[med-svn] [Git][med-team/phyml][upstream] New upstream version 3.3.20250515

[Andreas Tille (@tille)]

Andreas Tille pushed to branch upstream at Debian Med / phyml


Commits:
a841b84f by Andreas Tille at 2025-12-06T21:15:25+01:00
New upstream version 3.3.20250515
- - - - -


118 changed files:

- + .github/FUNDING.yml
- + .github/workflows/ci.yaml
- .gitignore
- + Makefile
- Makefile.am
- autogen.sh
- + config.h
- + config.log
- + config.status
- configure.ac
- + doc/Makefile
- doc/Makefile.am
- doc/fig/phyrexlog.pdf
- doc/naturemag.bst
- + doc/phyml-manual.aux
- + doc/phyml-manual.bbl
- + doc/phyml-manual.blg
- + doc/phyml-manual.fls
- + doc/phyml-manual.idx
- + doc/phyml-manual.ilg
- + doc/phyml-manual.ind
- + doc/phyml-manual.log
- doc/phyml-manual.pdf
- doc/phyml-manual.tex
- + doc/phyml-manual.toc
- doc/ref.bib
- examples/lg4x/X1.mat
- examples/lg4x/X2.mat
- examples/lg4x/X3.mat
- examples/lg4x/X4.mat
- examples/lg4x/lg4x.xml
- examples/nexus_example.nxs
- examples/nucleic
- examples/phyrex/h1n1.nxs
- examples/phyrex/usa_coord.txt
- examples/proteic
- + src/Makefile
- src/Makefile.am
- − src/Makefile_mc.am
- − src/Makefile_r.am
- src/alrt.c
- src/ancestral.c
- src/avx.c
- src/beagle_utils.c
- src/cl.c
- + src/cv.c
- + src/cv.h
- src/date.c
- src/draw.c
- src/draw.h
- + src/evolve.c
- + src/evolve.h
- src/free.c
- src/free.h
- src/geo.c
- src/help.c
- src/help.h
- + src/ibm.c
- + src/ibm.h
- src/init.c
- src/init.h
- src/interface.c
- src/interface.h
- src/invitee.c
- src/io.c
- src/io.h
- + src/iou.c
- + src/iou.h
- + src/iwn.c
- + src/iwn.h
- src/lk.c
- src/lk.h
- src/location.c
- src/location.h
- src/m4.c
- src/m4.h
- src/main.c
- src/make.c
- src/make.h
- src/mcmc.c
- src/mcmc.h
- src/mixt.c
- src/mixt.h
- src/models.c
- src/models.h
- src/mpi_boot.c
- src/nexus.c
- src/nexus.h
- src/optimiz.c
- src/optimiz.h
- + src/p1.nxs
- src/pars.c
- src/phyrex.c
- src/phyrex.h
- src/rates.c
- src/rates.h
- src/rrw.c
- src/rrw.h
- src/rw.c
- src/rw.h
- src/simu.c
- src/slfv.c
- src/slfv.h
- src/spr.c
- src/sse.c
- src/sse.h
- + src/sse2neon.h
- src/stats.c
- src/stats.h
- src/times.c
- src/times.h
- src/utilities.c
- src/utilities.h
- + src/velocity.c
- + src/velocity.h
- src/xml.c
- src/xml.h
- + stamp-h1


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/phyml/-/commit/a841b84fc6615b84ca82c85eaab9a7fd150decc1

-- 
View it on GitLab: https://salsa.debian.org/med-team/phyml/-/commit/a841b84fc6615b84ca82c85eaab9a7fd150decc1
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/20251206/32925dde/attachment.htm>