[med-svn] [phyml] annotated tag debian/3%3.3.20170530+dfsg-2 created (now 15d4ef9)

[Graham Inggs]

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ginggs pushed a change to annotated tag debian/3%3.3.20170530+dfsg-2
in repository phyml.

        at  15d4ef9   (tag)
   tagging  fa87036ac864eee51dce34816862d7f2efa4dfeb (commit)
  replaces  upstream/3.3.20170530+dfsg
 tagged by  Graham Inggs
        on  Fri Jun 30 14:05:24 2017 +0200

- Log -----------------------------------------------------------------
Debian release 3:3.3.20170530+dfsg-2

Andreas Tille (64):
      Merge tag 'upstream/20120412'
      Re-add debian/ dir
      Merge tag 'upstream/20141029+dfsg'
      enable building using libhmsbeagle
      Move to Git
      Remove more unneeded files once we are at it
      Update patches
      Adapt to upstream tarball changes
      Using libhmsbeagle changes binary name - so we need to work around this name change
      Fix install procedure
      Do not uselessly link against libstdc++
      Info about the versioning from upstream
      DEP5
      Names will be used above the changes usually, spelling in README.Debian
      Enable MPI version of phyml
      DEP3 header
      Mention paralellised version
      Upload to unstable
      Wrapper script to call mpi version with same name if the machine has more than one processor
      Fix changelog entry
      Add missing Depends: openmpi-bin
      Use compression options in d/watch
      Merge tag 'upstream/3.2.20160530+dfsg'
      New upstream version
      Fix Vcs-Git
      Fix missing declaration
      Avoid initialisation an array with a scalar value
      Imported Upstream version 3.2.0+dfsg
      Adapt patched to previous version
      hardening=+all,-pie (Build fails with +pie)
      Wrapper to use MPI if appropriate
      Upload to unstable
      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, upload to unstable
      Fix wrapper to correctly use mpirun
      Close bug + upload to unstable
      Also provide version without beagle library since it causes trouble on machines without according graphics hardware
      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
      Close bugs
      Add manpage
      Make sure we can do multiprocessing at all before attempting to use it
      Test single processor and MPI in autopkgtest
      Fix manpage link
      Upload to unstable
      Fix bug in wrapper script
      Add todo for past-Stretch release
      New upstream version
      Introduce phyml-beagle package
      Updated version 3.3.20170530+dfsg from 'upstream/3.3.20170530+dfsg'
      Refresh patches
      Fix gcc-7 issue
      Fix all instances
      Some fixes to build with BEAGLE
      Normalise patches
      Remove patch that was merged into other file
      Upstream confirmed that beagle is not supported
      Standards-Version: 4.0.0 (no changes needed)
      Do not disable PIE
      Do not build phytime since it is not supported any more
      Upload to unstable

Canberk Koç (1):
      Autopkgtest fixed

Graham Inggs (3):
      Do not emit -march=native
      Drop autopkgtest dependency on pocl-opencl-icd
      Prepare for upload to unstable

Kevin Murray (15):
      Fix watch link to github archives
      Merge tag 'upstream/3.2.0+dfsg'
      New version in d/ch
      Add myself to uploaders
      Fix typo in README.debian
      target unstable
      Build missing symbols by adding -DPHYREX to CFLAGS
      Nuke out of date upstream metadata
      Use secure vcs-git
      Merge releases, document CPPFLAGS hack
      Fix VCS link
      New release in d/ch
      Add patch to use debian version not date
      Fix no-configure-ac-date patch syntax error
      Bump standards-version

cbk-guest (1):
      autopkgtest added

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