[med-svn] [Git][med-team/vg][debian/experimental] 29 commits: routine-update: New upstream version

[Michael R. Crusoe]

Michael R. Crusoe pushed to branch debian/experimental at Debian Med / vg


Commits:
ae1aba72 by Andreas Tille at 2020-12-12T06:33:05+01:00
routine-update: New upstream version

- - - - -
281054e9 by Andreas Tille at 2020-12-12T06:33:12+01:00
New upstream version 1.29.0+ds
- - - - -
8b511b58 by Andreas Tille at 2020-12-12T06:36:08+01:00
Update upstream source from tag 'upstream/1.29.0+ds'

Update to upstream version '1.29.0+ds'
with Debian dir e25dff67b5c5cc9f9f001cf91b215b938cd5c0c7
- - - - -
f796dd93 by Andreas Tille at 2020-12-12T06:36:09+01:00
routine-update: Standards-Version: 4.5.1

- - - - -
e88e8a43 by Andreas Tille at 2020-12-13T08:51:55+01:00
Refresh patches

- - - - -
eeabb8dd by Étienne Mollier at 2020-12-14T21:48:42+01:00
Refresh use_packaged_vcflib

- - - - -
5e88a8bd by Étienne Mollier at 2020-12-14T21:50:21+01:00
refresh use_packaged_libdeflate

- - - - -
b7c965a1 by Étienne Mollier at 2020-12-14T21:54:11+01:00
refresh use_packaged_htslib

- - - - -
4140bfe5 by Michael R. Crusoe at 2020-12-14T22:22:11+01:00
find Variant.h in /usr/include/vcflib

- - - - -
ccec324e by Michael R. Crusoe at 2020-12-14T22:27:49+01:00
update debian/clean

- - - - -
79113083 by Étienne Mollier at 2020-12-16T11:46:04+01:00
update changelog

- - - - -
f2506f30 by Étienne Mollier at 2020-12-16T17:04:54+01:00
d/control: ads build time test dependencies

In addition to the existing toolset, the test suite executes the
programs bgzip, from tabix, and xxd, so adding them as build time
dependencies.

- - - - -
d2b9c586 by Étienne Mollier at 2020-12-16T17:08:21+01:00
d/rules: fix calls to vg SIMDe variants

Probably due to being located in the wrong path, only the first
variant caught by the script was tested.  This rewrap also makes sure
the script uses absolute paths as much as possible, and does not
change working directory too much.

- - - - -
8af10a42 by Étienne Mollier at 2020-12-16T18:40:23+01:00
update changelog

- - - - -
c67c08fd by Étienne Mollier at 2020-12-16T19:11:21+01:00
d/rules: disable AVX variant as one test fails

- - - - -
fae5d0c4 by Étienne Mollier at 2020-12-16T19:34:59+01:00
updated false positives of typos

- - - - -
97a54eed by Étienne Mollier at 2020-12-16T19:35:27+01:00
fixed new typo in binaries

- - - - -
3b4f5c25 by Étienne Mollier at 2020-12-16T20:37:56+01:00
provided a "whatis" description to vg manual

- - - - -
4ce6bfbb by Étienne Mollier at 2020-12-16T20:49:18+01:00
d/rules: abort test if vg-plain fails

Other variants may not be capable of executing on the buildd, so
it is better to let them pass in a first time, or check for CPU
extensions available on the buildd on a second time.

- - - - -
7877c47e by Étienne Mollier at 2020-12-16T21:10:28+01:00
d/copyright: reorder spp_timer.h

The initial possition in the copyright file triggered a lintian
warning globbing-patterns-out-of-order.

- - - - -
4e6ad9e3 by Étienne Mollier at 2020-12-16T21:11:42+01:00
Make sure the libbz2 is dynamically linked.

- - - - -
1577a2a0 by Étienne Mollier at 2020-12-16T22:12:19+01:00
updated changelog

- - - - -
1bbbb30c by Étienne Mollier at 2020-12-17T18:29:29+01:00
override missing source on benchmarks.js

- - - - -
62102d4c by Étienne Mollier at 2020-12-17T19:45:16+01:00
add d3.js sources

- - - - -
4979662f by Étienne Mollier at 2020-12-17T19:46:24+01:00
d/control: replace librdf-dev by librdf0-dev

- - - - -
2054d67e by Étienne Mollier at 2020-12-17T20:51:45+01:00
fix malformed override

- - - - -
eae5cf79 by Étienne Mollier at 2020-12-17T20:52:27+01:00
back to UNRELEASED

- - - - -
97809ea1 by Étienne Mollier at 2020-12-17T21:54:50+01:00
routine-update: Ready to upload to unstable

- - - - -
260d0ca5 by Michael R. Crusoe at 2020-12-26T14:20:56+01:00
Experimental rebuild with libsimde-dev 0.7.0~rc-1

- - - - -


30 changed files:

- .gitlab-ci.yml
- .gitmodules
- .travis.yml
- Brewfile
- Dockerfile
- Dockerfile.static
- Makefile
- README.md
- debian/changelog
- debian/clean
- debian/control
- debian/copyright
- + debian/missing-sources/d3.js
- debian/patches/better_clean
- debian/patches/crossbuild
- debian/patches/hardening_flags
- debian/patches/libVCFH_unneeded
- debian/patches/no_need_for_snappy
- debian/patches/no_pg
- debian/patches/no_rpath
- debian/patches/parallize_better
- debian/patches/series
- debian/patches/simde
- debian/patches/spelling
- debian/patches/static
- − debian/patches/use_packaged_boost
- debian/patches/use_packaged_elfutils
- debian/patches/use_packaged_fastahack
- debian/patches/use_packaged_fermi-lite
- debian/patches/use_packaged_htslib


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/vg/-/compare/052bf552a8fa4d770ffdf77cbaa2f957b6df8d51...260d0ca5090013f9cd095ae6f8a9e6dc3d50302d

-- 
View it on GitLab: https://salsa.debian.org/med-team/vg/-/compare/052bf552a8fa4d770ffdf77cbaa2f957b6df8d51...260d0ca5090013f9cd095ae6f8a9e6dc3d50302d
You're receiving this email because of your account on salsa.debian.org.


-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://alioth-lists.debian.net/pipermail/debian-med-commit/attachments/20201226/0f6a71eb/attachment.html>