phyml (3:3.3.20180621-2) unstable; urgency=medium
* Team upload
[ Andreas Tille ]
* Install test script to user documentation
[ Graham Inggs ]
* Allow MPI oversubscription in autopkgtests
-- Graham Inggs <ginggs@debian.org> Wed, 27 Jun 2018 16:24:13 +0000
phyml (3:3.3.20180621-1) unstable; urgency=medium
* New upstream version
* d/copyright: Do not exclude non-included files any more
* Use MPI_C to enable cross building (thanks for the patch to Helmut Grohne)
Closes: #902433
-- Andreas Tille <tille@debian.org> Tue, 26 Jun 2018 18:11:00 +0200
phyml (3:3.3.20180214+dfsg-1) unstable; urgency=medium
[ Steffen Moeller ]
* debian/upstream/metadata: Added refs to registries
[ Andreas Tille ]
* New upstream version
* Point Vcs fields to salsa.debian.org
* Standards-Version: 4.1.4
* debhelper 11
* Fix file permissions of example files
-- Andreas Tille <tille@debian.org> Fri, 27 Apr 2018 08:09:18 +0200
phyml (3:3.3.20170530+dfsg-2) unstable; urgency=medium
* Team upload
* Do not emit -march=native (Closes: #866139)
* Drop autopkgtest dependency on pocl-opencl-icd
-- Graham Inggs <ginggs@debian.org> Fri, 30 Jun 2017 14:01:22 +0200
phyml (3:3.3.20170530+dfsg-1) unstable; urgency=medium
* New upstream version
* Upstream confirmed that beagle is not supported
* Standards-Version: 4.0.0 (no changes needed)
* Do not disable PIE
Closes: #865654
* Do not build phytime since it is not supported any more
-- Andreas Tille <tille@debian.org> Tue, 27 Jun 2017 15:06:53 +0200
phyml (3:3.2.0+dfsg-7) unstable; urgency=medium
* Fix bug in wrapper script which really
Closes: #853738
-- Andreas Tille <tille@debian.org> Wed, 01 Feb 2017 09:36:51 +0100
phyml (3:3.2.0+dfsg-6) unstable; urgency=medium
* Also provide version without beagle library since it causes trouble
on machines without according graphics hardware
Closes: #853737
* Provide link /usr/bin/phyml-beagle
* Enable to switch of MPI version via environment variable since there
are circumstances when it leads to wrong results
Closes: #853738
* Test single processor and MPI in autopkgtest
-- Andreas Tille <tille@debian.org> Tue, 31 Jan 2017 15:16:45 +0100
phyml (3:3.2.0+dfsg-5) unstable; urgency=medium
* Fix wrapper to correctly use mpirun
Closes: #853211
-- Andreas Tille <tille@debian.org> Mon, 30 Jan 2017 17:34:56 +0100
phyml (3:3.2.0+dfsg-4) unstable; urgency=medium
* Add pocl-opencl-icd to autopkgtest dependencies to emulate CPU-based ICD
* debhelper 10
* d/watch: version=4
* Use chrpath to remove RPATH from binary
* Use "OMPI_MCA_plm_rsh_agent=/bin/false" in test (see #494046)
-- Andreas Tille <tille@debian.org> Mon, 16 Jan 2017 10:22:34 +0100
phyml (3:3.2.0+dfsg-3) unstable; urgency=medium
* Team upload
[ Canberk Koç ]
* autopkgtest added
* fix autopkgtest
[ Andreas Tille ]
* Add missing Depends: openmpi-bin
* use wrapper to select MPI version if applicable
* Use compression options in d/watch
* Fix missing declaration
* hardening=+all,-pie
-- Canberk Koç <canberkkoc@gmail.com> Wed, 12 Oct 2016 23:51:39 +0300
phyml (3:3.2.0+dfsg-2) unstable; urgency=medium
[ Kevin Murray ]
* Fix VCS link in d/control
* Patch for reproduible build (configure.ac date)
* Bump standards version to 3.9.7
[ Andreas Tille ]
* Enable MPI version of phyml
-- Andreas Tille <tille@debian.org> Mon, 14 Mar 2016 12:52:14 +0100
phyml (3:3.2.0+dfsg-1) unstable; urgency=medium
[ Kevin Murray ]
* New upstream release
* d/watch: Source has changed location on Github
* Patch CPPFLAGS to allow build of phytime
[ Andreas Tille ]
* Upstream confirmed that the development version should be fairly stable
and most probably suitable for Debian
* Moved debian/upstream to debian/upstream/metadata
* cme fix dpkg-control
* Remove executable binary from archive (as well as LaTeX remainings once
we are starting to remove files)
* Move to git
* Build-Depends: pkg-config, libhmsbeagle-dev
* debian/rules:
- hack around removal of PDF manual
- enable building with libhmsbeagle-dev
* DEP5
-- Kevin Murray <spam@kdmurray.id.au> Sat, 06 Feb 2016 16:06:43 +0100
phyml (2:20120412-2) unstable; urgency=low
* debian/patches/sse_only_if_supported.patch: Check architecture before
deciding to build using -msse
Closes: #718747
-- Andreas Tille <tille@debian.org> Mon, 05 Aug 2013 09:56:27 +0200
phyml (2:20120412-1) unstable; urgency=low
[ Charles Plessy ]
* New upstream version.
