[med-svn] [Git][med-team/phyml][master] 18 commits: routine-update: New upstream version

[Étienne Mollier (@emollier)]

Étienne Mollier pushed to branch master at Debian Med / phyml


Commits:
638649c9 by Étienne Mollier at 2021-11-17T22:18:26+01:00
routine-update: New upstream version

- - - - -
2dbaad0f by Étienne Mollier at 2021-11-17T22:18:27+01:00
New upstream version 3.3.20211021
- - - - -
e89165ba by Étienne Mollier at 2021-11-17T22:18:50+01:00
Update upstream source from tag 'upstream/3.3.20211021'

Update to upstream version '3.3.20211021'
with Debian dir ba787ab8cde1682e9babf6b143a3651a61592c0d
- - - - -
75e822b0 by Étienne Mollier at 2021-11-17T22:25:57+01:00
Refresh no-stdc++.patch

- - - - -
9c8758f2 by Étienne Mollier at 2021-11-17T22:29:45+01:00
Refresh no-configure-ac-date.patch

- - - - -
45d49cb2 by Étienne Mollier at 2021-11-17T22:32:26+01:00
Refresh fix_declaration_of_temp.patch

- - - - -
0bcefb27 by Étienne Mollier at 2021-11-17T22:32:46+01:00
Refresh fix_wrong_initialisation_of_array.patch

- - - - -
c1e4bcc2 by Étienne Mollier at 2021-11-17T22:34:04+01:00
Refresh no-march-native.patch

- - - - -
2356a679 by Étienne Mollier at 2021-11-17T22:37:42+01:00
Refresh cross.patch

- - - - -
f62870e0 by Étienne Mollier at 2021-11-17T23:31:50+01:00
Add apply-cflags.patch: ensure hardening is applied

- - - - -
7a2701b0 by Étienne Mollier at 2021-11-17T23:32:52+01:00
d/control: add myself to Uploaders

- - - - -
4f9ad830 by Étienne Mollier at 2021-11-17T23:49:54+01:00
Add filter-sse3-intrinsics.patch

This patch fixes a failure to build from source, caused by intrinsics
requiring SSE3 in situations were only SSE is detected.

- - - - -
b79addc1 by Étienne Mollier at 2021-11-17T23:54:13+01:00
d/rules: autoconfigure with --enable-phyml-mpi

This flag replaced the former --enable-mpi in the configure.ac.

- - - - -
da6bd022 by Étienne Mollier at 2021-11-18T00:05:35+01:00
d/changelog: restore dropped epoch

- - - - -
c48af44f by Étienne Mollier at 2021-11-18T00:06:04+01:00
Add apply-ldflags.patch

- - - - -
9b31c587 by Étienne Mollier at 2021-11-18T00:09:52+01:00
d/rules: fix perms of examples nucleic and proteic

- - - - -
1b07a525 by Étienne Mollier at 2021-11-18T00:43:12+01:00
d/{links,phyml.1}: also provide phyml-mpi manpage

- - - - -
7f73df80 by Étienne Mollier at 2021-11-18T00:46:06+01:00
ready to upload to unstable

- - - - -


30 changed files:

- README.md
- configure.ac
- debian/changelog
- debian/control
- + debian/links
- + debian/patches/apply-cflags.patch
- + debian/patches/apply-ldflags.patch
- debian/patches/cross.patch
- + debian/patches/filter-sse3-intrinsics.patch
- debian/patches/fix_declaration_of_temp.patch
- debian/patches/fix_wrong_initialisation_of_array.patch
- debian/patches/no-configure-ac-date.patch
- debian/patches/no-march-native.patch
- debian/patches/no-stdc++.patch
- debian/patches/series
- debian/phyml.1
- debian/rules
- doc/phyml-manual.pdf
- doc/phyml-manual.tex
- doc/ref.bib
- src/Makefile.am
- src/alrt.c
- src/avx.c
- src/avx.h
- src/cl.c
- src/date.c
- src/free.c
- src/free.h
- src/geo.c
- src/help.c


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/phyml/-/compare/9fe3042b123ecdd372ccc49e4a58abe1b334a1f4...7f73df8014db706ae8e3a1e01c5c246c18583072

-- 
View it on GitLab: https://salsa.debian.org/med-team/phyml/-/compare/9fe3042b123ecdd372ccc49e4a58abe1b334a1f4...7f73df8014db706ae8e3a1e01c5c246c18583072
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/20211117/29e1b400/attachment.htm>