[med-svn] [Git][med-team/paleomix][master] 12 commits: New upstream version 1.3.0

[Andreas Tille]

Andreas Tille pushed to branch master at Debian Med / paleomix


Commits:
f1321f2f by Andreas Tille at 2020-09-01T07:57:45+02:00
New upstream version 1.3.0
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8daace9f by Andreas Tille at 2020-09-01T07:57:45+02:00
routine-update: New upstream version

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8d194931 by Andreas Tille at 2020-09-01T07:57:49+02:00
Update upstream source from tag 'upstream/1.3.0'

Update to upstream version '1.3.0'
with Debian dir d52df7347cea01ad46f4ea1f04e28598d0b41af8
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a517f112 by Andreas Tille at 2020-09-01T07:57:50+02:00
routine-update: Standards-Version: 4.5.0

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3548bdcb by Andreas Tille at 2020-09-01T07:57:50+02:00
routine-update: debhelper-compat 13

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89649b7c by Andreas Tille at 2020-09-01T08:08:30+02:00
Update patches

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f84833f6 by Andreas Tille at 2020-09-01T08:15:15+02:00
New version supports Python3

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ae5f75ac by Andreas Tille at 2020-09-01T08:15:44+02:00
routine-update: Add salsa-ci file

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0aa23a2a by Andreas Tille at 2020-09-01T08:15:44+02:00
routine-update: Rules-Requires-Root: no

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ee2d4293 by Andreas Tille at 2020-09-01T08:24:07+02:00
Upstream switched from nose to pytest

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38bac3cd by Andreas Tille at 2020-09-01T08:35:45+02:00
Adjust (Build-)Depends

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d94c2c86 by Andreas Tille at 2020-09-01T08:54:29+02:00
Fix some tests

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30 changed files:

- tests/.coveragerc → .coveragerc
- .gitignore
- CHANGES.md
- − INSTALL.rst
- licenses/mit.txt → LICENSE
- MANIFEST.in
- README.rst
- − bin/bam_pipeline
- − bin/bam_rmdup_collapsed
- − bin/conv_gtf_to_bed
- − bin/paleomix
- − bin/phylo_pipeline
- − bin/trim_pipeline
- debian/changelog
- debian/control
- − debian/patches/adapt_java_calling_test.patch
- − debian/patches/avoid_downloading_prerequisites.patch
- − debian/patches/avoid_privacy_breach.patch
- − debian/patches/exclude_failing_test.patch
- − debian/patches/series
- debian/rules
- + debian/salsa-ci.yml
- docs/bam_pipeline/configuration.rst
- docs/bam_pipeline/filestructure.rst
- docs/bam_pipeline/index.rst
- docs/bam_pipeline/makefile.rst
- docs/bam_pipeline/makefile.yaml
- docs/bam_pipeline/overview.rst
- docs/bam_pipeline/requirements.rst
- docs/bam_pipeline/usage.rst


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/paleomix/-/compare/cbd694fc0462388afe2c875cbc63a9df5f7bd102...d94c2c86c755810d814202167aa21a240aeff166

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View it on GitLab: https://salsa.debian.org/med-team/paleomix/-/compare/cbd694fc0462388afe2c875cbc63a9df5f7bd102...d94c2c86c755810d814202167aa21a240aeff166
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