storage.png
- + docs/executor_tutorial/workflow/upload-google-storage.png
- docs/index.rst
- docs/project_info/contributing.rst
- docs/snakefiles/deployment.rst
- − environment.yml
- setup.py
- snakemake/__init__.py


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/snakemake/-/compare/29b23e567be7ea965de1949138300d0841bc8fec...b187c1950783f14244f58cc4691eaa3c25f5c39c

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View it on GitLab: https://salsa.debian.org/med-team/snakemake/-/compare/29b23e567be7ea965de1949138300d0841bc8fec...b187c1950783f14244f58cc4691eaa3c25f5c39c
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