[med-svn] [Git][med-team/hyphy][master] 30 commits: routine-update: New upstream version

[Étienne Mollier]

Étienne Mollier pushed to branch master at Debian Med / hyphy


Commits:
c06fe59c by Étienne Mollier at 2020-09-24T20:54:36+02:00
routine-update: New upstream version

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0b2bcb62 by Étienne Mollier at 2020-09-24T20:54:37+02:00
New upstream version 2.5.18+dfsg
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1d31210a by Étienne Mollier at 2020-09-24T20:54:43+02:00
Update upstream source from tag 'upstream/2.5.18+dfsg'

Update to upstream version '2.5.18+dfsg'
with Debian dir d6fde3ee7b4d12c7bab0b8cd320b196837002c7b
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50f63d9c by Étienne Mollier at 2020-09-24T20:54:43+02:00
routine-update: Standards-Version: 4.5.0

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202312fc by Étienne Mollier at 2020-09-24T20:54:44+02:00
routine-update: debhelper-compat 13

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16fdf2d5 by Étienne Mollier at 2020-09-24T21:43:17+02:00
refreshed Files-Excluded:

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56a5beea by Étienne Mollier at 2020-09-24T21:51:09+02:00
refreshed use_debian_sqlite.patch

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5c4a7ed6 by Étienne Mollier at 2020-09-24T21:58:42+02:00
deleted patches related to gtest

gtest is not in use anymore in the upstream project.

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72486579 by Étienne Mollier at 2020-09-24T22:04:32+02:00
removed drop_profiling_option.patch

although the -g option is somewhat redundant, it should probably not
be a concern regarding bug #793345, which was about profiling options,
which aren't there anymore.

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4dea6831 by Étienne Mollier at 2020-09-24T22:12:46+02:00
d/copyright: gtest removed upstream

particular references to gtest in the debian/copyright file are thus
not needed anymore.

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9946d6b0 by Étienne Mollier at 2020-09-24T22:22:45+02:00
d/copyright: listing third parties in src/contrib

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a015bc2c by Étienne Mollier at 2020-09-24T22:26:05+02:00
removed 00todo since gtest is not in use anymore

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93ee29b8 by Étienne Mollier at 2020-09-24T22:33:22+02:00
d/rules: remove note about gtest

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88e4a6f4 by Étienne Mollier at 2020-09-24T22:36:41+02:00
removed lintian-overrides related to gtest

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ca4babcb by Étienne Mollier at 2020-09-24T22:45:56+02:00
d/copyright: addressing lintian issues

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fa524851 by Étienne Mollier at 2020-09-24T23:11:25+02:00
d/hyphy-common.install: now from usr/share/*

previously, installation came from usr/lib/* to usr/share

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2cb9976b by Étienne Mollier at 2020-09-25T00:00:59+02:00
d/rules: disable SSE3 and AVX using cmake switches

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340cab85 by Étienne Mollier at 2020-09-25T00:02:00+02:00
added fix_brace_mismatch.patch

this fixes a compilation failure when disabling vector intrinsics.

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32604377 by Étienne Mollier at 2020-09-25T00:03:57+02:00
routine-update: Add salsa-ci file

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871d4e2d by Étienne Mollier at 2020-09-25T00:03:57+02:00
routine-update: Rules-Requires-Root: no

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a164b792 by Étienne Mollier at 2020-09-25T00:04:03+02:00
Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, Repository-Browse.

Changes-By: lintian-brush
Fixes: lintian: upstream-metadata-missing-bug-tracking
See-also: https://lintian.debian.org/tags/upstream-metadata-missing-bug-tracking.html
Fixes: lintian: upstream-metadata-missing-repository
See-also: https://lintian.debian.org/tags/upstream-metadata-missing-repository.html

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e358f6be by Étienne Mollier at 2020-09-25T00:16:11+02:00
synchronized d/changelog with git log

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5cc7d1a7 by Étienne Mollier at 2020-09-25T20:57:32+02:00
convert ISO-8859-1 files to UTF-8

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01e36c3e by Étienne Mollier at 2020-09-25T20:58:34+02:00
gtest replaced by script ./run_unit_tests.sh

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c69ae78f by Étienne Mollier at 2020-09-25T21:48:56+02:00
d/rules: copy executables to place for tests

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b5692e5d by Étienne Mollier at 2020-09-25T22:04:58+02:00
refreshed changelog for more clarity

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55051cc4 by Étienne Mollier at 2020-09-28T21:12:16+02:00
added rm_arch_specific_flags.patch

Flags disabling sse3 and avx have no necessity to be passed to the
compiler, and prevent compilation on non-x86 architectures.  This
patch allows building the source code on non-x86 CPUs.

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8c0c2bc2 by Étienne Mollier at 2020-09-28T21:33:25+02:00
added myself to uploaders

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72d8ad8a by Étienne Mollier at 2020-09-28T21:33:54+02:00
Remove unnecessary Team Upload line in changelog.

Changes-By: lintian-brush

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61da1e73 by Étienne Mollier at 2020-09-28T21:34:56+02:00
routine-update: Ready to upload to unstable

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14 changed files:

- + .github/workflows/benchmark.yml
- + .github/workflows/release.yml
- + .github/workflows/stale.yml
- .travis.yml
- CMakeLists.txt
- README.md
- + bench.js
- − contrib/gtest-1.7.0/CHANGES
- − contrib/gtest-1.7.0/CMakeLists.txt
- − contrib/gtest-1.7.0/CONTRIBUTORS
- − contrib/gtest-1.7.0/LICENSE
- − contrib/gtest-1.7.0/Makefile.am
- − contrib/gtest-1.7.0/Makefile.in
- − contrib/gtest-1.7.0/README


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/hyphy/-/compare/9c04125ce9a2fe4c07e2d5d8886af0ec452f7820...61da1e73735d028b356ec2a705ee066472cea975

-- 
View it on GitLab: https://salsa.debian.org/med-team/hyphy/-/compare/9c04125ce9a2fe4c07e2d5d8886af0ec452f7820...61da1e73735d028b356ec2a705ee066472cea975
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