* Updated watch file to track stable versions only.
* debian/rules, debian/docs, the manual is now phyml-manual.pdf.
[ Andreas Tille ]
* debian/control:
- cme fix dpkg-control
- debhelper 9
- use anonscm in Vcs fields
* debian/rules:
- Use dh more consequently to work around two different configure steps
- Propagate hardening options
* debian/upstream: Additional (newer) publication
* debian/phytime.1: Add manpage for phytime based on some html2man output
and the abstract of the according publication
* debian/README.Debian: Hint to possible phyml-mpi
-- Charles Plessy <plessy@debian.org> Mon, 15 Jul 2013 09:55:11 +0900
phyml (2:20110919-1) unstable; urgency=low
* New upstream version.
* Kept manual's old name with no date (debian/docs, debian/rules).
* Do not compress PDFs (debian/rules).
-- Charles Plessy <plessy@debian.org> Mon, 05 Dec 2011 13:19:40 +0900
phyml (2:20110526-1) unstable; urgency=low
* New upstream version.
* debian/control:
- Corrected VCS URLs.
- Using debhelper 8 (debian/compat).
- Enhances bioperl-run (that has a PhyML wrapper).
- Standards-Version incremented to reflect compliance with Policy 3.9.2.
* Added build-arch and build-indep targets to debian/rules.
* Build and distribute PhyTime (debian/rules, debian/control).
-- Charles Plessy <plessy@debian.org> Sun, 26 Jun 2011 12:14:54 +0900
phyml (2:20100720-1) unstable; urgency=low
* New upstream version
* Fixed watch file
* Standard-Version: 3.9.1 (no changes needed)
* Source format 3.0 (quilt)
* Wrote man page
-- Andreas Tille <tille@debian.org> Mon, 14 Feb 2011 15:04:52 +0100
phyml (2:20100123-1) unstable; urgency=low
* New upstream release.
[ Nelson A. de Oliveira ]
* Fix watch file.
* Increment the epoch number to fix a typo in the version number.
[ Charles Plessy ]
* Checked conformance with Policy 3.8.4 and incremented Standards-Version
in debian/control to reflect this (no changes needed).
* Moved the bibliographic reference from debian/reference to
debian/upstream-metadata.yaml.
* Adapted debian/rules to the new location of the auto(conf|make) files.
-- Charles Plessy <plessy@debian.org> Sun, 07 Mar 2010 19:55:08 +0900
phyml (1:200900706-2) unstable; urgency=low
* Disable parallel building, that was incorrectly supported and
induced build failures by race condition (Closes: #536967).
-- Charles Plessy <plessy@debian.org> Wed, 15 Jul 2009 09:35:40 +0900
phyml (1:200900706-1) unstable; urgency=low
* New upstream release.
* Suppressed unneeded Lintian overrides, and use ‘dh clean’ in debian/rules.
* Checked conformance with Policy 3.8.2 and incremented Standards-Version
in debian/control to reflect this (no changes needed).
* Experimentation on the format of debian/copyright.
-- Charles Plessy <plessy@debian.org> Sat, 11 Jul 2009 14:25:23 +0900
phyml (1:20090501-1) unstable; urgency=low
* New upstream release clarifying the license of the documentation and
switching to a versionning system that can be sorted by numerical order.
* Added debian/source.lintian-overrides to indicate that the
configure-generated files are deleted at cleaning time.
* Using ‘dh binary-arch’ to simplify debian/rules.
-- Charles Plessy <plessy@debian.org> Sat, 16 May 2009 14:55:14 +0900
phyml (30042009-1) unstable; urgency=low
* Initial release (Closes: #517165)
-- Charles Plessy <plessy@debian.org> Fri, 01 May 2009 08:53:44 +0900